## Tue Feb 17 14:17:19 2026
## emapper-2.1.13
## /data/anaconda3/envs/eggnog-mapper/bin/emapper.py -i /data/result/bins/wyx/bins/LYD3_bin.5.fa -m mmseqs --output LYD3_bin.5 --output_dir /data/result/bins/wyx/eggqs50+/LYD3_bin.5 --itype genome --cpu 8 --override
##
#query	seed_ortholog	evalue	score	eggNOG_OGs	max_annot_lvl	COG_category	Description	Preferred_name	GOs	EC	KEGG_ko	KEGG_Pathway	KEGG_Module	KEGG_Reaction	KEGG_rclass	BRITE	KEGG_TC	CAZy	BiGG_Reaction	PFAMs
LYD3_k127_1003930_5	931627.MycrhDRAFT_3430	5.47e-17	85.0	COG2267@1|root,COG2267@2|Bacteria,2I4FK@201174|Actinobacteria,23FD3@1762|Mycobacteriaceae	201174|Actinobacteria	I	Alpha beta hydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_6
LYD3_k127_1003930_3	1123255.JHYS01000012_gene1365	2.531e-47	183.0	COG3134@1|root,COG3134@2|Bacteria,1MY27@1224|Proteobacteria,2VMUB@28216|Betaproteobacteria,4AD9C@80864|Comamonadaceae	28216|Betaproteobacteria	S	Beta/Gamma crystallin	-	-	-	-	-	-	-	-	-	-	-	-	Crystall,Rick_17kDa_Anti
LYD3_k127_1003930_2	62928.azo0744	2.53e-60	216.0	COG1832@1|root,COG1832@2|Bacteria,1N03D@1224|Proteobacteria,2VU9G@28216|Betaproteobacteria,2KWFV@206389|Rhodocyclales	206389|Rhodocyclales	S	CoA-binding protein	-	-	-	ko:K06929	-	-	-	-	ko00000	-	-	-	CoA_binding_2
LYD3_k127_1003930_0	305700.B447_13784	1.092e-206	651.0	COG2873@1|root,COG2873@2|Bacteria,1NQME@1224|Proteobacteria,2VHYA@28216|Betaproteobacteria,2KV3P@206389|Rhodocyclales	206389|Rhodocyclales	E	Cys/Met metabolism PLP-dependent enzyme	-	-	2.5.1.49	ko:K01740	ko00270,ko01100,map00270,map01100	-	R01287,R04859	RC00020,RC02821,RC02848	ko00000,ko00001,ko01000	-	-	-	Cys_Met_Meta_PP
LYD3_k127_1003930_4	1469245.JFBG01000044_gene1862	5.663e-46	174.0	COG1495@1|root,COG1495@2|Bacteria,1RIJE@1224|Proteobacteria,1S6WD@1236|Gammaproteobacteria,1WZSH@135613|Chromatiales	135613|Chromatiales	C	Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein	dsbB	-	-	ko:K03611	-	-	-	-	ko00000,ko03110	5.A.2.1	-	-	DsbB
LYD3_k127_1003930_1	349163.Acry_0627	2.667e-93	310.0	COG1028@1|root,COG1028@2|Bacteria,1MUBQ@1224|Proteobacteria,2TRPN@28211|Alphaproteobacteria,2JQN4@204441|Rhodospirillales	204441|Rhodospirillales	IQ	Belongs to the short-chain dehydrogenases reductases (SDR) family	-	-	-	-	-	-	-	-	-	-	-	-	adh_short
LYD3_k127_1007514_3	1234364.AMSF01000010_gene479	1.334e-59	211.0	COG3428@1|root,COG3428@2|Bacteria,1NHMM@1224|Proteobacteria,1T998@1236|Gammaproteobacteria,1XBUQ@135614|Xanthomonadales	135614|Xanthomonadales	S	Bacterial PH domain	-	-	-	-	-	-	-	-	-	-	-	-	bPH_2
LYD3_k127_1007514_4	76114.ebB192	5.85e-58	204.0	COG5496@1|root,COG5496@2|Bacteria,1RKFT@1224|Proteobacteria,2VS3F@28216|Betaproteobacteria,2KWH1@206389|Rhodocyclales	206389|Rhodocyclales	S	Thioesterase	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1007514_0	76114.ebA5403	1.314e-300	936.0	COG1042@1|root,COG1042@2|Bacteria,1NU6B@1224|Proteobacteria,2VPMK@28216|Betaproteobacteria,2KVD5@206389|Rhodocyclales	206389|Rhodocyclales	C	CoA binding domain	-	-	-	-	-	-	-	-	-	-	-	-	CoA_binding_2,Succ_CoA_lig
LYD3_k127_1007514_5	768671.ThimaDRAFT_1334	3.153e-55	210.0	295V5@1|root,2ZT65@2|Bacteria,1REG0@1224|Proteobacteria,1S9HA@1236|Gammaproteobacteria,1WYWE@135613|Chromatiales	135613|Chromatiales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1007514_2	1304883.KI912532_gene745	1.589e-103	341.0	COG0560@1|root,COG0560@2|Bacteria,1MZPG@1224|Proteobacteria,2VHDT@28216|Betaproteobacteria,2KVYK@206389|Rhodocyclales	206389|Rhodocyclales	E	phosphoserine phosphatase	thrH	-	2.7.1.39,3.1.3.3	ko:K02203	ko00260,ko00680,ko01100,ko01110,ko01120,ko01130,ko01230,map00260,map00680,map01100,map01110,map01120,map01130,map01230	M00018	R00582,R01771	RC00002,RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	HAD,Hydrolase
LYD3_k127_1007514_7	1150469.RSPPHO_01830	6.177e-40	153.0	COG1959@1|root,COG1959@2|Bacteria,1PZ79@1224|Proteobacteria,2UCUA@28211|Alphaproteobacteria,2JTF5@204441|Rhodospirillales	204441|Rhodospirillales	K	transcriptional regulator	-	-	-	-	-	-	-	-	-	-	-	-	Rrf2
LYD3_k127_1007514_6	1187851.A33M_3204	4.304e-47	175.0	COG0454@1|root,COG0456@2|Bacteria,1N43K@1224|Proteobacteria,2UDB6@28211|Alphaproteobacteria	28211|Alphaproteobacteria	K	Acetyltransferase (GNAT) family	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_1007514_1	76114.ebA5393	5.289e-198	626.0	COG0243@1|root,COG0243@2|Bacteria,1P01N@1224|Proteobacteria,2VMWP@28216|Betaproteobacteria,2KVYZ@206389|Rhodocyclales	206389|Rhodocyclales	C	Belongs to the prokaryotic molybdopterin-containing oxidoreductase family	padB	-	1.17.5.1,3.1.2.25	ko:K18361	ko00360,map00360	-	R07222,R07294	RC00004,RC01844,RC01903	ko00000,ko00001,ko01000	-	-	-	Molybdopterin,Molydop_binding
LYD3_k127_1007723_2	522306.CAP2UW1_4174	6.692e-36	143.0	COG0454@1|root,COG0456@2|Bacteria,1RJDS@1224|Proteobacteria,2VSVF@28216|Betaproteobacteria	28216|Betaproteobacteria	K	FR47-like protein	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1,Acetyltransf_10
LYD3_k127_1007723_0	1163617.SCD_n01749	7.665e-140	475.0	COG1807@1|root,COG1807@2|Bacteria,1NMIZ@1224|Proteobacteria,2VMHK@28216|Betaproteobacteria	28216|Betaproteobacteria	M	PFAM glycosyl transferase family 39	arnT	-	-	-	-	-	-	-	-	-	-	-	PMT,PMT_2
LYD3_k127_1007723_3	522306.CAP2UW1_3297	4.621e-33	135.0	COG2076@1|root,COG2076@2|Bacteria,1RHUW@1224|Proteobacteria,2VSEI@28216|Betaproteobacteria	28216|Betaproteobacteria	P	Small multidrug resistance	-	-	-	-	-	-	-	-	-	-	-	-	EamA,Multi_Drug_Res
LYD3_k127_1007723_1	1198452.Jab_1c17650	3.306e-41	158.0	COG0399@1|root,COG0399@2|Bacteria,1MUPN@1224|Proteobacteria,2VJDZ@28216|Betaproteobacteria,472RC@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Belongs to the DegT DnrJ EryC1 family	arnB	-	-	-	-	-	-	-	-	-	-	-	DegT_DnrJ_EryC1
LYD3_k127_1008476_1	1123393.KB891316_gene1907	1.852e-64	228.0	2CB8R@1|root,2Z90U@2|Bacteria,1R4DV@1224|Proteobacteria,2VZZT@28216|Betaproteobacteria,1KSKS@119069|Hydrogenophilales	119069|Hydrogenophilales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1008476_2	1476583.DEIPH_ctg139orf0025	5.5e-48	184.0	COG0428@1|root,COG0428@2|Bacteria	2|Bacteria	P	transporter	-	-	-	ko:K07238	-	-	-	-	ko00000,ko02000	2.A.5.5	-	-	Zip
LYD3_k127_1008476_0	243365.CV_1113	7.26e-193	615.0	COG0187@1|root,COG0187@2|Bacteria,1MVH1@1224|Proteobacteria,2VHBQ@28216|Betaproteobacteria,2KPMW@206351|Neisseriales	206351|Neisseriales	L	Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule	parE	-	-	ko:K02622	-	-	-	-	ko00000,ko01000,ko02048,ko03032,ko03036	-	-	-	DNA_gyraseB,DNA_gyraseB_C,HATPase_c,Toprim
LYD3_k127_1016494_0	582744.Msip34_1852	3.328e-130	421.0	COG0443@1|root,COG0443@2|Bacteria,1MVQI@1224|Proteobacteria,2VHGV@28216|Betaproteobacteria,2KKJA@206350|Nitrosomonadales	206350|Nitrosomonadales	O	Chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Has a low intrinsic ATPase activity which is markedly stimulated by HscB	hscA	-	-	ko:K04044	-	-	-	-	ko00000,ko03110	1.A.33	-	-	HSP70
LYD3_k127_1016494_2	1163617.SCD_n01258	9.777e-40	154.0	COG1076@1|root,COG1076@2|Bacteria,1RHZX@1224|Proteobacteria,2VSD5@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA	hscB	-	-	ko:K04082	-	-	-	-	ko00000,ko03029,ko03110	-	-	-	DnaJ,HSCB_C
LYD3_k127_1016494_1	1000565.METUNv1_00564	1.088e-52	190.0	COG0316@1|root,COG0316@2|Bacteria,1RH6T@1224|Proteobacteria,2VSKY@28216|Betaproteobacteria,2KWP9@206389|Rhodocyclales	206389|Rhodocyclales	S	Belongs to the HesB IscA family	-	-	-	ko:K13628	-	-	-	-	ko00000,ko03016	-	-	-	Fe-S_biosyn
LYD3_k127_1016494_3	1247649.D560_3941	3.56e-23	100.0	COG0822@1|root,COG0822@2|Bacteria,1RD5K@1224|Proteobacteria,2VQ2I@28216|Betaproteobacteria,3T3MV@506|Alcaligenaceae	28216|Betaproteobacteria	C	A scaffold on which IscS assembles Fe-S clusters. It is likely that Fe-S cluster coordination is flexible as the role of this complex is to build and then hand off Fe-S clusters	iscU	-	-	ko:K04488	-	-	-	-	ko00000	-	-	-	NifU_N
LYD3_k127_104221_14	1532557.JL37_20145	1.297e-55	203.0	COG0193@1|root,COG0193@2|Bacteria,1MX1P@1224|Proteobacteria,2VKKJ@28216|Betaproteobacteria,3T33Q@506|Alcaligenaceae	28216|Betaproteobacteria	J	The natural substrate for this enzyme may be peptidyl- tRNAs which drop off the ribosome during protein synthesis	pth	-	3.1.1.29	ko:K01056	-	-	-	-	ko00000,ko01000,ko03012	-	-	-	Pept_tRNA_hydro
LYD3_k127_104221_13	887062.HGR_01834	2.686e-64	230.0	COG1825@1|root,COG1825@2|Bacteria,1RDH0@1224|Proteobacteria,2VQNU@28216|Betaproteobacteria,4ABGU@80864|Comamonadaceae	28216|Betaproteobacteria	J	This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance	ctc	-	-	ko:K02897	ko03010,map03010	M00178	-	-	ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L25p,Ribosomal_TL5_C
LYD3_k127_104221_5	1163617.SCD_n02621	5.414e-156	498.0	COG0462@1|root,COG0462@2|Bacteria,1MW21@1224|Proteobacteria,2VHU0@28216|Betaproteobacteria	28216|Betaproteobacteria	F	Involved in the biosynthesis of the central metabolite phospho-alpha-D-ribosyl-1-pyrophosphate (PRPP) via the transfer of pyrophosphoryl group from ATP to 1-hydroxyl of ribose-5-phosphate (Rib-5-P)	prs	-	2.7.6.1	ko:K00948	ko00030,ko00230,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00030,map00230,map01100,map01110,map01120,map01130,map01200,map01230	M00005	R01049	RC00002,RC00078	ko00000,ko00001,ko00002,ko01000	-	-	-	Pribosyl_synth,Pribosyltran_N
LYD3_k127_104221_3	926549.KI421517_gene2818	1.056e-176	564.0	COG0673@1|root,COG0673@2|Bacteria,4NG5T@976|Bacteroidetes,47MFM@768503|Cytophagia	976|Bacteroidetes	S	Putative oxidoreductase C terminal domain	-	-	-	-	-	-	-	-	-	-	-	-	GFO_IDH_MocA,Oxidoreduct_C
LYD3_k127_104221_1	93220.LV28_08040	2.478e-200	630.0	COG0673@1|root,COG0673@2|Bacteria,1PYTN@1224|Proteobacteria,2VKKE@28216|Betaproteobacteria,1KGRJ@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Oxidoreductase family, NAD-binding Rossmann fold	-	-	-	-	-	-	-	-	-	-	-	-	GFO_IDH_MocA
LYD3_k127_104221_2	1411123.JQNH01000001_gene3162	7.102e-189	609.0	COG3333@1|root,COG3333@2|Bacteria,1MUKR@1224|Proteobacteria,2TR4Q@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	Protein conserved in bacteria	-	-	-	ko:K07793	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.80.1	-	-	TctA
LYD3_k127_104221_18	1121033.AUCF01000014_gene1309	4.375e-15	82.0	2E6AZ@1|root,330YU@2|Bacteria,1N88X@1224|Proteobacteria,2UHAK@28211|Alphaproteobacteria,2JXZ1@204441|Rhodospirillales	204441|Rhodospirillales	S	Tripartite tricarboxylate transporter TctB family	-	-	-	-	-	-	-	-	-	-	-	-	TctB
LYD3_k127_104221_6	1123504.JQKD01000005_gene4753	2.282e-139	451.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VHME@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_104221_11	1123393.KB891330_gene737	7.813e-79	282.0	COG1947@1|root,COG1947@2|Bacteria,1MVU3@1224|Proteobacteria,2VHK3@28216|Betaproteobacteria,1KRYI@119069|Hydrogenophilales	119069|Hydrogenophilales	I	GHMP kinases N terminal domain	-	-	2.7.1.148	ko:K00919	ko00900,ko01100,ko01110,ko01130,map00900,map01100,map01110,map01130	M00096	R05634	RC00002,RC01439	ko00000,ko00001,ko00002,ko01000	-	-	-	GHMP_kinases_C,GHMP_kinases_N
LYD3_k127_104221_17	1123393.KB891330_gene738	5.462e-30	127.0	COG3017@1|root,COG3017@2|Bacteria,1N02T@1224|Proteobacteria,2VUIR@28216|Betaproteobacteria,1KS6V@119069|Hydrogenophilales	119069|Hydrogenophilales	M	Outer membrane lipoprotein LolB	-	-	-	-	-	-	-	-	-	-	-	-	LolB
LYD3_k127_104221_9	1163617.SCD_n02625	4.395e-107	370.0	COG0457@1|root,COG0457@2|Bacteria,1MYB8@1224|Proteobacteria,2VI6C@28216|Betaproteobacteria	28216|Betaproteobacteria	H	SMART Tetratricopeptide domain protein	-	-	-	-	-	-	-	-	-	-	-	-	TPR_16,TPR_19,TPR_8
LYD3_k127_104221_10	1122603.ATVI01000006_gene679	1.942e-94	317.0	COG0266@1|root,COG0266@2|Bacteria,1MVM5@1224|Proteobacteria,1RP3J@1236|Gammaproteobacteria,1X3ZV@135614|Xanthomonadales	135614|Xanthomonadales	L	Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized purines, such as 7,8-dihydro-8-oxoguanine (8-oxoG). Has AP (apurinic apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates	fpg	-	3.2.2.23,4.2.99.18	ko:K10563	ko03410,map03410	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	Fapy_DNA_glyco,H2TH,zf-FPG_IleRS
LYD3_k127_104221_0	265072.Mfla_0700	6.381e-204	653.0	COG0699@1|root,COG0699@2|Bacteria,1MXBK@1224|Proteobacteria,2VKA1@28216|Betaproteobacteria,2KKJN@206350|Nitrosomonadales	206350|Nitrosomonadales	S	Dynamin family	-	-	-	-	-	-	-	-	-	-	-	-	Dynamin_N
LYD3_k127_104221_16	580332.Slit_2364	4.899e-41	154.0	COG1145@1|root,COG1145@2|Bacteria,1MZ6H@1224|Proteobacteria,2VTZ1@28216|Betaproteobacteria,44W12@713636|Nitrosomonadales	28216|Betaproteobacteria	C	4Fe-4S binding domain	fdx1	-	-	-	-	-	-	-	-	-	-	-	Fer4,Fer4_7
LYD3_k127_104221_12	640081.Dsui_1028	4.776e-70	245.0	COG0669@1|root,COG0669@2|Bacteria,1RD9F@1224|Proteobacteria,2VMQQ@28216|Betaproteobacteria,2KW7T@206389|Rhodocyclales	206389|Rhodocyclales	H	Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate	coaD	-	2.7.7.3	ko:K00954	ko00770,ko01100,map00770,map01100	M00120	R03035	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	CTP_transf_like
LYD3_k127_104221_15	272560.BPSL0515	1.708e-48	181.0	COG0742@1|root,COG0742@2|Bacteria,1MXKW@1224|Proteobacteria,2VSYB@28216|Betaproteobacteria,1KH77@119060|Burkholderiaceae	28216|Betaproteobacteria	L	Conserved hypothetical protein 95	-	-	-	-	-	-	-	-	-	-	-	-	Cons_hypoth95
LYD3_k127_104221_7	1123367.C666_07670	1.379e-118	389.0	COG0552@1|root,COG0552@2|Bacteria,1MUDU@1224|Proteobacteria,2VHK7@28216|Betaproteobacteria,2KVC3@206389|Rhodocyclales	206389|Rhodocyclales	U	Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Acts as a receptor for the complex formed by the signal recognition particle (SRP) and the ribosome-nascent chain (RNC). Interaction with SRP-RNC leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual components	ftsY	-	-	ko:K03110	ko02024,ko03060,ko03070,map02024,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko02044	3.A.5.1,3.A.5.2,3.A.5.7	-	-	SRP54,SRP54_N
LYD3_k127_104221_8	1288494.EBAPG3_9310	2.163e-114	376.0	COG0568@1|root,COG0568@2|Bacteria,1MVWR@1224|Proteobacteria,2VI91@28216|Betaproteobacteria,3723K@32003|Nitrosomonadales	28216|Betaproteobacteria	K	Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is involved in regulation of expression of heat shock genes	rpoH	-	-	ko:K03089	-	-	-	-	ko00000,ko03021	-	-	-	Sigma70_r1_2,Sigma70_r2,Sigma70_r4
LYD3_k127_104221_4	279714.FuraDRAFT_0071	1.64e-168	538.0	COG3158@1|root,COG3158@2|Bacteria,1MUVH@1224|Proteobacteria,2VH9I@28216|Betaproteobacteria,2KPED@206351|Neisseriales	206351|Neisseriales	P	Transport of potassium into the cell	kup	-	-	ko:K03549	-	-	-	-	ko00000,ko02000	2.A.72	-	-	K_trans
LYD3_k127_1056611_4	266117.Rxyl_3121	1.158e-09	59.0	COG1209@1|root,COG1209@2|Bacteria,2GP20@201174|Actinobacteria,4CPTQ@84995|Rubrobacteria	84995|Rubrobacteria	M	Nucleotidyl transferase	-	-	2.7.7.24	ko:K00973	ko00521,ko00523,ko00525,ko01130,map00521,map00523,map00525,map01130	M00793	R02328	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	NTP_transferase
LYD3_k127_1056611_1	1500894.JQNN01000001_gene2601	4.641e-76	260.0	COG1898@1|root,COG1898@2|Bacteria,1R9YD@1224|Proteobacteria,2VQ02@28216|Betaproteobacteria,472YX@75682|Oxalobacteraceae	28216|Betaproteobacteria	G	Catalyzes the epimerization of the C3' and C5'positions of dTDP-6-deoxy-D-xylo-4-hexulose, forming dTDP-6-deoxy-L-lyxo-4- hexulose	rfbC	-	5.1.3.13	ko:K01790	ko00521,ko00523,ko01130,map00521,map00523,map01130	M00793	R06514	RC01531	ko00000,ko00001,ko00002,ko01000	-	-	-	dTDP_sugar_isom
LYD3_k127_1056611_0	93220.LV28_00300	3.18e-88	300.0	COG1091@1|root,COG1091@2|Bacteria,1MUXM@1224|Proteobacteria,2VI50@28216|Betaproteobacteria,1K1IP@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Catalyzes the reduction of dTDP-6-deoxy-L-lyxo-4- hexulose to yield dTDP-L-rhamnose	rfbD	-	1.1.1.133	ko:K00067	ko00521,ko00523,ko01130,map00521,map00523,map01130	M00793	R02777	RC00182	ko00000,ko00001,ko00002,ko01000	-	-	-	RmlD_sub_bind
LYD3_k127_1056611_3	292415.Tbd_0187	4.602e-51	200.0	COG2863@1|root,COG2863@2|Bacteria,1N2NB@1224|Proteobacteria,2VQNZ@28216|Betaproteobacteria,1KSN5@119069|Hydrogenophilales	119069|Hydrogenophilales	C	Cytochrome C oxidase, cbb3-type, subunit III	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrom_C
LYD3_k127_1056611_2	497321.C664_14908	9.449e-55	199.0	COG0218@1|root,COG0218@2|Bacteria,1MY3Z@1224|Proteobacteria,2VIKF@28216|Betaproteobacteria,2KVVZ@206389|Rhodocyclales	206389|Rhodocyclales	D	Necessary for normal cell division and for the maintenance of normal septation	engB	-	-	ko:K03978	-	-	-	-	ko00000,ko03036	-	-	-	MMR_HSR1
LYD3_k127_1099201_0	1095769.CAHF01000014_gene2868	4.026e-158	504.0	COG0439@1|root,COG0439@2|Bacteria,1MU4H@1224|Proteobacteria,2VISB@28216|Betaproteobacteria,472TI@75682|Oxalobacteraceae	28216|Betaproteobacteria	I	PFAM Carbamoyl-phosphate synthase L chain, ATP binding domain, Biotin carboxylase C-terminal domain, Carbamoyl-phosphate synthase L chain, N-terminal domain	accC	GO:0003674,GO:0003824,GO:0004075,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006082,GO:0006629,GO:0006631,GO:0006633,GO:0008150,GO:0008152,GO:0008610,GO:0009058,GO:0009889,GO:0009890,GO:0009892,GO:0009987,GO:0010565,GO:0016053,GO:0016874,GO:0016879,GO:0019216,GO:0019217,GO:0019222,GO:0019752,GO:0031323,GO:0031324,GO:0031326,GO:0031327,GO:0032787,GO:0042304,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044255,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0045717,GO:0045833,GO:0045922,GO:0046394,GO:0046890,GO:0048519,GO:0048523,GO:0050789,GO:0050794,GO:0051055,GO:0062012,GO:0062014,GO:0065007,GO:0071704,GO:0072330,GO:0080090,GO:1901576	6.3.4.14,6.4.1.2	ko:K01961	ko00061,ko00620,ko00640,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,map00061,map00620,map00640,map00720,map01100,map01110,map01120,map01130,map01200,map01212	M00082,M00376	R00742,R04385	RC00040,RC00253,RC00367	ko00000,ko00001,ko00002,ko01000	-	-	-	Biotin_carb_C,Biotin_carb_N,CPSase_L_D2
LYD3_k127_1099201_1	1453496.AT03_19750	5.67e-51	185.0	COG0511@1|root,COG0511@2|Bacteria,1RCXA@1224|Proteobacteria,1S3YP@1236|Gammaproteobacteria	1236|Gammaproteobacteria	I	first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA	accB	GO:0003674,GO:0003824,GO:0003989,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006082,GO:0006464,GO:0006629,GO:0006631,GO:0006633,GO:0006807,GO:0008150,GO:0008152,GO:0008610,GO:0009058,GO:0009305,GO:0009987,GO:0016049,GO:0016053,GO:0016421,GO:0016874,GO:0016885,GO:0019538,GO:0019752,GO:0032787,GO:0036211,GO:0040007,GO:0043170,GO:0043412,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044255,GO:0044260,GO:0044267,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0046394,GO:0071704,GO:0072330,GO:1901564,GO:1901576	-	ko:K02160	ko00061,ko00620,ko00640,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,map00061,map00620,map00640,map00720,map01100,map01110,map01120,map01130,map01200,map01212	M00082,M00376	R00742	RC00040,RC00367	ko00000,ko00001,ko00002	-	-	iYL1228.KPN_03664	Biotin_lipoyl
LYD3_k127_1099201_2	1288494.EBAPG3_8790	6.07e-42	160.0	COG0526@1|root,COG0526@2|Bacteria,1MZ5J@1224|Proteobacteria,2VU93@28216|Betaproteobacteria,3732S@32003|Nitrosomonadales	28216|Betaproteobacteria	CO	Thioredoxin-like	tlpA	-	-	-	-	-	-	-	-	-	-	-	AhpC-TSA,Redoxin
LYD3_k127_1099201_3	1163617.SCD_n02789	5.123e-33	136.0	COG4232@1|root,COG4232@2|Bacteria,1MU8W@1224|Proteobacteria,2VI8I@28216|Betaproteobacteria	28216|Betaproteobacteria	CO	Required to facilitate the formation of correct disulfide bonds in some periplasmic proteins and for the assembly of the periplasmic c-type cytochromes. Acts by transferring electrons from cytoplasmic thioredoxin to the periplasm. This transfer involves a cascade of disulfide bond formation and reduction steps	dsbD	-	1.8.1.8	ko:K04084	-	-	-	-	ko00000,ko01000,ko03110	5.A.1.1	-	-	DsbC,DsbD,Thioredoxin_2,Thioredoxin_7
LYD3_k127_1099201_4	522306.CAP2UW1_3578	1.581e-31	134.0	COG1324@1|root,COG1324@2|Bacteria,1N6TN@1224|Proteobacteria,2VUC8@28216|Betaproteobacteria,1KR5M@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	P	CutA1 divalent ion tolerance protein	cutA	GO:0003674,GO:0005488,GO:0005507,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0043167,GO:0043169,GO:0044424,GO:0044464,GO:0046872,GO:0046914	-	ko:K03926	-	-	-	-	ko00000	-	-	-	CutA1
LYD3_k127_1099201_6	1121271.AUCM01000006_gene398	0.000579	49.0	COG3030@1|root,COG3030@2|Bacteria,1MZJJ@1224|Proteobacteria,2UF72@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	Protein affecting phage T7 exclusion by the F plasmid	fxsA	-	-	ko:K07113	-	-	-	-	ko00000	-	-	-	FxsA
LYD3_k127_1099201_5	1218074.BAXZ01000012_gene2898	1.336e-16	79.0	COG0682@1|root,COG0682@2|Bacteria,1MVE3@1224|Proteobacteria,2VHEW@28216|Betaproteobacteria,1K2AG@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Transfers the N-acyl diglyceride group on what will become the N-terminal cysteine of membrane lipoproteins	lgt	-	-	ko:K13292	-	-	-	-	ko00000,ko01000	-	-	-	LGT
LYD3_k127_1110279_0	1266925.JHVX01000004_gene1205	2.804e-183	596.0	COG3127@1|root,COG3127@2|Bacteria,1MU9R@1224|Proteobacteria,2VHHQ@28216|Betaproteobacteria,37208@32003|Nitrosomonadales	28216|Betaproteobacteria	Q	ABC-type transport system involved in lysophospholipase L1 biosynthesis permease component	-	-	-	ko:K02004	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	FtsX,MacB_PCD
LYD3_k127_1110279_1	1545915.JROG01000003_gene778	1.354e-09	68.0	COG0515@1|root,3345A@2|Bacteria,1NSRF@1224|Proteobacteria	1224|Proteobacteria	KLT	protein kinase activity	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1112492_0	1266925.JHVX01000004_gene1183	5.342e-155	499.0	COG0661@1|root,COG0661@2|Bacteria,1MU1Z@1224|Proteobacteria,2VJ07@28216|Betaproteobacteria,3723G@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Is probably a protein kinase regulator of UbiI activity which is involved in aerobic coenzyme Q (ubiquinone) biosynthesis	ubiB	-	-	ko:K03688	-	-	-	-	ko00000	-	-	-	ABC1
LYD3_k127_1112492_4	323848.Nmul_A0839	1.915e-07	60.0	COG1272@1|root,COG1272@2|Bacteria,1PGRH@1224|Proteobacteria,2VJR4@28216|Betaproteobacteria,372CA@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Haemolysin-III related	-	-	-	ko:K11068	-	-	-	-	ko00000,ko02042	-	-	-	HlyIII
LYD3_k127_1112492_5	1123253.AUBD01000002_gene1319	0.0002017	51.0	COG3165@1|root,COG3165@2|Bacteria,1N8UE@1224|Proteobacteria,1SE63@1236|Gammaproteobacteria,1X5YU@135614|Xanthomonadales	135614|Xanthomonadales	S	Sterol-binding protein	-	-	-	ko:K03690	-	-	-	-	ko00000	-	-	-	SCP2
LYD3_k127_1112492_3	522306.CAP2UW1_4349	8.485e-58	213.0	COG4395@1|root,COG4395@2|Bacteria,1NSUG@1224|Proteobacteria,2VNS7@28216|Betaproteobacteria,1KQPU@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	Tim44	-	-	-	-	-	-	-	-	-	-	-	-	Tim44
LYD3_k127_1112492_1	1538295.JY96_03150	1.172e-99	332.0	COG0500@1|root,COG2226@2|Bacteria,1MX8I@1224|Proteobacteria,2VHBM@28216|Betaproteobacteria,1KIZW@119065|unclassified Burkholderiales	28216|Betaproteobacteria	H	Methyltransferase required for the conversion of demethylmenaquinol (DMKH2) to menaquinol (MKH2) and the conversion of 2-polyprenyl-6-methoxy-1,4-benzoquinol (DDMQH2) to 2- polyprenyl-3-methyl-6-methoxy-1,4-benzoquinol (DMQH2)	ubiE	-	2.1.1.163,2.1.1.201	ko:K03183	ko00130,ko01100,ko01110,map00130,map01100,map01110	M00116,M00117	R04990,R04993,R06859,R08774,R09736	RC00003,RC01253,RC01662	ko00000,ko00001,ko00002,ko01000	-	-	-	Ubie_methyltran
LYD3_k127_1112492_2	522306.CAP2UW1_3602	1.543e-88	294.0	COG5008@1|root,COG5008@2|Bacteria,1QTTX@1224|Proteobacteria,2VIWS@28216|Betaproteobacteria	28216|Betaproteobacteria	NU	twitching motility protein	pilU	-	-	ko:K02670	-	-	-	-	ko00000,ko02035,ko02044	3.A.15.2	-	-	T2SSE
LYD3_k127_1112531_3	1163617.SCD_n02738	2.542e-37	142.0	COG0755@1|root,COG0755@2|Bacteria,1MU61@1224|Proteobacteria,2VHF8@28216|Betaproteobacteria	28216|Betaproteobacteria	U	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes	ccmC	-	-	ko:K02195	ko02010,map02010	M00259	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.107	-	-	Cytochrom_C_asm
LYD3_k127_1112531_1	323848.Nmul_A1216	4.541e-69	254.0	COG2386@1|root,COG2386@2|Bacteria,1NJB0@1224|Proteobacteria,2VNPU@28216|Betaproteobacteria,371Q1@32003|Nitrosomonadales	28216|Betaproteobacteria	U	Required for the export of heme to the periplasm for the biogenesis of c-type cytochromes	ccmB	-	-	ko:K02194	ko02010,map02010	M00259	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.107	-	-	CcmB
LYD3_k127_1112531_2	1304883.KI912532_gene1031	6.958e-45	171.0	COG4133@1|root,COG4133@2|Bacteria,1MZPC@1224|Proteobacteria,2VMGA@28216|Betaproteobacteria,2KW6J@206389|Rhodocyclales	206389|Rhodocyclales	O	once thought to export heme, this seems not to be the case, but its exact role is uncertain. Responsible for energy coupling to the transport system	ccmA	-	3.6.3.41	ko:K02193	ko02010,map02010	M00259	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.107	-	-	ABC_tran
LYD3_k127_1112531_0	1123261.AXDW01000027_gene2091	1.062e-300	934.0	COG0280@1|root,COG0281@1|root,COG0280@2|Bacteria,COG0281@2|Bacteria,1MU0A@1224|Proteobacteria,1RN5F@1236|Gammaproteobacteria,1X2XY@135614|Xanthomonadales	135614|Xanthomonadales	C	Malic enzyme	maeB	-	1.1.1.40	ko:K00029	ko00620,ko00710,ko01100,ko01120,ko01200,map00620,map00710,map01100,map01120,map01200	M00169,M00172	R00216	RC00105	ko00000,ko00001,ko00002,ko01000	-	-	-	Malate_DH,Malic_M,PTA_PTB,malic
LYD3_k127_1142423_1	1120999.JONM01000010_gene4056	7.34e-108	356.0	COG1493@1|root,COG1493@2|Bacteria,1NNN5@1224|Proteobacteria,2VJCH@28216|Betaproteobacteria,2KPR1@206351|Neisseriales	206351|Neisseriales	H	Catalyzes the ATP- as well as the pyrophosphate- dependent phosphorylation of a specific serine residue in HPr, a phosphocarrier protein of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS). HprK P also catalyzes the pyrophosphate-producing, inorganic phosphate-dependent dephosphorylation (phosphorolysis) of seryl-phosphorylated HPr (P- Ser-HPr)	hprK	-	-	ko:K06023	-	-	-	-	ko00000,ko01000	-	-	-	Hpr_kinase_C,Hpr_kinase_N
LYD3_k127_1142423_2	76114.ebA3391	4.34e-56	201.0	COG1762@1|root,COG1762@2|Bacteria,1RD0E@1224|Proteobacteria,2VRDH@28216|Betaproteobacteria,2KW4R@206389|Rhodocyclales	206389|Rhodocyclales	G	COG1762 Phosphotransferase system mannitol fructose-specific IIA domain (Ntr-type)	ptsN	-	-	ko:K02806	ko02060,map02060	-	-	-	ko00000,ko00001,ko01000,ko02000	-	-	-	PTS_EIIA_2
LYD3_k127_1142423_3	1120999.JONM01000010_gene4058	7.303e-39	149.0	COG1544@1|root,COG1544@2|Bacteria,1MZHW@1224|Proteobacteria,2VU5H@28216|Betaproteobacteria,2KRN2@206351|Neisseriales	206351|Neisseriales	J	ribosomal subunit interface protein	raiA	-	-	ko:K05808	-	-	-	-	ko00000,ko03009	-	-	-	Ribosomal_S30AE
LYD3_k127_1142423_0	292415.Tbd_0533	9.297e-144	464.0	COG1508@1|root,COG1508@2|Bacteria,1MW4V@1224|Proteobacteria,2VIEV@28216|Betaproteobacteria,1KRAY@119069|Hydrogenophilales	119069|Hydrogenophilales	K	Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released	-	-	-	ko:K03092	ko02020,ko05111,map02020,map05111	-	-	-	ko00000,ko00001,ko03021	-	-	-	Sigma54_AID,Sigma54_CBD,Sigma54_DBD
LYD3_k127_1164205_1	1288494.EBAPG3_9200	2.135e-109	364.0	COG0429@1|root,COG0429@2|Bacteria,1MWV1@1224|Proteobacteria,2VHZ1@28216|Betaproteobacteria,372HW@32003|Nitrosomonadales	28216|Betaproteobacteria	S	PFAM alpha beta hydrolase	-	-	-	ko:K07019	-	-	-	-	ko00000	-	-	-	Abhydrolase_1
LYD3_k127_1164205_0	395494.Galf_2867	1.028e-184	589.0	COG2326@1|root,COG2326@2|Bacteria,1MVE2@1224|Proteobacteria,2VGZV@28216|Betaproteobacteria,44VMC@713636|Nitrosomonadales	28216|Betaproteobacteria	S	Polyphosphate kinase 2 (PPK2)	pap	-	-	-	-	-	-	-	-	-	-	-	PPK2
LYD3_k127_1164205_2	1121033.AUCF01000005_gene5372	2.602e-71	261.0	COG3025@1|root,COG5607@1|root,COG3025@2|Bacteria,COG5607@2|Bacteria,1MY43@1224|Proteobacteria,2TQRV@28211|Alphaproteobacteria,2JQ4S@204441|Rhodospirillales	204441|Rhodospirillales	S	CYTH	-	-	-	-	-	-	-	-	-	-	-	-	CHAD,CYTH
LYD3_k127_1164205_3	305700.B447_08803	2.385e-11	64.0	COG0722@1|root,COG0722@2|Bacteria,1MU5Q@1224|Proteobacteria,2VH4W@28216|Betaproteobacteria,2KU9M@206389|Rhodocyclales	206389|Rhodocyclales	E	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)	aroG	-	2.5.1.54	ko:K01626	ko00400,ko01100,ko01110,ko01130,ko01230,ko02024,map00400,map01100,map01110,map01130,map01230,map02024	M00022	R01826	RC00435	ko00000,ko00001,ko00002,ko01000	-	-	-	DAHP_synth_1
LYD3_k127_1179198_2	935863.AWZR01000007_gene234	3.01e-68	236.0	COG3484@1|root,COG3484@2|Bacteria,1N057@1224|Proteobacteria,1RRR0@1236|Gammaproteobacteria,1X366@135614|Xanthomonadales	135614|Xanthomonadales	O	Proteasome subunit	-	-	-	ko:K07395	-	-	-	-	ko00000	-	-	-	Proteasome
LYD3_k127_1179198_1	640081.Dsui_3235	2.146e-99	354.0	COG2307@1|root,COG2307@2|Bacteria,1MVZK@1224|Proteobacteria,2VIB5@28216|Betaproteobacteria,2KV8E@206389|Rhodocyclales	206389|Rhodocyclales	S	A predicted alpha-helical domain with a conserved ER motif.	-	-	-	-	-	-	-	-	-	-	-	-	Alpha-E
LYD3_k127_1179198_0	1121035.AUCH01000014_gene2374	1.686e-228	718.0	COG2308@1|root,COG2308@2|Bacteria,1MUAD@1224|Proteobacteria,2VI55@28216|Betaproteobacteria,2KV17@206389|Rhodocyclales	206389|Rhodocyclales	S	Circularly permuted ATP-grasp type 2	-	-	-	-	-	-	-	-	-	-	-	-	CP_ATPgrasp_2
LYD3_k127_1184608_0	290315.Clim_1228	2.236e-100	340.0	COG1512@1|root,COG1512@2|Bacteria,1FENY@1090|Chlorobi	1090|Chlorobi	S	TPM domain	-	-	-	ko:K06872	-	-	-	-	ko00000	-	-	-	TPM_phosphatase
LYD3_k127_1184608_2	517417.Cpar_1206	1.299e-34	142.0	COG3762@1|root,COG3762@2|Bacteria,1FEPE@1090|Chlorobi	1090|Chlorobi	S	TPM domain	-	-	-	-	-	-	-	-	-	-	-	-	TPM_phosphatase
LYD3_k127_1184608_1	404589.Anae109_1562	4.167e-42	161.0	COG0454@1|root,COG0456@2|Bacteria,1Q1ZZ@1224|Proteobacteria,42USA@68525|delta/epsilon subdivisions,2WQ2Q@28221|Deltaproteobacteria	28221|Deltaproteobacteria	K	Acetyltransferase (GNAT) domain	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_1204176_0	748247.AZKH_0500	7.922e-242	763.0	COG2902@1|root,COG2902@2|Bacteria,1MXNV@1224|Proteobacteria,2VKIR@28216|Betaproteobacteria,2KVIK@206389|Rhodocyclales	206389|Rhodocyclales	E	Bacterial NAD-glutamate dehydrogenase	gdh	-	1.4.1.2	ko:K15371	ko00220,ko00250,ko00430,ko00910,ko01100,map00220,map00250,map00430,map00910,map01100	-	R00243	RC00006,RC02799	ko00000,ko00001,ko01000	-	-	-	Bac_GDH
LYD3_k127_123184_1	1163617.SCD_n02866	9.918e-86	291.0	COG0859@1|root,COG0859@2|Bacteria,1PMNX@1224|Proteobacteria,2VPUG@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Glycosyltransferase family 9 (heptosyltransferase)	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_9
LYD3_k127_123184_4	1230476.C207_06359	3.143e-09	67.0	COG2020@1|root,COG2020@2|Bacteria,1RECR@1224|Proteobacteria,2U6MH@28211|Alphaproteobacteria,3JYJP@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	O	Isoprenylcysteine carboxyl methyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	ICMT,PEMT
LYD3_k127_123184_5	999541.bgla_2g10690	0.0007818	52.0	COG1020@1|root,COG1020@2|Bacteria,1QK4F@1224|Proteobacteria,2VHRU@28216|Betaproteobacteria,1JZUU@119060|Burkholderiaceae	28216|Betaproteobacteria	Q	amino acid adenylation domain protein	-	-	-	ko:K04780	ko01053,map01053	-	-	-	ko00000,ko00001,ko01008	-	-	-	AMP-binding,AMP-binding_C,Condensation,PP-binding,Thioesterase
LYD3_k127_123184_6	477641.MODMU_2120	0.0009311	51.0	COG2267@1|root,COG2267@2|Bacteria,2I94I@201174|Actinobacteria,4EU87@85013|Frankiales	201174|Actinobacteria	I	Alpha beta hydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_6
LYD3_k127_123184_0	1408444.JHYC01000017_gene1956	1.116e-89	304.0	COG0623@1|root,COG0623@2|Bacteria,1N64Z@1224|Proteobacteria,1T3N8@1236|Gammaproteobacteria,1JC7V@118969|Legionellales	118969|Legionellales	I	KR domain	-	-	1.3.1.104	ko:K10780	ko00061,ko01100,ko01212,map00061,map01100,map01212	M00083	R01404,R04430,R04725,R04956,R04959,R04962,R04967,R04970	RC00052,RC00076,RC00120	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	adh_short_C2
LYD3_k127_123184_2	1209072.ALBT01000058_gene868	5.065e-59	216.0	COG1028@1|root,COG1028@2|Bacteria,1MU6X@1224|Proteobacteria,1RMBB@1236|Gammaproteobacteria,1FFWN@10|Cellvibrio	1236|Gammaproteobacteria	IQ	KR domain	-	-	-	-	-	-	-	-	-	-	-	-	adh_short_C2
LYD3_k127_123184_3	272624.lpg0359	1.092e-37	153.0	COG0236@1|root,COG0236@2|Bacteria,1NM9E@1224|Proteobacteria,1SINP@1236|Gammaproteobacteria,1JEJN@118969|Legionellales	118969|Legionellales	IQ	Phosphopantetheine attachment site	acpP_2	-	-	-	-	-	-	-	-	-	-	-	PP-binding
LYD3_k127_1242566_6	1131553.JIBI01000007_gene1193	1.883e-48	175.0	COG1905@1|root,COG1905@2|Bacteria,1MWS2@1224|Proteobacteria,2VQD9@28216|Betaproteobacteria,371SU@32003|Nitrosomonadales	28216|Betaproteobacteria	C	Thioredoxin-like [2Fe-2S] ferredoxin	nuoE	-	1.6.5.3	ko:K00334	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	2Fe-2S_thioredx
LYD3_k127_1242566_0	1288494.EBAPG3_21430	1.132e-251	778.0	COG0649@1|root,COG0649@2|Bacteria,1MVIN@1224|Proteobacteria,2VHEC@28216|Betaproteobacteria,371Z7@32003|Nitrosomonadales	28216|Betaproteobacteria	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	nuoD	-	1.6.5.3	ko:K00333	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Complex1_49kDa
LYD3_k127_1242566_3	1038869.AXAN01000045_gene4427	2.122e-87	294.0	COG0852@1|root,COG0852@2|Bacteria,1MX4B@1224|Proteobacteria,2VHHV@28216|Betaproteobacteria,1K15D@119060|Burkholderiaceae	28216|Betaproteobacteria	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	nuoC	-	1.6.5.3	ko:K00332	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Complex1_30kDa
LYD3_k127_1242566_2	335283.Neut_0923	1.826e-97	323.0	COG0377@1|root,COG0377@2|Bacteria,1MUI2@1224|Proteobacteria,2VIWK@28216|Betaproteobacteria,372NG@32003|Nitrosomonadales	28216|Betaproteobacteria	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	nuoB	-	1.6.5.3	ko:K00331	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q6
LYD3_k127_1242566_5	557598.LHK_00527	9.534e-54	193.0	COG0838@1|root,COG0838@2|Bacteria,1RGUT@1224|Proteobacteria,2VSI3@28216|Betaproteobacteria,2KR3H@206351|Neisseriales	206351|Neisseriales	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	nuoA	-	1.6.5.3	ko:K00330	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q4
LYD3_k127_1242566_7	497321.C664_02780	1.62e-27	116.0	COG1314@1|root,COG1314@2|Bacteria,1N8MF@1224|Proteobacteria,2VU0P@28216|Betaproteobacteria,2KWZZ@206389|Rhodocyclales	206389|Rhodocyclales	U	preprotein translocase	secG	-	-	ko:K03075	ko02024,ko03060,ko03070,map02024,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko02044	3.A.5.1,3.A.5.2	-	-	SecG
LYD3_k127_1242566_4	269482.Bcep1808_2336	2.699e-85	288.0	COG0149@1|root,COG0149@2|Bacteria,1MWK5@1224|Proteobacteria,2VIRP@28216|Betaproteobacteria,1K1SN@119060|Burkholderiaceae	28216|Betaproteobacteria	G	Involved in the gluconeogenesis. Catalyzes stereospecifically the conversion of dihydroxyacetone phosphate (DHAP) to D-glyceraldehyde-3-phosphate (G3P)	tpiA	-	5.3.1.1	ko:K01803	ko00010,ko00051,ko00562,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00010,map00051,map00562,map00710,map01100,map01110,map01120,map01130,map01200,map01230	M00001,M00002,M00003	R01015	RC00423	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	TIM
LYD3_k127_1242566_1	296591.Bpro_3009	1.532e-192	605.0	COG3333@1|root,COG3333@2|Bacteria,1MUKR@1224|Proteobacteria,2VHZI@28216|Betaproteobacteria,4AC4M@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter TctA family	-	-	-	-	-	-	-	-	-	-	-	-	TctA
LYD3_k127_1248054_2	477184.KYC_14537	9.923e-09	59.0	COG2242@1|root,COG2242@2|Bacteria,1R0I9@1224|Proteobacteria,2VRVM@28216|Betaproteobacteria,3T1H7@506|Alcaligenaceae	28216|Betaproteobacteria	H	COG0500 SAM-dependent methyltransferases	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_31
LYD3_k127_1248054_0	859657.RPSI07_0611	3.336e-127	422.0	COG0604@1|root,COG0604@2|Bacteria,1MV3W@1224|Proteobacteria,2VINX@28216|Betaproteobacteria,1K0CE@119060|Burkholderiaceae	28216|Betaproteobacteria	C	alcohol dehydrogenase	-	-	-	ko:K19745	ko00640,ko01100,map00640,map01100	-	R00919	RC00095	ko00000,ko00001,ko01000	-	-	-	ADH_N,ADH_zinc_N
LYD3_k127_1248054_1	945713.IALB_0230	3.843e-10	64.0	COG1232@1|root,COG1232@2|Bacteria	2|Bacteria	H	protoporphyrinogen oxidase activity	hemG	-	1.14.19.9,1.3.3.15,1.3.3.4	ko:K00231,ko:K14266	ko00404,ko00860,ko01100,ko01110,ko01130,map00404,map00860,map01100,map01110,map01130	M00121,M00789,M00790	R03222,R04178,R09570	RC00885,RC00949	ko00000,ko00001,ko00002,ko01000	-	-	iSB619.SA_RS09325	Amino_oxidase
LYD3_k127_127524_0	375286.mma_0277	9.888e-257	802.0	COG5265@1|root,COG5265@2|Bacteria,1NSKS@1224|Proteobacteria,2WGG3@28216|Betaproteobacteria,473CU@75682|Oxalobacteraceae	28216|Betaproteobacteria	V	ABC transporter transmembrane region	atm1	-	-	ko:K06147	-	-	-	-	ko00000,ko02000	3.A.1.106,3.A.1.109,3.A.1.21	-	-	ABC_membrane,ABC_tran
LYD3_k127_127524_1	1454004.AW11_00136	3.377e-123	417.0	COG1502@1|root,COG1502@2|Bacteria,1MWUW@1224|Proteobacteria,2VI41@28216|Betaproteobacteria,1KQMM@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	I	Catalyzes the phosphatidyl group transfer from one phosphatidylglycerol molecule to another to form cardiolipin (CL) (diphosphatidylglycerol) and glycerol	clsB	-	-	ko:K06131	ko00564,ko01100,map00564,map01100	-	R07390	RC00017	ko00000,ko00001,ko01000	-	-	-	PLDc_2
LYD3_k127_127524_2	85643.Tmz1t_3642	1.827e-78	267.0	COG3568@1|root,COG3568@2|Bacteria,1MVN7@1224|Proteobacteria,2VJYW@28216|Betaproteobacteria,2KV21@206389|Rhodocyclales	206389|Rhodocyclales	L	Endonuclease Exonuclease phosphatase	-	-	-	-	-	-	-	-	-	-	-	-	Exo_endo_phos
LYD3_k127_1305224_3	1123393.KB891316_gene2122	3.989e-20	93.0	COG0559@1|root,COG0559@2|Bacteria,1MU25@1224|Proteobacteria,2VJAS@28216|Betaproteobacteria,1KT21@119069|Hydrogenophilales	119069|Hydrogenophilales	E	Branched-chain amino acid transport system / permease component	-	-	-	-	-	-	-	-	-	-	-	-	BPD_transp_2
LYD3_k127_1305224_0	522306.CAP2UW1_3612	1.595e-141	462.0	COG0683@1|root,COG0683@2|Bacteria,1MWJ1@1224|Proteobacteria,2VH55@28216|Betaproteobacteria,1KQBE@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	E	Receptor family ligand binding region	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_1305224_1	1122604.JONR01000005_gene960	1.806e-82	289.0	COG0845@1|root,COG0845@2|Bacteria,1MX0G@1224|Proteobacteria,1RN0S@1236|Gammaproteobacteria,1X433@135614|Xanthomonadales	135614|Xanthomonadales	M	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family	-	-	-	ko:K03585	ko01501,ko01503,map01501,map01503	M00646,M00647,M00699,M00718	-	-	ko00000,ko00001,ko00002,ko01504,ko02000,ko03036	2.A.6.2,8.A.1.6	-	-	HlyD_D23
LYD3_k127_1305224_2	29581.BW37_00605	7.272e-44	175.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VHFI@28216|Betaproteobacteria,475Z8@75682|Oxalobacteraceae	28216|Betaproteobacteria	V	AcrB/AcrD/AcrF family	mdtC3	-	-	ko:K03296	-	-	-	-	ko00000	2.A.6.2	-	-	ACR_tran
LYD3_k127_132965_4	1449076.JOOE01000002_gene763	6.188e-80	269.0	COG0620@1|root,COG0620@2|Bacteria,1MV2Z@1224|Proteobacteria,2TSRH@28211|Alphaproteobacteria,2K9SZ@204457|Sphingomonadales	204457|Sphingomonadales	E	Cobalamin-independent synthase, Catalytic domain	-	-	2.1.1.14	ko:K00549	ko00270,ko00450,ko01100,ko01110,ko01230,map00270,map00450,map01100,map01110,map01230	M00017	R04405,R09365	RC00035,RC00113,RC01241	ko00000,ko00001,ko00002,ko01000	-	-	-	Meth_synt_2
LYD3_k127_132965_5	497321.C664_06308	1.373e-50	188.0	COG3945@1|root,COG3945@2|Bacteria,1N12K@1224|Proteobacteria,2VUPY@28216|Betaproteobacteria,2KWW8@206389|Rhodocyclales	206389|Rhodocyclales	S	Hemerythrin HHE cation binding	-	-	-	-	-	-	-	-	-	-	-	-	Hemerythrin
LYD3_k127_132965_2	1231391.AMZF01000006_gene2791	2.353e-95	317.0	COG0410@1|root,COG0410@2|Bacteria,1MUFR@1224|Proteobacteria,2VM45@28216|Betaproteobacteria,3T6ZM@506|Alcaligenaceae	28216|Betaproteobacteria	E	ATPases associated with a variety of cellular activities	-	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran
LYD3_k127_132965_0	1031711.RSPO_c01183	1.375e-152	501.0	COG0411@1|root,COG0411@2|Bacteria,1MXHT@1224|Proteobacteria,2VKMU@28216|Betaproteobacteria,1K2J3@119060|Burkholderiaceae	28216|Betaproteobacteria	E	abc transporter	-	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_132965_1	864073.HFRIS_002559	1.135e-141	454.0	COG0559@1|root,COG0559@2|Bacteria,1NQYP@1224|Proteobacteria,2VKMC@28216|Betaproteobacteria,478G7@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01997	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_132965_8	1123073.KB899242_gene1672	1.894e-15	85.0	COG2261@1|root,COG2261@2|Bacteria,1N72W@1224|Proteobacteria,1SGV7@1236|Gammaproteobacteria,1X8U9@135614|Xanthomonadales	135614|Xanthomonadales	S	Transglycosylase associated protein	-	-	-	-	-	-	-	-	-	-	-	-	Transgly_assoc
LYD3_k127_132965_7	640510.BC1001_2366	1.913e-20	95.0	COG5429@1|root,COG5429@2|Bacteria,1MW6R@1224|Proteobacteria,2VSC6@28216|Betaproteobacteria,1K582@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF1223)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1223
LYD3_k127_132965_3	1500894.JQNN01000001_gene3154	1.835e-80	270.0	COG0191@1|root,COG0191@2|Bacteria,1MURX@1224|Proteobacteria,2VHGI@28216|Betaproteobacteria,473JB@75682|Oxalobacteraceae	28216|Betaproteobacteria	G	Fructose-bisphosphate aldolase class-II	fba	-	4.1.2.13	ko:K01624	ko00010,ko00030,ko00051,ko00680,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00010,map00030,map00051,map00680,map00710,map01100,map01110,map01120,map01130,map01200,map01230	M00001,M00003,M00165,M00167,M00344,M00345	R01068,R01070,R01829,R02568	RC00438,RC00439,RC00603,RC00604	ko00000,ko00001,ko00002,ko01000	-	-	-	F_bP_aldolase
LYD3_k127_132965_6	450851.PHZ_c3193	7.671e-24	100.0	COG0191@1|root,COG0191@2|Bacteria,1MURX@1224|Proteobacteria,2TSAD@28211|Alphaproteobacteria,2KFVW@204458|Caulobacterales	204458|Caulobacterales	G	Fructose-bisphosphate aldolase, class II, Calvin cycle subtype	-	-	4.1.2.13	ko:K01624	ko00010,ko00030,ko00051,ko00680,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00010,map00030,map00051,map00680,map00710,map01100,map01110,map01120,map01130,map01200,map01230	M00001,M00003,M00165,M00167,M00344,M00345	R01068,R01070,R01829,R02568	RC00438,RC00439,RC00603,RC00604	ko00000,ko00001,ko00002,ko01000	-	-	-	F_bP_aldolase
LYD3_k127_133234_7	247634.GPB2148_1658	4.487e-11	65.0	COG0481@1|root,COG0481@2|Bacteria,1MVZA@1224|Proteobacteria,1RPFB@1236|Gammaproteobacteria,1J4DD@118884|unclassified Gammaproteobacteria	1236|Gammaproteobacteria	M	Required for accurate and efficient protein synthesis under certain stress conditions. May act as a fidelity factor of the translation reaction, by catalyzing a one-codon backward translocation of tRNAs on improperly translocated ribosomes. Back- translocation proceeds from a post-translocation (POST) complex to a pre-translocation (PRE) complex, thus giving elongation factor G a second chance to translocate the tRNAs correctly. Binds to ribosomes in a GTP-dependent manner	lepA	GO:0000166,GO:0001882,GO:0001883,GO:0003674,GO:0003676,GO:0003723,GO:0003746,GO:0003824,GO:0003924,GO:0005488,GO:0005515,GO:0005525,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0005886,GO:0006412,GO:0006414,GO:0006518,GO:0006807,GO:0006950,GO:0006970,GO:0008135,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009266,GO:0009268,GO:0009409,GO:0009628,GO:0009651,GO:0009987,GO:0010467,GO:0016020,GO:0016462,GO:0016787,GO:0016817,GO:0016818,GO:0017076,GO:0017111,GO:0019001,GO:0019538,GO:0032549,GO:0032550,GO:0032553,GO:0032555,GO:0032561,GO:0034641,GO:0034645,GO:0035639,GO:0036094,GO:0042802,GO:0043021,GO:0043023,GO:0043024,GO:0043043,GO:0043167,GO:0043168,GO:0043170,GO:0043603,GO:0043604,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044267,GO:0044271,GO:0044424,GO:0044444,GO:0044464,GO:0044877,GO:0050896,GO:0071704,GO:0071944,GO:0097159,GO:0097367,GO:1901265,GO:1901363,GO:1901564,GO:1901566,GO:1901576	-	ko:K03596	ko05134,map05134	-	-	-	ko00000,ko00001	-	-	-	EFG_C,GTP_EFTU,GTP_EFTU_D2,LepA_C
LYD3_k127_133234_6	266265.Bxe_A1082	2.208e-14	81.0	COG0695@1|root,COG0695@2|Bacteria,1N82H@1224|Proteobacteria,2VWG7@28216|Betaproteobacteria,1K9F5@119060|Burkholderiaceae	28216|Betaproteobacteria	O	PFAM glutaredoxin 2	-	-	-	-	-	-	-	-	-	-	-	-	DUF836
LYD3_k127_133234_1	1454004.AW11_03066	2.817e-167	539.0	COG0265@1|root,COG0265@2|Bacteria,1MU63@1224|Proteobacteria,2VI4Q@28216|Betaproteobacteria,1KQED@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	O	Belongs to the peptidase S1C family	degQ	-	3.4.21.107	ko:K04771	ko01503,ko02020,map01503,map02020	M00728	-	-	ko00000,ko00001,ko00002,ko01000,ko01002,ko03110	-	-	-	PDZ_2,Trypsin_2
LYD3_k127_133234_4	1000565.METUNv1_00626	3.129e-68	244.0	COG3026@1|root,COG3026@2|Bacteria,1MUQ8@1224|Proteobacteria,2VMZQ@28216|Betaproteobacteria,2KUKH@206389|Rhodocyclales	206389|Rhodocyclales	T	Sigma E regulatory protein, MucB RseB	rseB	-	-	ko:K03598	-	-	-	-	ko00000,ko03021	-	-	-	MucB_RseB,MucB_RseB_C
LYD3_k127_133234_5	1288494.EBAPG3_14210	6.64e-22	101.0	COG3073@1|root,COG3073@2|Bacteria,1QANZ@1224|Proteobacteria,2VVPR@28216|Betaproteobacteria,373CP@32003|Nitrosomonadales	28216|Betaproteobacteria	T	Anti sigma-E protein RseA, N-terminal domain	rseA	-	-	ko:K03597	-	-	-	-	ko00000,ko03021	-	-	-	RseA_N
LYD3_k127_133234_3	1163617.SCD_n01390	2.93e-95	315.0	COG1595@1|root,COG1595@2|Bacteria,1MX7T@1224|Proteobacteria,2VHR2@28216|Betaproteobacteria	28216|Betaproteobacteria	K	Belongs to the sigma-70 factor family. ECF subfamily	rpoE	-	-	ko:K03088	-	-	-	-	ko00000,ko03021	-	-	-	Sigma70_r2,Sigma70_r4_2
LYD3_k127_133234_2	1095769.CAHF01000014_gene2990	1.801e-106	357.0	COG4448@1|root,COG4448@2|Bacteria,1R4NH@1224|Proteobacteria,2VJES@28216|Betaproteobacteria,476PU@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	L-asparaginase II	-	-	-	-	-	-	-	-	-	-	-	-	Asparaginase_II
LYD3_k127_133234_0	1163617.SCD_n01505	6.618e-204	640.0	COG0365@1|root,COG0365@2|Bacteria,1MUF5@1224|Proteobacteria,2VI3T@28216|Betaproteobacteria	28216|Betaproteobacteria	I	PrpE from Ralstonia solanacearum can produce acetyl-, propionyl-, butyryl- and acrylyl-coenzyme A, and Salmonella enterica produces propionyl- and butyryl-coenzyme A	prpE	-	6.2.1.17	ko:K01908	ko00640,ko01100,map00640,map01100	-	R00926,R01354	RC00004,RC00043,RC00070,RC02816	ko00000,ko00001,ko01000,ko01004	-	-	-	ACAS_N,AMP-binding,AMP-binding_C
LYD3_k127_13377_5	1502851.FG93_05928	1.178e-97	334.0	COG1125@1|root,COG1125@2|Bacteria,1QTUC@1224|Proteobacteria,2TTMA@28211|Alphaproteobacteria,3JSPY@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	E	ABC transporter	-	-	-	ko:K05847	ko02010,map02010	M00209	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.12	-	-	ABC_tran
LYD3_k127_13377_6	296591.Bpro_1155	3.66e-80	274.0	COG1174@1|root,COG1174@2|Bacteria,1MXA1@1224|Proteobacteria,2VMKH@28216|Betaproteobacteria,4AJAB@80864|Comamonadaceae	28216|Betaproteobacteria	P	Binding-protein-dependent transport system inner membrane component	-	-	-	ko:K05845,ko:K05846	ko02010,map02010	M00209	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.12	-	-	BPD_transp_1,OpuAC
LYD3_k127_13377_7	296591.Bpro_1156	1.294e-70	263.0	COG1174@1|root,COG1174@2|Bacteria,1MXA1@1224|Proteobacteria,2VMKH@28216|Betaproteobacteria	28216|Betaproteobacteria	P	ABC-type proline glycine betaine transport	-	-	-	ko:K05845,ko:K05846	ko02010,map02010	M00209	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.12	-	-	BPD_transp_1,OpuAC
LYD3_k127_13377_1	296591.Bpro_1157	5.556e-158	513.0	COG2986@1|root,COG2986@2|Bacteria,1MU6K@1224|Proteobacteria,2VJB1@28216|Betaproteobacteria,4AAID@80864|Comamonadaceae	1224|Proteobacteria	E	Histidine ammonia-lyase	-	-	4.3.1.3	ko:K01745	ko00340,ko01100,map00340,map01100	M00045	R01168	RC00361	ko00000,ko00001,ko00002,ko01000	-	-	-	Lyase_aromatic
LYD3_k127_13377_3	296591.Bpro_1158	2.897e-121	419.0	COG1732@1|root,COG1732@2|Bacteria,1MV9N@1224|Proteobacteria,2VMNF@28216|Betaproteobacteria	28216|Betaproteobacteria	M	glycine betaine	-	-	-	ko:K05845	ko02010,map02010	M00209	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.12	-	-	OpuAC
LYD3_k127_13377_8	296591.Bpro_1162	1.522e-66	235.0	COG3221@1|root,COG3221@2|Bacteria,1QJET@1224|Proteobacteria,2VIVQ@28216|Betaproteobacteria	28216|Betaproteobacteria	P	COG3221 ABC-type phosphate phosphonate transport system, periplasmic component	-	-	-	ko:K02044	ko02010,map02010	M00223	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.9	-	-	Phosphonate-bd
LYD3_k127_13377_0	1040983.AXAE01000005_gene1503	5.514e-164	522.0	COG2423@1|root,COG2423@2|Bacteria,1N3EI@1224|Proteobacteria,2TUZX@28211|Alphaproteobacteria,43JBV@69277|Phyllobacteriaceae	28211|Alphaproteobacteria	E	ornithine cyclodeaminase mu-crystallin	-	-	1.4.1.1,4.3.1.12	ko:K01750,ko:K19244	ko00250,ko00330,ko00430,ko01100,ko01110,ko01130,ko01230,map00250,map00330,map00430,map01100,map01110,map01130,map01230	-	R00396,R00671	RC00008,RC00354	ko00000,ko00001,ko01000	-	-	-	OCD_Mu_crystall
LYD3_k127_13377_10	667632.KB890164_gene2165	6.282e-34	140.0	COG3758@1|root,COG3758@2|Bacteria,1RH9G@1224|Proteobacteria,2VS40@28216|Betaproteobacteria,1K5JB@119060|Burkholderiaceae	28216|Betaproteobacteria	S	HutD	-	-	-	ko:K09975	-	-	-	-	ko00000	-	-	-	HutD
LYD3_k127_13377_2	1122604.JONR01000025_gene4544	5.461e-140	470.0	COG0402@1|root,COG0402@2|Bacteria,1MUFE@1224|Proteobacteria,1RMZR@1236|Gammaproteobacteria,1X37N@135614|Xanthomonadales	135614|Xanthomonadales	F	deiminase	sdeB	-	3.5.3.13	ko:K05603	ko00340,map00340	-	R02286	RC00682	ko00000,ko00001,ko01000	-	-	-	Amidohydro_1
LYD3_k127_13377_4	1122604.JONR01000025_gene4542	3.465e-99	335.0	COG3741@1|root,COG3741@2|Bacteria,1MY4D@1224|Proteobacteria,1RUSZ@1236|Gammaproteobacteria,1X5E2@135614|Xanthomonadales	135614|Xanthomonadales	E	N-formylglutamate amidohydrolase	hutG	-	3.5.1.68,3.5.3.8	ko:K01458,ko:K01479	ko00340,ko00630,ko01100,map00340,map00630,map01100	M00045	R00525,R02285	RC00165,RC00221,RC00323,RC00681	ko00000,ko00001,ko00002,ko01000	-	-	-	FGase
LYD3_k127_13377_9	358220.C380_17430	5.454e-46	171.0	COG2905@1|root,COG2905@2|Bacteria,1QTTR@1224|Proteobacteria,2WGT1@28216|Betaproteobacteria,4AJWT@80864|Comamonadaceae	28216|Betaproteobacteria	T	Domain in cystathionine beta-synthase and other proteins.	-	-	-	-	-	-	-	-	-	-	-	-	CBS
LYD3_k127_13377_11	1266925.JHVX01000001_gene2558	1.825e-16	88.0	2BHIC@1|root,32BKS@2|Bacteria,1PZ7H@1224|Proteobacteria,2VYB8@28216|Betaproteobacteria,373HG@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Putative prokaryotic signal transducing protein	-	-	-	-	-	-	-	-	-	-	-	-	DUF2007
LYD3_k127_1343662_7	768066.HELO_4120	2.368e-28	117.0	COG0436@1|root,COG0436@2|Bacteria,1MW0Z@1224|Proteobacteria,1RNXA@1236|Gammaproteobacteria,1XIP9@135619|Oceanospirillales	135619|Oceanospirillales	E	Aminotransferase	-	-	-	-	-	-	-	-	-	-	-	-	Aminotran_1_2
LYD3_k127_1343662_8	1286631.X805_41590	0.0002588	50.0	COG1278@1|root,COG1278@2|Bacteria,1N1M6@1224|Proteobacteria,2VT85@28216|Betaproteobacteria,1KMFH@119065|unclassified Burkholderiales	28216|Betaproteobacteria	K	Excalibur calcium-binding domain	-	-	-	-	-	-	-	-	-	-	-	-	CSD,Excalibur
LYD3_k127_1343662_6	279714.FuraDRAFT_1070	2.456e-53	192.0	COG1490@1|root,COG1490@2|Bacteria,1RGTV@1224|Proteobacteria,2VR31@28216|Betaproteobacteria,2KR2P@206351|Neisseriales	206351|Neisseriales	J	rejects L-amino acids rather than detecting D-amino acids in the active site. By recycling D-aminoacyl-tRNA to D-amino acids and free tRNA molecules, this enzyme counteracts the toxicity associated with the formation of D-aminoacyl-tRNA entities in vivo and helps enforce protein L-homochirality	dtd	-	-	ko:K07560	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	Tyr_Deacylase
LYD3_k127_1343662_2	1123401.JHYQ01000006_gene63	2.04e-113	380.0	COG1566@1|root,COG1566@2|Bacteria,1QW95@1224|Proteobacteria,1T5FN@1236|Gammaproteobacteria	1236|Gammaproteobacteria	V	Barrel-sandwich domain of CusB or HlyD membrane-fusion	-	-	-	-	-	-	-	-	-	-	-	-	HlyD_D23
LYD3_k127_1343662_1	1123401.JHYQ01000006_gene64	4.615e-143	469.0	COG4591@1|root,COG4591@2|Bacteria,1MVV7@1224|Proteobacteria,1RMP9@1236|Gammaproteobacteria,46067@72273|Thiotrichales	72273|Thiotrichales	M	lipoprotein releasing system, transmembrane protein, LolC E family	-	-	-	-	-	-	-	-	-	-	-	-	FtsX,MacB_PCD
LYD3_k127_1343662_4	1123401.JHYQ01000006_gene65	2.718e-96	322.0	COG1136@1|root,COG1136@2|Bacteria,1MVSQ@1224|Proteobacteria,1RRWM@1236|Gammaproteobacteria	1236|Gammaproteobacteria	V	Part of the ABC transporter complex LolCDE involved in the translocation of lipoproteins, in an ATP-dependent manner	lolD	-	-	ko:K09810	ko02010,map02010	M00255	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.125	-	-	ABC_tran
LYD3_k127_1343662_0	522306.CAP2UW1_4064	2.994e-150	492.0	COG0668@1|root,COG0668@2|Bacteria,1N66N@1224|Proteobacteria,2WGKB@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Mechanosensitive ion channel	-	-	-	-	-	-	-	-	-	-	-	-	MS_channel
LYD3_k127_1343662_3	1217718.ALOU01000071_gene5053	1.46e-98	331.0	COG1741@1|root,COG1741@2|Bacteria,1MVSW@1224|Proteobacteria,2VHPA@28216|Betaproteobacteria,1K0N7@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Belongs to the pirin family	yhhW_2	-	-	ko:K06911	-	-	-	-	ko00000	-	-	-	Pirin
LYD3_k127_1343662_5	493475.GARC_5117	2.984e-63	218.0	COG1904@1|root,COG1904@2|Bacteria,1MVRI@1224|Proteobacteria,1RMRR@1236|Gammaproteobacteria,464VQ@72275|Alteromonadaceae	1236|Gammaproteobacteria	G	Glucuronate isomerase	uxaC	GO:0005975,GO:0005996,GO:0006063,GO:0006064,GO:0006082,GO:0008150,GO:0008152,GO:0009056,GO:0009987,GO:0016052,GO:0016054,GO:0019585,GO:0019586,GO:0019698,GO:0019752,GO:0032787,GO:0042839,GO:0042840,GO:0043436,GO:0044237,GO:0044238,GO:0044248,GO:0044281,GO:0044282,GO:0046365,GO:0046395,GO:0046396,GO:0046397,GO:0071704,GO:0072329,GO:1901575	5.3.1.12	ko:K01812	ko00040,ko01100,map00040,map01100	M00061,M00631	R01482,R01983	RC00376	ko00000,ko00001,ko00002,ko01000	-	-	iPC815.YPO0579,iSbBS512_1146.SbBS512_E3528	UxaC
LYD3_k127_1347342_6	1415778.JQMM01000001_gene2084	0.0006003	48.0	2DU2E@1|root,33NN7@2|Bacteria,1P5P1@1224|Proteobacteria,1SV3F@1236|Gammaproteobacteria,1JBM0@118884|unclassified Gammaproteobacteria	1236|Gammaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1347342_3	1095769.CAHF01000011_gene2736	6.091e-74	253.0	COG0431@1|root,COG0431@2|Bacteria,1RAFI@1224|Proteobacteria,2VKQS@28216|Betaproteobacteria,4744A@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	NADPH-dependent FMN reductase	azr	-	-	ko:K19784	-	-	-	-	ko00000	-	-	-	FMN_red
LYD3_k127_1347342_4	1131553.JIBI01000013_gene935	3.901e-32	130.0	COG1937@1|root,COG1937@2|Bacteria,1N9P2@1224|Proteobacteria,2VUK5@28216|Betaproteobacteria,373DZ@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Metal-sensitive transcriptional repressor	-	-	-	ko:K21600	-	-	-	-	ko00000,ko03000	-	-	-	Trns_repr_metal
LYD3_k127_1347342_5	62928.azo1356	9.275e-14	83.0	COG2608@1|root,COG2608@2|Bacteria,1NGBD@1224|Proteobacteria,2VXV9@28216|Betaproteobacteria,2KXCB@206389|Rhodocyclales	206389|Rhodocyclales	C	Heavy metal transport detoxification protein	copZ	-	-	ko:K07213	ko04978,map04978	-	-	-	ko00000,ko00001	-	-	-	HMA
LYD3_k127_1347342_0	1163617.SCD_n01830	1.228e-250	796.0	COG2217@1|root,COG2217@2|Bacteria,1MU08@1224|Proteobacteria,2VH8J@28216|Betaproteobacteria	28216|Betaproteobacteria	P	ATPase, P-type (transporting), HAD superfamily, subfamily IC	copA	-	3.6.3.54	ko:K17686	ko01524,ko04016,map01524,map04016	-	R00086	RC00002	ko00000,ko00001,ko01000	3.A.3.5	-	-	E1-E2_ATPase,HMA,Hydrolase
LYD3_k127_1347342_2	667632.KB890165_gene2407	2.248e-123	406.0	COG2008@1|root,COG2008@2|Bacteria,1MWCR@1224|Proteobacteria,2VIVJ@28216|Betaproteobacteria,1K45C@119060|Burkholderiaceae	28216|Betaproteobacteria	E	PFAM aromatic amino acid beta-eliminating lyase threonine aldolase	ltaE	-	4.1.2.48	ko:K01620	ko00260,ko01100,ko01110,ko01120,ko01130,ko01230,map00260,map01100,map01110,map01120,map01130,map01230	-	R00751,R06171	RC00312,RC00372	ko00000,ko00001,ko01000	-	-	-	Beta_elim_lyase
LYD3_k127_1347342_1	1266925.JHVX01000012_gene1712	1.183e-146	469.0	COG1190@1|root,COG1190@2|Bacteria,1MX1V@1224|Proteobacteria,2VH1A@28216|Betaproteobacteria,3727P@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Belongs to the class-II aminoacyl-tRNA synthetase family	lysS	-	6.1.1.6	ko:K04567	ko00970,map00970	M00359,M00360	R03658	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	tRNA-synt_2,tRNA_anti-codon
LYD3_k127_136372_3	1384054.N790_07555	4.008e-123	409.0	COG2804@1|root,COG2804@2|Bacteria,1MU7V@1224|Proteobacteria,1RMBS@1236|Gammaproteobacteria,1X36S@135614|Xanthomonadales	135614|Xanthomonadales	NU	General secretion pathway protein	xpsE	GO:0003674,GO:0005488,GO:0005515,GO:0042802	-	ko:K02454	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	T2SSE,T2SSE_N
LYD3_k127_136372_0	640081.Dsui_0664	1.962e-194	617.0	COG0001@1|root,COG0001@2|Bacteria,1MUY5@1224|Proteobacteria,2VHK9@28216|Betaproteobacteria,2KUUJ@206389|Rhodocyclales	206389|Rhodocyclales	H	Aminotransferase	hemL	-	5.4.3.8	ko:K01845	ko00860,ko01100,ko01110,ko01120,map00860,map01100,map01110,map01120	M00121	R02272	RC00677	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_3
LYD3_k127_136372_7	84531.JMTZ01000108_gene4277	1.52e-55	203.0	COG0352@1|root,COG0352@2|Bacteria,1RDSU@1224|Proteobacteria,1S6QS@1236|Gammaproteobacteria,1X6BT@135614|Xanthomonadales	135614|Xanthomonadales	H	Condenses 4-methyl-5-(beta-hydroxyethyl)thiazole monophosphate (THZ-P) and 2-methyl-4-amino-5-hydroxymethyl pyrimidine pyrophosphate (HMP-PP) to form thiamine monophosphate (TMP)	thiE	GO:0003674,GO:0003824,GO:0004789,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0006725,GO:0006766,GO:0006767,GO:0006772,GO:0006790,GO:0006807,GO:0008150,GO:0008152,GO:0009058,GO:0009110,GO:0009228,GO:0009987,GO:0016740,GO:0016765,GO:0017144,GO:0018130,GO:0019438,GO:0034641,GO:0042364,GO:0042723,GO:0042724,GO:0044237,GO:0044249,GO:0044271,GO:0044272,GO:0044281,GO:0044283,GO:0044424,GO:0044464,GO:0046483,GO:0071704,GO:0072527,GO:0072528,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576	2.5.1.3	ko:K00788	ko00730,ko01100,map00730,map01100	M00127	R03223,R10712	RC00224,RC03255,RC03397	ko00000,ko00001,ko00002,ko01000	-	-	-	TMP-TENI
LYD3_k127_136372_1	1163617.SCD_n02927	2.249e-133	432.0	COG0351@1|root,COG0351@2|Bacteria,1MU9J@1224|Proteobacteria,2VKD2@28216|Betaproteobacteria	28216|Betaproteobacteria	H	Phosphomethylpyrimidine kinase	thiD	-	2.7.1.49,2.7.4.7	ko:K00941	ko00730,ko01100,map00730,map01100	M00127	R03471,R04509	RC00002,RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	Phos_pyr_kin
LYD3_k127_136372_10	62928.azo3452	2.041e-27	113.0	COG1773@1|root,COG1773@2|Bacteria,1N731@1224|Proteobacteria,2VVP4@28216|Betaproteobacteria,2KXDH@206389|Rhodocyclales	206389|Rhodocyclales	C	Rubredoxin	-	-	-	-	-	-	-	-	-	-	-	-	Rubredoxin
LYD3_k127_136372_11	311402.Avi_5803	6.428e-19	99.0	COG0438@1|root,COG0438@2|Bacteria,1PF1J@1224|Proteobacteria,2VBRB@28211|Alphaproteobacteria,4BIQJ@82115|Rhizobiaceae	28211|Alphaproteobacteria	M	Glycosyl transferases group 1	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_trans_1_4
LYD3_k127_136372_6	580332.Slit_1342	8.523e-67	229.0	COG0346@1|root,COG0346@2|Bacteria,1RCYX@1224|Proteobacteria,2VR7R@28216|Betaproteobacteria,44WG5@713636|Nitrosomonadales	28216|Betaproteobacteria	E	PFAM Glyoxalase bleomycin resistance protein dioxygenase	gloA	-	4.4.1.5	ko:K01759	ko00620,map00620	-	R02530	RC00004,RC00740	ko00000,ko00001,ko01000	-	-	-	Glyoxalase
LYD3_k127_136372_4	1038858.AXBA01000026_gene1671	2.869e-118	407.0	COG0457@1|root,COG3914@1|root,COG0457@2|Bacteria,COG3914@2|Bacteria,1MVMG@1224|Proteobacteria,2TRVB@28211|Alphaproteobacteria,3F0WQ@335928|Xanthobacteraceae	28211|Alphaproteobacteria	O	Glycosyl transferase family 41	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,Methyltransf_23,TPR_1,TPR_11,TPR_16,TPR_2,TPR_8
LYD3_k127_136372_5	1175306.GWL_35690	3.97e-74	269.0	COG1999@1|root,COG1999@2|Bacteria,1RHJ8@1224|Proteobacteria,2VR3M@28216|Betaproteobacteria,473BA@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Involved in biogenesis of respiratory and photosynthetic systems	senC	-	-	ko:K07152	-	-	-	-	ko00000,ko03029	-	-	-	SCO1-SenC
LYD3_k127_136372_2	1000565.METUNv1_02097	3.721e-123	401.0	COG0109@1|root,COG0109@2|Bacteria,1MW3S@1224|Proteobacteria,2VHZU@28216|Betaproteobacteria,2KVHR@206389|Rhodocyclales	206389|Rhodocyclales	H	Converts heme B (protoheme IX) to heme O by substitution of the vinyl group on carbon 2 of heme B porphyrin ring with a hydroxyethyl farnesyl side group	ctaB	-	2.5.1.141	ko:K02257	ko00190,ko00860,ko01100,ko01110,ko04714,map00190,map00860,map01100,map01110,map04714	M00154	R07411	RC01786	ko00000,ko00001,ko00002,ko01000,ko01006,ko03029	-	-	-	UbiA
LYD3_k127_136372_9	1144319.PMI16_02307	6.974e-37	149.0	COG1999@1|root,COG1999@2|Bacteria,1RHK3@1224|Proteobacteria,2VRBY@28216|Betaproteobacteria,473TQ@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	signal sequence binding	sco1	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_136372_8	1123393.KB891330_gene767	4.394e-54	199.0	COG3346@1|root,COG3346@2|Bacteria,1MZUH@1224|Proteobacteria,2VSAZ@28216|Betaproteobacteria,1KRZY@119069|Hydrogenophilales	119069|Hydrogenophilales	S	SURF1 family	-	-	-	-	-	-	-	-	-	-	-	-	SURF1
LYD3_k127_1363781_5	1230343.CANP01000023_gene1488	5.26e-29	129.0	COG0764@1|root,COG0764@2|Bacteria,1PCKD@1224|Proteobacteria,1SXNH@1236|Gammaproteobacteria,1JDAD@118969|Legionellales	118969|Legionellales	I	FabA-like domain	fabA	-	-	-	-	-	-	-	-	-	-	-	FabA
LYD3_k127_1363781_0	1408444.JHYC01000017_gene1964	5.314e-139	457.0	COG0304@1|root,COG0304@2|Bacteria,1MU1X@1224|Proteobacteria,1RMDE@1236|Gammaproteobacteria,1JDCZ@118969|Legionellales	118969|Legionellales	I	Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP	-	-	2.3.1.179,2.3.1.41	ko:K00647,ko:K09458	ko00061,ko00780,ko01100,ko01212,map00061,map00780,map01100,map01212	M00083,M00572	R04355,R04726,R04952,R04957,R04960,R04963,R04968,R07762,R10115,R10119	RC00039,RC02728,RC02729,RC02888	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	Ketoacyl-synt_C,ketoacyl-synt
LYD3_k127_1363781_2	1268635.Loa_00426	2.261e-108	367.0	COG0304@1|root,COG0304@2|Bacteria,1MU1X@1224|Proteobacteria,1RMDE@1236|Gammaproteobacteria,1JD6F@118969|Legionellales	118969|Legionellales	IQ	Beta-ketoacyl synthase, C-terminal domain	-	-	2.3.1.41	ko:K00647	ko00061,ko00780,ko01100,ko01212,map00061,map00780,map01100,map01212	M00083,M00572	R04355,R04726,R04952,R04957,R04960,R04963,R04968,R07762,R10115,R10119	RC00039,RC02728,RC02729,RC02888	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	Ketoacyl-synt_C,ketoacyl-synt
LYD3_k127_1363781_4	272624.lpg0363	9.263e-70	256.0	COG1560@1|root,COG1560@2|Bacteria,1MVNI@1224|Proteobacteria,1RXSU@1236|Gammaproteobacteria,1JDJP@118969|Legionellales	118969|Legionellales	M	lipid A biosynthesis	waaM	-	2.3.1.241	ko:K02517	ko00540,ko01100,map00540,map01100	M00060	R05146	RC00037,RC00039	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Lip_A_acyltrans
LYD3_k127_1363781_1	113395.AXAI01000022_gene3574	3.505e-119	392.0	COG3555@1|root,COG3555@2|Bacteria,1MW3M@1224|Proteobacteria,2TRVQ@28211|Alphaproteobacteria,3JUKX@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	O	Aspartyl/Asparaginyl beta-hydroxylase	MA20_07860	-	1.14.11.16	ko:K00476,ko:K12979	-	-	-	-	ko00000,ko01000,ko01005	-	-	-	Asp_Arg_Hydrox
LYD3_k127_1363781_3	1123487.KB892868_gene1155	4.011e-78	276.0	COG0859@1|root,COG0859@2|Bacteria,1NEWM@1224|Proteobacteria,2VQ5K@28216|Betaproteobacteria,2KYIU@206389|Rhodocyclales	206389|Rhodocyclales	M	Glycosyltransferase family 9 (heptosyltransferase)	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_9
LYD3_k127_1363781_6	1385517.N800_12440	2.573e-27	112.0	COG1132@1|root,COG1132@2|Bacteria,1MUBM@1224|Proteobacteria,1RMUR@1236|Gammaproteobacteria,1X3I4@135614|Xanthomonadales	135614|Xanthomonadales	V	Involved in lipid A export and possibly also in glycerophospholipid export and for biogenesis of the outer membrane. Transmembrane domains (TMD) form a pore in the inner membrane and the ATP-binding domain (NBD) is responsible for energy generation	msbA	GO:0003674,GO:0003824,GO:0005215,GO:0005319,GO:0006810,GO:0006869,GO:0008150,GO:0010876,GO:0015399,GO:0015405,GO:0016462,GO:0016787,GO:0016817,GO:0016818,GO:0016887,GO:0017111,GO:0022804,GO:0022857,GO:0033036,GO:0034040,GO:0042623,GO:0042626,GO:0043492,GO:0051179,GO:0051234,GO:0055085,GO:0071702	-	ko:K11085	ko02010,map02010	-	-	-	ko00000,ko00001,ko01000,ko02000	3.A.1.106	-	-	ABC_membrane,ABC_tran
LYD3_k127_1364278_0	522306.CAP2UW1_3853	4.487e-232	742.0	COG2206@1|root,COG2770@1|root,COG3437@1|root,COG2206@2|Bacteria,COG2770@2|Bacteria,COG3437@2|Bacteria,1MV37@1224|Proteobacteria,2VJ21@28216|Betaproteobacteria,1KQI6@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	KT	HD domain	-	-	-	-	-	-	-	-	-	-	-	-	GAF,GAF_2,HD,HD_5,Response_reg,dCache_1
LYD3_k127_1364278_3	1231391.AMZF01000008_gene1614	3.609e-178	567.0	COG1228@1|root,COG1228@2|Bacteria,1MUYR@1224|Proteobacteria,2VK8A@28216|Betaproteobacteria,3T2X1@506|Alcaligenaceae	28216|Betaproteobacteria	Q	Amidohydrolase family	hutI	-	3.5.2.7	ko:K01468	ko00340,ko01100,map00340,map01100	M00045	R02288	RC00683	ko00000,ko00001,ko00002,ko01000	-	-	-	Amidohydro_1,Amidohydro_3
LYD3_k127_1364278_2	543728.Vapar_4884	5.311e-199	634.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2VHEI@28216|Betaproteobacteria,4AC9Q@80864|Comamonadaceae	28216|Betaproteobacteria	IQ	PFAM AMP-dependent synthetase and ligase	-	-	-	-	-	-	-	-	-	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_1364278_1	1131553.JIBI01000010_gene1351	3.514e-203	644.0	COG0621@1|root,COG0621@2|Bacteria,1MU7N@1224|Proteobacteria,2VI16@28216|Betaproteobacteria,372H1@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12	rimO	-	2.8.4.4	ko:K14441	-	-	R10652	RC00003,RC03217	ko00000,ko01000,ko03009	-	-	-	Radical_SAM,TRAM,UPF0004
LYD3_k127_1364278_4	1286093.C266_25690	1.256e-14	75.0	COG5394@1|root,COG5394@2|Bacteria,1RHRC@1224|Proteobacteria,2VJ2N@28216|Betaproteobacteria,1K319@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Polyhydroxyalkanoate synthesis repressor PhaR	phaR	-	-	-	-	-	-	-	-	-	-	-	PHB_acc,PHB_acc_N
LYD3_k127_1366322_3	1005048.CFU_1341	1.198e-77	267.0	COG1044@1|root,COG1044@2|Bacteria,1MUX6@1224|Proteobacteria,2VHJR@28216|Betaproteobacteria,473BV@75682|Oxalobacteraceae	28216|Betaproteobacteria	M	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell	lpxD	-	2.3.1.191	ko:K02536	ko00540,ko01100,map00540,map01100	M00060	R04550	RC00039,RC00166	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Hexapep,Hexapep_2,LpxD
LYD3_k127_1366322_5	1163617.SCD_n01624	1.743e-49	190.0	COG0764@1|root,COG0764@2|Bacteria,1RH2T@1224|Proteobacteria,2VRKQ@28216|Betaproteobacteria	28216|Betaproteobacteria	I	Involved in unsaturated fatty acids biosynthesis. Catalyzes the dehydration of short chain beta-hydroxyacyl-ACPs and long chain saturated and unsaturated beta-hydroxyacyl-ACPs	fabZ	-	4.2.1.59	ko:K02372	ko00061,ko00780,ko01100,ko01212,map00061,map00780,map01100,map01212	M00083,M00572	R04428,R04535,R04537,R04544,R04568,R04954,R04965,R07764,R10117,R10121	RC00831,RC01095	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	FabA
LYD3_k127_1366322_2	75379.Tint_2128	1.097e-92	310.0	COG1043@1|root,COG1043@2|Bacteria,1MUHQ@1224|Proteobacteria,2VHDG@28216|Betaproteobacteria,1KJZZ@119065|unclassified Burkholderiales	28216|Betaproteobacteria	M	Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell	lpxA	-	2.3.1.129	ko:K00677	ko00540,ko01100,ko01503,map00540,map01100,map01503	M00060	R04567	RC00039,RC00055	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Acetyltransf_11,Hexapep
LYD3_k127_1366322_1	748280.NH8B_2556	3.827e-118	391.0	COG0763@1|root,COG0763@2|Bacteria,1MVBI@1224|Proteobacteria,2VIBP@28216|Betaproteobacteria,2KPQB@206351|Neisseriales	206351|Neisseriales	M	Condensation of UDP-2,3-diacylglucosamine and 2,3- diacylglucosamine-1-phosphate to form lipid A disaccharide, a precursor of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell	lpxB	-	2.4.1.182	ko:K00748	ko00540,ko01100,map00540,map01100	M00060	R04606	RC00005,RC00059	ko00000,ko00001,ko00002,ko01000,ko01003,ko01005	-	GT19	-	LpxB
LYD3_k127_1366322_4	257313.BP1433	3.044e-58	231.0	COG0164@1|root,COG0164@2|Bacteria,1RA65@1224|Proteobacteria,2VQ06@28216|Betaproteobacteria,3T3JQ@506|Alcaligenaceae	28216|Betaproteobacteria	L	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids	rnhB	-	3.1.26.4	ko:K03470	ko03030,map03030	-	-	-	ko00000,ko00001,ko01000,ko03032	-	-	-	RNase_HII
LYD3_k127_1366322_6	1504672.669783887	1.14e-35	147.0	COG2721@1|root,COG2721@2|Bacteria,1MZBN@1224|Proteobacteria,2VU0R@28216|Betaproteobacteria,4AI5A@80864|Comamonadaceae	28216|Betaproteobacteria	G	SAF	-	-	4.4.1.24	ko:K16845	ko00270,map00270	-	R07633	RC01785	ko00000,ko00001,ko01000	-	-	-	SAF
LYD3_k127_1366322_0	543728.Vapar_3819	8.422e-216	674.0	COG2721@1|root,COG2721@2|Bacteria,1MU9V@1224|Proteobacteria,2VK3Y@28216|Betaproteobacteria,4AGID@80864|Comamonadaceae	28216|Betaproteobacteria	G	PFAM D-galactarate dehydratase Altronate hydrolase domain protein	-	-	4.4.1.24	ko:K16846	ko00270,map00270	-	R07633	RC01785	ko00000,ko00001,ko01000	-	-	-	GD_AH_C
LYD3_k127_136941_2	1123487.KB892834_gene2786	2.014e-57	200.0	COG1077@1|root,COG1077@2|Bacteria,1MUMW@1224|Proteobacteria,2VIR9@28216|Betaproteobacteria,2KUHG@206389|Rhodocyclales	206389|Rhodocyclales	D	Rod shape-determining protein MreB	mreB	-	-	ko:K03569	-	-	-	-	ko00000,ko02048,ko03036,ko04812	1.A.33.1,9.B.157.1	-	-	MreB_Mbl
LYD3_k127_136941_1	580332.Slit_0137	3.229e-79	275.0	COG1792@1|root,COG1792@2|Bacteria,1N8ZS@1224|Proteobacteria,2VK0Y@28216|Betaproteobacteria,44VN9@713636|Nitrosomonadales	28216|Betaproteobacteria	M	Involved in formation and maintenance of cell shape	mreC	-	-	ko:K03570	-	-	-	-	ko00000,ko03036	9.B.157.1	-	-	MreC
LYD3_k127_136941_3	1266925.JHVX01000007_gene2353	4.449e-36	149.0	COG2891@1|root,COG2891@2|Bacteria,1RBNF@1224|Proteobacteria,2VQQ3@28216|Betaproteobacteria,373D2@32003|Nitrosomonadales	28216|Betaproteobacteria	M	shape-determining protein MreD	mreD	-	-	ko:K03571	-	-	-	-	ko00000,ko03036	9.B.157.1	-	-	MreD
LYD3_k127_136941_0	1163617.SCD_n00100	3.091e-198	629.0	COG0768@1|root,COG0768@2|Bacteria,1MV8C@1224|Proteobacteria,2VHBZ@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Catalyzes cross-linking of the peptidoglycan cell wall	mrdA	-	3.4.16.4	ko:K05515	ko00550,ko01501,map00550,map01501	-	-	-	ko00000,ko00001,ko01000,ko01011	-	-	-	PBP_dimer,Transpeptidase
LYD3_k127_1375547_2	864051.BurJ1DRAFT_3308	3.397e-51	186.0	COG0589@1|root,COG0589@2|Bacteria,1NBKV@1224|Proteobacteria	1224|Proteobacteria	T	PFAM UspA domain protein	-	-	-	ko:K07090	-	-	-	-	ko00000	-	-	-	TauE,Usp
LYD3_k127_1375547_3	864051.BurJ1DRAFT_3309	9.809e-34	134.0	2DDIC@1|root,32U1K@2|Bacteria,1NDK2@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1375547_0	864051.BurJ1DRAFT_3310	8.634e-122	403.0	COG0730@1|root,COG0730@2|Bacteria,1Q05V@1224|Proteobacteria,2VW5H@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Sulfite exporter TauE/SafE	-	-	-	ko:K07090	-	-	-	-	ko00000	-	-	-	TauE
LYD3_k127_1375547_4	1123392.AQWL01000003_gene291	1.139e-15	81.0	2ESIQ@1|root,33K3E@2|Bacteria,1NJ20@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1375547_1	713587.THITH_01390	8.844e-67	237.0	COG0622@1|root,COG0622@2|Bacteria,1RCUQ@1224|Proteobacteria,1S2YE@1236|Gammaproteobacteria,1WY1W@135613|Chromatiales	135613|Chromatiales	S	Calcineurin-like phosphoesterase superfamily domain	-	-	-	ko:K07095	-	-	-	-	ko00000	-	-	-	Metallophos_2
LYD3_k127_1382349_2	1380394.JADL01000001_gene2056	7.486e-118	402.0	COG0457@1|root,COG3914@1|root,COG0457@2|Bacteria,COG3914@2|Bacteria,1MVMG@1224|Proteobacteria,2TRVB@28211|Alphaproteobacteria,2JPYC@204441|Rhodospirillales	204441|Rhodospirillales	O	COG0457 FOG TPR repeat	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,TPR_16,TPR_19,TPR_2,TPR_8
LYD3_k127_1382349_0	267608.RSc2866	7.878e-160	511.0	COG4608@1|root,COG4608@2|Bacteria,1NU4K@1224|Proteobacteria,2W19X@28216|Betaproteobacteria,1K0Z4@119060|Burkholderiaceae	28216|Betaproteobacteria	P	Belongs to the ABC transporter superfamily	-	-	-	ko:K02032	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	ABC_tran,oligo_HPY
LYD3_k127_1382349_1	296591.Bpro_3011	6.282e-142	456.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VN5P@28216|Betaproteobacteria,4AGSI@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_1388149_4	748247.AZKH_3285	5.537e-17	81.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,2VHD3@28216|Betaproteobacteria,2KVRR@206389|Rhodocyclales	206389|Rhodocyclales	C	Acyl-CoA dehydrogenase, C-terminal domain	acd	-	1.3.8.4	ko:K00253	ko00280,ko01100,map00280,map01100	M00036	R04095	RC00246	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_1388149_2	62928.azo0392	2.318e-49	181.0	COG2050@1|root,COG2050@2|Bacteria,1RGVD@1224|Proteobacteria,2VRED@28216|Betaproteobacteria,2KYM7@206389|Rhodocyclales	206389|Rhodocyclales	Q	Thioesterase superfamily	-	-	-	-	-	-	-	-	-	-	-	-	4HBT
LYD3_k127_1388149_3	640081.Dsui_0973	3.648e-35	142.0	COG0789@1|root,COG0789@2|Bacteria,1RITY@1224|Proteobacteria,2VSPA@28216|Betaproteobacteria,2KWYU@206389|Rhodocyclales	206389|Rhodocyclales	K	transcriptional	-	-	-	-	-	-	-	-	-	-	-	-	MerR_1
LYD3_k127_1388149_0	305700.B447_10852	3.915e-111	370.0	COG0491@1|root,COG0491@2|Bacteria,1MUXF@1224|Proteobacteria,2VKJX@28216|Betaproteobacteria,2KV95@206389|Rhodocyclales	206389|Rhodocyclales	S	COG0491 Zn-dependent hydrolases, including glyoxylases	-	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B
LYD3_k127_1388149_1	640081.Dsui_0971	4.29e-76	261.0	COG3243@1|root,COG3243@2|Bacteria,1MU68@1224|Proteobacteria,2VH50@28216|Betaproteobacteria,2KV59@206389|Rhodocyclales	206389|Rhodocyclales	I	poly(R)-hydroxyalkanoic acid synthase	-	-	-	ko:K03821	ko00650,map00650	-	R04254	RC00004	ko00000,ko00001,ko01000	-	-	-	Abhydrolase_1,PhaC_N
LYD3_k127_1407521_1	1123253.AUBD01000007_gene721	1.209e-170	542.0	COG0039@1|root,COG0039@2|Bacteria,1MV57@1224|Proteobacteria,1RMAX@1236|Gammaproteobacteria,1X3NI@135614|Xanthomonadales	135614|Xanthomonadales	C	Catalyzes the reversible oxidation of malate to oxaloacetate	mdh	GO:0003674,GO:0003824,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0006082,GO:0006091,GO:0006099,GO:0006101,GO:0006107,GO:0006108,GO:0006139,GO:0006725,GO:0006732,GO:0006733,GO:0006734,GO:0006753,GO:0006793,GO:0006796,GO:0006807,GO:0008150,GO:0008152,GO:0009060,GO:0009117,GO:0009987,GO:0015980,GO:0016491,GO:0016614,GO:0016615,GO:0016616,GO:0016999,GO:0017144,GO:0019362,GO:0019637,GO:0019674,GO:0019752,GO:0030060,GO:0034641,GO:0043436,GO:0043648,GO:0044237,GO:0044238,GO:0044281,GO:0044424,GO:0044464,GO:0045333,GO:0046483,GO:0046496,GO:0051186,GO:0055086,GO:0055114,GO:0071704,GO:0072350,GO:0072524,GO:1901360,GO:1901564	1.1.1.37	ko:K00024	ko00020,ko00270,ko00620,ko00630,ko00680,ko00710,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,map00020,map00270,map00620,map00630,map00680,map00710,map00720,map01100,map01110,map01120,map01130,map01200	M00009,M00011,M00012,M00168,M00173,M00346,M00374,M00620,M00740	R00342,R07136	RC00031	ko00000,ko00001,ko00002,ko01000	-	-	-	Ldh_1_C,Ldh_1_N
LYD3_k127_1407521_0	1532557.JL37_06940	4.249e-176	570.0	COG2079@1|root,COG2079@2|Bacteria,1MUIG@1224|Proteobacteria,2VH7T@28216|Betaproteobacteria,3T3BF@506|Alcaligenaceae	28216|Betaproteobacteria	S	2-methylcitrate dehydratase	prpD	-	4.2.1.79	ko:K01720	ko00640,map00640	-	R04424	RC01152	ko00000,ko00001,ko01000	-	-	-	MmgE_PrpD
LYD3_k127_1421602_1	864051.BurJ1DRAFT_3336	1.319e-68	234.0	COG2221@1|root,COG2221@2|Bacteria,1MWY5@1224|Proteobacteria,2VPWJ@28216|Betaproteobacteria	28216|Betaproteobacteria	C	sulfite reductase, dissimilatory-type alpha subunit	-	-	1.8.99.5	ko:K11180	ko00633,ko00920,ko01100,ko01120,map00633,map00920,map01100,map01120	M00596	R00295,R00861,R08035	RC00065,RC01760	ko00000,ko00001,ko00002,ko01000	-	-	-	NIR_SIR,NIR_SIR_ferr
LYD3_k127_1421602_0	864051.BurJ1DRAFT_3335	1.238e-216	681.0	COG2221@1|root,COG2221@2|Bacteria,1MVZQ@1224|Proteobacteria,2VPBV@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Nitrite and sulphite reductase 4Fe-4S domain	-	-	1.8.99.5	ko:K11181	ko00633,ko00920,ko01100,ko01120,map00633,map00920,map01100,map01120	M00596	R00295,R00861,R08035	RC00065,RC01760	ko00000,ko00001,ko00002,ko01000	-	-	-	NIR_SIR,NIR_SIR_ferr
LYD3_k127_1421602_2	1485544.JQKP01000005_gene314	1.072e-63	219.0	COG1553@1|root,COG1553@2|Bacteria,1N021@1224|Proteobacteria,2VR8N@28216|Betaproteobacteria,44WFW@713636|Nitrosomonadales	28216|Betaproteobacteria	P	DsrE/DsrF-like family	-	-	-	ko:K07235	ko04122,map04122	-	-	-	ko00000,ko00001,ko01000,ko03016	-	-	-	DrsE
LYD3_k127_1421602_3	580332.Slit_1683	8.606e-51	197.0	COG2923@1|root,COG2923@2|Bacteria,1N8RV@1224|Proteobacteria,2VSQ5@28216|Betaproteobacteria,44WHC@713636|Nitrosomonadales	28216|Betaproteobacteria	P	DsrE/DsrF-like family	-	-	-	ko:K07236	ko04122,map04122	-	-	-	ko00000,ko00001,ko03016	-	-	-	DrsE
LYD3_k127_1423932_3	85643.Tmz1t_4087	1.016e-104	348.0	COG0421@1|root,COG0421@2|Bacteria,1MVV5@1224|Proteobacteria,2WGFP@28216|Betaproteobacteria,2KUTH@206389|Rhodocyclales	206389|Rhodocyclales	E	Catalyzes the irreversible transfer of a propylamine group from the amino donor S-adenosylmethioninamine (decarboxy- AdoMet) to putrescine (1,4-diaminobutane) to yield spermidine	speE	-	2.5.1.16	ko:K00797	ko00270,ko00330,ko00410,ko00480,ko01100,map00270,map00330,map00410,map00480,map01100	M00034,M00133	R01920,R02869,R08359	RC00021,RC00053	ko00000,ko00001,ko00002,ko01000	-	-	-	Spermine_synth
LYD3_k127_1423932_5	159087.Daro_3132	3.018e-51	186.0	COG5501@1|root,COG5501@2|Bacteria,1RH4J@1224|Proteobacteria,2VT8I@28216|Betaproteobacteria,2KWNG@206389|Rhodocyclales	206389|Rhodocyclales	S	Sulfur oxidation protein SoxY	soxY	-	-	ko:K17226	ko00920,ko01100,ko01120,map00920,map01100,map01120	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	-	-	-	SoxY
LYD3_k127_1423932_7	266264.Rmet_3422	9.719e-45	166.0	COG5501@1|root,COG5501@2|Bacteria,1N097@1224|Proteobacteria,2VU95@28216|Betaproteobacteria,1K8XJ@119060|Burkholderiaceae	28216|Betaproteobacteria	S	oxidation protein	soxZ	-	-	ko:K17227	ko00920,ko01100,ko01120,map00920,map01100,map01120	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	-	-	-	SoxZ
LYD3_k127_1423932_2	388051.AUFE01000012_gene2914	4.588e-111	366.0	COG3258@1|root,COG3258@2|Bacteria,1MXB0@1224|Proteobacteria,2VJ8Q@28216|Betaproteobacteria,1K2BG@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Thiosulfate-oxidizing multienzyme system protein SoxA	soxA	-	-	ko:K17222	ko00920,ko01100,ko01120,map00920,map01100,map01120	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	-	-	-	-
LYD3_k127_1423932_4	204773.HEAR1194	1.592e-62	238.0	COG2010@1|root,COG2010@2|Bacteria,1P1GY@1224|Proteobacteria,2VP4W@28216|Betaproteobacteria,475FZ@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Cytochrome c	soxX	-	-	ko:K17223	ko00920,ko01100,ko01120,map00920,map01100,map01120	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	-	-	-	Cytochrom_C
LYD3_k127_1423932_0	1217718.ALOU01000009_gene1093	3.252e-283	890.0	COG0737@1|root,COG0737@2|Bacteria,1MX03@1224|Proteobacteria,2VJTS@28216|Betaproteobacteria,1K2Y9@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Belongs to the 5'-nucleotidase family	soxB	-	3.1.3.5,3.6.1.45	ko:K11751,ko:K17224	ko00230,ko00240,ko00760,ko00920,ko01100,ko01110,ko01120,map00230,map00240,map00760,map00920,map01100,map01110,map01120	M00595	R00183,R00511,R00963,R01126,R01227,R01569,R01664,R01968,R02088,R02102,R02323,R02719,R03346,R10151	RC00017,RC03151,RC03152	ko00000,ko00001,ko00002,ko01000	-	-	-	5_nucleotid_C
LYD3_k127_1423932_6	1121035.AUCH01000020_gene2637	5.591e-48	195.0	COG1216@1|root,COG1216@2|Bacteria,1RG89@1224|Proteobacteria,2VS9G@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Glycosyltransferase like family	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_tranf_2_5
LYD3_k127_1423932_1	1121035.AUCH01000025_gene3293	9.46e-175	562.0	COG0162@1|root,COG0162@2|Bacteria,1MVUQ@1224|Proteobacteria,2VHF7@28216|Betaproteobacteria,2KUT9@206389|Rhodocyclales	206389|Rhodocyclales	J	Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction tyrosine is first activated by ATP to form Tyr- AMP and then transferred to the acceptor end of tRNA(Tyr)	tyrS	-	6.1.1.1	ko:K01866	ko00970,map00970	M00359,M00360	R02918	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016,ko03029	-	-	-	S4,tRNA-synt_1b
LYD3_k127_1423932_8	1288494.EBAPG3_2910	3.449e-07	61.0	COG0739@1|root,COG0739@2|Bacteria,1MVTF@1224|Proteobacteria,2VHBS@28216|Betaproteobacteria,3726D@32003|Nitrosomonadales	28216|Betaproteobacteria	M	PFAM peptidase	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_M23
LYD3_k127_1425114_0	1485544.JQKP01000023_gene864	0.0	1124.0	COG1305@1|root,COG4196@1|root,COG1305@2|Bacteria,COG4196@2|Bacteria,1MVAG@1224|Proteobacteria,2VKKZ@28216|Betaproteobacteria,44W4X@713636|Nitrosomonadales	28216|Betaproteobacteria	E	Putative amidoligase enzyme (DUF2126)	-	-	-	-	-	-	-	-	-	-	-	-	Bact_transglu_N,DUF2126,Transglut_core
LYD3_k127_1425114_1	667632.KB890219_gene598	1.016e-177	605.0	COG0008@1|root,COG0008@2|Bacteria,1MUCR@1224|Proteobacteria,2VH5S@28216|Betaproteobacteria,1K3GE@119060|Burkholderiaceae	28216|Betaproteobacteria	J	Catalyzes the attachment of glutamate to tRNA(Glu) in a two-step reaction glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu)	gltX	-	6.1.1.17	ko:K01885	ko00860,ko00970,ko01100,ko01110,ko01120,map00860,map00970,map01100,map01110,map01120	M00121,M00359,M00360	R05578	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko02048,ko03016	-	-	-	tRNA-synt_1c
LYD3_k127_1425114_2	1005048.CFU_1250	4.283e-08	54.0	COG0504@1|root,COG0504@2|Bacteria,1MUIT@1224|Proteobacteria,2VHVA@28216|Betaproteobacteria,4729S@75682|Oxalobacteraceae	28216|Betaproteobacteria	F	Catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen. Regulates intracellular CTP levels through interactions with the four ribonucleotide triphosphates	pyrG	GO:0001775,GO:0002376,GO:0003674,GO:0003824,GO:0003883,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006139,GO:0006213,GO:0006220,GO:0006221,GO:0006241,GO:0006725,GO:0006753,GO:0006793,GO:0006796,GO:0006807,GO:0008150,GO:0008152,GO:0008283,GO:0009058,GO:0009116,GO:0009117,GO:0009119,GO:0009141,GO:0009142,GO:0009147,GO:0009148,GO:0009163,GO:0009165,GO:0009199,GO:0009201,GO:0009208,GO:0009209,GO:0009218,GO:0009220,GO:0009259,GO:0009260,GO:0009987,GO:0015949,GO:0016874,GO:0016879,GO:0018130,GO:0019438,GO:0019637,GO:0019693,GO:0032943,GO:0034404,GO:0034641,GO:0034654,GO:0042098,GO:0042100,GO:0042110,GO:0042113,GO:0042221,GO:0042455,GO:0042493,GO:0042802,GO:0044237,GO:0044238,GO:0044249,GO:0044271,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0045321,GO:0046036,GO:0046131,GO:0046132,GO:0046134,GO:0046390,GO:0046483,GO:0046649,GO:0046651,GO:0050896,GO:0055086,GO:0070661,GO:0071704,GO:0072527,GO:0072528,GO:0090407,GO:1901135,GO:1901137,GO:1901293,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1901657,GO:1901659	6.3.4.2	ko:K01937	ko00240,ko01100,map00240,map01100	M00052	R00571,R00573	RC00010,RC00074	ko00000,ko00001,ko00002,ko01000	-	-	-	CTP_synth_N,GATase
LYD3_k127_1425731_1	864051.BurJ1DRAFT_2417	2.697e-137	445.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VPME@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_1425731_3	365046.Rta_34800	4.998e-65	231.0	COG0725@1|root,COG0725@2|Bacteria,1NY9R@1224|Proteobacteria,2VRYF@28216|Betaproteobacteria,4ADYN@80864|Comamonadaceae	28216|Betaproteobacteria	P	Bacterial extracellular solute-binding protein	-	-	-	ko:K02020	ko02010,map02010	M00189	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.8	-	-	SBP_bac_11
LYD3_k127_1425731_2	1005048.CFU_1786	6.608e-66	233.0	COG0500@1|root,COG0500@2|Bacteria,1R23X@1224|Proteobacteria,2WI94@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	Methyltransferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_25
LYD3_k127_1425731_0	748247.AZKH_4376	7.425e-146	466.0	COG4108@1|root,COG4108@2|Bacteria,1MU7X@1224|Proteobacteria,2VIV3@28216|Betaproteobacteria,2KU7K@206389|Rhodocyclales	206389|Rhodocyclales	J	Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF- 1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP	prfC	-	-	ko:K02837	-	-	-	-	ko00000,ko03012	-	-	-	GTP_EFTU,GTP_EFTU_D2,RF3_C
LYD3_k127_1450387_2	1288494.EBAPG3_13260	3.705e-33	131.0	COG2363@1|root,COG2363@2|Bacteria,1MZX3@1224|Proteobacteria,2VU8X@28216|Betaproteobacteria,373CU@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Protein of unknown function (DUF423)	ygdD	-	-	-	-	-	-	-	-	-	-	-	DUF423
LYD3_k127_1450387_0	365044.Pnap_0869	3.612e-122	400.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VHK8@28216|Betaproteobacteria,4A9R8@80864|Comamonadaceae	28216|Betaproteobacteria	S	PFAM conserved	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_1450387_1	795666.MW7_0585	1.981e-106	355.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VHK8@28216|Betaproteobacteria,1K6UF@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_147798_1	1163617.SCD_n02469	3.453e-90	303.0	COG4582@1|root,COG4582@2|Bacteria,1MW69@1224|Proteobacteria,2VIIG@28216|Betaproteobacteria	28216|Betaproteobacteria	D	Cell division factor that enhances FtsZ-ring assembly. Directly interacts with FtsZ and promotes bundling of FtsZ protofilaments, with a reduction in FtsZ GTPase activity	zapD	-	-	ko:K18778	-	-	-	-	ko00000,ko03036	-	-	-	ZapD
LYD3_k127_147798_0	338969.Rfer_3846	1.042e-182	574.0	COG1027@1|root,COG1027@2|Bacteria,1R9JY@1224|Proteobacteria,2W02M@28216|Betaproteobacteria,4AD99@80864|Comamonadaceae	28216|Betaproteobacteria	E	Fumarate lyase	aspA	-	4.3.1.1	ko:K01744	ko00250,ko01100,map00250,map01100	-	R00490	RC00316,RC02799	ko00000,ko00001,ko01000	-	-	-	FumaraseC_C,Lyase_1
LYD3_k127_1479217_15	864051.BurJ1DRAFT_0880	2.621e-19	89.0	COG0302@1|root,COG0302@2|Bacteria,1MY3N@1224|Proteobacteria,2VH10@28216|Betaproteobacteria,1KK20@119065|unclassified Burkholderiales	28216|Betaproteobacteria	H	GTP cyclohydrolase	folE	-	3.5.4.16	ko:K01495	ko00790,ko01100,map00790,map01100	M00126,M00841,M00842,M00843	R00428,R04639,R05046,R05048	RC00263,RC00294,RC00323,RC00945,RC01188	ko00000,ko00001,ko00002,ko01000	-	-	-	GTP_cyclohydroI
LYD3_k127_1479217_11	85643.Tmz1t_1058	1.963e-64	244.0	2ANPA@1|root,31DNS@2|Bacteria,1RHTE@1224|Proteobacteria,2VRS4@28216|Betaproteobacteria,2KWF5@206389|Rhodocyclales	206389|Rhodocyclales	S	Protein of unknown function (DUF3833)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3833
LYD3_k127_1479217_5	85643.Tmz1t_1057	1.422e-106	368.0	COG2211@1|root,COG2211@2|Bacteria,1MVUM@1224|Proteobacteria,2VI47@28216|Betaproteobacteria,2KVBH@206389|Rhodocyclales	206389|Rhodocyclales	G	MFS/sugar transport protein	-	-	-	-	-	-	-	-	-	-	-	-	MFS_2
LYD3_k127_1479217_17	1121116.KB894765_gene1068	4.629e-15	87.0	COG3572@1|root,COG3572@2|Bacteria,1N0R0@1224|Proteobacteria,2VUCP@28216|Betaproteobacteria,4AEYP@80864|Comamonadaceae	28216|Betaproteobacteria	H	Chalcone isomerase-like	-	-	-	-	-	-	-	-	-	-	-	-	Chalcone_3
LYD3_k127_1479217_3	626418.bglu_2g09120	1.665e-126	434.0	COG2230@1|root,COG2230@2|Bacteria,1MX3U@1224|Proteobacteria,2VJ00@28216|Betaproteobacteria,1K0B2@119060|Burkholderiaceae	28216|Betaproteobacteria	M	cyclopropane-fatty-acyl-phospholipid synthase	cfa	-	2.1.1.79	ko:K00574	-	-	-	-	ko00000,ko01000	-	-	-	CMAS
LYD3_k127_1479217_8	522306.CAP2UW1_3958	1.405e-68	259.0	COG3496@1|root,COG3496@2|Bacteria,1RC56@1224|Proteobacteria,2VIZ9@28216|Betaproteobacteria,1KQN0@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	Protein of unknown function (DUF1365)	-	-	-	ko:K09701	-	-	-	-	ko00000	-	-	-	DUF1365
LYD3_k127_1479217_2	522306.CAP2UW1_3959	4.626e-153	507.0	COG2907@1|root,COG2907@2|Bacteria,1MV4Z@1224|Proteobacteria,2VHCR@28216|Betaproteobacteria,1KQCD@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	Flavin containing amine oxidoreductase	-	-	-	ko:K06954	-	-	-	-	ko00000	-	-	-	Amino_oxidase,NAD_binding_8
LYD3_k127_1479217_10	29581.BW37_02804	1.741e-65	231.0	COG0386@1|root,COG0386@2|Bacteria,1RDR8@1224|Proteobacteria,2VQHV@28216|Betaproteobacteria,4747T@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	Glutathione peroxidase	-	-	1.11.1.9	ko:K00432	ko00480,ko00590,ko04918,map00480,map00590,map04918	-	R00274,R07034,R07035	RC00011,RC00982	ko00000,ko00001,ko01000	-	-	-	GSHPx
LYD3_k127_1479217_7	305700.B447_13024	4.685e-93	316.0	COG0789@1|root,COG5012@1|root,COG0789@2|Bacteria,COG5012@2|Bacteria,1R2NF@1224|Proteobacteria,2VJDG@28216|Betaproteobacteria,2KW35@206389|Rhodocyclales	206389|Rhodocyclales	K	B12 binding domain	-	-	-	ko:K22491	-	-	-	-	ko00000,ko03000	-	-	-	B12-binding,B12-binding_2,MerR_1
LYD3_k127_1479217_6	983917.RGE_18960	5.024e-101	332.0	COG0582@1|root,COG0582@2|Bacteria,1P1R9@1224|Proteobacteria,2VJ48@28216|Betaproteobacteria,1KJCN@119065|unclassified Burkholderiales	28216|Betaproteobacteria	L	Phage integrase family	-	-	-	-	-	-	-	-	-	-	-	-	Phage_integrase
LYD3_k127_1479217_16	357804.Ping_0486	1.698e-18	89.0	2E8QS@1|root,3331S@2|Bacteria,1NN4J@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1479217_18	1382230.ASAP_0147	4.57e-07	61.0	COG3410@1|root,COG3410@2|Bacteria,1PRQ3@1224|Proteobacteria,2U2KB@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	Uncharacterized conserved protein (DUF2075)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2075
LYD3_k127_1479217_0	1386089.N865_09795	8.095e-166	527.0	COG4412@1|root,COG4412@2|Bacteria,2GMKQ@201174|Actinobacteria,4FG03@85021|Intrasporangiaceae	201174|Actinobacteria	S	Immune inhibitor A peptidase M6	-	-	-	ko:K09607	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_M6
LYD3_k127_1479217_9	1386089.N865_09795	6.395e-68	236.0	COG4412@1|root,COG4412@2|Bacteria,2GMKQ@201174|Actinobacteria,4FG03@85021|Intrasporangiaceae	201174|Actinobacteria	S	Immune inhibitor A peptidase M6	-	-	-	ko:K09607	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_M6
LYD3_k127_1479217_14	290397.Adeh_0322	1.797e-23	100.0	COG4412@1|root,COG4412@2|Bacteria,1P5IH@1224|Proteobacteria	1224|Proteobacteria	O	Peptidase M6, immune inhibitor A	ina	-	-	ko:K09607	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_M6
LYD3_k127_1479217_12	1007105.PT7_2265	5.461e-37	145.0	COG2335@1|root,COG2335@2|Bacteria,1N4AV@1224|Proteobacteria,2VU44@28216|Betaproteobacteria	28216|Betaproteobacteria	M	A domain in the BMP inhibitor chordin and in microbial proteins.	-	-	-	-	-	-	-	-	-	-	-	-	CHRD
LYD3_k127_1479217_13	318996.AXAZ01000107_gene3752	4.006e-25	112.0	COG4319@1|root,COG4319@2|Bacteria	2|Bacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	Beta-lactamase,DUF4440,SnoaL_2,SnoaL_3
LYD3_k127_1479217_1	395495.Lcho_2216	2.978e-157	511.0	COG0612@1|root,COG0612@2|Bacteria,1MVST@1224|Proteobacteria,2VKKF@28216|Betaproteobacteria,1KJTI@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Belongs to the peptidase M16 family	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_M16,Peptidase_M16_C
LYD3_k127_1479217_4	748280.NH8B_2766	2.793e-114	377.0	COG1201@1|root,COG1201@2|Bacteria,1MUSW@1224|Proteobacteria,2VI8X@28216|Betaproteobacteria	28216|Betaproteobacteria	L	DEAD DEAH box helicase	lhr	-	-	ko:K03724	-	-	-	-	ko00000,ko01000,ko03400	-	-	-	DEAD,DEAD_assoc,Helicase_C
LYD3_k127_1483570_2	1123487.KB892863_gene1874	1.854e-81	276.0	COG3384@1|root,COG3384@2|Bacteria,1MXJZ@1224|Proteobacteria,2VIC3@28216|Betaproteobacteria,2KVN7@206389|Rhodocyclales	206389|Rhodocyclales	S	Catalytic LigB subunit of aromatic ring-opening dioxygenase	ygiD	-	-	ko:K15777	ko00965,map00965	-	R08836	RC00387	ko00000,ko00001,ko01000	-	-	-	LigB
LYD3_k127_1483570_1	1218084.BBJK01000061_gene4705	9.454e-99	348.0	COG0846@1|root,COG0846@2|Bacteria,1MUK1@1224|Proteobacteria,2VJUU@28216|Betaproteobacteria,1K1H0@119060|Burkholderiaceae	28216|Betaproteobacteria	K	NAD-dependent protein deacetylase which modulates the activities of several enzymes which are inactive in their acetylated form	cobB	-	-	-	-	-	-	-	-	-	-	-	SIR2
LYD3_k127_1483570_3	522306.CAP2UW1_2082	2.426e-56	203.0	COG2249@1|root,COG2249@2|Bacteria,1MXFT@1224|Proteobacteria,2VMX3@28216|Betaproteobacteria	28216|Betaproteobacteria	S	NADPH-quinone reductase (modulator of drug activity B)	kefF	-	1.6.5.2	ko:K00355,ko:K11746,ko:K11748	ko00130,ko01110,ko05200,ko05225,ko05418,map00130,map01110,map05200,map05225,map05418	-	R02964,R03643,R03816	RC00819	ko00000,ko00001,ko01000,ko02000	2.A.37.1.1,2.A.37.1.2	-	-	Flavodoxin_2
LYD3_k127_1483570_0	522306.CAP2UW1_2081	4.06e-220	696.0	COG0475@1|root,COG1226@1|root,COG0475@2|Bacteria,COG1226@2|Bacteria,1MV34@1224|Proteobacteria,2VHQQ@28216|Betaproteobacteria,1KQDK@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	U	Sodium/hydrogen exchanger family	kefC	-	-	ko:K03455,ko:K11745,ko:K11747	-	-	-	-	ko00000,ko02000	2.A.37,2.A.37.1.1,2.A.37.1.2	-	-	Na_H_Exchanger,TrkA_N
LYD3_k127_1483759_3	1469245.JFBG01000015_gene1025	3.76e-42	160.0	COG2267@1|root,COG2267@2|Bacteria,1Q6AF@1224|Proteobacteria	1224|Proteobacteria	I	Alpha beta hydrolase	mhpC	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_1,Abhydrolase_4,Abhydrolase_6
LYD3_k127_1483759_1	76114.ebA4859	1.302e-85	291.0	COG5473@1|root,COG5473@2|Bacteria,1MVRU@1224|Proteobacteria,2VK3K@28216|Betaproteobacteria,2KUXE@206389|Rhodocyclales	206389|Rhodocyclales	S	Predicted integral membrane protein (DUF2189)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2189
LYD3_k127_1483759_2	378806.STAUR_6729	1.121e-66	237.0	COG2085@1|root,COG2085@2|Bacteria,1RCXR@1224|Proteobacteria,43070@68525|delta/epsilon subdivisions,2WVFX@28221|Deltaproteobacteria,2Z1E9@29|Myxococcales	28221|Deltaproteobacteria	S	NADP oxidoreductase coenzyme F420-dependent	-	-	1.5.1.40	ko:K06988	-	-	-	-	ko00000,ko01000	-	-	-	F420_oxidored
LYD3_k127_1483759_0	1040989.AWZU01000011_gene4023	4.851e-137	449.0	COG3202@1|root,COG3202@2|Bacteria,1MVP5@1224|Proteobacteria,2U1N0@28211|Alphaproteobacteria	28211|Alphaproteobacteria	C	ATP ADP translocase	-	-	-	ko:K03301	-	-	-	-	ko00000	2.A.12	-	-	MFS_1,TLC
LYD3_k127_1486247_1	640081.Dsui_2817	5.279e-39	153.0	COG0697@1|root,COG0697@2|Bacteria,1MWSU@1224|Proteobacteria,2VHP3@28216|Betaproteobacteria,2KUCN@206389|Rhodocyclales	206389|Rhodocyclales	EG	Solute carrier family 35	-	-	-	-	-	-	-	-	-	-	-	-	EamA
LYD3_k127_1486247_0	640081.Dsui_2385	6.631e-255	803.0	COG1197@1|root,COG1197@2|Bacteria,1MUXG@1224|Proteobacteria,2VI7M@28216|Betaproteobacteria,2KVGD@206389|Rhodocyclales	206389|Rhodocyclales	L	Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site	mfd	-	-	ko:K03723	ko03420,map03420	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	CarD_CdnL_TRCF,DEAD,Helicase_C,TRCF
LYD3_k127_1486949_1	278963.ATWD01000001_gene2921	5.658e-73	256.0	COG0383@1|root,COG0383@2|Bacteria,3Y3ID@57723|Acidobacteria,2JINT@204432|Acidobacteriia	2|Bacteria	G	Glycosyl hydrolase 38 domain protein	ams1	-	3.2.1.24	ko:K01191	ko00511,map00511	-	-	-	ko00000,ko00001,ko01000,ko04131	-	GH38	-	Alpha-mann_mid,Glyco_hydro_38,Glyco_hydro_38C
LYD3_k127_1486949_0	1158345.JNLL01000001_gene544	8.183e-80	271.0	COG0422@1|root,COG0422@2|Bacteria,2G3RS@200783|Aquificae	200783|Aquificae	H	Catalyzes the synthesis of the hydroxymethylpyrimidine phosphate (HMP-P) moiety of thiamine from aminoimidazole ribotide (AIR) in a radical S-adenosyl-L-methionine (SAM)-dependent reaction	thiC	GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006725,GO:0006766,GO:0006767,GO:0006772,GO:0006790,GO:0006807,GO:0008150,GO:0008152,GO:0009058,GO:0009110,GO:0009228,GO:0009987,GO:0017144,GO:0018130,GO:0019438,GO:0034641,GO:0042364,GO:0042723,GO:0042724,GO:0044237,GO:0044249,GO:0044271,GO:0044272,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0046483,GO:0071704,GO:0072527,GO:0072528,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576	4.1.99.17	ko:K03147	ko00730,ko01100,map00730,map01100	M00127	R03472	RC03251,RC03252	ko00000,ko00001,ko00002,ko01000	-	-	-	ThiC_Rad_SAM
LYD3_k127_1495312_2	1163617.SCD_n00016	5.417e-106	349.0	COG1432@1|root,COG1432@2|Bacteria,1MX5C@1224|Proteobacteria,2VK44@28216|Betaproteobacteria	28216|Betaproteobacteria	NU	NYN domain	-	-	-	-	-	-	-	-	-	-	-	-	NYN,OST-HTH
LYD3_k127_1495312_9	379066.GAU_2325	4.811e-06	54.0	29A2M@1|root,3293K@2|Bacteria,1ZV2X@142182|Gemmatimonadetes	142182|Gemmatimonadetes	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1495312_8	1031711.RSPO_c02771	4.248e-12	75.0	2E7II@1|root,3320V@2|Bacteria,1N91Y@1224|Proteobacteria,2VW18@28216|Betaproteobacteria,1K8QZ@119060|Burkholderiaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1495312_4	1123393.KB891330_gene877	1.153e-84	288.0	COG3132@1|root,COG3132@2|Bacteria,1RA13@1224|Proteobacteria,2VQGS@28216|Betaproteobacteria,1KSRP@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Protein of unknown function, DUF480	-	-	-	-	-	-	-	-	-	-	-	-	DUF480
LYD3_k127_1495312_3	251221.35211500	1.474e-100	335.0	COG0668@1|root,COG0668@2|Bacteria,1G1I3@1117|Cyanobacteria	1117|Cyanobacteria	M	mechanosensitive ion channel	-	-	-	ko:K03442	-	-	-	-	ko00000,ko02000	1.A.23.2	-	-	MS_channel
LYD3_k127_1495312_1	1095769.CAHF01000013_gene3397	4.088e-113	380.0	COG1968@1|root,COG1968@2|Bacteria,1MX02@1224|Proteobacteria,2VHSA@28216|Betaproteobacteria,473CE@75682|Oxalobacteraceae	28216|Betaproteobacteria	V	Catalyzes the dephosphorylation of undecaprenyl diphosphate (UPP). Confers resistance to bacitracin	uppP	-	3.6.1.27	ko:K06153	ko00550,map00550	-	R05627	RC00002	ko00000,ko00001,ko01000,ko01011	-	-	-	BacA
LYD3_k127_1495312_7	398767.Glov_2774	4.303e-27	117.0	COG1012@1|root,COG1012@2|Bacteria,1MU1V@1224|Proteobacteria,42N0C@68525|delta/epsilon subdivisions,2WJQQ@28221|Deltaproteobacteria,43TF1@69541|Desulfuromonadales	28221|Deltaproteobacteria	C	belongs to the aldehyde dehydrogenase family	gabD	-	1.2.1.16,1.2.1.20,1.2.1.79	ko:K00135	ko00250,ko00310,ko00350,ko00650,ko00760,ko01100,ko01120,map00250,map00310,map00350,map00650,map00760,map01100,map01120	M00027	R00713,R00714,R02401	RC00080	ko00000,ko00001,ko00002,ko01000	-	-	iAF987.Gmet_3395	Aldedh
LYD3_k127_1495312_6	323261.Noc_1061	3.518e-53	195.0	COG0664@1|root,COG0664@2|Bacteria,1MXID@1224|Proteobacteria,1S5PP@1236|Gammaproteobacteria,1WYN6@135613|Chromatiales	135613|Chromatiales	K	SMART cyclic nucleotide-binding	-	-	-	ko:K10914	ko02020,ko02024,ko02025,ko02026,ko05111,map02020,map02024,map02025,map02026,map05111	-	-	-	ko00000,ko00001,ko03000	-	-	-	HTH_Crp_2,cNMP_binding
LYD3_k127_1495312_0	497321.C664_09010	9.502e-193	610.0	COG1541@1|root,COG1541@2|Bacteria,1MV1W@1224|Proteobacteria,2VHRJ@28216|Betaproteobacteria,2KUZ8@206389|Rhodocyclales	206389|Rhodocyclales	H	Coenzyme F390 synthetase	-	-	6.2.1.30	ko:K01912	ko00360,ko01120,ko05111,map00360,map01120,map05111	-	R02539	RC00004,RC00014	ko00000,ko00001,ko01000	-	-	-	AMP-binding
LYD3_k127_1495312_5	748247.AZKH_4029	7.551e-59	205.0	COG0410@1|root,COG0410@2|Bacteria,1MVVC@1224|Proteobacteria,2VHET@28216|Betaproteobacteria,2KUVN@206389|Rhodocyclales	206389|Rhodocyclales	E	ABC-type branched-chain amino acid transport systems, ATPase component	-	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran
LYD3_k127_1496789_0	94624.Bpet4348	0.0	1052.0	COG0247@1|root,COG0277@1|root,COG0247@2|Bacteria,COG0277@2|Bacteria,1MU6Y@1224|Proteobacteria,2VHCG@28216|Betaproteobacteria,3T6RJ@506|Alcaligenaceae	28216|Betaproteobacteria	C	4Fe-4S dicluster domain	-	-	-	-	-	-	-	-	-	-	-	-	CCG,FAD-oxidase_C,FAD_binding_4,Fer4_8
LYD3_k127_1502546_2	264198.Reut_A1325	3.999e-113	370.0	COG1024@1|root,COG1024@2|Bacteria,1N817@1224|Proteobacteria,2VKSK@28216|Betaproteobacteria	28216|Betaproteobacteria	I	enoyl-CoA hydratase	boxC	-	4.1.2.44	ko:K15513	ko00362,map00362	-	R09556	RC03426	ko00000,ko00001,ko01000	-	-	-	ECH_1
LYD3_k127_1502546_3	62928.azo3055	1.327e-109	364.0	COG0703@1|root,COG1476@1|root,COG0703@2|Bacteria,COG1476@2|Bacteria,1MX66@1224|Proteobacteria,2VK91@28216|Betaproteobacteria,2KYAV@206389|Rhodocyclales	206389|Rhodocyclales	F	Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate	boxR	-	-	ko:K15546	-	-	-	-	ko00000,ko03000	-	-	-	HTH_31,SKI
LYD3_k127_1502546_4	76114.ebA2758	8.91e-60	211.0	294JI@1|root,2ZRZ3@2|Bacteria,1REGD@1224|Proteobacteria,2VRDG@28216|Betaproteobacteria,2KYGP@206389|Rhodocyclales	206389|Rhodocyclales	S	Domain of unknown function (DUF4863)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4863
LYD3_k127_1502546_0	748247.AZKH_2151	3.267e-247	773.0	COG0365@1|root,COG0365@2|Bacteria,1MUF5@1224|Proteobacteria,2VJJS@28216|Betaproteobacteria,2KXY3@206389|Rhodocyclales	206389|Rhodocyclales	I	AMP-binding enzyme C-terminal domain	-	-	6.2.1.25	ko:K04110	ko00362,ko00627,ko01100,ko01120,map00362,map00627,map01100,map01120	-	R01422	RC00004,RC00174	ko00000,ko00001,ko01000	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_1502546_1	76114.ebA5303	1.032e-177	565.0	COG0683@1|root,COG0683@2|Bacteria,1MVV2@1224|Proteobacteria,2VIK5@28216|Betaproteobacteria,2KY62@206389|Rhodocyclales	28216|Betaproteobacteria	E	Extracellular ligand-binding receptor	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_1502546_5	748247.AZKH_4512	7.793e-22	97.0	COG0559@1|root,COG0559@2|Bacteria,1MVND@1224|Proteobacteria,2VK6C@28216|Betaproteobacteria,2KXZ1@206389|Rhodocyclales	206389|Rhodocyclales	U	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01997	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_1503475_8	522306.CAP2UW1_1652	7.91e-80	271.0	COG4232@1|root,COG4233@1|root,COG4232@2|Bacteria,COG4233@2|Bacteria,1MU8W@1224|Proteobacteria,2VI8I@28216|Betaproteobacteria,1KQEJ@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	CO	Disulphide bond corrector protein DsbC	-	-	1.8.1.8	ko:K04084,ko:K08344	-	-	-	-	ko00000,ko01000,ko02000,ko03110	5.A.1.1,5.A.1.5	-	-	DsbC,DsbD,Thioredoxin_7
LYD3_k127_1503475_7	522306.CAP2UW1_1651	4.128e-84	283.0	COG1999@1|root,COG1999@2|Bacteria,1R0QG@1224|Proteobacteria	1224|Proteobacteria	S	Redoxin	-	-	-	-	-	-	-	-	-	-	-	-	AhpC-TSA
LYD3_k127_1503475_10	595537.Varpa_2356	4.394e-31	134.0	COG5470@1|root,COG5470@2|Bacteria,1N012@1224|Proteobacteria,2WFG0@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Domain of unknown function (DUF1330)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1330
LYD3_k127_1503475_0	864051.BurJ1DRAFT_4873	2.322e-296	934.0	COG0308@1|root,COG0308@2|Bacteria,1MUCI@1224|Proteobacteria,2VI6S@28216|Betaproteobacteria,1KN26@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	ERAP1-like C-terminal domain	-	-	3.4.11.2	ko:K01256	ko00480,ko01100,map00480,map01100	-	R00899,R04951	RC00096,RC00141	ko00000,ko00001,ko01000,ko01002	-	-	-	ERAP1_C,Peptidase_M1
LYD3_k127_1503475_11	1198232.CYCME_0193	9.308e-14	76.0	2EB0P@1|root,3351I@2|Bacteria,1NAEB@1224|Proteobacteria,1SCR3@1236|Gammaproteobacteria,463F4@72273|Thiotrichales	72273|Thiotrichales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1503475_2	987059.RBXJA2T_16762	3.141e-217	684.0	COG2939@1|root,COG2939@2|Bacteria,1MW05@1224|Proteobacteria,2VK5M@28216|Betaproteobacteria	28216|Betaproteobacteria	E	PFAM peptidase S10 serine carboxypeptidase	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_S10
LYD3_k127_1503475_1	1458427.BAWN01000018_gene1140	1.987e-236	743.0	COG1350@1|root,COG1350@2|Bacteria,1N07Y@1224|Proteobacteria,2VJ62@28216|Betaproteobacteria,4ACES@80864|Comamonadaceae	28216|Betaproteobacteria	E	The beta subunit is responsible for the synthesis of L- tryptophan from indole and L-serine	-	-	4.2.1.20	ko:K01696,ko:K06001	ko00260,ko00400,ko01100,ko01110,ko01130,ko01230,map00260,map00400,map01100,map01110,map01130,map01230	M00023	R00674,R02340,R02722	RC00209,RC00210,RC00700,RC00701,RC02868	ko00000,ko00001,ko00002,ko01000	-	-	-	PALP
LYD3_k127_1503475_5	420662.Mpe_A0997	2.933e-150	482.0	COG0387@1|root,COG0387@2|Bacteria,1MWD8@1224|Proteobacteria,2VJQM@28216|Betaproteobacteria,1KJKQ@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	Sodium/calcium exchanger protein	chaA	-	-	ko:K07300	-	-	-	-	ko00000,ko02000	2.A.19	-	-	Na_Ca_ex
LYD3_k127_1503475_3	94624.Bpet4513	2.512e-211	666.0	COG4091@1|root,COG4091@2|Bacteria,1MUZX@1224|Proteobacteria,2VI2Z@28216|Betaproteobacteria,3T3EX@506|Alcaligenaceae	28216|Betaproteobacteria	E	Homoserine dehydrogenase, NAD binding domain-containing protein	-	-	-	-	-	-	-	-	-	-	-	-	GFO_IDH_MocA,NAD_binding_3,SAF
LYD3_k127_1503475_9	491952.Mar181_1053	1.674e-42	165.0	COG1011@1|root,COG1011@2|Bacteria,1QSY2@1224|Proteobacteria,1RWK3@1236|Gammaproteobacteria,1XM90@135619|Oceanospirillales	135619|Oceanospirillales	S	TIGRFAM HAD-superfamily hydrolase, subfamily IA, variant 3	-	-	3.1.3.10	ko:K20866	ko00010,ko01120,map00010,map01120	-	R00947	RC00078	ko00000,ko00001,ko01000	-	-	-	HAD_2
LYD3_k127_1503475_6	375286.mma_3342	4.782e-94	316.0	COG0679@1|root,COG0679@2|Bacteria,1P2SH@1224|Proteobacteria,2VNH9@28216|Betaproteobacteria,473PY@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Membrane transport protein	-	-	-	ko:K07088	-	-	-	-	ko00000	-	-	-	Mem_trans
LYD3_k127_1503475_4	1123487.KB892834_gene3057	8.331e-202	636.0	COG1220@1|root,COG1220@2|Bacteria,1MVK9@1224|Proteobacteria,2VHG3@28216|Betaproteobacteria,2KVM8@206389|Rhodocyclales	206389|Rhodocyclales	O	this subunit has chaperone activity. The binding of ATP and its subsequent hydrolysis by HslU are essential for unfolding of protein substrates subsequently hydrolyzed by HslV. HslU recognizes the N-terminal part of its protein substrates and unfolds these before they are guided to HslV for hydrolysis	hslU	-	-	ko:K03667	-	-	-	-	ko00000,ko03110	-	-	-	AAA_2,ClpB_D2-small
LYD3_k127_150422_0	640081.Dsui_0604	3.894e-104	339.0	COG2805@1|root,COG2805@2|Bacteria,1MU3J@1224|Proteobacteria,2VHHW@28216|Betaproteobacteria,2KVBG@206389|Rhodocyclales	206389|Rhodocyclales	NU	twitching motility protein	pilT	-	-	ko:K02669	-	-	-	-	ko00000,ko02035,ko02044	3.A.15.2	-	-	T2SSE
LYD3_k127_150422_3	339670.Bamb_0621	1.361e-70	248.0	COG0325@1|root,COG0325@2|Bacteria,1MWN7@1224|Proteobacteria,2VHNY@28216|Betaproteobacteria,1JZTS@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis	yggS	-	-	ko:K06997	-	-	-	-	ko00000	-	-	-	Ala_racemase_N
LYD3_k127_150422_2	1120999.JONM01000023_gene3162	1.103e-75	263.0	COG0345@1|root,COG0345@2|Bacteria,1R5J1@1224|Proteobacteria,2VJD1@28216|Betaproteobacteria,2KPPT@206351|Neisseriales	206351|Neisseriales	E	Catalyzes the reduction of 1-pyrroline-5-carboxylate (PCA) to L-proline	proC	-	1.5.1.2	ko:K00286	ko00330,ko01100,ko01110,ko01130,ko01230,map00330,map01100,map01110,map01130,map01230	M00015	R01248,R01251,R03291,R03293	RC00054,RC00083	ko00000,ko00001,ko00002,ko01000	-	-	-	F420_oxidored,P5CR_dimer
LYD3_k127_150422_4	1163617.SCD_n00069	2.264e-41	169.0	COG0762@1|root,COG0762@2|Bacteria,1RCZV@1224|Proteobacteria,2VRHV@28216|Betaproteobacteria	28216|Betaproteobacteria	S	integral membrane protein	-	-	-	ko:K02221	-	-	-	-	ko00000,ko02044	-	-	-	YGGT
LYD3_k127_150422_5	580332.Slit_2755	2.594e-26	110.0	COG1872@1|root,COG1872@2|Bacteria,1MZ4E@1224|Proteobacteria,2VWDY@28216|Betaproteobacteria,44VYI@713636|Nitrosomonadales	28216|Betaproteobacteria	S	DUF167	-	-	-	ko:K09131	-	-	-	-	ko00000	-	-	-	DUF167
LYD3_k127_150422_1	76114.ebA1138	9.949e-93	312.0	COG0030@1|root,COG0030@2|Bacteria,1MVNU@1224|Proteobacteria,2VH15@28216|Betaproteobacteria,2KUK6@206389|Rhodocyclales	206389|Rhodocyclales	J	Specifically dimethylates two adjacent adenosines (A1518 and A1519) in the loop of a conserved hairpin near the 3'-end of 16S rRNA in the 30S particle. May play a critical role in biogenesis of 30S subunits	ksgA	-	2.1.1.182	ko:K02528	-	-	R10716	RC00003,RC03257	ko00000,ko01000,ko03009	-	-	-	RrnaAD
LYD3_k127_1514776_6	987059.RBXJA2T_00964	9.922e-13	68.0	COG0133@1|root,COG0133@2|Bacteria,1MUS8@1224|Proteobacteria,2VHV3@28216|Betaproteobacteria,1KITB@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	The beta subunit is responsible for the synthesis of L- tryptophan from indole and L-serine	trpB	GO:0000162,GO:0003674,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0006082,GO:0006520,GO:0006568,GO:0006576,GO:0006586,GO:0006725,GO:0006807,GO:0008150,GO:0008152,GO:0008652,GO:0009058,GO:0009072,GO:0009073,GO:0009308,GO:0009309,GO:0009987,GO:0016053,GO:0018130,GO:0019438,GO:0019752,GO:0034641,GO:0042401,GO:0042430,GO:0042435,GO:0042802,GO:0043436,GO:0044106,GO:0044237,GO:0044238,GO:0044249,GO:0044271,GO:0044281,GO:0044283,GO:0044424,GO:0044464,GO:0046219,GO:0046394,GO:0046483,GO:0071704,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1901605,GO:1901607	4.2.1.20	ko:K01696	ko00260,ko00400,ko01100,ko01110,ko01130,ko01230,map00260,map00400,map01100,map01110,map01130,map01230	M00023	R00674,R02340,R02722	RC00209,RC00210,RC00700,RC00701,RC02868	ko00000,ko00001,ko00002,ko01000	-	-	-	PALP
LYD3_k127_1514776_3	257310.BB3773	1.016e-102	342.0	COG0159@1|root,COG0159@2|Bacteria,1MXJV@1224|Proteobacteria,2VI78@28216|Betaproteobacteria,3T1U1@506|Alcaligenaceae	28216|Betaproteobacteria	E	The alpha subunit is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3- phosphate	trpA	-	4.2.1.20	ko:K01695	ko00260,ko00400,ko01100,ko01110,ko01130,ko01230,map00260,map00400,map01100,map01110,map01130,map01230	M00023	R00674,R02340,R02722	RC00209,RC00210,RC00700,RC00701,RC02868	ko00000,ko00001,ko00002,ko01000	-	-	-	Trp_syntA
LYD3_k127_1514776_1	640081.Dsui_3190	2.21e-140	451.0	COG0777@1|root,COG0777@2|Bacteria,1MW8G@1224|Proteobacteria,2VHEQ@28216|Betaproteobacteria,2KUCF@206389|Rhodocyclales	206389|Rhodocyclales	I	Component of the acetyl coenzyme A carboxylase (ACC) complex. Biotin carboxylase (BC) catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the transcarboxylase to acetyl-CoA to form malonyl- CoA	accD	-	2.1.3.15,6.4.1.2	ko:K01963	ko00061,ko00620,ko00640,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,map00061,map00620,map00640,map00720,map01100,map01110,map01120,map01130,map01200,map01212	M00082,M00376	R00742,R04386	RC00040,RC00253,RC00367	ko00000,ko00001,ko00002,ko01000	-	-	-	Carboxyl_trans
LYD3_k127_1514776_2	1216976.AX27061_2482	6.556e-136	447.0	COG0285@1|root,COG0285@2|Bacteria,1MVCH@1224|Proteobacteria,2VI0H@28216|Betaproteobacteria,3T1IK@506|Alcaligenaceae	28216|Betaproteobacteria	H	Belongs to the folylpolyglutamate synthase family	folC	-	6.3.2.12,6.3.2.17	ko:K11754	ko00790,ko01100,map00790,map01100	M00126,M00841	R00942,R02237,R04241	RC00064,RC00090,RC00162	ko00000,ko00001,ko00002,ko01000	-	-	-	Mur_ligase_C,Mur_ligase_M
LYD3_k127_1514776_5	1121035.AUCH01000014_gene2429	9.072e-14	82.0	COG3147@1|root,COG3147@2|Bacteria,1R7IV@1224|Proteobacteria,2VPE1@28216|Betaproteobacteria,2KWXH@206389|Rhodocyclales	206389|Rhodocyclales	S	Sporulation related domain	-	-	-	ko:K03749	-	-	-	-	ko00000	-	-	-	SPOR
LYD3_k127_1514776_4	640081.Dsui_3187	2.463e-29	126.0	COG1286@1|root,COG1286@2|Bacteria,1NF4G@1224|Proteobacteria,2VUM6@28216|Betaproteobacteria,2KWGU@206389|Rhodocyclales	206389|Rhodocyclales	S	colicin v production	cvpA	-	-	ko:K03558	-	-	-	-	ko00000	-	-	-	Colicin_V
LYD3_k127_1514776_0	261292.Nit79A3_2464	1.303e-229	719.0	COG0034@1|root,COG0034@2|Bacteria,1MU0V@1224|Proteobacteria,2VJM1@28216|Betaproteobacteria,3723J@32003|Nitrosomonadales	28216|Betaproteobacteria	F	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine	purF	-	2.4.2.14	ko:K00764	ko00230,ko00250,ko01100,ko01110,ko01130,map00230,map00250,map01100,map01110,map01130	M00048	R01072	RC00010,RC02724,RC02752	ko00000,ko00001,ko00002,ko01000,ko01002	-	-	-	GATase_6,GATase_7,Pribosyltran
LYD3_k127_1523586_2	1095769.CAHF01000001_gene3502	1.756e-05	47.0	COG0142@1|root,COG0142@2|Bacteria,1MWNG@1224|Proteobacteria,2VHQV@28216|Betaproteobacteria,472MH@75682|Oxalobacteraceae	28216|Betaproteobacteria	H	Belongs to the FPP GGPP synthase family	ispA	-	2.5.1.1,2.5.1.10	ko:K00795	ko00900,ko01100,ko01110,ko01130,map00900,map01100,map01110,map01130	M00364	R01658,R02003	RC00279	ko00000,ko00001,ko00002,ko01000,ko01006	-	-	-	polyprenyl_synt
LYD3_k127_1523586_0	323848.Nmul_A0236	9.344e-287	893.0	COG1154@1|root,COG1154@2|Bacteria,1MUSJ@1224|Proteobacteria,2VHXG@28216|Betaproteobacteria,372IT@32003|Nitrosomonadales	28216|Betaproteobacteria	F	Catalyzes the acyloin condensation reaction between C atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D-xylulose-5-phosphate (DXP)	dxs	-	2.2.1.7	ko:K01662	ko00730,ko00900,ko01100,ko01110,ko01130,map00730,map00900,map01100,map01110,map01130	M00096	R05636	RC00032	ko00000,ko00001,ko00002,ko01000	-	-	-	DXP_synthase_N,Transket_pyr,Transketolase_C
LYD3_k127_1523586_1	667632.KB890166_gene1381	7.249e-36	140.0	COG1469@1|root,COG1469@2|Bacteria,1MV1B@1224|Proteobacteria,2VIC9@28216|Betaproteobacteria,1K2E8@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Converts GTP to 7,8-dihydroneopterin triphosphate	folE2	-	3.5.4.16	ko:K09007	ko00790,ko01100,map00790,map01100	M00126	R00428,R04639,R05046,R05048	RC00263,RC00294,RC00323,RC00945,RC01188	ko00000,ko00001,ko00002,ko01000	-	-	-	GCHY-1
LYD3_k127_152650_2	62928.azo0189	5.022e-15	80.0	COG1028@1|root,COG1028@2|Bacteria,1RH9P@1224|Proteobacteria,2VNFB@28216|Betaproteobacteria	28216|Betaproteobacteria	IQ	Short-chain dehydrogenase reductase (SDR)	-	-	-	-	-	-	-	-	-	-	-	-	adh_short
LYD3_k127_152650_0	497964.CfE428DRAFT_2630	1.907e-137	458.0	COG1571@1|root,COG1571@2|Bacteria,46UI2@74201|Verrucomicrobia	74201|Verrucomicrobia	S	tRNA wobble cytosine modification	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_152650_1	240016.ABIZ01000001_gene3830	1.385e-84	286.0	COG4260@1|root,COG4260@2|Bacteria,46UVR@74201|Verrucomicrobia,2IV4M@203494|Verrucomicrobiae	203494|Verrucomicrobiae	S	SPFH domain-Band 7 family	-	-	-	-	-	-	-	-	-	-	-	-	Band_7_1,HTH_17
LYD3_k127_1542205_0	1003200.AXXA_01110	1.181e-181	578.0	COG0210@1|root,COG0210@2|Bacteria,1MU0G@1224|Proteobacteria,2VM2H@28216|Betaproteobacteria,3T57X@506|Alcaligenaceae	28216|Betaproteobacteria	L	Superfamily I DNA and RNA helicases	pcrA	-	3.6.4.12	ko:K03657	ko03420,ko03430,map03420,map03430	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	UvrD-helicase,UvrD_C
LYD3_k127_1542205_1	243233.MCA0117	3.094e-51	190.0	COG3305@1|root,COG3305@2|Bacteria,1RKBI@1224|Proteobacteria,1S6AE@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Predicted membrane protein (DUF2127)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2127
LYD3_k127_1542205_2	159087.Daro_3859	1.407e-27	118.0	COG3245@1|root,COG3245@2|Bacteria,1MZBZ@1224|Proteobacteria,2VMBB@28216|Betaproteobacteria,2KWMI@206389|Rhodocyclales	206389|Rhodocyclales	C	cytochrome c5	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrome_CBB3
LYD3_k127_1556985_1	1149133.ppKF707_1011	2.452e-80	276.0	COG0657@1|root,COG0657@2|Bacteria,1RD8A@1224|Proteobacteria,1S3TH@1236|Gammaproteobacteria,1YCYX@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	I	Steryl acetyl hydrolase	-	-	3.1.1.83	ko:K14731	ko00903,ko00930,ko01220,map00903,map00930,map01220	-	R03751,R06390,R06391,R06392,R06393	RC00713,RC00983,RC01505	ko00000,ko00001,ko01000	-	-	-	Abhydrolase_3
LYD3_k127_1556985_2	1123368.AUIS01000001_gene1951	1.729e-37	148.0	2B3U0@1|root,30SI8@2|Bacteria,1REYA@1224|Proteobacteria,1T080@1236|Gammaproteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1556985_0	1144312.PMI09_04877	6.234e-125	403.0	COG3957@1|root,COG3957@2|Bacteria,1MVSE@1224|Proteobacteria,2TU2E@28211|Alphaproteobacteria,4B9N7@82115|Rhizobiaceae	28211|Alphaproteobacteria	G	Phosphoketolase	xfp	-	4.1.2.22,4.1.2.9	ko:K01621	ko00030,ko00710,ko01100,ko01120,map00030,map00710,map01100,map01120	-	R00761,R01621	RC00032,RC00226	ko00000,ko00001,ko01000	-	-	-	XFP,XFP_C,XFP_N
LYD3_k127_1559569_1	1496688.ER33_15360	1.911e-144	469.0	COG2308@1|root,COG2308@2|Bacteria	2|Bacteria	S	glutamate-cysteine ligase activity	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1559569_0	987059.RBXJA2T_11807	4.542e-160	515.0	COG4198@1|root,COG4198@2|Bacteria,1R9HY@1224|Proteobacteria,2VZEY@28216|Betaproteobacteria,1KNFU@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Protein of unknown function (DUF1015)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1015
LYD3_k127_1560276_2	1111732.AZOD01000007_gene451	2.813e-39	150.0	COG0528@1|root,COG0528@2|Bacteria,1MV3N@1224|Proteobacteria,1RMHX@1236|Gammaproteobacteria,1X4J2@135614|Xanthomonadales	135614|Xanthomonadales	F	Catalyzes the reversible phosphorylation of UMP to UDP	pyrH	-	2.7.4.22	ko:K09903	ko00240,ko01100,map00240,map01100	-	R00158	RC00002	ko00000,ko00001,ko01000	-	-	-	AA_kinase
LYD3_k127_1560276_0	187272.Mlg_1862	3e-97	327.0	COG0264@1|root,COG0264@2|Bacteria,1MUS2@1224|Proteobacteria,1RPBJ@1236|Gammaproteobacteria,1WXRN@135613|Chromatiales	135613|Chromatiales	J	Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome	tsf	-	-	ko:K02357	-	-	-	-	ko00000,ko03012,ko03029	-	-	-	EF_TS
LYD3_k127_1560276_1	1279019.ARQK01000060_gene2202	1.479e-80	277.0	COG0052@1|root,COG0052@2|Bacteria,1MU33@1224|Proteobacteria,1RN0Z@1236|Gammaproteobacteria,1WW47@135613|Chromatiales	135613|Chromatiales	J	Belongs to the universal ribosomal protein uS2 family	rpsB	-	-	ko:K02967	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_S2
LYD3_k127_1565678_6	1123393.KB891316_gene1579	5.113e-07	57.0	2AFZK@1|root,3163J@2|Bacteria,1PWSQ@1224|Proteobacteria,2WCBD@28216|Betaproteobacteria,1KTD1@119069|Hydrogenophilales	119069|Hydrogenophilales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1565678_7	666681.M301_0987	0.0001427	48.0	COG5510@1|root,COG5510@2|Bacteria	2|Bacteria	S	response to toxic substance	ecnB	GO:0005575,GO:0005623,GO:0005886,GO:0016020,GO:0044464,GO:0071944	-	ko:K16347,ko:K16348	-	-	-	-	ko00000,ko02000	9.B.13.1.1	-	-	Entericidin
LYD3_k127_1565678_0	420324.KI912044_gene3963	4.414e-99	330.0	COG1073@1|root,COG1073@2|Bacteria,1NXZW@1224|Proteobacteria,2TSEE@28211|Alphaproteobacteria,1JTW5@119045|Methylobacteriaceae	28211|Alphaproteobacteria	S	Uncharacterised protein family (UPF0227)	-	-	-	ko:K06889	-	-	-	-	ko00000	-	-	-	Peptidase_S9
LYD3_k127_1565678_3	1121106.JQKB01000021_gene1718	6.931e-51	192.0	28HHS@1|root,2Z7TD@2|Bacteria,1R7VF@1224|Proteobacteria,2U1A8@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	Protein of unknown function (DUF3182)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3182
LYD3_k127_1565678_4	595537.Varpa_3000	1.724e-50	188.0	28HHS@1|root,2Z7TD@2|Bacteria,1R7VF@1224|Proteobacteria,2VP2H@28216|Betaproteobacteria,4AG6R@80864|Comamonadaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF3182)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3182
LYD3_k127_1565678_2	246197.MXAN_4991	1.102e-66	235.0	COG0596@1|root,COG0596@2|Bacteria,1R4N4@1224|Proteobacteria,434SV@68525|delta/epsilon subdivisions,2WZ3Y@28221|Deltaproteobacteria,2Z19T@29|Myxococcales	28221|Deltaproteobacteria	S	Hydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_1,Abhydrolase_6
LYD3_k127_1565678_1	1288494.EBAPG3_31040	3.912e-77	261.0	COG3865@1|root,COG3865@2|Bacteria,1N7IY@1224|Proteobacteria,2VRJ0@28216|Betaproteobacteria,374MK@32003|Nitrosomonadales	28216|Betaproteobacteria	S	3-demethylubiquinone-9 3-methyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	3-dmu-9_3-mt
LYD3_k127_1565678_5	426114.THI_0262	3.374e-16	79.0	COG3591@1|root,COG3591@2|Bacteria,1QUEI@1224|Proteobacteria	1224|Proteobacteria	E	Trypsin-like peptidase domain	-	-	-	-	-	-	-	-	-	-	-	-	Trypsin_2
LYD3_k127_1567737_1	580332.Slit_2101	1.282e-172	548.0	COG1109@1|root,COG1109@2|Bacteria,1MUA5@1224|Proteobacteria,2VJ29@28216|Betaproteobacteria,44VB5@713636|Nitrosomonadales	28216|Betaproteobacteria	G	phosphoglucomutase phosphomannomutase alpha beta alpha domain I	algC	GO:0000271,GO:0000287,GO:0003674,GO:0003824,GO:0004614,GO:0004615,GO:0005488,GO:0005975,GO:0005976,GO:0006082,GO:0006629,GO:0008150,GO:0008152,GO:0008610,GO:0008653,GO:0009058,GO:0009059,GO:0009103,GO:0009243,GO:0009244,GO:0009311,GO:0009312,GO:0009405,GO:0009987,GO:0016051,GO:0016053,GO:0016853,GO:0016866,GO:0016868,GO:0017144,GO:0019752,GO:0033692,GO:0034637,GO:0034645,GO:0042120,GO:0042121,GO:0043167,GO:0043169,GO:0043170,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044255,GO:0044260,GO:0044262,GO:0044264,GO:0044281,GO:0044283,GO:0044419,GO:0046394,GO:0046401,GO:0046402,GO:0046872,GO:0051704,GO:0071704,GO:1901135,GO:1901137,GO:1901576,GO:1903509	5.4.2.2,5.4.2.8	ko:K01835,ko:K01840,ko:K15778	ko00010,ko00030,ko00051,ko00052,ko00230,ko00500,ko00520,ko00521,ko01100,ko01110,ko01120,ko01130,map00010,map00030,map00051,map00052,map00230,map00500,map00520,map00521,map01100,map01110,map01120,map01130	M00114,M00549	R00959,R01057,R01818,R08639	RC00408	ko00000,ko00001,ko00002,ko01000	-	-	-	PGM_PMM_I,PGM_PMM_II,PGM_PMM_III,PGM_PMM_IV
LYD3_k127_1567737_2	452637.Oter_0961	5.687e-145	473.0	COG1171@1|root,COG1171@2|Bacteria,46TW9@74201|Verrucomicrobia,3K73X@414999|Opitutae	414999|Opitutae	E	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA	ilvA	-	4.3.1.19	ko:K01754	ko00260,ko00290,ko01100,ko01110,ko01130,ko01200,ko01230,map00260,map00290,map01100,map01110,map01130,map01200,map01230	M00570	R00220,R00996	RC00418,RC02600	ko00000,ko00001,ko00002,ko01000	-	-	-	PALP,Thr_dehydrat_C
LYD3_k127_1567737_0	1007105.PT7_2623	1.491e-257	813.0	COG4666@1|root,COG4666@2|Bacteria,1MUNB@1224|Proteobacteria,2VHUG@28216|Betaproteobacteria,3T6UJ@506|Alcaligenaceae	28216|Betaproteobacteria	S	Domain of unknown function (DUF3394)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3394,DctM
LYD3_k127_1567737_3	1411123.JQNH01000001_gene651	5.465e-133	434.0	COG2358@1|root,COG2358@2|Bacteria,1MXW1@1224|Proteobacteria,2TSK2@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	TRAP transporter solute receptor TAXI family	-	-	-	ko:K07080	-	-	-	-	ko00000	-	-	-	NMT1_3
LYD3_k127_1567737_5	292415.Tbd_0747	1.404e-73	253.0	COG1051@1|root,COG1051@2|Bacteria,1REBW@1224|Proteobacteria,2VQ39@28216|Betaproteobacteria,1KSGX@119069|Hydrogenophilales	119069|Hydrogenophilales	F	Nudix N-terminal	-	-	-	-	-	-	-	-	-	-	-	-	NUDIX,Nudix_N_2
LYD3_k127_1567737_4	580332.Slit_1043	6.931e-89	296.0	COG1949@1|root,COG1949@2|Bacteria,1R9WX@1224|Proteobacteria,2VIA2@28216|Betaproteobacteria,44VDX@713636|Nitrosomonadales	28216|Betaproteobacteria	L	3'-to-5' exoribonuclease specific for small oligoribonucleotides	orn	-	-	ko:K13288	ko03008,map03008	-	-	-	ko00000,ko00001,ko01000,ko03009,ko03019	-	-	-	RNase_T
LYD3_k127_1575955_1	1031711.RSPO_c02338	7.368e-45	165.0	COG1488@1|root,COG1488@2|Bacteria,1MV8U@1224|Proteobacteria,2VGZ5@28216|Betaproteobacteria,1K2JW@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP	pncB	GO:0000183,GO:0001302,GO:0003674,GO:0003824,GO:0004516,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0006139,GO:0006325,GO:0006342,GO:0006348,GO:0006355,GO:0006725,GO:0006732,GO:0006733,GO:0006753,GO:0006793,GO:0006796,GO:0006807,GO:0006996,GO:0007568,GO:0007569,GO:0008150,GO:0008152,GO:0009058,GO:0009108,GO:0009117,GO:0009165,GO:0009889,GO:0009890,GO:0009892,GO:0009987,GO:0010468,GO:0010556,GO:0010558,GO:0010605,GO:0010629,GO:0016043,GO:0016458,GO:0016874,GO:0016879,GO:0018130,GO:0019219,GO:0019222,GO:0019357,GO:0019358,GO:0019362,GO:0019363,GO:0019365,GO:0019438,GO:0019637,GO:0031323,GO:0031324,GO:0031326,GO:0031327,GO:0032502,GO:0034641,GO:0034654,GO:0040029,GO:0043094,GO:0043173,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0044237,GO:0044238,GO:0044249,GO:0044271,GO:0044281,GO:0044424,GO:0044464,GO:0045814,GO:0045892,GO:0045934,GO:0046483,GO:0046497,GO:0048519,GO:0048523,GO:0048869,GO:0050789,GO:0050794,GO:0051171,GO:0051172,GO:0051186,GO:0051188,GO:0051252,GO:0051253,GO:0051276,GO:0055086,GO:0060255,GO:0065007,GO:0071704,GO:0071840,GO:0072524,GO:0072525,GO:0080090,GO:0090407,GO:1901293,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1902679,GO:1903506,GO:1903507,GO:2000112,GO:2000113,GO:2001141	6.3.4.21	ko:K00763	ko00760,ko01100,map00760,map01100	-	R01724	RC00033	ko00000,ko00001,ko01000	-	-	-	NAPRTase
LYD3_k127_1575955_0	543728.Vapar_3587	1.878e-127	419.0	COG0598@1|root,COG0598@2|Bacteria,1MX09@1224|Proteobacteria,2VHCH@28216|Betaproteobacteria,4ACUI@80864|Comamonadaceae	28216|Betaproteobacteria	P	Mediates influx of magnesium ions	corA	-	-	ko:K03284	-	-	-	-	ko00000,ko02000	1.A.35.1,1.A.35.3	-	-	CorA
LYD3_k127_1575955_2	243365.CV_3677	1.919e-06	51.0	COG1230@1|root,COG1230@2|Bacteria,1MVQB@1224|Proteobacteria,2VMHH@28216|Betaproteobacteria,2KQ7Z@206351|Neisseriales	206351|Neisseriales	P	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family	czcD	-	-	ko:K16264	-	-	-	-	ko00000,ko02000	2.A.4.1	-	-	Cation_efflux,ZT_dimer
LYD3_k127_1603163_2	59538.XP_005957833.1	5.782e-32	125.0	COG0365@1|root,KOG1175@2759|Eukaryota,38BR4@33154|Opisthokonta,3BE2N@33208|Metazoa,3CRVF@33213|Bilateria,483VQ@7711|Chordata,49728@7742|Vertebrata,3J64C@40674|Mammalia,4IZE5@91561|Cetartiodactyla	33208|Metazoa	I	acetate--CoA ligase ACS, chloroplastic glyoxysomal-like	-	-	6.2.1.1	ko:K01895	ko00010,ko00620,ko00640,ko00680,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00620,map00640,map00680,map00720,map01100,map01110,map01120,map01130,map01200	M00357	R00235,R00236,R00316,R00926,R01354	RC00004,RC00012,RC00043,RC00070,RC02746,RC02816	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	ACAS_N,AMP-binding,AMP-binding_C
LYD3_k127_1603163_3	84531.JMTZ01000060_gene2493	5.03e-11	70.0	2E56W@1|root,32ZZK@2|Bacteria,1NET3@1224|Proteobacteria,1T6QS@1236|Gammaproteobacteria,1X7XR@135614|Xanthomonadales	135614|Xanthomonadales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1603163_0	1123393.KB891328_gene561	1.102e-197	631.0	COG0015@1|root,COG0015@2|Bacteria,1MV4B@1224|Proteobacteria,2VI2T@28216|Betaproteobacteria,1KS6T@119069|Hydrogenophilales	119069|Hydrogenophilales	F	Adenylosuccinate lyase C-terminal	-	-	4.3.2.2	ko:K01756	ko00230,ko00250,ko01100,ko01110,ko01130,map00230,map00250,map01100,map01110,map01130	M00048,M00049	R01083,R04559	RC00379,RC00444,RC00445	ko00000,ko00001,ko00002,ko01000	-	-	-	ASL_C,Lyase_1
LYD3_k127_1603163_1	1121004.ATVC01000010_gene1029	1.614e-72	250.0	COG0586@1|root,COG0586@2|Bacteria,1MX4M@1224|Proteobacteria,2VJCP@28216|Betaproteobacteria,2KQAQ@206351|Neisseriales	206351|Neisseriales	S	Psort location CytoplasmicMembrane, score 10.00	dedA	-	-	ko:K03975	-	-	-	-	ko00000	-	-	-	SNARE_assoc
LYD3_k127_1604362_1	1123393.KB891316_gene1563	6.066e-26	116.0	COG5592@1|root,COG5592@2|Bacteria,1RI8J@1224|Proteobacteria,2VS4H@28216|Betaproteobacteria,1KT20@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Hemerythrin HHE cation binding domain	-	-	-	-	-	-	-	-	-	-	-	-	Hemerythrin
LYD3_k127_1604362_0	1532557.JL37_28855	2.012e-88	304.0	COG2204@1|root,COG2204@2|Bacteria,1MU0N@1224|Proteobacteria,2VHSB@28216|Betaproteobacteria,3T2RD@506|Alcaligenaceae	28216|Betaproteobacteria	T	Response regulator containing CheY-like receiver AAA-type ATPase and DNA-binding domains	zraR	-	-	-	-	-	-	-	-	-	-	-	HTH_8,Response_reg,Sigma54_activat
LYD3_k127_1612131_0	1049564.TevJSym_bb00040	2.396e-104	347.0	COG1013@1|root,COG1013@2|Bacteria,1R5BF@1224|Proteobacteria,1RZ7Y@1236|Gammaproteobacteria,1J5GQ@118884|unclassified Gammaproteobacteria	1236|Gammaproteobacteria	C	COG1013 Pyruvate ferredoxin oxidoreductase and related 2-oxoacid ferredoxin oxidoreductases, beta subunit	korB	-	1.2.7.11,1.2.7.3	ko:K00175	ko00010,ko00020,ko00620,ko00650,ko00720,ko01100,ko01120,ko01130,ko01200,map00010,map00020,map00620,map00650,map00720,map01100,map01120,map01130,map01200	M00009,M00011,M00173,M00620	R01196,R01197	RC00004,RC02742,RC02833	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	TPP_enzyme_C
LYD3_k127_1612131_1	1187851.A33M_4209	4.002e-98	347.0	COG1013@1|root,COG1013@2|Bacteria	2|Bacteria	C	oxidoreductase activity, acting on the aldehyde or oxo group of donors, iron-sulfur protein as acceptor	-	-	-	-	-	-	-	-	-	-	-	-	Fer4,Fer4_6,PFOR_II,POR,POR_N,TPP_enzyme_C
LYD3_k127_161333_1	1245469.S58_59370	1.39e-39	154.0	COG0600@1|root,COG0600@2|Bacteria,1MWDJ@1224|Proteobacteria,2TRDG@28211|Alphaproteobacteria,3JRXD@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	P	Binding-protein-dependent transport system inner membrane component	MA20_34185	-	-	ko:K02050	-	M00188	-	-	ko00000,ko00002,ko02000	3.A.1.16,3.A.1.17	-	-	BPD_transp_1
LYD3_k127_161333_0	1038859.AXAU01000024_gene4022	6.625e-144	469.0	COG0715@1|root,COG0715@2|Bacteria,1MVJA@1224|Proteobacteria,2TTB8@28211|Alphaproteobacteria,3JVA6@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	P	NMT1-like family	MA20_34190	-	-	ko:K02051	-	M00188	-	-	ko00000,ko00002,ko02000	3.A.1.16,3.A.1.17	-	-	NMT1,NMT1_2
LYD3_k127_161333_2	1131813.AQVT01000001_gene4181	1.627e-30	124.0	COG1125@1|root,COG1125@2|Bacteria,1QTUC@1224|Proteobacteria,2TTMA@28211|Alphaproteobacteria,1JR68@119045|Methylobacteriaceae	28211|Alphaproteobacteria	E	PFAM ABC transporter	-	-	-	ko:K05847	ko02010,map02010	M00209	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.12	-	-	ABC_tran
LYD3_k127_1616196_0	330214.NIDE0582	1.799e-185	627.0	COG1752@1|root,COG3153@1|root,COG1752@2|Bacteria,COG3153@2|Bacteria	2|Bacteria	S	transferase activity, transferring acyl groups	-	-	2.3.1.59,2.3.1.82	ko:K14658,ko:K17840,ko:K18815	-	M00664	-	-	br01600,ko00000,ko00002,ko01000,ko01504	-	-	-	Acetyltransf_1,Acetyltransf_10,Acetyltransf_7,Patatin
LYD3_k127_1616196_1	543728.Vapar_1655	3.039e-144	465.0	COG0053@1|root,COG0053@2|Bacteria,1MVH8@1224|Proteobacteria,2VNZ1@28216|Betaproteobacteria,4AG57@80864|Comamonadaceae	28216|Betaproteobacteria	P	Cation efflux family	-	-	-	-	-	-	-	-	-	-	-	-	Cation_efflux
LYD3_k127_1616196_2	485913.Krac_11704	2.802e-67	240.0	COG1985@1|root,COG1985@2|Bacteria,2G97Y@200795|Chloroflexi	200795|Chloroflexi	H	RibD C-terminal domain	-	-	-	-	-	-	-	-	-	-	-	-	RibD_C
LYD3_k127_1616196_3	221288.JH992901_gene1080	2.825e-39	156.0	COG0451@1|root,COG0451@2|Bacteria,1GEYX@1117|Cyanobacteria	1117|Cyanobacteria	GM	NAD dependent epimerase/dehydratase family	-	-	-	-	-	-	-	-	-	-	-	-	Epimerase
LYD3_k127_1624809_6	265072.Mfla_0003	1.474e-32	126.0	COG0187@1|root,COG0187@2|Bacteria,1MVKT@1224|Proteobacteria,2VI8N@28216|Betaproteobacteria,2KKEJ@206350|Nitrosomonadales	206350|Nitrosomonadales	L	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner	gyrB	-	5.99.1.3	ko:K02470	-	-	-	-	ko00000,ko01000,ko03032,ko03400	-	-	-	DNA_gyraseB,DNA_gyraseB_C,HATPase_c,Toprim
LYD3_k127_1624809_1	1247726.MIM_c07850	5.896e-127	413.0	COG0329@1|root,COG0329@2|Bacteria,1MXM5@1224|Proteobacteria,2VIKK@28216|Betaproteobacteria,3T6I6@506|Alcaligenaceae	28216|Betaproteobacteria	EM	Belongs to the DapA family	-	-	4.3.3.7	ko:K01714	ko00261,ko00300,ko01100,ko01110,ko01120,ko01130,ko01230,map00261,map00300,map01100,map01110,map01120,map01130,map01230	M00016,M00525,M00526,M00527	R10147	RC03062,RC03063	ko00000,ko00001,ko00002,ko01000	-	-	-	DHDPS
LYD3_k127_1624809_3	1198452.Jab_2c08700	3.849e-88	299.0	COG3134@1|root,COG3134@2|Bacteria,1MY27@1224|Proteobacteria,2VMUB@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Beta/gamma crystallins	-	-	-	-	-	-	-	-	-	-	-	-	Crystall,Rick_17kDa_Anti
LYD3_k127_1624809_5	1157708.KB907463_gene817	7.349e-42	160.0	2BZPY@1|root,3347P@2|Bacteria,1NDQW@1224|Proteobacteria,2W3VX@28216|Betaproteobacteria,4AI53@80864|Comamonadaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1624809_7	1265490.JHVY01000009_gene4238	1.209e-23	111.0	COG2261@1|root,COG2261@2|Bacteria,1N72W@1224|Proteobacteria,1SGV7@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Membrane	-	-	-	-	-	-	-	-	-	-	-	-	Transgly_assoc
LYD3_k127_1624809_2	522306.CAP2UW1_3734	1.324e-97	327.0	COG2321@1|root,COG2321@2|Bacteria,1MU4U@1224|Proteobacteria,2VH8U@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Neutral zinc metallopeptidase	-	-	-	ko:K07054	-	-	-	-	ko00000	-	-	-	Zn_peptidase
LYD3_k127_1624809_0	1316936.K678_02905	4.024e-202	642.0	COG0702@1|root,COG0702@2|Bacteria,1PT91@1224|Proteobacteria,2U4IU@28211|Alphaproteobacteria,2JW5D@204441|Rhodospirillales	204441|Rhodospirillales	GM	Protein of unknown function (DUF2867)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2867,NAD_binding_10
LYD3_k127_1624809_4	861299.J421_2228	1.115e-75	264.0	COG0702@1|root,COG0702@2|Bacteria,1ZV6Y@142182|Gemmatimonadetes	142182|Gemmatimonadetes	GM	NmrA-like family	-	-	1.6.5.2	ko:K19267	ko00130,ko01110,map00130,map01110	-	R02964,R03643,R03816	RC00819	ko00000,ko00001,ko01000	-	-	-	NAD_binding_10
LYD3_k127_1624809_8	857087.Metme_1871	8.661e-13	71.0	COG0454@1|root,COG0454@2|Bacteria,1QGGX@1224|Proteobacteria,1SDSJ@1236|Gammaproteobacteria	1236|Gammaproteobacteria	K	Protein of unknown function (DUF3616)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3616
LYD3_k127_1634347_0	667632.KB890170_gene3629	1.718e-91	303.0	COG0036@1|root,COG0036@2|Bacteria,1MUZM@1224|Proteobacteria,2VIGU@28216|Betaproteobacteria,1K37J@119060|Burkholderiaceae	28216|Betaproteobacteria	G	Belongs to the ribulose-phosphate 3-epimerase family	rpe	-	5.1.3.1	ko:K01783	ko00030,ko00040,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00030,map00040,map00710,map01100,map01110,map01120,map01130,map01200,map01230	M00004,M00007	R01529	RC00540	ko00000,ko00001,ko00002,ko01000	-	-	-	Ribul_P_3_epim
LYD3_k127_1634347_1	522306.CAP2UW1_1172	1.015e-57	216.0	COG0546@1|root,COG0546@2|Bacteria,1RDDY@1224|Proteobacteria,2VIZ6@28216|Betaproteobacteria,1KQWI@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	G	Phosphoglycolate phosphatase	gph	-	3.1.3.18	ko:K01091	ko00630,ko01100,ko01110,ko01130,map00630,map01100,map01110,map01130	-	R01334	RC00017	ko00000,ko00001,ko01000	-	-	-	HAD_2
LYD3_k127_1634347_2	1437824.BN940_17306	3.887e-38	146.0	COG0147@1|root,COG0147@2|Bacteria,1MVBJ@1224|Proteobacteria,2VI2V@28216|Betaproteobacteria,3T1MM@506|Alcaligenaceae	28216|Betaproteobacteria	E	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia	trpE	-	4.1.3.27	ko:K01657	ko00400,ko00405,ko01100,ko01110,ko01130,ko01230,ko02024,ko02025,map00400,map00405,map01100,map01110,map01130,map01230,map02024,map02025	M00023	R00985,R00986	RC00010,RC02148,RC02414	ko00000,ko00001,ko00002,ko01000	-	-	-	Anth_synt_I_N,Chorismate_bind
LYD3_k127_165180_0	1163617.SCD_n01950	4.822e-203	666.0	COG3164@1|root,COG3164@2|Bacteria,1MXWF@1224|Proteobacteria,2VH52@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Protein of unknown function	-	-	-	-	-	-	-	-	-	-	-	-	AsmA_2,DUF3971
LYD3_k127_165180_3	267608.RSc2658	1.068e-110	377.0	COG0388@1|root,COG0388@2|Bacteria,1MUUB@1224|Proteobacteria,2VIR4@28216|Betaproteobacteria,1K2WY@119060|Burkholderiaceae	28216|Betaproteobacteria	S	PFAM Nitrilase cyanide hydratase and apolipoprotein N-acyltransferase	opaA	-	3.5.5.1	ko:K01501,ko:K11206	ko00380,ko00460,ko00627,ko00643,ko00910,ko01120,map00380,map00460,map00627,map00643,map00910,map01120	-	R00540,R01887,R03093,R03542,R05591,R07855	RC00315,RC00325,RC00617,RC00959,RC02811	ko00000,ko00001,ko01000	-	-	-	CN_hydrolase
LYD3_k127_165180_4	1158292.JPOE01000002_gene2858	1.379e-45	174.0	COG2840@1|root,COG2840@2|Bacteria,1RH34@1224|Proteobacteria,2VQ2S@28216|Betaproteobacteria,1KKVS@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Smr domain	smrA	-	-	-	-	-	-	-	-	-	-	-	Smr
LYD3_k127_165180_1	626418.bglu_1g08120	1.274e-155	496.0	COG0492@1|root,COG0492@2|Bacteria,1MV15@1224|Proteobacteria,2VIVV@28216|Betaproteobacteria,1K2A5@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Belongs to the class-II pyridine nucleotide-disulfide oxidoreductase family	trxB	-	1.8.1.9	ko:K00384	ko00450,map00450	-	R02016,R03596,R09372	RC00013,RC02518,RC02873	ko00000,ko00001,ko01000	-	-	-	Pyr_redox_2
LYD3_k127_165180_2	1163617.SCD_n01742	7.331e-114	380.0	COG1674@1|root,COG1674@2|Bacteria,1MVPI@1224|Proteobacteria,2VHJV@28216|Betaproteobacteria	28216|Betaproteobacteria	D	FtsK SpoIIIE	ftsK	-	-	ko:K03466	-	-	-	-	ko00000,ko03036	3.A.12	-	-	FtsK_4TM,FtsK_SpoIIIE,Ftsk_gamma
LYD3_k127_1655430_6	1041147.AUFB01000004_gene4811	7.403e-28	113.0	COG0667@1|root,COG0667@2|Bacteria,1MVEH@1224|Proteobacteria,2TRHS@28211|Alphaproteobacteria,4B99V@82115|Rhizobiaceae	28211|Alphaproteobacteria	C	Aldo keto reductase	-	-	-	-	-	-	-	-	-	-	-	-	Aldo_ket_red
LYD3_k127_1655430_0	359.CN09_26010	1.827e-114	381.0	COG0657@1|root,COG0657@2|Bacteria,1R41U@1224|Proteobacteria,2U17T@28211|Alphaproteobacteria,4BIBG@82115|Rhizobiaceae	28211|Alphaproteobacteria	I	acetylesterase activity	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_S9
LYD3_k127_1655430_7	338969.Rfer_0523	0.0001123	48.0	COG1960@1|root,COG1960@2|Bacteria,1MU20@1224|Proteobacteria,2VHMA@28216|Betaproteobacteria,4A9UE@80864|Comamonadaceae	28216|Betaproteobacteria	C	PFAM acyl-CoA dehydrogenase domain protein	aidB	-	-	ko:K09456	-	-	-	-	ko00000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M
LYD3_k127_1655430_4	977880.RALTA_A2982	5.208e-37	153.0	COG1670@1|root,COG1670@2|Bacteria,1QVH4@1224|Proteobacteria,2VQSE@28216|Betaproteobacteria,1KG6J@119060|Burkholderiaceae	28216|Betaproteobacteria	J	N-acetyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_1655430_3	398767.Glov_0611	3.381e-59	215.0	COG1803@1|root,COG1803@2|Bacteria,1RD3D@1224|Proteobacteria,42SPC@68525|delta/epsilon subdivisions,2WP55@28221|Deltaproteobacteria	28221|Deltaproteobacteria	G	TIGRFAM Methylglyoxal synthase	mgsA	-	4.2.3.3	ko:K01734	ko00640,ko01120,map00640,map01120	-	R01016	RC00424	ko00000,ko00001,ko01000	-	-	-	MGS
LYD3_k127_1655430_2	1034943.BN1094_03136	4.991e-82	278.0	COG4221@1|root,COG4221@2|Bacteria,1QY9P@1224|Proteobacteria,1T3MV@1236|Gammaproteobacteria,1JFU6@118969|Legionellales	118969|Legionellales	S	KR domain	-	-	-	-	-	-	-	-	-	-	-	-	adh_short
LYD3_k127_1655430_5	748247.AZKH_2125	5.741e-31	142.0	COG3170@1|root,COG3170@2|Bacteria,1QV1N@1224|Proteobacteria,2WGRZ@28216|Betaproteobacteria,2KZQJ@206389|Rhodocyclales	206389|Rhodocyclales	NU	Protein of unknown function (DUF1631)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1631
LYD3_k127_1655430_1	395494.Galf_2488	3.453e-82	275.0	COG1136@1|root,COG1136@2|Bacteria,1MXVW@1224|Proteobacteria,2VI95@28216|Betaproteobacteria,44W8E@713636|Nitrosomonadales	28216|Betaproteobacteria	P	PFAM ABC transporter related	-	-	-	ko:K02003	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC_tran
LYD3_k127_1677975_4	883126.HMPREF9710_00899	1.519e-26	117.0	COG4799@1|root,COG4799@2|Bacteria,1MVAX@1224|Proteobacteria,2VI77@28216|Betaproteobacteria,47381@75682|Oxalobacteraceae	28216|Betaproteobacteria	I	Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta)	accB	-	6.4.1.4	ko:K01969	ko00280,ko01100,map00280,map01100	M00036	R04138	RC00367,RC00942	ko00000,ko00001,ko00002,ko01000	-	-	-	Carboxyl_trans
LYD3_k127_1677975_1	1366050.N234_00670	3.589e-81	286.0	COG0625@1|root,COG0625@2|Bacteria,1REDI@1224|Proteobacteria,2VW59@28216|Betaproteobacteria,1KHAS@119060|Burkholderiaceae	28216|Betaproteobacteria	O	Glutathione S-transferase, C-terminal domain	-	-	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	GST_C,GST_C_2,GST_N
LYD3_k127_1677975_2	640081.Dsui_0978	4.976e-69	240.0	COG3917@1|root,COG3917@2|Bacteria,1RDNQ@1224|Proteobacteria,2VQJ1@28216|Betaproteobacteria,2KZTF@206389|Rhodocyclales	206389|Rhodocyclales	Q	DSBA-like thioredoxin domain	-	-	-	-	-	-	-	-	-	-	-	-	DSBA
LYD3_k127_1677975_0	62928.azo0394	2.618e-187	592.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,2VHT0@28216|Betaproteobacteria,2KVJQ@206389|Rhodocyclales	206389|Rhodocyclales	C	COG1960 Acyl-CoA dehydrogenases	-	-	-	-	-	-	-	-	-	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_1677975_3	1101190.ARWB01000001_gene222	4.621e-29	118.0	COG1280@1|root,COG1280@2|Bacteria,1RF68@1224|Proteobacteria,2UD3X@28211|Alphaproteobacteria,36YUF@31993|Methylocystaceae	28211|Alphaproteobacteria	E	LysE type translocator	-	-	-	-	-	-	-	-	-	-	-	-	LysE
LYD3_k127_169040_0	864051.BurJ1DRAFT_0686	7.153e-154	488.0	COG1175@1|root,COG1175@2|Bacteria,1MWB7@1224|Proteobacteria,2VHA0@28216|Betaproteobacteria,1KKBG@119065|unclassified Burkholderiales	28216|Betaproteobacteria	U	Binding-protein-dependent transport system inner membrane component	-	-	-	ko:K02025,ko:K10237	ko02010,map02010	M00204,M00207	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.1,3.A.1.1.17	-	-	BPD_transp_1
LYD3_k127_169040_1	296591.Bpro_1260	1.112e-148	478.0	COG0395@1|root,COG0395@2|Bacteria,1N4I0@1224|Proteobacteria,2VNEK@28216|Betaproteobacteria,4AEIK@80864|Comamonadaceae	28216|Betaproteobacteria	P	PFAM binding-protein-dependent transport systems inner membrane component	-	-	-	ko:K02026	-	M00207	-	-	ko00000,ko00002,ko02000	3.A.1.1	-	-	BPD_transp_1
LYD3_k127_169040_3	85643.Tmz1t_1426	4.151e-48	173.0	COG0278@1|root,COG0278@2|Bacteria,1MZ4V@1224|Proteobacteria,2VSCX@28216|Betaproteobacteria,2KWQF@206389|Rhodocyclales	206389|Rhodocyclales	C	Belongs to the glutaredoxin family. Monothiol subfamily	-	-	-	ko:K07390	-	-	-	-	ko00000,ko03029,ko03110	-	-	-	Glutaredoxin
LYD3_k127_169040_2	580332.Slit_1085	8.477e-76	256.0	COG0004@1|root,COG0004@2|Bacteria,1NR9F@1224|Proteobacteria,2VI9I@28216|Betaproteobacteria,44V4J@713636|Nitrosomonadales	28216|Betaproteobacteria	P	Ammonium Transporter Family	-	-	-	ko:K03320,ko:K06580	-	-	-	-	ko00000,ko02000,ko04090	1.A.11,1.A.11.4	-	-	Ammonium_transp
LYD3_k127_1702805_1	1144342.PMI40_00592	1.447e-44	179.0	COG3842@1|root,COG3842@2|Bacteria,1MU3I@1224|Proteobacteria,2VGZM@28216|Betaproteobacteria	28216|Betaproteobacteria	P	Part of the ABC transporter complex UgpABCE involved in sn-glycerol-3-phosphate import. Responsible for energy coupling to the transport system	-	-	-	ko:K10112	ko02010,map02010	M00194,M00196,M00197,M00200,M00201,M00206,M00207,M00491,M00602,M00605,M00606	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.1	-	-	ABC_tran,TOBE_2
LYD3_k127_1702805_0	1504672.669782744	1.327e-125	411.0	COG1052@1|root,COG1052@2|Bacteria,1RAWT@1224|Proteobacteria,2VRZN@28216|Betaproteobacteria	28216|Betaproteobacteria	CH	D-isomer specific 2-hydroxyacid dehydrogenase	-	-	1.1.1.399,1.1.1.95	ko:K00058	ko00260,ko00680,ko01100,ko01120,ko01130,ko01200,ko01230,map00260,map00680,map01100,map01120,map01130,map01200,map01230	M00020	R01513	RC00031	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	2-Hacid_dh,2-Hacid_dh_C
LYD3_k127_1743632_4	795666.MW7_2155	3.856e-119	390.0	COG0446@1|root,COG0446@2|Bacteria,1N5MC@1224|Proteobacteria,2VK35@28216|Betaproteobacteria,1K4WY@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Sulfide dehydrogenase	soxF	-	1.8.2.1,1.8.5.4	ko:K05301,ko:K17218	ko00920,ko01100,ko01120,map00920,map01100,map01120	-	R00528,R10152	RC00168,RC03155	ko00000,ko00001,ko01000	-	-	-	FCSD-flav_bind,Pyr_redox_2,TAT_signal
LYD3_k127_1743632_5	1348657.M622_12240	5.294e-31	125.0	COG2863@1|root,COG2863@2|Bacteria,1NGJ1@1224|Proteobacteria,2VVR2@28216|Betaproteobacteria,2KX1J@206389|Rhodocyclales	206389|Rhodocyclales	C	Cytochrome c, class I	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrom_C
LYD3_k127_1743632_3	395495.Lcho_2486	3.088e-164	534.0	COG1236@1|root,COG1236@2|Bacteria,1MUDD@1224|Proteobacteria,2VHFX@28216|Betaproteobacteria,1KJC5@119065|unclassified Burkholderiales	28216|Betaproteobacteria	J	RNA-metabolising metallo-beta-lactamase	-	-	-	ko:K07576	-	-	-	-	ko00000	-	-	-	Beta-Casp,Lactamase_B,RMMBL
LYD3_k127_1743632_0	795666.MW7_2023	6.564e-237	739.0	COG2224@1|root,COG2224@2|Bacteria,1MWIF@1224|Proteobacteria,2VHWS@28216|Betaproteobacteria,1K38Q@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Isocitrate lyase	aceA	-	4.1.3.1	ko:K01637	ko00630,ko01100,ko01110,ko01120,ko01200,map00630,map01100,map01110,map01120,map01200	M00012	R00479	RC00311,RC00313	ko00000,ko00001,ko00002,ko01000	-	-	-	ICL
LYD3_k127_1743632_7	497321.C664_00865	1.395e-24	113.0	COG1514@1|root,COG1514@2|Bacteria,1RDB2@1224|Proteobacteria,2VTZU@28216|Betaproteobacteria,2KWXS@206389|Rhodocyclales	206389|Rhodocyclales	J	Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'- phosphomonoester	ligT	-	3.1.4.58	ko:K01975	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	LigT_PEase
LYD3_k127_1743632_1	497964.CfE428DRAFT_0631	4.585e-194	636.0	COG2114@1|root,COG3903@1|root,COG2114@2|Bacteria,COG3903@2|Bacteria,46TZ3@74201|Verrucomicrobia	74201|Verrucomicrobia	T	Adenylyl- / guanylyl cyclase, catalytic domain	-	-	-	-	-	-	-	-	-	-	-	-	Guanylate_cyc,NB-ARC
LYD3_k127_1743632_2	497964.CfE428DRAFT_0631	3.93e-190	624.0	COG2114@1|root,COG3903@1|root,COG2114@2|Bacteria,COG3903@2|Bacteria,46TZ3@74201|Verrucomicrobia	74201|Verrucomicrobia	T	Adenylyl- / guanylyl cyclase, catalytic domain	-	-	-	-	-	-	-	-	-	-	-	-	Guanylate_cyc,NB-ARC
LYD3_k127_1743632_6	1392838.AWNM01000046_gene2015	1.487e-28	114.0	COG2897@1|root,COG2897@2|Bacteria,1MW4B@1224|Proteobacteria,2VHAX@28216|Betaproteobacteria,3T2UC@506|Alcaligenaceae	28216|Betaproteobacteria	P	Sulfurtransferase	sseA	-	2.8.1.1,2.8.1.2	ko:K01011	ko00270,ko00920,ko01100,ko01120,ko04122,map00270,map00920,map01100,map01120,map04122	-	R01931,R03105,R03106	RC00214	ko00000,ko00001,ko01000	-	-	-	Rhodanese
LYD3_k127_1744385_1	1000565.METUNv1_01903	5.025e-92	323.0	COG0642@1|root,COG2205@2|Bacteria,1MUY7@1224|Proteobacteria,2VIXT@28216|Betaproteobacteria,2KUH6@206389|Rhodocyclales	206389|Rhodocyclales	T	Histidine kinase	-	-	2.7.13.3	ko:K20975	ko02020,ko02025,map02020,map02025	M00820	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	HATPase_c,HisKA,Response_reg
LYD3_k127_1744385_4	1000565.METUNv1_01904	4.795e-45	177.0	COG2197@1|root,COG2197@2|Bacteria,1P4TD@1224|Proteobacteria,2VMX4@28216|Betaproteobacteria,2KW82@206389|Rhodocyclales	28216|Betaproteobacteria	K	COG2197 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain	epsR	-	-	-	-	-	-	-	-	-	-	-	GerE,Response_reg
LYD3_k127_1744385_0	1163617.SCD_n00796	1.493e-132	441.0	COG4783@1|root,COG4783@2|Bacteria,1MVFV@1224|Proteobacteria,2VHAY@28216|Betaproteobacteria	28216|Betaproteobacteria	S	peptidase m48, ste24p	yggG_1	-	-	-	-	-	-	-	-	-	-	-	Peptidase_M48,TPR_19
LYD3_k127_1744385_2	1348657.M622_10405	2.541e-64	225.0	COG0315@1|root,COG0315@2|Bacteria,1RCYZ@1224|Proteobacteria,2VR7B@28216|Betaproteobacteria,2KW2Z@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the conversion of (8S)-3',8-cyclo-7,8- dihydroguanosine 5'-triphosphate to cyclic pyranopterin monophosphate (cPMP)	moaC	-	4.6.1.17	ko:K03637	ko00790,ko01100,ko04122,map00790,map01100,map04122	-	R11372	RC03425	ko00000,ko00001,ko01000	-	-	-	MoaC
LYD3_k127_1744385_3	1144319.PMI16_03780	4.459e-55	203.0	COG2186@1|root,COG2186@2|Bacteria,1MY1K@1224|Proteobacteria,2VJT1@28216|Betaproteobacteria,474XT@75682|Oxalobacteraceae	28216|Betaproteobacteria	K	FCD	-	-	-	-	-	-	-	-	-	-	-	-	FCD,GntR
LYD3_k127_1761100_4	1246995.AFR_16770	4.18e-05	49.0	COG1846@1|root,COG1846@2|Bacteria	2|Bacteria	K	DNA-binding transcription factor activity	-	-	-	-	-	-	-	-	-	-	-	-	MarR_2
LYD3_k127_1761100_2	795666.MW7_2487	3.489e-37	149.0	COG3471@1|root,COG3471@2|Bacteria,1MZA2@1224|Proteobacteria,2VQW2@28216|Betaproteobacteria,1K1PA@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF541)	-	-	-	-	-	-	-	-	-	-	-	-	SIMPL
LYD3_k127_1761100_0	557598.LHK_02039	2.698e-195	624.0	COG1066@1|root,COG1066@2|Bacteria,1MUJQ@1224|Proteobacteria,2VH93@28216|Betaproteobacteria,2KPX7@206351|Neisseriales	206351|Neisseriales	L	DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function	radA	-	-	ko:K04485	-	-	-	-	ko00000,ko03400	-	-	-	AAA_25,ATPase,ChlI
LYD3_k127_1761100_1	1454004.AW11_01590	5.673e-127	415.0	COG2870@1|root,COG2870@2|Bacteria,1MV3Z@1224|Proteobacteria,2VHNS@28216|Betaproteobacteria,1KQ96@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	H	pfkB family carbohydrate kinase	rfaE	-	2.7.1.167,2.7.7.70	ko:K03272,ko:K21344	ko00540,ko01100,map00540,map01100	M00064	R05644,R05646	RC00002,RC00078	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	CTP_transf_like,PfkB
LYD3_k127_1761100_3	159087.Daro_1284	2.924e-13	69.0	COG1004@1|root,COG1004@2|Bacteria,1MW5U@1224|Proteobacteria,2VGZI@28216|Betaproteobacteria,2KUMY@206389|Rhodocyclales	206389|Rhodocyclales	C	Belongs to the UDP-glucose GDP-mannose dehydrogenase family	ugd	-	1.1.1.22	ko:K00012	ko00040,ko00053,ko00520,ko01100,map00040,map00053,map00520,map01100	M00014,M00129,M00361,M00362	R00286	RC00291	ko00000,ko00001,ko00002,ko01000	-	-	-	UDPG_MGDP_dh,UDPG_MGDP_dh_C,UDPG_MGDP_dh_N
LYD3_k127_1762266_0	1485544.JQKP01000021_gene46	1.248e-78	264.0	COG0049@1|root,COG0049@2|Bacteria,1MXC8@1224|Proteobacteria,2VQ63@28216|Betaproteobacteria,44V09@713636|Nitrosomonadales	28216|Betaproteobacteria	J	One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit. Is located at the subunit interface close to the decoding center, probably blocks exit of the E-site tRNA	rpsG	-	-	ko:K02992	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_S7
LYD3_k127_1762266_1	265072.Mfla_0274	3.703e-66	227.0	COG0048@1|root,COG0048@2|Bacteria,1RCWY@1224|Proteobacteria,2VR2H@28216|Betaproteobacteria,2KMPA@206350|Nitrosomonadales	206350|Nitrosomonadales	J	Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit	rpsL	-	-	ko:K02950	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosom_S12_S23
LYD3_k127_1762266_2	614083.AWQR01000005_gene955	2.72e-13	78.0	COG2193@1|root,COG2193@2|Bacteria,1RAQ8@1224|Proteobacteria,2VQHR@28216|Betaproteobacteria,4ADG1@80864|Comamonadaceae	28216|Betaproteobacteria	P	Ferritin, Dps family protein	bfr3	-	1.16.3.1	ko:K03594	ko00860,map00860	-	R00078	RC02758	ko00000,ko00001,ko01000	-	-	-	Ferritin
LYD3_k127_177091_0	1382306.JNIM01000001_gene1023	8.384e-200	638.0	COG1529@1|root,COG1529@2|Bacteria	2|Bacteria	C	xanthine dehydrogenase activity	hcrA	-	1.3.7.9	ko:K04108	ko00362,ko00627,ko01100,ko01120,ko01220,map00362,map00627,map01100,map01120,map01220	-	R05316	RC00490	ko00000,ko00001,ko01000	-	-	-	Ald_Xan_dh_C,Ald_Xan_dh_C2
LYD3_k127_17986_2	522306.CAP2UW1_2047	9.695e-43	158.0	COG0013@1|root,COG0013@2|Bacteria,1MU9A@1224|Proteobacteria,2VH6Z@28216|Betaproteobacteria,1KPQD@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	J	Catalyzes the attachment of alanine to tRNA(Ala) in a two-step reaction alanine is first activated by ATP to form Ala- AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain	alaS	-	6.1.1.7	ko:K01872	ko00970,map00970	M00359,M00360	R03038	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	DHHA1,tRNA-synt_2c,tRNA_SAD
LYD3_k127_17986_1	1218076.BAYB01000012_gene2459	6.181e-58	205.0	COG2050@1|root,COG2050@2|Bacteria,1RGVP@1224|Proteobacteria,2VT4U@28216|Betaproteobacteria,1KHCJ@119060|Burkholderiaceae	28216|Betaproteobacteria	Q	Thioesterase superfamily	-	-	-	-	-	-	-	-	-	-	-	-	4HBT
LYD3_k127_17986_3	1440053.JOEI01000013_gene4934	2.955e-41	158.0	COG0346@1|root,COG0346@2|Bacteria,2II0X@201174|Actinobacteria	201174|Actinobacteria	E	glyoxalase bleomycin resistance protein dioxygenase	gloA_3	-	-	-	-	-	-	-	-	-	-	-	Glyoxalase
LYD3_k127_17986_0	1131814.JAFO01000001_gene3628	1.846e-131	428.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2TR2W@28211|Alphaproteobacteria	28211|Alphaproteobacteria	IQ	COG0318 Acyl-CoA synthetases (AMP-forming) AMP-acid ligases II	-	-	6.2.1.3	ko:K01897	ko00061,ko00071,ko01100,ko01212,ko02024,ko03320,ko04146,ko04216,ko04714,ko04920,map00061,map00071,map01100,map01212,map02024,map03320,map04146,map04216,map04714,map04920	M00086	R01280	RC00004,RC00014	ko00000,ko00001,ko00002,ko01000,ko01004,ko04147	4.C.1.1	-	-	AMP-binding,AMP-binding_C
LYD3_k127_181222_1	1123261.AXDW01000014_gene3288	1.034e-27	114.0	COG2823@1|root,COG2823@2|Bacteria,1N0SU@1224|Proteobacteria,1S926@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Periplasmic or secreted lipoprotein	-	-	-	ko:K04065	-	-	-	-	ko00000	-	-	-	BON
LYD3_k127_181222_0	62928.azo1812	3.149e-190	604.0	COG2204@1|root,COG2204@2|Bacteria,1MU0N@1224|Proteobacteria,2VHSB@28216|Betaproteobacteria,2KU97@206389|Rhodocyclales	206389|Rhodocyclales	T	COG2204 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains	-	-	-	-	-	-	-	-	-	-	-	-	HTH_8,Response_reg,Sigma54_activat
LYD3_k127_1824681_0	1411123.JQNH01000001_gene660	4.872e-200	629.0	COG1653@1|root,COG1653@2|Bacteria,1MVMW@1224|Proteobacteria,2TTMX@28211|Alphaproteobacteria	28211|Alphaproteobacteria	G	ABC-type sugar transport system periplasmic component	-	-	-	ko:K02027,ko:K05813	ko02010,map02010	M00198,M00207	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.1,3.A.1.1.3	-	-	SBP_bac_8
LYD3_k127_1824681_1	1380394.JADL01000007_gene4649	2.336e-127	417.0	COG3842@1|root,COG3842@2|Bacteria,1MU3I@1224|Proteobacteria,2TQMJ@28211|Alphaproteobacteria,2JQQE@204441|Rhodospirillales	204441|Rhodospirillales	E	COG3839 ABC-type sugar transport systems, ATPase components	-	-	3.6.3.20	ko:K05816	ko02010,map02010	M00198	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.1.3	-	-	ABC_tran,TOBE_2
LYD3_k127_1824681_2	1538295.JY96_12505	1.77e-70	242.0	COG0134@1|root,COG0134@2|Bacteria,1MW5K@1224|Proteobacteria,2VIN7@28216|Betaproteobacteria,1KJXI@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	Belongs to the TrpC family	trpC	GO:0003674,GO:0003824,GO:0004425,GO:0016829,GO:0016830,GO:0016831	4.1.1.48	ko:K01609	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00023	R03508	RC00944	ko00000,ko00001,ko00002,ko01000	-	-	-	IGPS
LYD3_k127_1828167_4	1007105.PT7_1918	6.571e-09	56.0	COG1674@1|root,COG1674@2|Bacteria,1MVPI@1224|Proteobacteria,2VHJV@28216|Betaproteobacteria,3T1R4@506|Alcaligenaceae	28216|Betaproteobacteria	D	cell division protein	ftsK	-	-	ko:K03466	-	-	-	-	ko00000,ko03036	3.A.12	-	-	FtsK_4TM,FtsK_SpoIIIE,Ftsk_gamma
LYD3_k127_1828167_3	1123487.KB892846_gene418	3.402e-64	226.0	COG2834@1|root,COG2834@2|Bacteria,1PXDV@1224|Proteobacteria,2VNNH@28216|Betaproteobacteria,2KWH0@206389|Rhodocyclales	206389|Rhodocyclales	M	Participates in the translocation of lipoproteins from the inner membrane to the outer membrane. Only forms a complex with a lipoprotein if the residue after the N-terminal Cys is not an aspartate (The Asp acts as a targeting signal to indicate that the lipoprotein should stay in the inner membrane)	lolA	-	-	ko:K03634	-	-	-	-	ko00000	-	-	-	LolA
LYD3_k127_1828167_0	522306.CAP2UW1_3128	8.596e-200	630.0	COG2256@1|root,COG2256@2|Bacteria,1MUVS@1224|Proteobacteria,2VHN9@28216|Betaproteobacteria,1KPPA@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	L	DNA replication, recombination, and repair	rarA	-	-	ko:K07478	-	-	-	-	ko00000	-	-	-	AAA,AAA_assoc_2,MgsA_C,RuvB_N
LYD3_k127_1828167_1	292415.Tbd_1229	8.556e-190	601.0	COG0172@1|root,COG0172@2|Bacteria,1MUJF@1224|Proteobacteria,2VHJJ@28216|Betaproteobacteria,1KREB@119069|Hydrogenophilales	119069|Hydrogenophilales	J	Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec)	serS	-	6.1.1.11	ko:K01875	ko00970,map00970	M00359,M00360	R03662,R08218	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	Seryl_tRNA_N,tRNA-synt_2b
LYD3_k127_1828167_2	1163617.SCD_n01186	6.774e-91	318.0	COG4623@1|root,COG4623@2|Bacteria,1MWDS@1224|Proteobacteria,2VKSN@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Murein-degrading enzyme that degrades murein glycan strands and insoluble, high-molecular weight murein sacculi, with the concomitant formation of a 1,6-anhydromuramoyl product. Lytic transglycosylases (LTs) play an integral role in the metabolism of the peptidoglycan (PG) sacculus. Their lytic action creates space within the PG sacculus to allow for its expansion as well as for the insertion of various structures such as secretion systems and flagella	mltF	GO:0005575,GO:0005623,GO:0009279,GO:0016020,GO:0019867,GO:0030312,GO:0030313,GO:0031975,GO:0044462,GO:0044464,GO:0071944	-	ko:K18691	-	-	-	-	ko00000,ko01000,ko01011	-	-	-	SBP_bac_3,SLT
LYD3_k127_1838237_1	640081.Dsui_0697	1.975e-184	599.0	COG0515@1|root,COG0515@2|Bacteria,1MV1P@1224|Proteobacteria,2VKJ8@28216|Betaproteobacteria,2KW95@206389|Rhodocyclales	206389|Rhodocyclales	KLT	Protein tyrosine kinase	-	-	2.7.11.1	ko:K12132	-	-	-	-	ko00000,ko01000,ko01001	-	-	-	Pkinase
LYD3_k127_1838237_2	640081.Dsui_0698	2.01e-107	354.0	28P5Y@1|root,2ZC0T@2|Bacteria,1RBDV@1224|Proteobacteria,2VZTY@28216|Betaproteobacteria,2KYJ2@206389|Rhodocyclales	206389|Rhodocyclales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1838237_3	640081.Dsui_0699	1.276e-53	197.0	2DZ3T@1|root,32V6K@2|Bacteria,1N1CD@1224|Proteobacteria,2W3TW@28216|Betaproteobacteria,2KZ3D@206389|Rhodocyclales	206389|Rhodocyclales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1838237_4	1121033.AUCF01000006_gene4195	6.59e-37	146.0	COG1335@1|root,COG1335@2|Bacteria,1MU5N@1224|Proteobacteria,2U9MT@28211|Alphaproteobacteria,2JSNG@204441|Rhodospirillales	204441|Rhodospirillales	Q	COG1335 Amidases related to nicotinamidase	-	-	-	-	-	-	-	-	-	-	-	-	Isochorismatase
LYD3_k127_1838237_0	522306.CAP2UW1_1984	2.703e-225	711.0	COG2368@1|root,COG2368@2|Bacteria,1PEQG@1224|Proteobacteria,2VKCH@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	4-hydroxyphenylacetate	-	-	1.14.14.9,4.2.1.120,5.3.3.3	ko:K00483,ko:K14534	ko00350,ko00650,ko00720,ko01100,ko01120,ko01200,ko01220,map00350,map00650,map00720,map01100,map01120,map01200,map01220	M00374,M00375	R02698,R03031,R03299,R10782	RC00046,RC01857,RC03277	ko00000,ko00001,ko00002,ko01000	-	-	-	HpaB,HpaB_N
LYD3_k127_1859095_1	880072.Desac_2383	3.647e-18	94.0	COG1226@1|root,32Y28@2|Bacteria,1PVKD@1224|Proteobacteria,4379F@68525|delta/epsilon subdivisions,2X2D3@28221|Deltaproteobacteria,2MSI0@213462|Syntrophobacterales	28221|Deltaproteobacteria	P	Ion transport 2 domain protein	-	-	-	-	-	-	-	-	-	-	-	-	Ion_trans_2
LYD3_k127_1859095_0	76114.ebA6545	2.289e-126	415.0	COG3961@1|root,COG3961@2|Bacteria,1MW2F@1224|Proteobacteria,2VIQN@28216|Betaproteobacteria,2KUVZ@206389|Rhodocyclales	206389|Rhodocyclales	C	Thiamine pyrophosphate enzyme, central domain	-	-	4.1.1.74	ko:K04103	ko00380,ko01100,map00380,map01100	-	R01974	RC00506	ko00000,ko00001,ko01000	-	-	-	TPP_enzyme_C,TPP_enzyme_M,TPP_enzyme_N
LYD3_k127_1864237_3	1255043.TVNIR_2606	9.446e-18	85.0	COG0771@1|root,COG0771@2|Bacteria,1MVYD@1224|Proteobacteria,1RP25@1236|Gammaproteobacteria,1WWI1@135613|Chromatiales	135613|Chromatiales	M	Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA)	murD	-	6.3.2.9	ko:K01925	ko00471,ko00550,ko01100,map00471,map00550,map01100	-	R02783	RC00064,RC00141	ko00000,ko00001,ko01000,ko01011	-	-	-	Mur_ligase_C,Mur_ligase_M
LYD3_k127_1864237_0	1131553.JIBI01000019_gene493	5.34e-141	458.0	COG0772@1|root,COG0772@2|Bacteria,1MVDB@1224|Proteobacteria,2VI5Q@28216|Betaproteobacteria,37205@32003|Nitrosomonadales	28216|Betaproteobacteria	D	Peptidoglycan polymerase that is essential for cell division	ftsW	-	-	ko:K03588	ko04112,map04112	-	-	-	ko00000,ko00001,ko02000,ko03036	2.A.103.1	-	-	FTSW_RODA_SPOVE
LYD3_k127_1864237_1	1235457.C404_18960	2.72e-114	379.0	COG0707@1|root,COG0707@2|Bacteria,1MVIB@1224|Proteobacteria,2VH32@28216|Betaproteobacteria,1JZPA@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Cell wall formation. Catalyzes the transfer of a GlcNAc subunit on undecaprenyl-pyrophosphoryl-MurNAc-pentapeptide (lipid intermediate I) to form undecaprenyl-pyrophosphoryl-MurNAc- (pentapeptide)GlcNAc (lipid intermediate II)	murG	-	2.4.1.227	ko:K02563	ko00550,ko01100,ko01502,ko04112,map00550,map01100,map01502,map04112	-	R05032,R05662	RC00005,RC00049	ko00000,ko00001,ko01000,ko01011	-	GT28	-	Glyco_tran_28_C,Glyco_transf_28
LYD3_k127_1864237_2	264198.Reut_A2978	6.658e-60	216.0	COG0773@1|root,COG0773@2|Bacteria,1MV68@1224|Proteobacteria,2VIKZ@28216|Betaproteobacteria,1K0U8@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Belongs to the MurCDEF family	murC	-	6.3.2.8	ko:K01924	ko00471,ko00550,ko01100,map00471,map00550,map01100	-	R03193	RC00064,RC00141	ko00000,ko00001,ko01000,ko01011	-	-	-	Mur_ligase,Mur_ligase_C,Mur_ligase_M
LYD3_k127_186695_4	580332.Slit_2450	7.275e-110	366.0	COG0739@1|root,COG0739@2|Bacteria,1MVTF@1224|Proteobacteria,2VHBS@28216|Betaproteobacteria,44V44@713636|Nitrosomonadales	28216|Betaproteobacteria	M	Peptidase family M23	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_M23
LYD3_k127_186695_3	762376.AXYL_00666	4.291e-111	374.0	COG2377@1|root,COG2377@2|Bacteria,1MV4E@1224|Proteobacteria,2VHCE@28216|Betaproteobacteria,3T1E6@506|Alcaligenaceae	28216|Betaproteobacteria	F	Catalyzes the specific phosphorylation of 1,6-anhydro-N- acetylmuramic acid (anhMurNAc) with the simultaneous cleavage of the 1,6-anhydro ring, generating MurNAc-6-P. Is required for the utilization of anhMurNAc either imported from the medium or derived from its own cell wall murein, and thus plays a role in cell wall recycling	anmK	-	2.7.1.170	ko:K09001	-	-	-	-	ko00000,ko01000	-	-	-	AnmK
LYD3_k127_186695_6	330214.NIDE1073	7.056e-52	184.0	COG3813@1|root,COG3813@2|Bacteria	2|Bacteria	T	Protein conserved in bacteria	MA20_39405	-	-	ko:K09984	-	-	-	-	ko00000	-	-	-	DUF1272
LYD3_k127_186695_0	76114.ebA6722	0.0	1029.0	COG0784@1|root,COG4191@1|root,COG4192@1|root,COG0784@2|Bacteria,COG4191@2|Bacteria,COG4192@2|Bacteria,1RCM9@1224|Proteobacteria,2VJGE@28216|Betaproteobacteria,2KV5M@206389|Rhodocyclales	206389|Rhodocyclales	T	His Kinase A (phosphoacceptor) domain	-	-	2.7.13.3	ko:K02482	-	-	-	-	ko00000,ko01000,ko01001,ko02022	-	-	-	GAF_2,HATPase_c,HisKA,PAS,PAS_3,Response_reg
LYD3_k127_186695_1	76114.ebA6727	1.408e-162	518.0	COG0715@1|root,COG0715@2|Bacteria,1MVJA@1224|Proteobacteria,2VI7R@28216|Betaproteobacteria,2KWH4@206389|Rhodocyclales	206389|Rhodocyclales	P	ABC-type nitrate sulfonate bicarbonate transport	-	-	-	ko:K02051	-	M00188	-	-	ko00000,ko00002,ko02000	3.A.1.16,3.A.1.17	-	-	NMT1_2
LYD3_k127_186695_2	76114.ebA6729	3.999e-113	370.0	COG0745@1|root,COG0745@2|Bacteria,1MY3D@1224|Proteobacteria,2VI6B@28216|Betaproteobacteria,2KUNC@206389|Rhodocyclales	28216|Betaproteobacteria	K	COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain	-	-	-	ko:K02483	-	-	-	-	ko00000,ko02022	-	-	-	Response_reg,Trans_reg_C
LYD3_k127_186695_12	1031711.RSPO_c00389	1.535e-25	115.0	COG1670@1|root,COG1670@2|Bacteria,1QVH4@1224|Proteobacteria,2VQSE@28216|Betaproteobacteria,1KG6J@119060|Burkholderiaceae	28216|Betaproteobacteria	J	N-acetyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_186695_7	349521.HCH_04438	2.453e-51	199.0	COG0596@1|root,COG0596@2|Bacteria,1NCX0@1224|Proteobacteria,1S8EB@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Alpha beta hydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_1,Abhydrolase_6
LYD3_k127_186695_11	596152.DesU5LDRAFT_3377	4.137e-26	109.0	COG5361@1|root,COG5361@2|Bacteria,1NX2A@1224|Proteobacteria,43B28@68525|delta/epsilon subdivisions,2X6G8@28221|Deltaproteobacteria,2MH2P@213115|Desulfovibrionales	28221|Deltaproteobacteria	S	Protein of unknown function (DUF1254)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1214,DUF1254
LYD3_k127_186695_5	522306.CAP2UW1_3027	5.173e-60	209.0	COG0316@1|root,COG0316@2|Bacteria,1RHCW@1224|Proteobacteria,2VR2M@28216|Betaproteobacteria,1KQ1R@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	C	Required for insertion of 4Fe-4S clusters	erpA	-	-	ko:K15724	-	-	-	-	ko00000	-	-	-	Fe-S_biosyn
LYD3_k127_186695_8	580332.Slit_2453	8.73e-38	145.0	COG1664@1|root,COG1664@2|Bacteria,1MZN0@1224|Proteobacteria,2VTZQ@28216|Betaproteobacteria,44WIP@713636|Nitrosomonadales	28216|Betaproteobacteria	M	Polymer-forming cytoskeletal	ccmA	-	-	-	-	-	-	-	-	-	-	-	Bactofilin
LYD3_k127_186695_9	1163617.SCD_n02519	3.292e-33	139.0	28IJP@1|root,2Z8KI@2|Bacteria,1R9DP@1224|Proteobacteria,2VHRX@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_186695_10	522306.CAP2UW1_3026	9.519e-29	115.0	COG0002@1|root,COG0002@2|Bacteria,1MVJ6@1224|Proteobacteria,2VJD7@28216|Betaproteobacteria,1KPQ9@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	E	Catalyzes the NADPH-dependent reduction of N-acetyl-5- glutamyl phosphate to yield N-acetyl-L-glutamate 5-semialdehyde	argC	-	1.2.1.38	ko:K00145	ko00220,ko01100,ko01110,ko01130,ko01210,ko01230,map00220,map01100,map01110,map01130,map01210,map01230	M00028,M00845	R03443	RC00684	ko00000,ko00001,ko00002,ko01000	-	-	-	Semialdhyde_dh,Semialdhyde_dhC
LYD3_k127_18750_6	640081.Dsui_2687	1.739e-73	257.0	COG0750@1|root,COG0750@2|Bacteria,1MU91@1224|Proteobacteria,2VHBW@28216|Betaproteobacteria,2KV3Y@206389|Rhodocyclales	206389|Rhodocyclales	M	zinc metalloprotease	-	-	-	ko:K11749	ko02024,ko04112,map02024,map04112	-	-	-	ko00000,ko00001,ko01000,ko01002	-	-	-	PDZ,PDZ_2,Peptidase_M50
LYD3_k127_18750_0	440512.C211_01317	2.28e-144	471.0	COG0743@1|root,COG0743@2|Bacteria,1MU4G@1224|Proteobacteria,1RNNW@1236|Gammaproteobacteria	1236|Gammaproteobacteria	I	Catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate (MEP)	dxr	GO:0000166,GO:0003674,GO:0003824,GO:0005488,GO:0005515,GO:0006081,GO:0006082,GO:0006090,GO:0006629,GO:0006644,GO:0006720,GO:0006721,GO:0006793,GO:0006796,GO:0008150,GO:0008152,GO:0008299,GO:0008610,GO:0008654,GO:0009058,GO:0009240,GO:0009987,GO:0016114,GO:0016491,GO:0016614,GO:0016616,GO:0019288,GO:0019637,GO:0019682,GO:0019752,GO:0030145,GO:0030604,GO:0032787,GO:0036094,GO:0042802,GO:0043167,GO:0043168,GO:0043169,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044255,GO:0044281,GO:0046490,GO:0046872,GO:0046914,GO:0048037,GO:0050661,GO:0050662,GO:0051483,GO:0051484,GO:0055114,GO:0070402,GO:0071704,GO:0090407,GO:0097159,GO:1901135,GO:1901265,GO:1901363,GO:1901576	1.1.1.267	ko:K00099	ko00900,ko01100,ko01110,ko01130,map00900,map01100,map01110,map01130	M00096	R05688	RC01452	ko00000,ko00001,ko00002,ko01000	-	-	iAPECO1_1312.APECO1_1814,iECOK1_1307.ECOK1_0174,iECS88_1305.ECS88_0183,iUMN146_1321.UM146_23670,iUTI89_1310.UTI89_C0188	DXPR_C,DXP_redisom_C,DXP_reductoisom
LYD3_k127_18750_7	497321.C664_00245	3.14e-61	229.0	COG0575@1|root,COG0575@2|Bacteria,1MWSV@1224|Proteobacteria,2VMM0@28216|Betaproteobacteria,2KW5H@206389|Rhodocyclales	206389|Rhodocyclales	I	Belongs to the CDS family	cdsA	-	2.7.7.41	ko:K00981	ko00564,ko01100,ko01110,ko04070,map00564,map01100,map01110,map04070	M00093	R01799	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	CTP_transf_1
LYD3_k127_18750_4	94624.Bpet2531	6.452e-99	334.0	COG0020@1|root,COG0020@2|Bacteria,1MVP1@1224|Proteobacteria,2VH2E@28216|Betaproteobacteria,3T293@506|Alcaligenaceae	28216|Betaproteobacteria	H	Catalyzes the condensation of isopentenyl diphosphate (IPP) with allylic pyrophosphates generating different type of terpenoids	uppS	-	2.5.1.31	ko:K00806	ko00900,ko01110,map00900,map01110	-	R06447	RC00279,RC02839	ko00000,ko00001,ko01000,ko01006	-	-	-	Prenyltransf
LYD3_k127_18750_5	640512.BC1003_1291	1.575e-81	275.0	COG0233@1|root,COG0233@2|Bacteria,1N66T@1224|Proteobacteria,2VIUA@28216|Betaproteobacteria,1JZWS@119060|Burkholderiaceae	28216|Betaproteobacteria	J	Responsible for the release of ribosomes from messenger RNA at the termination of protein biosynthesis. May increase the efficiency of translation by recycling ribosomes from one round of translation to another	frr	-	-	ko:K02838	-	-	-	-	ko00000,ko03012	-	-	-	RRF
LYD3_k127_18750_2	1120999.JONM01000005_gene3854	2.258e-108	370.0	COG0528@1|root,COG0528@2|Bacteria,1MV3N@1224|Proteobacteria,2VH8A@28216|Betaproteobacteria,2KPP1@206351|Neisseriales	206351|Neisseriales	F	Catalyzes the reversible phosphorylation of UMP to UDP	pyrH	-	2.7.4.22	ko:K09903	ko00240,ko01100,map00240,map01100	-	R00158	RC00002	ko00000,ko00001,ko01000	-	-	-	AA_kinase
LYD3_k127_18750_3	1163617.SCD_n01634	1.265e-105	350.0	COG0264@1|root,COG0264@2|Bacteria,1MUS2@1224|Proteobacteria,2VHSG@28216|Betaproteobacteria	28216|Betaproteobacteria	J	Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome	tsf	-	-	ko:K02357	-	-	-	-	ko00000,ko03012,ko03029	-	-	-	EF_TS
LYD3_k127_18750_1	85643.Tmz1t_2178	2.459e-122	399.0	COG0052@1|root,COG0052@2|Bacteria,1MU33@1224|Proteobacteria,2VI8V@28216|Betaproteobacteria,2KUV5@206389|Rhodocyclales	206389|Rhodocyclales	J	Belongs to the universal ribosomal protein uS2 family	rpsB	-	-	ko:K02967	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_S2
LYD3_k127_1879281_1	864051.BurJ1DRAFT_3342	3.64e-89	300.0	COG1018@1|root,COG1018@2|Bacteria,1REP4@1224|Proteobacteria,2VPWB@28216|Betaproteobacteria	28216|Betaproteobacteria	C	2Fe-2S iron-sulfur cluster binding domain	-	-	1.17.1.1	ko:K00523	ko00520,map00520	-	R03391,R03392	RC00230	ko00000,ko00001,ko01000	-	-	-	FAD_binding_6,Fer2
LYD3_k127_1879281_0	292415.Tbd_2491	1.6e-110	366.0	COG2175@1|root,COG2175@2|Bacteria,1R5KS@1224|Proteobacteria,2VIG6@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	Taurine catabolism dioxygenase TauD, TfdA family	-	-	-	-	-	-	-	-	-	-	-	-	TauD
LYD3_k127_1879281_2	1485544.JQKP01000005_gene307	1.008e-46	175.0	28IET@1|root,2Z8GT@2|Bacteria,1R4FQ@1224|Proteobacteria,2VUGA@28216|Betaproteobacteria,44W4S@713636|Nitrosomonadales	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_1910180_3	264198.Reut_A1435	2.665e-20	98.0	COG0470@1|root,COG0470@2|Bacteria,1MY1W@1224|Proteobacteria,2VNED@28216|Betaproteobacteria,1K0JG@119060|Burkholderiaceae	28216|Betaproteobacteria	L	dna polymerase iii	holB	-	2.7.7.7	ko:K02341	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	DNA_pol3_delta2,DNApol3-delta_C
LYD3_k127_1910180_1	1121035.AUCH01000001_gene1830	1.78e-70	259.0	COG0125@1|root,COG0125@2|Bacteria,1MV9C@1224|Proteobacteria,2VQ24@28216|Betaproteobacteria,2KW0K@206389|Rhodocyclales	206389|Rhodocyclales	F	Phosphorylation of dTMP to form dTDP in both de novo and salvage pathways of dTTP synthesis	tmk	-	2.7.4.9	ko:K00943	ko00240,ko01100,map00240,map01100	M00053	R02094,R02098	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	Thymidylate_kin
LYD3_k127_1910180_0	76114.ebA5414	4.37e-104	350.0	COG1559@1|root,COG1559@2|Bacteria,1MUQF@1224|Proteobacteria,2VHD4@28216|Betaproteobacteria,2KU8Y@206389|Rhodocyclales	206389|Rhodocyclales	S	Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation	mltG	-	-	ko:K07082	-	-	-	-	ko00000	-	-	-	YceG
LYD3_k127_1910180_2	977880.RALTA_A2988	8.552e-64	226.0	COG2165@1|root,COG2165@2|Bacteria,1RBWD@1224|Proteobacteria,2VQMF@28216|Betaproteobacteria,1K70E@119060|Burkholderiaceae	28216|Betaproteobacteria	U	general secretion pathway protein G	gspG	-	-	ko:K02456	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	N_methyl,T2SSG
LYD3_k127_1910180_4	1123261.AXDW01000004_gene2862	0.0005464	46.0	COG2165@1|root,COG2165@2|Bacteria,1N2DZ@1224|Proteobacteria,1T5SG@1236|Gammaproteobacteria,1X7WS@135614|Xanthomonadales	135614|Xanthomonadales	NU	Prokaryotic N-terminal methylation motif	-	-	-	-	-	-	-	-	-	-	-	-	GspH,N_methyl
LYD3_k127_19537_0	375286.mma_3018	5.013e-166	539.0	COG0472@1|root,COG0472@2|Bacteria,1MUTK@1224|Proteobacteria,2VHAP@28216|Betaproteobacteria,473X9@75682|Oxalobacteraceae	28216|Betaproteobacteria	M	First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan	mraY	-	2.7.8.13	ko:K01000	ko00550,ko01100,ko01502,map00550,map01100,map01502	-	R05629,R05630	RC00002,RC02753	ko00000,ko00001,ko01000,ko01011	9.B.146	-	-	Glycos_transf_4,MraY_sig1
LYD3_k127_19537_2	1192124.LIG30_3730	8.437e-141	466.0	COG0770@1|root,COG0770@2|Bacteria,1QTSF@1224|Proteobacteria,2VH2H@28216|Betaproteobacteria,1K0FD@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Involved in cell wall formation. Catalyzes the final step in the synthesis of UDP-N-acetylmuramoyl-pentapeptide, the precursor of murein	murF	-	6.3.2.10,6.3.2.13	ko:K01929,ko:K15792	ko00300,ko00550,ko01100,ko01502,map00300,map00550,map01100,map01502	-	R02788,R04573,R04617	RC00064,RC00090,RC00141	ko00000,ko00001,ko01000,ko01011	-	-	-	Mur_ligase,Mur_ligase_C,Mur_ligase_M
LYD3_k127_19537_1	582744.Msip34_0455	2.887e-149	490.0	COG0769@1|root,COG0769@2|Bacteria,1MU6P@1224|Proteobacteria,2WGFS@28216|Betaproteobacteria,2KMDD@206350|Nitrosomonadales	206350|Nitrosomonadales	M	Catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanyl-D-glutamate (UMAG) in the biosynthesis of bacterial cell-wall peptidoglycan	murE	-	6.3.2.13	ko:K01928	ko00300,ko00550,map00300,map00550	-	R02788	RC00064,RC00090	ko00000,ko00001,ko01000,ko01011	-	-	-	Mur_ligase,Mur_ligase_C,Mur_ligase_M
LYD3_k127_19537_3	582744.Msip34_0454	1.544e-25	106.0	COG0768@1|root,COG0768@2|Bacteria,1MUNY@1224|Proteobacteria,2VIZM@28216|Betaproteobacteria,2KM24@206350|Nitrosomonadales	206350|Nitrosomonadales	M	Catalyzes cross-linking of the peptidoglycan cell wall at the division septum	ftsI	-	3.4.16.4	ko:K03587	ko00550,ko01501,map00550,map01501	-	-	-	ko00000,ko00001,ko01000,ko01011,ko03036	-	-	-	PBP_dimer,Transpeptidase
LYD3_k127_19748_0	1131553.JIBI01000009_gene1231	2.378e-268	834.0	COG1138@1|root,COG1138@2|Bacteria,1MUQS@1224|Proteobacteria,2VHUE@28216|Betaproteobacteria,3725U@32003|Nitrosomonadales	28216|Betaproteobacteria	O	Cytochrome c-type biogenesis protein CcmF	ccmF	-	-	ko:K02198	-	-	-	-	ko00000,ko02000	9.B.14.1	-	-	CcmF_C,Cytochrom_C_asm
LYD3_k127_19748_2	1000565.METUNv1_01596	7.293e-74	252.0	COG0526@1|root,COG0526@2|Bacteria,1RI3N@1224|Proteobacteria,2VR8D@28216|Betaproteobacteria,2KW3E@206389|Rhodocyclales	206389|Rhodocyclales	CO	Periplasmic protein thiol disulfide oxidoreductase DsbE	ccmG	-	-	ko:K02199	-	-	-	-	ko00000,ko03110	-	-	-	Redoxin
LYD3_k127_19748_4	1000565.METUNv1_01595	2.56e-43	171.0	COG3088@1|root,COG3088@2|Bacteria,1MZZ5@1224|Proteobacteria,2VU7C@28216|Betaproteobacteria,2KX2W@206389|Rhodocyclales	206389|Rhodocyclales	P	subunit of a heme lyase	-	-	-	ko:K02200	-	-	-	-	ko00000	-	-	-	CcmH
LYD3_k127_19748_1	1288494.EBAPG3_12740	1.85e-80	291.0	COG4235@1|root,COG4235@2|Bacteria,1MY4J@1224|Proteobacteria,2VQ05@28216|Betaproteobacteria,3722S@32003|Nitrosomonadales	28216|Betaproteobacteria	O	Tetratricopeptide repeat	cycH	-	-	ko:K02200	-	-	-	-	ko00000	-	-	-	TPR_16,TPR_2
LYD3_k127_19748_3	742823.HMPREF9465_00041	3.526e-73	254.0	COG3303@1|root,COG3303@2|Bacteria,1MVJT@1224|Proteobacteria,2W17H@28216|Betaproteobacteria,4PQ4C@995019|Sutterellaceae	28216|Betaproteobacteria	C	Catalyzes the reduction of nitrite to ammonia, consuming six electrons in the process	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrom_C552
LYD3_k127_1986374_0	1131553.JIBI01000038_gene2102	2.879e-207	651.0	COG0305@1|root,COG0305@2|Bacteria,1MUG9@1224|Proteobacteria,2VIKN@28216|Betaproteobacteria,372T4@32003|Nitrosomonadales	28216|Betaproteobacteria	L	it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with DnaC protein, primase, and other prepriming proteins	dnaB	-	3.6.4.12	ko:K02314	ko03030,ko04112,map03030,map04112	-	-	-	ko00000,ko00001,ko01000,ko03032	-	-	-	DnaB,DnaB_C
LYD3_k127_2008187_1	864051.BurJ1DRAFT_2067	1.092e-150	484.0	COG0111@1|root,COG0111@2|Bacteria,1MU5Z@1224|Proteobacteria,2VIHG@28216|Betaproteobacteria,1KMB7@119065|unclassified Burkholderiales	28216|Betaproteobacteria	EH	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain	serA	-	1.1.1.399,1.1.1.95	ko:K00058	ko00260,ko00680,ko01100,ko01120,ko01130,ko01200,ko01230,map00260,map00680,map01100,map01120,map01130,map01200,map01230	M00020	R01513	RC00031	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	2-Hacid_dh,2-Hacid_dh_C
LYD3_k127_2008187_4	1163617.SCD_n01991	1.1e-80	275.0	28PU4@1|root,2ZCF6@2|Bacteria,1RBK2@1224|Proteobacteria,2VQ65@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2008187_0	76114.ebA3448	1.444e-216	684.0	COG0477@1|root,COG2814@2|Bacteria,1MU1I@1224|Proteobacteria,2VJGS@28216|Betaproteobacteria,2KUQY@206389|Rhodocyclales	206389|Rhodocyclales	EGP	Major Facilitator Superfamily	emrB	-	-	ko:K03446	-	M00701	-	-	ko00000,ko00002,ko02000	2.A.1.3	-	-	MFS_1
LYD3_k127_2008187_2	1504672.669786561	2.586e-139	455.0	COG1566@1|root,COG1566@2|Bacteria,1MU7I@1224|Proteobacteria,2VHA2@28216|Betaproteobacteria,4AAZA@80864|Comamonadaceae	28216|Betaproteobacteria	V	secretion protein HlyD family	emrA	-	-	ko:K03543	-	M00701	-	-	ko00000,ko00002,ko02000	8.A.1.1	-	-	Biotin_lipoyl_2,HlyD,HlyD_3,HlyD_D23
LYD3_k127_2008187_3	742159.HMPREF0004_2461	3.536e-136	449.0	COG1538@1|root,COG1538@2|Bacteria,1MUZZ@1224|Proteobacteria,2VH6M@28216|Betaproteobacteria,3T2PD@506|Alcaligenaceae	28216|Betaproteobacteria	MU	COG1538 Outer membrane protein	-	-	-	-	-	-	-	-	-	-	-	-	OEP
LYD3_k127_2008187_6	76114.ebA3444	8.654e-35	145.0	COG1846@1|root,COG1846@2|Bacteria,1N7BV@1224|Proteobacteria,2VU53@28216|Betaproteobacteria,2KX8Y@206389|Rhodocyclales	206389|Rhodocyclales	K	helix_turn_helix multiple antibiotic resistance protein	-	-	-	-	-	-	-	-	-	-	-	-	MarR
LYD3_k127_2008187_7	243365.CV_2779	3.308e-15	80.0	2ETDF@1|root,33KX8@2|Bacteria,1NJSQ@1224|Proteobacteria,2W5N4@28216|Betaproteobacteria,2KTKR@206351|Neisseriales	206351|Neisseriales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2008187_5	1500894.JQNN01000001_gene578	2.241e-43	178.0	COG5001@1|root,COG5001@2|Bacteria,1MU2C@1224|Proteobacteria,2VH3V@28216|Betaproteobacteria,475B3@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	Putative diguanylate phosphodiesterase	-	-	-	-	-	-	-	-	-	-	-	-	EAL,GAF_2,GGDEF,PAS_4
LYD3_k127_2012426_4	85643.Tmz1t_1226	1.096e-49	179.0	COG0741@1|root,COG0741@2|Bacteria,1R666@1224|Proteobacteria,2VHI4@28216|Betaproteobacteria,2KW2B@206389|Rhodocyclales	206389|Rhodocyclales	M	COG0741 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM invasin domains)	-	-	-	-	-	-	-	-	-	-	-	-	SLT
LYD3_k127_2012426_1	522306.CAP2UW1_0296	1.787e-89	306.0	COG0008@1|root,COG0008@2|Bacteria,1MUN7@1224|Proteobacteria,2VHYK@28216|Betaproteobacteria,1KQNW@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	J	Catalyzes the tRNA-independent activation of glutamate in presence of ATP and the subsequent transfer of glutamate onto a tRNA(Asp). Glutamate is transferred on the 2-amino-5-(4,5- dihydroxy-2-cyclopenten-1-yl) moiety of the queuosine in the wobble position of the QUC anticodon	gluQ	-	-	ko:K01894	-	-	-	-	ko00000,ko01000,ko01007,ko03016	-	-	-	tRNA-synt_1c
LYD3_k127_2012426_2	580332.Slit_0387	1.407e-69	256.0	COG5405@1|root,COG5405@2|Bacteria,1RAFD@1224|Proteobacteria,2VMEF@28216|Betaproteobacteria	28216|Betaproteobacteria	O	PFAM 20S proteasome, A and B subunits	-	-	3.4.25.2	ko:K01419	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Proteasome
LYD3_k127_2012426_3	580332.Slit_1325	1.557e-67	241.0	COG1281@1|root,COG1281@2|Bacteria,1MUMU@1224|Proteobacteria,2VI8B@28216|Betaproteobacteria,44V88@713636|Nitrosomonadales	28216|Betaproteobacteria	O	Redox regulated molecular chaperone. Protects both thermally unfolding and oxidatively damaged proteins from irreversible aggregation. Plays an important role in the bacterial defense system toward oxidative stress	hslO	-	-	ko:K04083	-	-	-	-	ko00000,ko03110	-	-	-	HSP33
LYD3_k127_2012426_5	1123257.AUFV01000022_gene16	2.086e-45	183.0	COG2808@1|root,COG2808@2|Bacteria,1N1B9@1224|Proteobacteria,1S7MT@1236|Gammaproteobacteria,1X6HS@135614|Xanthomonadales	135614|Xanthomonadales	K	transcriptional regulator	paiB	-	-	ko:K07734	-	-	-	-	ko00000,ko03000	-	-	-	FMN_bind_2
LYD3_k127_2012426_7	1158146.KB907122_gene464	1.72e-24	111.0	COG1188@1|root,COG1188@2|Bacteria,1MZR6@1224|Proteobacteria,1S8VU@1236|Gammaproteobacteria,1WYI6@135613|Chromatiales	135613|Chromatiales	J	Belongs to the HSP15 family	-	-	-	ko:K04762	-	-	-	-	ko00000,ko03110	-	-	-	S4
LYD3_k127_2012426_6	983917.RGE_44890	4.59e-43	170.0	COG0789@1|root,COG5012@1|root,COG0789@2|Bacteria,COG5012@2|Bacteria,1R2NF@1224|Proteobacteria,2VJDG@28216|Betaproteobacteria,1KJT9@119065|unclassified Burkholderiales	28216|Betaproteobacteria	K	B12 binding domain	-	-	-	ko:K22491	-	-	-	-	ko00000,ko03000	-	-	-	B12-binding,B12-binding_2,MerR_1
LYD3_k127_2012426_0	1095769.CAHF01000010_gene1221	1.159e-204	653.0	COG0365@1|root,COG0365@2|Bacteria,1MUF5@1224|Proteobacteria,2VJ5E@28216|Betaproteobacteria,475GZ@75682|Oxalobacteraceae	28216|Betaproteobacteria	I	AMP-binding enzyme C-terminal domain	bclA_2	-	6.2.1.1	ko:K01895	ko00010,ko00620,ko00640,ko00680,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00620,map00640,map00680,map00720,map01100,map01110,map01120,map01130,map01200	M00357	R00235,R00236,R00316,R00926,R01354	RC00004,RC00012,RC00043,RC00070,RC02746,RC02816	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_2015706_0	1255043.TVNIR_1163	5.719e-164	539.0	COG0438@1|root,COG0438@2|Bacteria,1RF3D@1224|Proteobacteria,1S2YK@1236|Gammaproteobacteria,1WY5B@135613|Chromatiales	135613|Chromatiales	M	PFAM Glycosyl transferase, group 1	-	-	-	-	-	-	-	-	-	-	-	-	Glycos_transf_1
LYD3_k127_2015706_1	1283283.ATXA01000010_gene4582	7.976e-06	48.0	COG1835@1|root,COG1835@2|Bacteria	2|Bacteria	I	transferase activity, transferring acyl groups other than amino-acyl groups	-	-	-	-	-	-	-	-	-	-	-	-	Acyl_transf_3,OpgC_C
LYD3_k127_2023523_4	1163617.SCD_n02795	1.504e-11	66.0	COG3071@1|root,COG3071@2|Bacteria,1MU7A@1224|Proteobacteria,2VK6P@28216|Betaproteobacteria	28216|Betaproteobacteria	H	HemY domain protein	hemY	-	-	ko:K02498	-	-	-	-	ko00000	-	-	-	HemY_N,TPR_12
LYD3_k127_2023523_0	1123393.KB891316_gene1923	5.846e-151	486.0	COG0543@1|root,COG0633@1|root,COG0543@2|Bacteria,COG0633@2|Bacteria,1MV72@1224|Proteobacteria,2VI9K@28216|Betaproteobacteria,1KRC9@119069|Hydrogenophilales	119069|Hydrogenophilales	CH	Oxidoreductase FAD-binding domain	-	-	1.17.1.1	ko:K00523	ko00520,map00520	-	R03391,R03392	RC00230	ko00000,ko00001,ko01000	-	-	-	FAD_binding_6,Fer2,NAD_binding_1
LYD3_k127_2023523_2	62928.azo3495	1.764e-92	314.0	COG0451@1|root,COG0451@2|Bacteria,1MWVJ@1224|Proteobacteria,2VJ3T@28216|Betaproteobacteria,2KUSE@206389|Rhodocyclales	206389|Rhodocyclales	GM	epimerase dehydratase	-	-	-	-	-	-	-	-	-	-	-	-	Epimerase,NAD_binding_10
LYD3_k127_2023523_1	388051.AUFE01000045_gene2371	6.786e-109	362.0	COG0382@1|root,COG0382@2|Bacteria,1MV4Q@1224|Proteobacteria,2VHEU@28216|Betaproteobacteria,1K3QR@119060|Burkholderiaceae	28216|Betaproteobacteria	H	Catalyzes the prenylation of para-hydroxybenzoate (PHB) with an all-trans polyprenyl group. Mediates the second step in the final reaction sequence of ubiquinone-8 (UQ-8) biosynthesis, which is the condensation of the polyisoprenoid side chain with PHB, generating the first membrane-bound Q intermediate 3- octaprenyl-4-hydroxybenzoate	ubiA	-	2.5.1.39	ko:K03179	ko00130,ko01100,ko01110,map00130,map01100,map01110	M00117	R05000,R05615	RC00209,RC02895	ko00000,ko00001,ko00002,ko01000,ko01006	-	-	-	UbiA
LYD3_k127_2023523_3	1070319.CAGGBEG34_240064	5.713e-50	188.0	COG3663@1|root,COG3663@2|Bacteria,1REPV@1224|Proteobacteria,2VRAT@28216|Betaproteobacteria,1K7EX@119060|Burkholderiaceae	28216|Betaproteobacteria	L	glycosylase	mug	-	3.2.2.28	ko:K03649	ko03410,map03410	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	UDG
LYD3_k127_2025277_5	756067.MicvaDRAFT_4211	1.905e-14	74.0	COG3837@1|root,COG3837@2|Bacteria,1G5P0@1117|Cyanobacteria,1HBAN@1150|Oscillatoriales	1117|Cyanobacteria	S	Cupin 2, conserved barrel	-	-	-	-	-	-	-	-	-	-	-	-	Cupin_2
LYD3_k127_2025277_4	1163617.SCD_n02080	3.662e-24	107.0	COG3671@1|root,COG3671@2|Bacteria,1N51H@1224|Proteobacteria,2VUKZ@28216|Betaproteobacteria	28216|Betaproteobacteria	O	membrane	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2025277_2	1288494.EBAPG3_26530	3.21e-110	393.0	COG2027@1|root,COG2027@2|Bacteria,1MW40@1224|Proteobacteria,2VH20@28216|Betaproteobacteria,3726P@32003|Nitrosomonadales	28216|Betaproteobacteria	M	PFAM Peptidase S13, D-Ala-D-Ala carboxypeptidase C	dacB	-	3.4.16.4	ko:K07259	ko00550,map00550	-	-	-	ko00000,ko00001,ko01000,ko01002,ko01011	-	-	-	Peptidase_S13
LYD3_k127_2025277_0	580332.Slit_0184	4.257e-186	613.0	COG0161@1|root,COG0161@2|Bacteria,1MU2N@1224|Proteobacteria,2VKJI@28216|Betaproteobacteria,44VNF@713636|Nitrosomonadales	28216|Betaproteobacteria	H	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family	bioA	-	2.6.1.62	ko:K00833	ko00780,ko01100,map00780,map01100	M00123,M00573,M00577	R03231	RC00006,RC00887	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_3
LYD3_k127_2025277_1	264198.Reut_B5258	1.525e-173	574.0	COG1752@1|root,COG4775@1|root,COG1752@2|Bacteria,COG4775@2|Bacteria,1MUM9@1224|Proteobacteria,2VJRI@28216|Betaproteobacteria	28216|Betaproteobacteria	M	surface antigen variable number repeat protein	-	-	-	ko:K07001	-	-	-	-	ko00000	-	-	-	Bac_surface_Ag,POTRA,Patatin
LYD3_k127_2025277_3	1265502.KB905953_gene766	5.166e-33	135.0	COG2353@1|root,COG2353@2|Bacteria,1RJFZ@1224|Proteobacteria,2VQHC@28216|Betaproteobacteria,4ADGG@80864|Comamonadaceae	28216|Betaproteobacteria	S	Belongs to the UPF0312 family	-	-	-	-	-	-	-	-	-	-	-	-	YceI
LYD3_k127_2025753_4	56780.SYN_01954	1.949e-56	204.0	COG4585@1|root,COG4585@2|Bacteria,1MWPN@1224|Proteobacteria,42RUN@68525|delta/epsilon subdivisions,2WNJZ@28221|Deltaproteobacteria,2MR4S@213462|Syntrophobacterales	28221|Deltaproteobacteria	T	Histidine kinase	-	-	-	-	-	-	-	-	-	-	-	-	CHASE4,HAMP,HATPase_c,HisKA_3,PAS_3,PAS_4,PAS_9
LYD3_k127_2025753_7	631362.Thi970DRAFT_01806	1.47e-14	80.0	2C5P4@1|root,3310H@2|Bacteria,1N6V1@1224|Proteobacteria,1S6FW@1236|Gammaproteobacteria,1WYIC@135613|Chromatiales	135613|Chromatiales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2025753_3	1123393.KB891330_gene871	6.32e-96	321.0	COG3134@1|root,COG3134@2|Bacteria,1MY27@1224|Proteobacteria,2VMUB@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Beta/gamma crystallins	-	-	-	-	-	-	-	-	-	-	-	-	Crystall,Rick_17kDa_Anti
LYD3_k127_2025753_6	1123261.AXDW01000009_gene158	1.806e-16	87.0	COG2193@1|root,COG2193@2|Bacteria,1RAQ8@1224|Proteobacteria,1S2G2@1236|Gammaproteobacteria,1X60R@135614|Xanthomonadales	135614|Xanthomonadales	P	Bacterioferritin (cytochrome b1)	-	-	1.16.3.1	ko:K03594	ko00860,map00860	-	R00078	RC02758	ko00000,ko00001,ko01000	-	-	-	Ferritin
LYD3_k127_2025753_5	1158292.JPOE01000002_gene2916	4.878e-44	174.0	COG1340@1|root,COG1340@2|Bacteria,1R1VF@1224|Proteobacteria,2WI5X@28216|Betaproteobacteria,1KMQ2@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Ion transport protein	-	-	-	-	-	-	-	-	-	-	-	-	Ion_trans_2
LYD3_k127_2025753_1	1156919.QWC_22664	7.293e-178	567.0	COG0683@1|root,COG0683@2|Bacteria,1MXR4@1224|Proteobacteria,2VJXR@28216|Betaproteobacteria,3T1CM@506|Alcaligenaceae	28216|Betaproteobacteria	E	branched-chain amino acid	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_2025753_2	76114.ebA2066	1.237e-167	556.0	COG1804@1|root,COG1804@2|Bacteria,1MU2K@1224|Proteobacteria,2VHFW@28216|Betaproteobacteria,2KXPJ@206389|Rhodocyclales	28216|Betaproteobacteria	C	CoA-transferase family III	-	-	-	-	-	-	-	-	-	-	-	-	CoA_transf_3
LYD3_k127_2025753_0	76114.ebA2064	1.145e-199	628.0	COG1529@1|root,COG1529@2|Bacteria,1MUEA@1224|Proteobacteria,2VIR8@28216|Betaproteobacteria,2KYPD@206389|Rhodocyclales	206389|Rhodocyclales	C	Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain	-	-	-	-	-	-	-	-	-	-	-	-	Ald_Xan_dh_C,Ald_Xan_dh_C2
LYD3_k127_2028933_1	648757.Rvan_0038	2.707e-36	140.0	COG1775@1|root,COG1775@2|Bacteria,1NKED@1224|Proteobacteria,2U31W@28211|Alphaproteobacteria	28211|Alphaproteobacteria	E	benzoyl-CoA reductase	-	-	1.3.7.8	ko:K04113	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	M00541	R02451	RC00002,RC01839	ko00000,ko00001,ko00002,ko01000	-	-	-	HGD-D
LYD3_k127_2028933_0	1232410.KI421421_gene3270	3.129e-182	577.0	COG1775@1|root,COG1775@2|Bacteria,1NNW9@1224|Proteobacteria,42RTN@68525|delta/epsilon subdivisions,2WNYI@28221|Deltaproteobacteria,43V0Q@69541|Desulfuromonadales	28221|Deltaproteobacteria	E	2-hydroxyglutaryl-CoA dehydratase, D-component	-	-	1.3.7.8	ko:K04112	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	M00541	R02451	RC00002,RC01839	ko00000,ko00001,ko00002,ko01000	-	-	-	HGD-D
LYD3_k127_2028933_2	1232410.KI421412_gene165	8.333e-36	139.0	COG1024@1|root,COG1024@2|Bacteria,1R8QP@1224|Proteobacteria,42S3Y@68525|delta/epsilon subdivisions,2WNXJ@28221|Deltaproteobacteria,43UFV@69541|Desulfuromonadales	28221|Deltaproteobacteria	I	Enoyl-CoA hydratase/isomerase	bamR	-	4.2.1.100	ko:K07537	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	M00541	R05597	RC03168	ko00000,ko00001,ko00002,ko01000	-	-	-	ECH_1
LYD3_k127_2029396_1	1123354.AUDR01000014_gene1017	1.714e-122	403.0	COG0123@1|root,COG0123@2|Bacteria,1MU7P@1224|Proteobacteria,2VIK8@28216|Betaproteobacteria,1KRDA@119069|Hydrogenophilales	119069|Hydrogenophilales	BQ	Histone deacetylase domain	-	-	-	-	-	-	-	-	-	-	-	-	Hist_deacetyl
LYD3_k127_2029396_3	1123368.AUIS01000009_gene2454	2.759e-97	327.0	COG1131@1|root,COG1131@2|Bacteria,1MUX3@1224|Proteobacteria,1T1HN@1236|Gammaproteobacteria	1236|Gammaproteobacteria	V	ABC-type multidrug transport system ATPase component	-	-	-	ko:K01990	-	M00254	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC_tran
LYD3_k127_2029396_4	1123368.AUIS01000009_gene2453	2.445e-94	317.0	COG0842@1|root,COG0842@2|Bacteria,1MUF4@1224|Proteobacteria,1T54P@1236|Gammaproteobacteria	1236|Gammaproteobacteria	V	ABC-2 type transporter	-	-	-	-	-	-	-	-	-	-	-	-	ABC2_membrane
LYD3_k127_2029396_5	1288494.EBAPG3_24970	1.045e-29	121.0	COG3737@1|root,COG3737@2|Bacteria,1N083@1224|Proteobacteria,2VUF2@28216|Betaproteobacteria,373I3@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Protein of unknown function (DUF498/DUF598)	-	-	-	-	-	-	-	-	-	-	-	-	DUF498
LYD3_k127_2029396_0	1437824.BN940_12486	2.095e-211	662.0	COG0436@1|root,COG0436@2|Bacteria,1MWS8@1224|Proteobacteria,2VI7S@28216|Betaproteobacteria,3T1HH@506|Alcaligenaceae	28216|Betaproteobacteria	E	Aminotransferase	alaC	-	-	ko:K14261	-	-	-	-	ko00000,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_2029396_2	1123392.AQWL01000004_gene2499	3.749e-122	395.0	COG0436@1|root,COG0436@2|Bacteria,1MW0Z@1224|Proteobacteria,2VH4Z@28216|Betaproteobacteria,1KRB5@119069|Hydrogenophilales	119069|Hydrogenophilales	E	DegT/DnrJ/EryC1/StrS aminotransferase family	-	-	2.6.1.2,2.6.1.66	ko:K14260	ko00220,ko00250,ko00290,ko01100,ko01110,ko01130,ko01210,ko01230,map00220,map00250,map00290,map01100,map01110,map01130,map01210,map01230	-	R00258,R01215	RC00006,RC00008,RC00036	ko00000,ko00001,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_2031924_3	105559.Nwat_0588	3.281e-85	285.0	COG1611@1|root,COG1611@2|Bacteria,1MU6N@1224|Proteobacteria,1RSPA@1236|Gammaproteobacteria,1WX5Y@135613|Chromatiales	135613|Chromatiales	S	PFAM conserved	-	-	3.2.2.10	ko:K06966	ko00230,ko00240,map00230,map00240	-	R00182,R00510	RC00063,RC00318	ko00000,ko00001,ko01000	-	-	-	Lysine_decarbox
LYD3_k127_2031924_4	640081.Dsui_0457	1.279e-22	101.0	2C1YJ@1|root,32ZXK@2|Bacteria,1N98H@1224|Proteobacteria,2VVT5@28216|Betaproteobacteria,2KXDS@206389|Rhodocyclales	206389|Rhodocyclales	S	Protein of unknown function (DUF2782)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2782
LYD3_k127_2031924_2	1485544.JQKP01000002_gene1448	1.931e-96	326.0	COG2334@1|root,COG2334@2|Bacteria,1MUKJ@1224|Proteobacteria,2VH2I@28216|Betaproteobacteria,44V2D@713636|Nitrosomonadales	28216|Betaproteobacteria	H	Belongs to the pseudomonas-type ThrB family	thrB	-	2.7.1.39	ko:K02204	ko00260,ko01100,ko01110,ko01120,ko01230,map00260,map01100,map01110,map01120,map01230	M00018	R01771	RC00002,RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	APH
LYD3_k127_2031924_5	1121403.AUCV01000012_gene4050	4.008e-14	85.0	COG5473@1|root,COG5473@2|Bacteria	2|Bacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	DUF2189
LYD3_k127_2031924_0	1123392.AQWL01000005_gene3196	6.269e-285	894.0	COG0210@1|root,COG0210@2|Bacteria,1MU0G@1224|Proteobacteria,2VH4I@28216|Betaproteobacteria,1KSQ2@119069|Hydrogenophilales	119069|Hydrogenophilales	L	UvrD-like helicase C-terminal domain	-	-	3.6.4.12	ko:K03657	ko03420,ko03430,map03420,map03430	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	UvrD-helicase,UvrD_C
LYD3_k127_2031924_1	1163617.SCD_n02840	1.197e-164	531.0	COG0548@1|root,COG1246@1|root,COG0548@2|Bacteria,COG1246@2|Bacteria,1MUUP@1224|Proteobacteria,2VGZC@28216|Betaproteobacteria	28216|Betaproteobacteria	E	Belongs to the acetyltransferase family. ArgA subfamily	argA	-	2.3.1.1	ko:K14682	ko00220,ko01100,ko01110,ko01130,ko01210,ko01230,map00220,map01100,map01110,map01130,map01210,map01230	M00028	R00259	RC00004,RC00064	ko00000,ko00001,ko00002,ko01000	-	-	-	AA_kinase,Acetyltransf_1
LYD3_k127_2040560_0	748280.NH8B_2133	1.505e-252	794.0	COG3158@1|root,COG3158@2|Bacteria,1MUVH@1224|Proteobacteria,2VH9I@28216|Betaproteobacteria,2KPED@206351|Neisseriales	28216|Betaproteobacteria	P	Transport of potassium into the cell	kup	-	-	ko:K03549	-	-	-	-	ko00000,ko02000	2.A.72	-	-	K_trans
LYD3_k127_2040560_3	1198452.Jab_2c29250	4.831e-100	335.0	COG0745@1|root,COG0745@2|Bacteria,1MWZ5@1224|Proteobacteria,2VIM1@28216|Betaproteobacteria,473RV@75682|Oxalobacteraceae	28216|Betaproteobacteria	K	Transcriptional regulatory protein, C terminal	kdpE	-	-	ko:K07667	ko02020,ko02024,map02020,map02024	M00454	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	Response_reg,Trans_reg_C
LYD3_k127_2040560_1	375286.mma_1820	2.741e-182	586.0	COG0642@1|root,COG2205@2|Bacteria,1MUZQ@1224|Proteobacteria,2VH62@28216|Betaproteobacteria,4727F@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	Domain of unknown function (DUF4118)	kdpD	-	2.7.13.3	ko:K07646	ko02020,map02020	M00454	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	DUF4118,GAF_3,HATPase_c,HisKA,KdpD,Usp
LYD3_k127_2040560_4	522306.CAP2UW1_3340	6.264e-76	270.0	COG1162@1|root,COG1162@2|Bacteria,1MUEF@1224|Proteobacteria,2VINY@28216|Betaproteobacteria,1KQ0D@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Helps release RbfA from mature subunits. May play a role in the assembly of ribosomal proteins into the subunit. Circularly permuted GTPase that catalyzes slow GTP hydrolysis, GTPase activity is stimulated by the 30S ribosomal subunit	rsgA	-	3.1.3.100	ko:K06949	ko00730,ko01100,map00730,map01100	-	R00615,R02135	RC00002,RC00017	ko00000,ko00001,ko01000,ko03009	-	-	-	RsgA_GTPase
LYD3_k127_2040560_6	391615.ABSJ01000002_gene490	4.263e-28	123.0	COG2154@1|root,COG2154@2|Bacteria,1RH99@1224|Proteobacteria,1SAUS@1236|Gammaproteobacteria	1236|Gammaproteobacteria	H	pterin-4-alpha-carbinolamine dehydratase	phhB	GO:0003674,GO:0003824,GO:0006066,GO:0006725,GO:0006729,GO:0006732,GO:0006807,GO:0008124,GO:0008150,GO:0008152,GO:0009058,GO:0009108,GO:0009987,GO:0016829,GO:0016835,GO:0016836,GO:0017144,GO:0018130,GO:0019438,GO:0019751,GO:0034311,GO:0034312,GO:0034641,GO:0042558,GO:0042559,GO:0044237,GO:0044249,GO:0044271,GO:0044281,GO:0044283,GO:0046146,GO:0046165,GO:0046173,GO:0046483,GO:0051186,GO:0051188,GO:0071704,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1901615,GO:1901617	4.2.1.96	ko:K01724	ko00790,map00790	-	R04734	RC01208	ko00000,ko00001,ko01000,ko04147	-	-	-	Pterin_4a
LYD3_k127_2040560_7	1123392.AQWL01000001_gene1593	8.993e-22	100.0	COG2010@1|root,COG2010@2|Bacteria,1N71Z@1224|Proteobacteria,2VWE5@28216|Betaproteobacteria,1KT8P@119069|Hydrogenophilales	119069|Hydrogenophilales	C	Cytochrome c	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2040560_2	1500894.JQNN01000001_gene452	4.264e-143	471.0	COG0501@1|root,COG0501@2|Bacteria,1MUXT@1224|Proteobacteria,2VI1Y@28216|Betaproteobacteria,4725U@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	CAAX prenyl protease N-terminal, five membrane helices	htpX_2	-	3.4.24.84	ko:K06013	ko00900,ko01130,map00900,map01130	-	R09845	RC00141	ko00000,ko00001,ko01000,ko01002,ko04147	-	-	-	Peptidase_M48,Peptidase_M48_N
LYD3_k127_2040560_5	640081.Dsui_3222	1.822e-29	119.0	COG1949@1|root,COG1949@2|Bacteria,1R9WX@1224|Proteobacteria,2VIA2@28216|Betaproteobacteria,2KW4Q@206389|Rhodocyclales	206389|Rhodocyclales	A	3'-to-5' exoribonuclease specific for small oligoribonucleotides	orn	-	-	ko:K13288	ko03008,map03008	-	-	-	ko00000,ko00001,ko01000,ko03009,ko03019	-	-	-	RNase_T
LYD3_k127_2045082_3	765912.Thimo_2582	2.37e-07	53.0	COG0488@1|root,COG0488@2|Bacteria,1MU37@1224|Proteobacteria,1RPCU@1236|Gammaproteobacteria,1WWF4@135613|Chromatiales	135613|Chromatiales	S	ABC transporter	-	-	-	ko:K15738	-	-	-	-	ko00000,ko02000	3.A.1.120.6	-	-	ABC_tran,ABC_tran_CTD,ABC_tran_Xtn
LYD3_k127_2045082_2	1499967.BAYZ01000145_gene6204	9.494e-75	256.0	COG0302@1|root,COG0302@2|Bacteria,2NPAT@2323|unclassified Bacteria	2|Bacteria	H	GTP cyclohydrolase I	folE	GO:0000166,GO:0001882,GO:0001883,GO:0003674,GO:0003824,GO:0003933,GO:0003934,GO:0005488,GO:0005525,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0006066,GO:0006725,GO:0006729,GO:0006732,GO:0006807,GO:0008150,GO:0008152,GO:0008270,GO:0009058,GO:0009108,GO:0009987,GO:0016787,GO:0016810,GO:0016814,GO:0017076,GO:0017144,GO:0018130,GO:0019001,GO:0019238,GO:0019438,GO:0019751,GO:0032549,GO:0032550,GO:0032553,GO:0032555,GO:0032561,GO:0034311,GO:0034312,GO:0034641,GO:0035639,GO:0036094,GO:0042558,GO:0042559,GO:0043167,GO:0043168,GO:0043169,GO:0044237,GO:0044249,GO:0044271,GO:0044281,GO:0044283,GO:0044424,GO:0044464,GO:0046146,GO:0046165,GO:0046173,GO:0046483,GO:0046872,GO:0046914,GO:0051186,GO:0051188,GO:0071704,GO:0097159,GO:0097367,GO:1901265,GO:1901360,GO:1901362,GO:1901363,GO:1901564,GO:1901566,GO:1901576,GO:1901615,GO:1901617	3.5.4.16	ko:K01495	ko00790,ko01100,map00790,map01100	M00126,M00841,M00842,M00843	R00428,R04639,R05046,R05048	RC00263,RC00294,RC00323,RC00945,RC01188	ko00000,ko00001,ko00002,ko01000	-	-	-	GTP_cyclohydroI
LYD3_k127_2045082_1	1123504.JQKD01000035_gene2654	9.281e-76	263.0	COG0412@1|root,COG0412@2|Bacteria,1MW88@1224|Proteobacteria,2VQD1@28216|Betaproteobacteria,4ACGY@80864|Comamonadaceae	28216|Betaproteobacteria	Q	dienelactone hydrolase	-	-	3.1.1.45	ko:K01061	ko00361,ko00364,ko00623,ko01100,ko01110,ko01120,ko01130,map00361,map00364,map00623,map01100,map01110,map01120,map01130	-	R03893,R05510,R05511,R06835,R06838,R08120,R08121,R09136,R09220,R09222	RC01018,RC01906,RC01907,RC02441,RC02467,RC02468,RC02674,RC02675,RC02686	ko00000,ko00001,ko01000	-	-	-	DLH
LYD3_k127_2045082_0	62928.azo3359	3.784e-124	408.0	COG0436@1|root,COG0436@2|Bacteria,1MW0Z@1224|Proteobacteria,2VJD8@28216|Betaproteobacteria,2KU6C@206389|Rhodocyclales	206389|Rhodocyclales	E	COG0436 Aspartate tyrosine aromatic aminotransferase	-	-	2.6.1.88	ko:K14287	-	-	R08618	RC00006,RC00025	ko00000,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_2045912_3	1408254.T458_18495	1.714e-88	295.0	COG1012@1|root,COG1012@2|Bacteria,1UHQT@1239|Firmicutes,4IS6J@91061|Bacilli,277DN@186822|Paenibacillaceae	91061|Bacilli	C	Aldehyde dehydrogenase family	acdH	-	1.1.1.1,1.2.1.10,1.2.1.87	ko:K04072,ko:K13922	ko00010,ko00071,ko00350,ko00620,ko00625,ko00626,ko00640,ko00650,ko01100,ko01110,ko01120,ko01130,ko01220,map00010,map00071,map00350,map00620,map00625,map00626,map00640,map00650,map01100,map01110,map01120,map01130,map01220	-	R00228,R00623,R00754,R01172,R04880,R05233,R05234,R06917,R06927,R09097	RC00004,RC00050,RC00088,RC00099,RC00116,RC00184,RC00649,RC01195	ko00000,ko00001,ko01000	-	-	-	Aldedh
LYD3_k127_2045912_4	287.DR97_3112	7.449e-69	245.0	COG1414@1|root,COG1414@2|Bacteria,1QYTM@1224|Proteobacteria,1RUTM@1236|Gammaproteobacteria,1YCUZ@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	K	helix_turn_helix isocitrate lyase regulation	pcaR	-	-	ko:K02624	-	-	-	-	ko00000,ko03000	-	-	-	HTH_IclR,IclR
LYD3_k127_2045912_1	365044.Pnap_1655	4.488e-115	378.0	COG3185@1|root,COG3185@2|Bacteria,1MUVZ@1224|Proteobacteria,2VHYD@28216|Betaproteobacteria,4ACG3@80864|Comamonadaceae	28216|Betaproteobacteria	E	Hydroxyphenylpyruvate dioxygenase, HPPD, N-terminal	-	-	1.13.11.27	ko:K00457	ko00130,ko00350,ko00360,ko01100,map00130,map00350,map00360,map01100	M00044	R01372,R02521	RC00505,RC00738	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Glyoxalase,Glyoxalase_5
LYD3_k127_2045912_2	365044.Pnap_1656	6.813e-100	347.0	COG1082@1|root,COG1082@2|Bacteria,1QYE4@1224|Proteobacteria,2VJQ6@28216|Betaproteobacteria,4ABF5@80864|Comamonadaceae	28216|Betaproteobacteria	G	Xylose isomerase	-	-	-	-	-	-	-	-	-	-	-	-	AP_endonuc_2
LYD3_k127_2045912_0	443598.AUFA01000009_gene5742	8.284e-132	428.0	COG0667@1|root,COG0667@2|Bacteria,1MV2Y@1224|Proteobacteria,2TR3G@28211|Alphaproteobacteria,3JQX6@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	C	Aldo/keto reductase family	MA20_21005	-	1.1.1.91	ko:K05882	-	-	-	-	ko00000,ko01000	-	-	-	Aldo_ket_red
LYD3_k127_2045912_5	869210.Marky_0686	1.624e-61	218.0	COG3358@1|root,COG3358@2|Bacteria,1WKRG@1297|Deinococcus-Thermus	1297|Deinococcus-Thermus	S	Protein of unknown function (DUF1684)	-	-	-	ko:K09164	-	-	-	-	ko00000	-	-	-	DUF1684
LYD3_k127_2045912_6	105559.Nwat_1302	3.356e-19	87.0	2BVW3@1|root,2Z7TB@2|Bacteria,1MY60@1224|Proteobacteria,1RNI9@1236|Gammaproteobacteria,1WW9W@135613|Chromatiales	135613|Chromatiales	S	PFAM 5'-nucleotidase	-	-	3.1.3.5	ko:K01081	ko00230,ko00240,ko00760,ko01100,ko01110,map00230,map00240,map00760,map01100,map01110	-	R00183,R00511,R00963,R01126,R01227,R01569,R01664,R01968,R02088,R02102,R02323,R02719,R03346	RC00017	ko00000,ko00001,ko01000	-	-	-	5-nucleotidase
LYD3_k127_2047225_1	1434929.X946_2433	2.372e-49	182.0	COG3971@1|root,COG3971@2|Bacteria,1RA35@1224|Proteobacteria,2VR6Q@28216|Betaproteobacteria,1KGI9@119060|Burkholderiaceae	28216|Betaproteobacteria	Q	Fumarylacetoacetate (FAA) hydrolase family	-	-	-	-	-	-	-	-	-	-	-	-	FAA_hydrolase
LYD3_k127_2047225_0	864073.HFRIS_003923	8.822e-169	538.0	COG3970@1|root,COG3970@2|Bacteria,1MVA2@1224|Proteobacteria,2VIXV@28216|Betaproteobacteria,4737B@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	fumarylacetoacetate (FAA) hydrolase family	-	-	-	-	-	-	-	-	-	-	-	-	FAA_hydrolase
LYD3_k127_2056406_4	1244869.H261_20220	2.39e-54	196.0	COG1033@1|root,COG1033@2|Bacteria,1MUE1@1224|Proteobacteria,2UQQD@28211|Alphaproteobacteria,2JPWN@204441|Rhodospirillales	204441|Rhodospirillales	S	exporters of the RND superfamily	-	-	-	ko:K07003	-	-	-	-	ko00000	-	-	-	MMPL
LYD3_k127_2056406_1	864051.BurJ1DRAFT_4576	2.357e-166	548.0	COG3203@1|root,COG3203@2|Bacteria,1MXEB@1224|Proteobacteria,2VPRW@28216|Betaproteobacteria,1KMBA@119065|unclassified Burkholderiales	28216|Betaproteobacteria	M	Protein of unknown function (DUF1302)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1302
LYD3_k127_2056406_0	864051.BurJ1DRAFT_4577	1.005e-179	573.0	28H52@1|root,2Z7HQ@2|Bacteria,1MXTF@1224|Proteobacteria,2VJJ3@28216|Betaproteobacteria,1KJA4@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Protein of unknown function (DUF1329)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1329
LYD3_k127_2056406_3	76114.ebA5163	6.926e-84	292.0	COG2207@1|root,COG2207@2|Bacteria,1Q3UX@1224|Proteobacteria,2VT4I@28216|Betaproteobacteria,2KWHG@206389|Rhodocyclales	206389|Rhodocyclales	K	Transcriptional regulator	-	-	-	ko:K04033	-	-	-	-	ko00000,ko03000	-	-	-	HTH_18
LYD3_k127_2056406_2	1454004.AW11_02818	4.827e-99	334.0	COG0583@1|root,COG0583@2|Bacteria,1MWVU@1224|Proteobacteria,2VJJH@28216|Betaproteobacteria,1KR37@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	K	Bacterial regulatory helix-turn-helix protein, lysR family	-	-	-	ko:K21703	-	-	-	-	ko00000,ko03000	-	-	-	HTH_1,LysR_substrate
LYD3_k127_2056406_5	288000.BBta_0451	1.37e-20	93.0	COG1850@1|root,COG1850@2|Bacteria,1MWEB@1224|Proteobacteria,2TSJV@28211|Alphaproteobacteria,3JU4U@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	H	RuBisCO catalyzes two reactions the carboxylation of D- ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate. Both reactions occur simultaneously and in competition at the same active site	cbbL	-	4.1.1.39	ko:K01601	ko00630,ko00710,ko01100,ko01120,ko01200,map00630,map00710,map01100,map01120,map01200	M00165,M00166,M00532	R00024,R03140	RC00172,RC00859	ko00000,ko00001,ko00002,ko01000	-	-	-	RuBisCO_large,RuBisCO_large_N
LYD3_k127_2057236_0	1000565.METUNv1_02356	2.679e-195	610.0	COG5013@1|root,COG5013@2|Bacteria,1MW9S@1224|Proteobacteria,2VJ2F@28216|Betaproteobacteria,2KUWZ@206389|Rhodocyclales	206389|Rhodocyclales	C	Respiratory nitrate reductase alpha N-terminal	-	-	1.7.5.1	ko:K00370	ko00910,ko01120,ko02020,map00910,map01120,map02020	M00529,M00530,M00804	R00798,R01106,R09497	RC02812	ko00000,ko00001,ko00002,ko01000	5.A.3.1	-	-	Molybdopterin,Molydop_binding,Nitr_red_alph_N
LYD3_k127_2057236_1	653733.Selin_2438	8.194e-163	521.0	COG2223@1|root,COG2223@2|Bacteria	2|Bacteria	P	nitrite transmembrane transporter activity	-	-	-	ko:K02575	ko00910,map00910	M00615	-	-	ko00000,ko00001,ko00002,ko02000	2.A.1.8	-	-	MFS_1
LYD3_k127_2065451_3	1502852.FG94_01906	9.721e-12	65.0	COG2021@1|root,COG2021@2|Bacteria,1MVJV@1224|Proteobacteria,2VHU9@28216|Betaproteobacteria,473B8@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Transfers a succinyl group from succinyl-CoA to L- homoserine, forming succinyl-L-homoserine	metXS	-	2.3.1.31	ko:K00641	ko00270,ko01100,ko01130,map00270,map01100,map01130	-	R01776	RC00004,RC00041	ko00000,ko00001,ko01000	-	-	-	Abhydrolase_1
LYD3_k127_2065451_2	1163617.SCD_n00087	1.687e-75	260.0	COG0500@1|root,COG2226@2|Bacteria,1MVSY@1224|Proteobacteria,2VMPA@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	Methionine biosynthesis protein MetW	metW	-	-	-	-	-	-	-	-	-	-	-	MetW
LYD3_k127_2065451_1	1437824.BN940_18006	7.122e-169	540.0	COG2211@1|root,COG2211@2|Bacteria,1QTSE@1224|Proteobacteria,2WGIZ@28216|Betaproteobacteria,3T20Z@506|Alcaligenaceae	28216|Betaproteobacteria	G	Major facilitator superfamily	ampG	-	-	ko:K08218	ko01501,map01501	M00628	-	-	ko00000,ko00001,ko00002,ko02000	2.A.1.25	-	-	Acatn,MFS_1
LYD3_k127_2065451_0	279714.FuraDRAFT_1766	1.51e-189	605.0	COG0488@1|root,COG0488@2|Bacteria,1MU37@1224|Proteobacteria,2VHGH@28216|Betaproteobacteria,2KPUY@206351|Neisseriales	206351|Neisseriales	S	ABC transporter	-	-	-	ko:K06158	-	-	-	-	ko00000,ko03012	-	-	-	ABC_tran,ABC_tran_Xtn
LYD3_k127_2069392_3	762966.HMPREF9439_00361	4.677e-18	87.0	2E54A@1|root,314J8@2|Bacteria,1PU9K@1224|Proteobacteria,2WARK@28216|Betaproteobacteria,4PR9I@995019|Sutterellaceae	28216|Betaproteobacteria	S	Domain of unknown function (DUF1840)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1840
LYD3_k127_2069392_1	375286.mma_0160	2.99e-19	95.0	2EBNJ@1|root,335NT@2|Bacteria,1N847@1224|Proteobacteria,2VW9H@28216|Betaproteobacteria,474HJ@75682|Oxalobacteraceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2069392_0	935261.JAGL01000002_gene1349	1.692e-189	601.0	COG0161@1|root,COG0161@2|Bacteria,1MU2N@1224|Proteobacteria,2TQND@28211|Alphaproteobacteria,43GQV@69277|Phyllobacteriaceae	28211|Alphaproteobacteria	H	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family	-	-	2.6.1.18	ko:K00822	ko00280,ko00410,ko00640,ko01100,map00280,map00410,map00640,map01100	-	R00907,R04187	RC00008,RC00062,RC00160	ko00000,ko00001,ko01000,ko01007	-	-	-	Aminotran_3
LYD3_k127_2069392_2	1122611.KB903987_gene3963	9.435e-19	88.0	COG1012@1|root,COG1012@2|Bacteria,2GJI2@201174|Actinobacteria,4EFFB@85012|Streptosporangiales	201174|Actinobacteria	C	Aldehyde dehydrogenase family	mmsA	-	1.2.1.18,1.2.1.27	ko:K00140	ko00280,ko00410,ko00562,ko00640,ko01100,ko01200,map00280,map00410,map00562,map00640,map01100,map01200	M00013	R00705,R00706,R00922,R00935	RC00004,RC02723,RC02817	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_2080193_0	987059.RBXJA2T_08078	5.999e-145	475.0	COG0823@1|root,COG1506@1|root,COG0823@2|Bacteria,COG1506@2|Bacteria,1MWGR@1224|Proteobacteria,2VN0X@28216|Betaproteobacteria,1KPBW@119065|unclassified Burkholderiales	28216|Betaproteobacteria	EU	Prolyl oligopeptidase family	-	-	-	-	-	-	-	-	-	-	-	-	PD40,Peptidase_S9
LYD3_k127_2080193_1	1255043.TVNIR_1504	1.609e-18	95.0	COG1734@1|root,COG1734@2|Bacteria,1NH80@1224|Proteobacteria,1SAW8@1236|Gammaproteobacteria	1236|Gammaproteobacteria	T	dksA traR	-	-	-	-	-	-	-	-	-	-	-	-	zf-dskA_traR
LYD3_k127_2080193_2	1123393.KB891316_gene1605	2.194e-14	83.0	COG0071@1|root,COG0071@2|Bacteria,1N1RF@1224|Proteobacteria,2VT18@28216|Betaproteobacteria,1KT32@119069|Hydrogenophilales	119069|Hydrogenophilales	O	Hsp20/alpha crystallin family	-	-	-	-	-	-	-	-	-	-	-	-	HSP20
LYD3_k127_2081814_1	381666.H16_B0390	4.836e-58	207.0	COG1804@1|root,COG1804@2|Bacteria,1MW1H@1224|Proteobacteria,2VJJQ@28216|Betaproteobacteria,1K237@119060|Burkholderiaceae	28216|Betaproteobacteria	C	PFAM L-carnitine dehydratase bile acid-inducible protein F	-	-	-	-	-	-	-	-	-	-	-	-	CoA_transf_3
LYD3_k127_2081814_0	331869.BAL199_26232	5.007e-208	652.0	COG1012@1|root,COG1012@2|Bacteria,1MU1V@1224|Proteobacteria,2TQR1@28211|Alphaproteobacteria,4BRHE@82117|unclassified Alphaproteobacteria	28211|Alphaproteobacteria	C	Aldehyde dehydrogenase family	MA20_08220	-	1.2.1.3	ko:K00128,ko:K22187	ko00010,ko00040,ko00053,ko00071,ko00280,ko00310,ko00330,ko00340,ko00380,ko00410,ko00561,ko00620,ko00625,ko00903,ko00981,ko01100,ko01110,ko01120,ko01130,map00010,map00040,map00053,map00071,map00280,map00310,map00330,map00340,map00380,map00410,map00561,map00620,map00625,map00903,map00981,map01100,map01110,map01120,map01130	M00135	R00264,R00631,R00710,R00904,R01752,R01986,R02549,R02678,R02940,R02957,R03283,R03869,R04065,R04506,R04903,R05050,R05237,R05238,R05286,R06366,R08146,R11768	RC00047,RC00071,RC00080,RC00186,RC00218,RC00242,RC00816,RC01500	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_2082064_3	78398.KS43_08055	1.054e-18	86.0	COG1181@1|root,COG1181@2|Bacteria,1MUTB@1224|Proteobacteria,1RMTM@1236|Gammaproteobacteria,1MRKK@122277|Pectobacterium	1236|Gammaproteobacteria	F	Cell wall formation	ddl	GO:0000270,GO:0003674,GO:0003824,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006022,GO:0006023,GO:0006024,GO:0006807,GO:0008150,GO:0008152,GO:0008716,GO:0009058,GO:0009059,GO:0009252,GO:0009273,GO:0009987,GO:0016874,GO:0016879,GO:0016881,GO:0030203,GO:0034645,GO:0042546,GO:0043170,GO:0044036,GO:0044038,GO:0044085,GO:0044237,GO:0044249,GO:0044260,GO:0044424,GO:0044444,GO:0044464,GO:0070589,GO:0071554,GO:0071704,GO:0071840,GO:1901135,GO:1901137,GO:1901564,GO:1901566,GO:1901576	6.3.2.4	ko:K01921	ko00473,ko00550,ko01100,ko01502,map00473,map00550,map01100,map01502	-	R01150	RC00064,RC00141	ko00000,ko00001,ko01000,ko01011	-	-	iECO26_1355.ECO26_0095	Dala_Dala_lig_C,Dala_Dala_lig_N
LYD3_k127_2082064_2	1121127.JAFA01000038_gene3243	2.798e-53	196.0	COG1589@1|root,COG1589@2|Bacteria,1N0T7@1224|Proteobacteria,2VRMV@28216|Betaproteobacteria,1KGRP@119060|Burkholderiaceae	28216|Betaproteobacteria	D	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic. May control correct divisome assembly	ftsQ	-	-	ko:K03589	ko04112,map04112	-	-	-	ko00000,ko00001,ko03036	-	-	-	FtsQ,POTRA_1
LYD3_k127_2082064_0	1163617.SCD_n02480	1.5e-204	642.0	COG0849@1|root,COG0849@2|Bacteria,1MUSR@1224|Proteobacteria,2VGZP@28216|Betaproteobacteria	28216|Betaproteobacteria	D	Cell division protein that is involved in the assembly of the Z ring. May serve as a membrane anchor for the Z ring	ftsA	-	-	ko:K03590	ko04112,map04112	-	-	-	ko00000,ko00001,ko03036,ko04812	-	-	-	FtsA,SHS2_FTSA
LYD3_k127_2082064_1	1163617.SCD_n02479	2.292e-58	206.0	COG0206@1|root,COG0206@2|Bacteria,1MV2X@1224|Proteobacteria,2VH0S@28216|Betaproteobacteria	28216|Betaproteobacteria	D	Essential cell division protein that forms a contractile ring structure (Z ring) at the future cell division site. The regulation of the ring assembly controls the timing and the location of cell division. One of the functions of the FtsZ ring is to recruit other cell division proteins to the septum to produce a new cell wall between the dividing cells. Binds GTP and shows GTPase activity	ftsZ	-	-	ko:K03531	ko04112,map04112	-	-	-	ko00000,ko00001,ko02048,ko03036,ko04812	-	-	-	FtsZ_C,Tubulin
LYD3_k127_2097337_1	113395.AXAI01000002_gene5540	1.762e-143	457.0	COG0031@1|root,COG0031@2|Bacteria,1MUBE@1224|Proteobacteria,2TS33@28211|Alphaproteobacteria,3JQMM@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	E	Belongs to the cysteine synthase cystathionine beta- synthase family	cysK	-	2.5.1.47	ko:K01738	ko00270,ko00920,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00270,map00920,map01100,map01110,map01120,map01130,map01200,map01230	M00021	R00897,R03601,R04859	RC00020,RC02814,RC02821	ko00000,ko00001,ko00002,ko01000	-	-	-	PALP
LYD3_k127_2097337_0	290397.Adeh_2315	7.122e-148	486.0	COG0436@1|root,COG0436@2|Bacteria,1MW0Z@1224|Proteobacteria,42MXG@68525|delta/epsilon subdivisions,2WJ6G@28221|Deltaproteobacteria,2YWN8@29|Myxococcales	28221|Deltaproteobacteria	E	Aminotransferase class I and II	-	-	2.6.1.1	ko:K11358	ko00220,ko00250,ko00270,ko00330,ko00350,ko00360,ko00400,ko00401,ko00950,ko00960,ko01100,ko01110,ko01130,ko01210,ko01230,map00220,map00250,map00270,map00330,map00350,map00360,map00400,map00401,map00950,map00960,map01100,map01110,map01130,map01210,map01230	-	R00355,R00694,R00734,R00896,R02433,R02619,R05052	RC00006	ko00000,ko00001,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_2104897_0	1500894.JQNN01000001_gene2943	3.829e-139	451.0	COG1914@1|root,COG1914@2|Bacteria,1MW6X@1224|Proteobacteria,2VK6I@28216|Betaproteobacteria,476SK@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Natural resistance-associated macrophage protein	-	-	-	-	-	-	-	-	-	-	-	-	Nramp
LYD3_k127_2105195_1	272557.APE_2520.1	1.328e-31	135.0	COG3473@1|root,arCOG02004@2157|Archaea,2XQHJ@28889|Crenarchaeota	28889|Crenarchaeota	Q	maleate cis-trans isomerase	maiA	-	5.2.1.1	ko:K01799	ko00650,ko00760,ko01120,map00650,map00760,map01120	M00622	R01087	RC00448	ko00000,ko00001,ko00002,ko01000	-	-	-	Asp_Glu_race
LYD3_k127_2105195_0	331869.BAL199_22237	2.146e-98	336.0	COG0673@1|root,COG0673@2|Bacteria,1N0VK@1224|Proteobacteria,2TR13@28211|Alphaproteobacteria,4BQV1@82117|unclassified Alphaproteobacteria	28211|Alphaproteobacteria	S	Oxidoreductase family, NAD-binding Rossmann fold	-	-	-	-	-	-	-	-	-	-	-	-	GFO_IDH_MocA,GFO_IDH_MocA_C
LYD3_k127_2105195_2	1157708.KB907456_gene2199	6.93e-28	120.0	COG3181@1|root,COG3181@2|Bacteria,1R98U@1224|Proteobacteria,2VM5P@28216|Betaproteobacteria,4AGK1@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_2108357_1	661478.OP10G_1203	2.845e-88	308.0	COG2199@1|root,COG3920@1|root,COG5002@1|root,COG3706@2|Bacteria,COG3920@2|Bacteria,COG5002@2|Bacteria	2|Bacteria	T	protein histidine kinase activity	-	-	-	-	-	-	-	-	-	-	-	-	HAMP,HATPase_c,HisKA,PAS_3,PAS_4,PAS_9,Response_reg
LYD3_k127_2108357_0	395495.Lcho_0045	1.866e-119	399.0	COG2114@1|root,COG3437@1|root,COG2114@2|Bacteria,COG3437@2|Bacteria,1QY14@1224|Proteobacteria,2WH9F@28216|Betaproteobacteria	28216|Betaproteobacteria	T	Belongs to the adenylyl cyclase class-4 guanylyl cyclase family	-	-	4.6.1.1	ko:K01768	ko00230,ko02025,ko04113,ko04213,map00230,map02025,map04113,map04213	M00695	R00089,R00434	RC00295	ko00000,ko00001,ko00002,ko01000	-	-	-	Guanylate_cyc,Response_reg
LYD3_k127_2108357_2	748280.NH8B_1819	3.323e-20	93.0	COG1018@1|root,COG1018@2|Bacteria,1RAS4@1224|Proteobacteria,2VQ3I@28216|Betaproteobacteria	28216|Betaproteobacteria	C	PFAM Oxidoreductase FAD NAD(P)-binding	-	-	-	-	-	-	-	-	-	-	-	-	NAD_binding_1
LYD3_k127_2123722_0	1095769.CAHF01000005_gene1469	4.245e-111	365.0	COG0480@1|root,COG0480@2|Bacteria,1MVVY@1224|Proteobacteria,2VKWB@28216|Betaproteobacteria	28216|Betaproteobacteria	J	elongation factor G	-	-	-	ko:K02355	-	-	-	-	ko00000,ko03012,ko03029	-	-	-	EFG_C,EFG_II,EFG_IV,GTP_EFTU
LYD3_k127_2123722_1	1485544.JQKP01000007_gene2024	2.246e-84	287.0	COG0643@1|root,COG2198@1|root,COG0643@2|Bacteria,COG2198@2|Bacteria,1MUAG@1224|Proteobacteria,2VJSZ@28216|Betaproteobacteria,44W8H@713636|Nitrosomonadales	28216|Betaproteobacteria	T	Histidine Phosphotransfer domain	pilL	-	-	ko:K02487,ko:K06596	ko02020,ko02025,map02020,map02025	M00507	-	-	ko00000,ko00001,ko00002,ko01001,ko02022,ko02035	-	-	-	CheW,H-kinase_dim,HATPase_c,Hpt,Response_reg
LYD3_k127_2131498_4	153948.NAL212_2487	1.108e-13	72.0	COG0557@1|root,COG0557@2|Bacteria,1NGSQ@1224|Proteobacteria,2VHMM@28216|Betaproteobacteria,3721E@32003|Nitrosomonadales	28216|Betaproteobacteria	K	ribonuclease II	rnb	-	3.1.13.1	ko:K01147	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	RNB
LYD3_k127_2131498_2	1163617.SCD_n00213	5.748e-75	265.0	COG0810@1|root,COG0810@2|Bacteria,1MUMT@1224|Proteobacteria,2VKSW@28216|Betaproteobacteria	28216|Betaproteobacteria	M	TIGRFAM TonB family protein	-	-	-	ko:K03832	-	-	-	-	ko00000,ko02000	2.C.1.1	-	-	TonB_2,TonB_C
LYD3_k127_2131498_0	748247.AZKH_3828	3.592e-95	321.0	COG0169@1|root,COG0169@2|Bacteria,1MVH4@1224|Proteobacteria,2VHHC@28216|Betaproteobacteria,2KUFF@206389|Rhodocyclales	206389|Rhodocyclales	E	Involved in the biosynthesis of the chorismate, which leads to the biosynthesis of aromatic amino acids. Catalyzes the reversible NADPH linked reduction of 3-dehydroshikimate (DHSA) to yield shikimate (SA)	aroE	-	1.1.1.25	ko:K00014	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00022	R02413	RC00206	ko00000,ko00001,ko00002,ko01000	-	-	-	Shikimate_DH,Shikimate_dh_N
LYD3_k127_2131498_1	522306.CAP2UW1_0286	4.565e-81	275.0	COG0744@1|root,COG0744@2|Bacteria,1RDAQ@1224|Proteobacteria,2VHW8@28216|Betaproteobacteria,1KQVK@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	M	Peptidoglycan polymerase that catalyzes glycan chain elongation from lipid-linked precursors	mtgA	-	2.4.1.129	ko:K03814	ko00550,map00550	-	-	-	ko00000,ko00001,ko01000,ko01003,ko01011	-	GT51	-	Transgly
LYD3_k127_2131498_3	76114.ebA1741	6.357e-43	164.0	COG2239@1|root,COG2239@2|Bacteria,1MW24@1224|Proteobacteria,2VI29@28216|Betaproteobacteria,2KUHE@206389|Rhodocyclales	206389|Rhodocyclales	P	Acts as a magnesium transporter	mgtE	-	-	ko:K06213	-	-	-	-	ko00000,ko02000	1.A.26.1	-	-	CBS,MgtE,MgtE_N
LYD3_k127_2131863_17	709797.CSIRO_3093	4.922e-58	209.0	COG2095@1|root,COG2095@2|Bacteria,1MV1C@1224|Proteobacteria,2U89P@28211|Alphaproteobacteria,3K0K4@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	U	MarC family integral membrane protein	-	-	-	ko:K05595	-	-	-	-	ko00000,ko02000	2.A.95.1	-	-	MarC
LYD3_k127_2131863_16	62928.azo0940	4.902e-83	285.0	COG0566@1|root,COG0566@2|Bacteria,1MWCM@1224|Proteobacteria,2VHF4@28216|Betaproteobacteria,2KV2Q@206389|Rhodocyclales	206389|Rhodocyclales	J	Specifically methylates the ribose of guanosine 2251 in 23S rRNA	rlmB	-	2.1.1.185	ko:K03218	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	SpoU_methylase,SpoU_sub_bind
LYD3_k127_2131863_2	1144319.PMI16_02542	8.227e-256	803.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2VJWW@28216|Betaproteobacteria,478F1@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Bacterial extracellular solute-binding proteins, family 5 Middle	dppA	-	-	ko:K02035,ko:K12368	ko02010,ko02024,ko02030,map02010,map02024,map02030	M00239,M00324	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	SBP_bac_5
LYD3_k127_2131863_7	1144319.PMI16_02541	1.67e-150	482.0	COG0601@1|root,COG0601@2|Bacteria,1MU8Z@1224|Proteobacteria,2VHND@28216|Betaproteobacteria,475GX@75682|Oxalobacteraceae	28216|Betaproteobacteria	EP	Binding-protein-dependent transport system inner membrane component	dppB	-	-	ko:K12369	ko02010,map02010	M00324	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	BPD_transp_1
LYD3_k127_2131863_12	1005048.CFU_2689	2.3e-130	422.0	COG1173@1|root,COG1173@2|Bacteria,1MUG0@1224|Proteobacteria,2VHX8@28216|Betaproteobacteria,478M7@75682|Oxalobacteraceae	28216|Betaproteobacteria	EP	N-terminal TM domain of oligopeptide transport permease C	dppC	-	-	ko:K02034,ko:K12370	ko02010,ko02024,map02010,map02024	M00239,M00324	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	BPD_transp_1,OppC_N
LYD3_k127_2131863_6	1005048.CFU_2688	2.412e-156	499.0	COG0444@1|root,COG0444@2|Bacteria,1R4KB@1224|Proteobacteria,2W0NK@28216|Betaproteobacteria,475GW@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Oligopeptide/dipeptide transporter, C-terminal region	dppD	-	-	ko:K02031,ko:K12371	ko02010,ko02024,map02010,map02024	M00239,M00324	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	ABC_tran,oligo_HPY
LYD3_k127_2131863_11	1005048.CFU_2686	1.587e-131	442.0	COG4608@1|root,COG4608@2|Bacteria,1NU4K@1224|Proteobacteria,2W19X@28216|Betaproteobacteria,476A7@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Belongs to the ABC transporter superfamily	dppF	-	-	ko:K12372	ko02010,map02010	M00324	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	ABC_tran,oligo_HPY
LYD3_k127_2131863_8	987059.RBXJA2T_01125	1.618e-147	473.0	COG0601@1|root,COG0601@2|Bacteria,1MU8Z@1224|Proteobacteria,2VHEF@28216|Betaproteobacteria,1KJIM@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	ABC-type dipeptide oligopeptide nickel transport	-	-	-	ko:K02033	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	BPD_transp_1
LYD3_k127_2131863_4	94624.Bpet0686	5.508e-168	538.0	COG1473@1|root,COG1473@2|Bacteria,1MUIV@1224|Proteobacteria,2VM4Z@28216|Betaproteobacteria,3T8WW@506|Alcaligenaceae	28216|Betaproteobacteria	S	Metal-dependent amidase aminoacylase carboxypeptidase	yxeP_2	-	-	-	-	-	-	-	-	-	-	-	M20_dimer,Peptidase_M20
LYD3_k127_2131863_13	397945.Aave_0771	1.447e-124	409.0	COG2866@1|root,COG2866@2|Bacteria,1N6CX@1224|Proteobacteria,2VHWB@28216|Betaproteobacteria,4AAF4@80864|Comamonadaceae	28216|Betaproteobacteria	E	Protein of unknown function (DUF2817)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2817
LYD3_k127_2131863_3	1265502.KB905948_gene994	8.084e-248	775.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2VHCV@28216|Betaproteobacteria,4ABBW@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM extracellular solute-binding protein, family 5	-	-	-	ko:K02035	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	SBP_bac_5
LYD3_k127_2131863_10	257310.BB4026	7.354e-136	439.0	COG1173@1|root,COG1173@2|Bacteria,1MUG0@1224|Proteobacteria,2VIN2@28216|Betaproteobacteria,3T1KQ@506|Alcaligenaceae	28216|Betaproteobacteria	P	ABC-type dipeptide oligopeptide nickel transport systems, permease components	dppC	-	-	ko:K02034	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	BPD_transp_1,OppC_N
LYD3_k127_2131863_5	983917.RGE_08110	5.275e-158	503.0	COG0444@1|root,COG0444@2|Bacteria,1R4KB@1224|Proteobacteria,2W0NK@28216|Betaproteobacteria,1KKHF@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	Belongs to the ABC transporter superfamily	-	-	-	ko:K02031	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	ABC_tran,oligo_HPY
LYD3_k127_2131863_9	1392838.AWNM01000031_gene24	5.001e-139	452.0	COG4608@1|root,COG4608@2|Bacteria,1NU4K@1224|Proteobacteria,2W19X@28216|Betaproteobacteria,3T267@506|Alcaligenaceae	28216|Betaproteobacteria	P	Belongs to the ABC transporter superfamily	-	-	-	ko:K02032,ko:K12372	ko02010,ko02024,map02010,map02024	M00239,M00324	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	ABC_tran,oligo_HPY
LYD3_k127_2131863_0	94624.Bpet1704	7.313e-291	939.0	COG1196@1|root,COG1196@2|Bacteria,1MUAQ@1224|Proteobacteria,2VJMF@28216|Betaproteobacteria,3T1XY@506|Alcaligenaceae	28216|Betaproteobacteria	D	Required for chromosome condensation and partitioning	smc	-	-	ko:K03529	-	-	-	-	ko00000,ko03036	-	-	-	SMC_N,SMC_hinge
LYD3_k127_2131863_18	261292.Nit79A3_1796	6.758e-45	180.0	COG3115@1|root,COG3115@2|Bacteria,1NJ6D@1224|Proteobacteria,2VHQ7@28216|Betaproteobacteria,372FG@32003|Nitrosomonadales	28216|Betaproteobacteria	D	Essential cell division protein that stabilizes the FtsZ protofilaments by cross-linking them and that serves as a cytoplasmic membrane anchor for the Z ring. Also required for the recruitment to the septal ring of downstream cell division proteins	zipA	-	-	-	-	-	-	-	-	-	-	-	ZipA_C
LYD3_k127_2131863_1	640511.BC1002_1778	1.704e-265	833.0	COG0272@1|root,COG0272@2|Bacteria,1MV3R@1224|Proteobacteria,2VIDE@28216|Betaproteobacteria,1K0GW@119060|Burkholderiaceae	28216|Betaproteobacteria	L	DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA	ligA	-	6.5.1.2	ko:K01972	ko03030,ko03410,ko03420,ko03430,map03030,map03410,map03420,map03430	-	R00382	RC00005	ko00000,ko00001,ko01000,ko03032,ko03400	-	-	-	BRCT,DNA_ligase_OB,DNA_ligase_ZBD,DNA_ligase_aden,HHH_2,HHH_5
LYD3_k127_2131863_14	640081.Dsui_2700	6.861e-116	398.0	COG1210@1|root,COG1210@2|Bacteria,1MV5F@1224|Proteobacteria,2VH00@28216|Betaproteobacteria,2KUS0@206389|Rhodocyclales	206389|Rhodocyclales	M	UTP-glucose-1-phosphate uridylyltransferase	epsT	-	2.7.7.9	ko:K00963	ko00040,ko00052,ko00500,ko00520,ko01100,ko01130,map00040,map00052,map00500,map00520,map01100,map01130	M00129,M00361,M00362,M00549	R00289	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	NTP_transferase
LYD3_k127_2131863_15	580332.Slit_0301	9.532e-107	355.0	COG0583@1|root,COG0583@2|Bacteria,1MVA1@1224|Proteobacteria,2VIBJ@28216|Betaproteobacteria,44WDP@713636|Nitrosomonadales	28216|Betaproteobacteria	K	Transcriptional regulator, LysR family	oxyR	-	-	ko:K04761	ko02026,map02026	-	-	-	ko00000,ko00001,ko03000	-	-	-	HTH_1,LysR_substrate
LYD3_k127_2138314_0	859657.RPSI07_0533	0.0	1474.0	COG0067@1|root,COG0069@1|root,COG0070@1|root,COG0067@2|Bacteria,COG0069@2|Bacteria,COG0070@2|Bacteria,1MU7B@1224|Proteobacteria,2VHUY@28216|Betaproteobacteria,1K0VQ@119060|Burkholderiaceae	28216|Betaproteobacteria	E	glutamate synthase	gltB	-	1.4.1.13,1.4.1.14,1.4.7.1	ko:K00265,ko:K00284	ko00250,ko00630,ko00910,ko01100,ko01110,ko01120,ko01130,ko01230,map00250,map00630,map00910,map01100,map01110,map01120,map01130,map01230	-	R00021,R00093,R00114,R00248,R10086	RC00006,RC00010,RC02799	ko00000,ko00001,ko01000	-	-	-	GATase_2,GXGXG,Glu_syn_central,Glu_synthase
LYD3_k127_2151877_12	626418.bglu_2g10710	4.455e-65	231.0	COG2217@1|root,COG3658@1|root,COG2217@2|Bacteria,COG3658@2|Bacteria,1MU08@1224|Proteobacteria,2VMIN@28216|Betaproteobacteria,1K4WF@119060|Burkholderiaceae	28216|Betaproteobacteria	P	p-type atpase	-	-	-	-	-	-	-	-	-	-	-	-	E1-E2_ATPase,Hemerythrin,Hydrolase
LYD3_k127_2151877_9	580332.Slit_1013	9.138e-89	297.0	COG0745@1|root,COG0745@2|Bacteria,1N0YI@1224|Proteobacteria,2VHIS@28216|Betaproteobacteria,44WDR@713636|Nitrosomonadales	28216|Betaproteobacteria	K	PFAM response regulator receiver	-	-	-	ko:K02483,ko:K07666	ko02020,ko02024,map02020,map02024	M00453	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	Response_reg,Trans_reg_C
LYD3_k127_2151877_4	580332.Slit_1012	7.933e-131	432.0	COG0642@1|root,COG2205@2|Bacteria,1N1Z2@1224|Proteobacteria,2VJBG@28216|Betaproteobacteria,44W7J@713636|Nitrosomonadales	28216|Betaproteobacteria	T	PFAM ATP-binding region ATPase domain protein	qseC	-	2.7.13.3	ko:K07645	ko02020,ko02024,map02020,map02024	M00453	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	2CSK_N,HATPase_c,HisKA
LYD3_k127_2151877_8	697282.Mettu_2130	9.142e-92	309.0	COG3217@1|root,COG3217@2|Bacteria,1QTF1@1224|Proteobacteria,1SVMA@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	MOSC domain	-	-	-	-	-	-	-	-	-	-	-	-	MOSC
LYD3_k127_2151877_5	864051.BurJ1DRAFT_2414	4.874e-124	407.0	COG3181@1|root,COG3181@2|Bacteria,1P88K@1224|Proteobacteria,2VJJP@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_2151877_13	522306.CAP2UW1_0131	4.861e-21	103.0	2C8H7@1|root,318QN@2|Bacteria,1Q0RT@1224|Proteobacteria,2W5N6@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2151877_2	1202532.FF52_04800	8.232e-136	466.0	COG5164@1|root,COG5164@2|Bacteria,4NFN0@976|Bacteroidetes,1IMWB@117743|Flavobacteriia,2NVM5@237|Flavobacterium	976|Bacteroidetes	K	regulation of DNA-templated transcription, elongation	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2151877_14	172088.AUGA01000040_gene5019	9.729e-10	72.0	KOG3648@1|root,32VTC@2|Bacteria,1R6UN@1224|Proteobacteria,2U0NH@28211|Alphaproteobacteria,3JU6D@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	fibroblast growth factor binding	-	-	-	-	-	-	-	-	-	-	-	-	Cys_rich_FGFR,GHBP
LYD3_k127_2151877_3	760117.JN27_22180	3.533e-133	427.0	COG1028@1|root,COG1028@2|Bacteria,1MUEV@1224|Proteobacteria,2VH8R@28216|Betaproteobacteria,473C7@75682|Oxalobacteraceae	28216|Betaproteobacteria	IQ	Belongs to the short-chain dehydrogenases reductases (SDR) family	phbB	-	1.1.1.36	ko:K00023	ko00630,ko00650,ko01120,ko01200,map00630,map00650,map01120,map01200	M00373	R01779,R01977	RC00103,RC00117	ko00000,ko00001,ko00002,ko01000	-	-	-	adh_short,adh_short_C2
LYD3_k127_2151877_1	1458357.BG58_12830	2.779e-174	570.0	COG3243@1|root,COG3243@2|Bacteria,1MU68@1224|Proteobacteria,2VH50@28216|Betaproteobacteria,1K4WQ@119060|Burkholderiaceae	28216|Betaproteobacteria	I	Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus	phaC	-	-	ko:K03821	ko00650,map00650	-	R04254	RC00004	ko00000,ko00001,ko01000	-	-	-	PhaC_N
LYD3_k127_2151877_10	640081.Dsui_2535	3.547e-76	265.0	COG0428@1|root,COG0428@2|Bacteria,1R40E@1224|Proteobacteria,2VN69@28216|Betaproteobacteria,2KV4I@206389|Rhodocyclales	206389|Rhodocyclales	P	ZIP Zinc transporter	-	-	-	ko:K16267	-	-	-	-	ko00000,ko02000	2.A.5.4.11	-	-	Zip
LYD3_k127_2151877_11	631362.Thi970DRAFT_02539	8.949e-67	250.0	COG1496@1|root,COG1496@2|Bacteria,1MW2H@1224|Proteobacteria,1RNV4@1236|Gammaproteobacteria,1WX0I@135613|Chromatiales	135613|Chromatiales	S	Belongs to the multicopper oxidase YfiH RL5 family	-	-	-	ko:K05810	-	-	-	-	ko00000,ko01000	-	-	-	Cu-oxidase_4
LYD3_k127_2151877_6	1121035.AUCH01000001_gene1881	1.604e-113	377.0	COG0564@1|root,COG0564@2|Bacteria,1MUBN@1224|Proteobacteria,2VIFF@28216|Betaproteobacteria,2KV8G@206389|Rhodocyclales	206389|Rhodocyclales	J	Responsible for synthesis of pseudouridine from uracil	rluD	-	5.4.99.23	ko:K06180	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	PseudoU_synth_2,S4
LYD3_k127_2151877_7	85643.Tmz1t_3128	1.614e-92	312.0	COG4105@1|root,COG4105@2|Bacteria,1MVS5@1224|Proteobacteria,2VH6I@28216|Betaproteobacteria,2KUN1@206389|Rhodocyclales	206389|Rhodocyclales	M	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane	bamD	-	-	ko:K05807	-	-	-	-	ko00000,ko02000	1.B.33.1	-	-	YfiO
LYD3_k127_2151877_0	1163617.SCD_n01598	1.339e-244	771.0	COG1199@1|root,COG1199@2|Bacteria,1MVCU@1224|Proteobacteria,2VH0V@28216|Betaproteobacteria	28216|Betaproteobacteria	KL	Helicase	dinG	-	3.6.4.12	ko:K03722	-	-	-	-	ko00000,ko01000,ko03400	-	-	-	DEAD,DEAD_2,Helicase_C_2,ResIII
LYD3_k127_2155736_4	375286.mma_1081	2.399e-84	289.0	COG2204@1|root,COG2204@2|Bacteria,1MU0N@1224|Proteobacteria,2VHSB@28216|Betaproteobacteria,4733N@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	Sigma-54 interaction domain	ntrC	GO:0003674,GO:0003676,GO:0003677,GO:0005488,GO:0006355,GO:0008150,GO:0009889,GO:0009890,GO:0009891,GO:0009892,GO:0009893,GO:0010468,GO:0010556,GO:0010557,GO:0010558,GO:0010604,GO:0010605,GO:0010628,GO:0010629,GO:0019219,GO:0019222,GO:0031323,GO:0031324,GO:0031325,GO:0031326,GO:0031327,GO:0031328,GO:0043565,GO:0045892,GO:0045893,GO:0045934,GO:0045935,GO:0048518,GO:0048519,GO:0048522,GO:0048523,GO:0050789,GO:0050794,GO:0051171,GO:0051172,GO:0051173,GO:0051252,GO:0051253,GO:0051254,GO:0060255,GO:0065007,GO:0080090,GO:0097159,GO:1901363,GO:1902679,GO:1902680,GO:1903506,GO:1903507,GO:1903508,GO:2000112,GO:2000113,GO:2001141	-	ko:K07712	ko02020,map02020	M00497	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	HTH_8,Response_reg,Sigma54_activat
LYD3_k127_2155736_1	76114.ebA4117	2.188e-114	380.0	COG3852@1|root,COG3852@2|Bacteria,1MVN6@1224|Proteobacteria,2VJN7@28216|Betaproteobacteria,2KUZZ@206389|Rhodocyclales	206389|Rhodocyclales	T	Signal transduction histidine kinase, nitrogen specific	ntrB	-	2.7.13.3	ko:K07708	ko02020,map02020	M00497	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	HATPase_c,HisKA,PAS,PAS_4
LYD3_k127_2155736_6	1163617.SCD_n00195	3.168e-16	86.0	2BWQ4@1|root,32QZV@2|Bacteria,1MZQ9@1224|Proteobacteria,2VSNR@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	DUF4124
LYD3_k127_2155736_0	1123487.KB892857_gene2347	4.67e-258	801.0	COG0174@1|root,COG0174@2|Bacteria,1MUGQ@1224|Proteobacteria,2VHYE@28216|Betaproteobacteria,2KV8R@206389|Rhodocyclales	206389|Rhodocyclales	E	glutamine synthetase	glnA	-	6.3.1.2	ko:K01915	ko00220,ko00250,ko00630,ko00910,ko01100,ko01120,ko01230,ko02020,ko04217,ko04724,ko04727,map00220,map00250,map00630,map00910,map01100,map01120,map01230,map02020,map04217,map04724,map04727	-	R00253	RC00010,RC02798	ko00000,ko00001,ko01000,ko04147	-	-	-	Gln-synt_C,Gln-synt_N
LYD3_k127_2155736_5	522306.CAP2UW1_4140	3.715e-40	160.0	COG1273@1|root,COG1273@2|Bacteria,1QVC4@1224|Proteobacteria,2WGPK@28216|Betaproteobacteria	28216|Betaproteobacteria	S	TIGRFAM MJ0042 family finger-like protein	-	-	-	-	-	-	-	-	-	-	-	-	DUF3426,zinc_ribbon_4,zinc_ribbon_5
LYD3_k127_2155736_3	381666.H16_A3173	3.967e-93	314.0	COG2264@1|root,COG2264@2|Bacteria,1MUPC@1224|Proteobacteria,2VH76@28216|Betaproteobacteria,1K3BV@119060|Burkholderiaceae	28216|Betaproteobacteria	J	Ribosomal protein L11 methyltransferase	prmA	-	-	ko:K02687	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	PrmA
LYD3_k127_2155736_2	580332.Slit_2856	2.448e-105	344.0	COG0439@1|root,COG0439@2|Bacteria,1MU4H@1224|Proteobacteria,2VISB@28216|Betaproteobacteria,44VMS@713636|Nitrosomonadales	28216|Betaproteobacteria	I	PFAM Carbamoyl-phosphate synthase L chain ATP-binding	accC	GO:0003674,GO:0003824,GO:0004075,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006082,GO:0006629,GO:0006631,GO:0006633,GO:0008150,GO:0008152,GO:0008610,GO:0009058,GO:0009889,GO:0009890,GO:0009892,GO:0009987,GO:0010565,GO:0016053,GO:0016874,GO:0016879,GO:0019216,GO:0019217,GO:0019222,GO:0019752,GO:0031323,GO:0031324,GO:0031326,GO:0031327,GO:0032787,GO:0042304,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044255,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0045717,GO:0045833,GO:0045922,GO:0046394,GO:0046890,GO:0048519,GO:0048523,GO:0050789,GO:0050794,GO:0051055,GO:0062012,GO:0062014,GO:0065007,GO:0071704,GO:0072330,GO:0080090,GO:1901576	6.3.4.14,6.4.1.2	ko:K01961	ko00061,ko00620,ko00640,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,map00061,map00620,map00640,map00720,map01100,map01110,map01120,map01130,map01200,map01212	M00082,M00376	R00742,R04385	RC00040,RC00253,RC00367	ko00000,ko00001,ko00002,ko01000	-	-	-	Biotin_carb_C,Biotin_carb_N,CPSase_L_D2
LYD3_k127_2160901_3	261292.Nit79A3_0829	1.581e-21	94.0	COG0291@1|root,COG0291@2|Bacteria,1N6V4@1224|Proteobacteria,2VVS9@28216|Betaproteobacteria,373NU@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Belongs to the bacterial ribosomal protein bL35 family	rpmI	-	-	ko:K02916	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L35p
LYD3_k127_2160901_1	85643.Tmz1t_3022	1.65e-53	190.0	COG0292@1|root,COG0292@2|Bacteria,1RGU2@1224|Proteobacteria,2VRWF@28216|Betaproteobacteria,2KWC3@206389|Rhodocyclales	206389|Rhodocyclales	J	Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit	rplT	-	-	ko:K02887	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L20
LYD3_k127_2160901_0	1236959.BAMT01000016_gene2804	3.846e-150	482.0	COG0016@1|root,COG0016@2|Bacteria,1MVD7@1224|Proteobacteria,2VIM9@28216|Betaproteobacteria,2KM6N@206350|Nitrosomonadales	206350|Nitrosomonadales	J	Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily	pheS	-	6.1.1.20	ko:K01889	ko00970,map00970	M00359,M00360	R03660	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	Phe_tRNA-synt_N,tRNA-synt_2d
LYD3_k127_2160901_2	85643.Tmz1t_3020	1.502e-29	119.0	COG0072@1|root,COG0073@1|root,COG0072@2|Bacteria,COG0073@2|Bacteria,1MWKS@1224|Proteobacteria,2VHR1@28216|Betaproteobacteria,2KUJG@206389|Rhodocyclales	206389|Rhodocyclales	J	Belongs to the phenylalanyl-tRNA synthetase beta subunit family. Type 1 subfamily	pheT	-	6.1.1.20	ko:K01890	ko00970,map00970	M00359,M00360	R03660	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	B3_4,B5,FDX-ACB,tRNA_bind
LYD3_k127_2165684_2	1125863.JAFN01000001_gene2493	1.148e-76	273.0	COG2864@1|root,COG2864@2|Bacteria,1NJEJ@1224|Proteobacteria,42NQM@68525|delta/epsilon subdivisions,2WK76@28221|Deltaproteobacteria	28221|Deltaproteobacteria	C	denitrification pathway	cbcY	-	-	-	-	-	-	-	-	-	-	-	Cytochrom_c3_2,Ni_hydr_CYTB
LYD3_k127_2165684_1	452637.Oter_2603	1.684e-88	308.0	COG2864@1|root,COG2864@2|Bacteria	2|Bacteria	C	formate dehydrogenase	cbcY	-	-	-	-	-	-	-	-	-	-	-	Cytochrom_c3_2,Cytochrome_C7,Ni_hydr_CYTB,Paired_CXXCH_1,Rhodanese
LYD3_k127_2165684_0	314230.DSM3645_19063	0.0	1319.0	COG0247@1|root,COG0277@1|root,COG0247@2|Bacteria,COG0277@2|Bacteria,2IYAH@203682|Planctomycetes	203682|Planctomycetes	C	FAD linked oxidases, C-terminal domain	-	-	-	-	-	-	-	-	-	-	-	-	CCG,FAD-oxidase_C,FAD_binding_4,Fer4_17,Fer4_8
LYD3_k127_2165684_3	1000565.METUNv1_03054	3.65e-44	171.0	COG5473@1|root,COG5473@2|Bacteria,1N9UJ@1224|Proteobacteria,2VRZ3@28216|Betaproteobacteria,2KX03@206389|Rhodocyclales	206389|Rhodocyclales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2165684_4	887898.HMPREF0551_0330	2.773e-18	85.0	COG0749@1|root,COG0749@2|Bacteria,1MU31@1224|Proteobacteria,2VJ57@28216|Betaproteobacteria,1K0FY@119060|Burkholderiaceae	28216|Betaproteobacteria	L	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity	polA	-	2.7.7.7	ko:K02335	ko00230,ko00240,ko01100,ko03030,ko03410,ko03420,ko03440,map00230,map00240,map01100,map03030,map03410,map03420,map03440	-	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko01000,ko03032,ko03400	-	-	-	5_3_exonuc,5_3_exonuc_N,DNA_pol_A,DNA_pol_A_exo1
LYD3_k127_217016_2	1163617.SCD_n02800	8.37e-41	154.0	COG3279@1|root,COG3279@2|Bacteria,1MUE8@1224|Proteobacteria,2WEFP@28216|Betaproteobacteria	28216|Betaproteobacteria	KT	response regulator	algR	-	-	ko:K08083	ko02020,map02020	M00493	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	LytTR,Response_reg
LYD3_k127_217016_0	76114.ebA1485	8.38e-125	407.0	COG0524@1|root,COG0524@2|Bacteria,1PDQE@1224|Proteobacteria,2VHMF@28216|Betaproteobacteria,2KUNE@206389|Rhodocyclales	206389|Rhodocyclales	G	COG0524 Sugar kinases, ribokinase family	pfkB	-	2.7.1.20	ko:K00856	ko00230,ko01100,map00230,map01100	-	R00185	RC00002,RC00017	ko00000,ko00001,ko01000	-	-	-	PfkB
LYD3_k127_217016_1	1348657.M622_03855	1.875e-99	332.0	COG0639@1|root,COG0639@2|Bacteria,1MV10@1224|Proteobacteria,2VHV6@28216|Betaproteobacteria,2KUKD@206389|Rhodocyclales	206389|Rhodocyclales	T	Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP	apaH	-	3.6.1.41	ko:K01525	ko00230,map00230	-	R00125	RC00002	ko00000,ko00001,ko01000	-	-	-	Metallophos
LYD3_k127_217016_3	1304275.C41B8_09531	2.46e-22	102.0	COG0210@1|root,COG0210@2|Bacteria,1MU0G@1224|Proteobacteria,1RNJI@1236|Gammaproteobacteria	1236|Gammaproteobacteria	L	it can initiate unwinding at a nick in the DNA. It binds to the single-stranded DNA and acts in a progressive fashion along the DNA in the 3' to 5' direction	rep	GO:0003674,GO:0003678,GO:0003824,GO:0004003,GO:0004386,GO:0006139,GO:0006259,GO:0006260,GO:0006261,GO:0006268,GO:0006725,GO:0006807,GO:0006996,GO:0007049,GO:0008026,GO:0008094,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009314,GO:0009628,GO:0009987,GO:0016043,GO:0016462,GO:0016787,GO:0016817,GO:0016818,GO:0016887,GO:0017111,GO:0022402,GO:0032392,GO:0032508,GO:0034641,GO:0034645,GO:0042623,GO:0043170,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044786,GO:0044787,GO:0046483,GO:0050896,GO:0051276,GO:0070035,GO:0071103,GO:0071704,GO:0071840,GO:0090304,GO:0140097,GO:1901360,GO:1901576	3.6.4.12	ko:K03656,ko:K03657	ko03420,ko03430,map03420,map03430	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	UvrD-helicase,UvrD_C
LYD3_k127_2173056_1	1121035.AUCH01000012_gene2981	1.799e-91	303.0	COG0056@1|root,COG0056@2|Bacteria,1MUG7@1224|Proteobacteria,2VHQU@28216|Betaproteobacteria,2KV0S@206389|Rhodocyclales	206389|Rhodocyclales	C	Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit	atpA	-	3.6.3.14	ko:K02111	ko00190,ko00195,ko01100,map00190,map00195,map01100	M00157	-	-	ko00000,ko00001,ko00002,ko00194,ko01000	3.A.2.1	-	-	ATP-synt_ab,ATP-synt_ab_C,ATP-synt_ab_N
LYD3_k127_2173056_3	265072.Mfla_2747	1.063e-46	173.0	COG0712@1|root,COG0712@2|Bacteria,1MVRH@1224|Proteobacteria,2VSJV@28216|Betaproteobacteria,2KM92@206350|Nitrosomonadales	206350|Nitrosomonadales	C	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation	atpH	-	-	ko:K02113	ko00190,ko00195,ko01100,map00190,map00195,map01100	M00157	-	-	ko00000,ko00001,ko00002,ko00194	3.A.2.1	-	-	OSCP
LYD3_k127_2173056_2	153948.NAL212_0507	6.358e-49	181.0	COG0711@1|root,COG0711@2|Bacteria,1RHZ0@1224|Proteobacteria,2VRMS@28216|Betaproteobacteria,372ZX@32003|Nitrosomonadales	28216|Betaproteobacteria	C	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation	atpF	-	-	ko:K02109	ko00190,ko00195,ko01100,map00190,map00195,map01100	M00157	-	-	ko00000,ko00001,ko00002,ko00194	3.A.2.1	-	-	ATP-synt_B
LYD3_k127_2173056_4	1288494.EBAPG3_29140	1.045e-39	150.0	COG0636@1|root,32S3K@2|Bacteria,1N1NA@1224|Proteobacteria,2VTY0@28216|Betaproteobacteria,373AG@32003|Nitrosomonadales	28216|Betaproteobacteria	C	F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation	atpE	-	-	ko:K02110	ko00190,ko00195,ko01100,map00190,map00195,map01100	M00157	-	-	ko00000,ko00001,ko00002,ko00194	3.A.2.1	-	-	ATP-synt_C
LYD3_k127_2173056_0	395494.Galf_2939	3.598e-122	396.0	COG0356@1|root,COG0356@2|Bacteria,1MV87@1224|Proteobacteria,2VHR5@28216|Betaproteobacteria,44VW2@713636|Nitrosomonadales	28216|Betaproteobacteria	C	it plays a direct role in the translocation of protons across the membrane	atpB	-	-	ko:K02108	ko00190,ko00195,ko01100,map00190,map00195,map01100	M00157	-	-	ko00000,ko00001,ko00002,ko00194,ko03110	3.A.2.1	-	-	ATP-synt_A
LYD3_k127_2173056_5	1266925.JHVX01000005_gene1938	5.461e-07	53.0	COG3312@1|root,COG3312@2|Bacteria,1R3CS@1224|Proteobacteria,2WIGV@28216|Betaproteobacteria,374P5@32003|Nitrosomonadales	28216|Betaproteobacteria	C	ATP synthase I chain	-	-	-	ko:K02116	-	-	-	-	ko00000,ko00194	3.A.2.1	-	-	ATP-synt_I
LYD3_k127_2176006_2	1267535.KB906767_gene3488	3.432e-54	202.0	COG2132@1|root,COG2132@2|Bacteria	2|Bacteria	Q	Multicopper oxidase	-	-	1.10.3.4	ko:K20219	ko00380,map00380	-	R00074	RC00767,RC02319	ko00000,ko00001,ko01000	-	-	-	Cu-oxidase_2,Cu-oxidase_3
LYD3_k127_2176006_3	748247.AZKH_1984	5.85e-24	106.0	COG0300@1|root,COG0300@2|Bacteria,1P42K@1224|Proteobacteria,2VTHR@28216|Betaproteobacteria	28216|Betaproteobacteria	S	KR domain	-	-	-	-	-	-	-	-	-	-	-	-	adh_short
LYD3_k127_2176006_0	1366050.N234_21895	4.128e-180	572.0	COG4398@1|root,COG4398@2|Bacteria,1MUX9@1224|Proteobacteria,2VIY7@28216|Betaproteobacteria,1KBU7@119060|Burkholderiaceae	28216|Betaproteobacteria	S	FIST N domain	-	-	-	-	-	-	-	-	-	-	-	-	FIST,FIST_C
LYD3_k127_2176006_1	1123393.KB891331_gene2924	2.197e-143	468.0	COG0151@1|root,COG0151@2|Bacteria,1QTYI@1224|Proteobacteria,2VXQS@28216|Betaproteobacteria	28216|Betaproteobacteria	F	ATP-grasp domain	-	-	-	-	-	-	-	-	-	-	-	-	ATP-grasp_4
LYD3_k127_2176006_4	1123393.KB891331_gene2925	1.634e-08	57.0	COG1032@1|root,COG1032@2|Bacteria	2|Bacteria	C	radical SAM domain protein	-	-	-	-	-	-	-	-	-	-	-	-	B12-binding,Radical_SAM
LYD3_k127_2185647_5	595537.Varpa_2336	6.467e-14	72.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2VHJP@28216|Betaproteobacteria,4ACPD@80864|Comamonadaceae	28216|Betaproteobacteria	G	Trap dicarboxylate transporter, dctm subunit	-	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_2185647_2	543728.Vapar_3295	4.773e-147	472.0	COG1638@1|root,COG1638@2|Bacteria,1MVHC@1224|Proteobacteria,2VM68@28216|Betaproteobacteria,4AA1S@80864|Comamonadaceae	28216|Betaproteobacteria	G	TIGRFAM TRAP dicarboxylate transporter, DctP subunit	yiaO	-	-	-	-	-	-	-	-	-	-	-	DctP
LYD3_k127_2185647_0	85643.Tmz1t_1637	5.104e-223	700.0	COG0277@1|root,COG0277@2|Bacteria,1MU6Y@1224|Proteobacteria,2VH8M@28216|Betaproteobacteria,2KUI1@206389|Rhodocyclales	206389|Rhodocyclales	C	Glycolate oxidase subunit GlcD	glcD	-	1.1.3.15	ko:K00104	ko00630,ko01100,ko01110,ko01120,ko01130,map00630,map01100,map01110,map01120,map01130	-	R00475	RC00042	ko00000,ko00001,ko01000	-	-	-	FAD-oxidase_C,FAD_binding_4
LYD3_k127_2185647_1	936455.KI421499_gene719	7.099e-195	618.0	COG0277@1|root,COG0277@2|Bacteria,1MU6Y@1224|Proteobacteria,2TR2Z@28211|Alphaproteobacteria,3JRY3@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	C	FAD linked oxidases, C-terminal domain	-	-	1.1.2.4	ko:K00102	ko00620,map00620	-	R00197	RC00044	ko00000,ko00001,ko01000	-	-	-	FAD-oxidase_C,FAD_binding_4
LYD3_k127_2185647_3	1110502.TMO_3108	2.208e-63	228.0	COG0625@1|root,COG0625@2|Bacteria,1PHM1@1224|Proteobacteria,2TTQZ@28211|Alphaproteobacteria,2JRW7@204441|Rhodospirillales	204441|Rhodospirillales	O	Glutathione S-transferase	-	-	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	GST_C_2,GST_N_2,GST_N_3
LYD3_k127_2185647_4	29581.BW37_01259	5.325e-26	111.0	COG0277@1|root,COG0277@2|Bacteria,1MVYV@1224|Proteobacteria,2VHUQ@28216|Betaproteobacteria,4725H@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	FAD binding domain	glcE	-	-	ko:K11472	ko00630,ko01100,ko01110,ko01120,ko01130,map00630,map01100,map01110,map01120,map01130	-	R00475	RC00042	ko00000,ko00001	-	-	-	FAD_binding_4
LYD3_k127_2189069_0	522306.CAP2UW1_1324	7.535e-239	756.0	COG0543@1|root,COG1018@1|root,COG1290@1|root,COG0543@2|Bacteria,COG1018@2|Bacteria,COG1290@2|Bacteria,1MV72@1224|Proteobacteria,2VI6M@28216|Betaproteobacteria,1KR75@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	C	Cytochrome b(N-terminal)/b6/petB	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrome_B,FAD_binding_6,Fer2,NAD_binding_1
LYD3_k127_2189069_1	1437824.BN940_02361	1.175e-32	135.0	2CB7M@1|root,31H4T@2|Bacteria,1MYWT@1224|Proteobacteria,2VSTJ@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2200472_5	1000565.METUNv1_02240	5.473e-22	96.0	COG0156@1|root,COG0156@2|Bacteria,1MVVH@1224|Proteobacteria,2VH25@28216|Betaproteobacteria,2KUQ7@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the decarboxylative condensation of pimeloyl- acyl-carrier protein and L-alanine to produce 8-amino-7- oxononanoate (AON), acyl-carrier protein , and carbon dioxide	bioF	-	2.3.1.47	ko:K00652	ko00780,ko01100,map00780,map01100	M00123,M00573,M00577	R03210,R10124	RC00004,RC00039,RC02725	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_2200472_3	580332.Slit_2587	3.141e-69	246.0	COG2267@1|root,COG2267@2|Bacteria,1N2R9@1224|Proteobacteria,2VRME@28216|Betaproteobacteria,44VRK@713636|Nitrosomonadales	28216|Betaproteobacteria	I	The physiological role of BioH is to remove the methyl group introduced by BioC when the pimeloyl moiety is complete. It allows to synthesize pimeloyl-ACP via the fatty acid synthetic pathway through the hydrolysis of the ester bonds of pimeloyl-ACP esters	bioH	-	3.1.1.85	ko:K02170	ko00780,ko01100,map00780,map01100	M00572	R09725	RC00460,RC00461	ko00000,ko00001,ko00002,ko01000	-	-	-	Abhydrolase_1,Abhydrolase_6
LYD3_k127_2200472_1	1485544.JQKP01000002_gene1548	3.636e-93	317.0	COG0500@1|root,COG2226@2|Bacteria,1PA5F@1224|Proteobacteria,2VJP9@28216|Betaproteobacteria,44VH3@713636|Nitrosomonadales	28216|Betaproteobacteria	H	Converts the free carboxyl group of a malonyl-thioester to its methyl ester by transfer of a methyl group from S-adenosyl- L-methionine (SAM). It allows to synthesize pimeloyl-ACP via the fatty acid synthetic pathway	bioC	-	2.1.1.197	ko:K02169	ko00780,ko01100,map00780,map01100	M00572	R09543	RC00003,RC00460	ko00000,ko00001,ko00002,ko01000	-	-	-	Methyltransf_11
LYD3_k127_2200472_4	1123392.AQWL01000002_gene2084	1.308e-55	214.0	COG0132@1|root,COG0132@2|Bacteria,1RDRK@1224|Proteobacteria,2VR4C@28216|Betaproteobacteria,1KSE7@119069|Hydrogenophilales	119069|Hydrogenophilales	H	AAA domain	-	-	-	-	-	-	-	-	-	-	-	-	AAA_26
LYD3_k127_2200472_0	748280.NH8B_3846	6.468e-149	490.0	COG1622@1|root,COG2010@1|root,COG1622@2|Bacteria,COG2010@2|Bacteria,1MWHZ@1224|Proteobacteria,2VH9M@28216|Betaproteobacteria,2KQ9N@206351|Neisseriales	206351|Neisseriales	C	Subunits I and II form the functional core of the enzyme complex. Electrons originating in cytochrome c are transferred via heme a and Cu(A) to the binuclear center formed by heme a3 and Cu(B)	coxB	-	1.9.3.1	ko:K02275	ko00190,ko01100,map00190,map01100	M00155	R00081	RC00016	ko00000,ko00001,ko00002,ko01000	3.D.4.2,3.D.4.4,3.D.4.6	-	-	COX2,COX2_TM,Cytochrome_CBB3
LYD3_k127_2200472_2	1266925.JHVX01000026_gene1428	4.308e-80	269.0	COG0843@1|root,COG0843@2|Bacteria,1MU7S@1224|Proteobacteria,2VHGU@28216|Betaproteobacteria,373UJ@32003|Nitrosomonadales	28216|Betaproteobacteria	C	Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Subunits 1- 3 form the functional core of the enzyme complex. CO I is the catalytic subunit of the enzyme. Electrons originating in cytochrome c are transferred via the copper A center of subunit 2 and heme A of subunit 1 to the bimetallic center formed by heme A3 and copper B	ctaD	-	1.9.3.1	ko:K02274	ko00190,ko01100,map00190,map01100	M00155	R00081	RC00016	ko00000,ko00001,ko00002,ko01000	3.D.4.2,3.D.4.3,3.D.4.4,3.D.4.6	-	-	COX1
LYD3_k127_2206978_0	1144319.PMI16_02559	1.413e-296	937.0	COG1529@1|root,COG1529@2|Bacteria,1QTTJ@1224|Proteobacteria,2W0KT@28216|Betaproteobacteria,476SR@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain	-	-	-	-	-	-	-	-	-	-	-	-	Ald_Xan_dh_C,Ald_Xan_dh_C2
LYD3_k127_2206978_3	1144319.PMI16_02558	1.743e-57	209.0	COG2080@1|root,COG2080@2|Bacteria,1RD8C@1224|Proteobacteria,2VRBT@28216|Betaproteobacteria,477JC@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS	-	-	-	-	-	-	-	-	-	-	-	-	Fer2,Fer2_2
LYD3_k127_2206978_2	1205680.CAKO01000040_gene1070	8.736e-182	576.0	COG0683@1|root,COG0683@2|Bacteria,1MWNB@1224|Proteobacteria,2TTAH@28211|Alphaproteobacteria,2JQHT@204441|Rhodospirillales	204441|Rhodospirillales	E	Receptor family ligand binding region	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_2206978_1	1205680.CAKO01000040_gene1071	3.973e-211	672.0	COG0559@1|root,COG4177@1|root,COG0559@2|Bacteria,COG4177@2|Bacteria,1MY1E@1224|Proteobacteria,2TTC6@28211|Alphaproteobacteria,2JQDN@204441|Rhodospirillales	204441|Rhodospirillales	E	Branched-chain amino acid transport system / permease component	-	-	-	ko:K01997,ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_2214869_1	1097668.BYI23_A021130	5.784e-29	119.0	COG1975@1|root,COG1975@2|Bacteria,1R3RT@1224|Proteobacteria,2VKME@28216|Betaproteobacteria,1KFI6@119060|Burkholderiaceae	28216|Betaproteobacteria	O	XdhC Rossmann domain	xdhC	-	-	ko:K07402	-	-	-	-	ko00000	-	-	-	XdhC_C,XdhC_CoxI
LYD3_k127_2214869_0	1121127.JAFA01000008_gene5755	1.201e-208	659.0	COG3845@1|root,COG3845@2|Bacteria,1NT0H@1224|Proteobacteria,2WGJY@28216|Betaproteobacteria,1KIER@119060|Burkholderiaceae	28216|Betaproteobacteria	S	ABC transporter	-	-	3.6.3.17	ko:K02056	-	M00221	-	-	ko00000,ko00002,ko01000,ko02000	3.A.1.2	-	-	ABC_tran
LYD3_k127_2216514_6	639283.Snov_3498	4.236e-27	116.0	COG1606@1|root,COG1606@2|Bacteria,1R7UZ@1224|Proteobacteria,2U5UQ@28211|Alphaproteobacteria,3F14R@335928|Xanthobacteraceae	28211|Alphaproteobacteria	S	TIGRFAM TIGR00268 family protein	-	-	-	ko:K06864	-	-	-	-	ko00000	-	-	-	-
LYD3_k127_2216514_4	639283.Snov_3497	4.647e-75	261.0	COG1691@1|root,COG1691@2|Bacteria,1REQ7@1224|Proteobacteria,2U8QR@28211|Alphaproteobacteria,3F0D4@335928|Xanthobacteraceae	28211|Alphaproteobacteria	S	AIR carboxylase	-	-	-	ko:K06898	-	-	-	-	ko00000	-	-	-	AIRC
LYD3_k127_2216514_3	1157708.KB907450_gene6446	6.157e-105	350.0	COG0265@1|root,COG0265@2|Bacteria,1N58P@1224|Proteobacteria,2VS6N@28216|Betaproteobacteria,4AHSM@80864|Comamonadaceae	28216|Betaproteobacteria	O	Trypsin	-	-	-	-	-	-	-	-	-	-	-	-	PDZ_2,Trypsin_2
LYD3_k127_2216514_5	323848.Nmul_A0637	7.333e-28	126.0	COG3103@1|root,COG3103@2|Bacteria,1NQ5X@1224|Proteobacteria,2WA5G@28216|Betaproteobacteria,372RR@32003|Nitrosomonadales	28216|Betaproteobacteria	T	PFAM SH3, type 3	-	-	-	-	-	-	-	-	-	-	-	-	SH3_3
LYD3_k127_2216514_1	1288494.EBAPG3_13880	1.741e-162	530.0	COG2199@1|root,COG3706@2|Bacteria,1MZV7@1224|Proteobacteria,2WGWX@28216|Betaproteobacteria,37279@32003|Nitrosomonadales	28216|Betaproteobacteria	T	Cache domain	-	-	-	-	-	-	-	-	-	-	-	-	GGDEF,HAMP,dCache_1
LYD3_k127_2216514_2	1116472.MGMO_159c00020	7.69e-139	449.0	COG3588@1|root,COG3588@2|Bacteria,1MVFK@1224|Proteobacteria,1RQ57@1236|Gammaproteobacteria	1236|Gammaproteobacteria	G	Belongs to the class I fructose-bisphosphate aldolase family	alf1	-	4.1.2.13	ko:K01623	ko00010,ko00030,ko00051,ko00680,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00010,map00030,map00051,map00680,map00710,map01100,map01110,map01120,map01130,map01200,map01230	M00001,M00003,M00165,M00167	R01068,R01070,R01829,R02568	RC00438,RC00439,RC00603,RC00604	ko00000,ko00001,ko00002,ko01000,ko03036,ko04131,ko04147	-	-	-	Glycolytic
LYD3_k127_2216514_0	323097.Nham_2538	9.629e-213	669.0	COG1132@1|root,COG1132@2|Bacteria,1MXC2@1224|Proteobacteria,2TTB6@28211|Alphaproteobacteria,3JX21@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	P	ATPases associated with a variety of cellular activities	-	-	-	ko:K06147	-	-	-	-	ko00000,ko02000	3.A.1.106,3.A.1.109,3.A.1.21	-	-	ABC_membrane,ABC_tran
LYD3_k127_2217521_1	338969.Rfer_3187	2.156e-83	279.0	COG0577@1|root,COG0577@2|Bacteria,1PBKH@1224|Proteobacteria,2W3RM@28216|Betaproteobacteria,4AJVP@80864|Comamonadaceae	28216|Betaproteobacteria	V	MacB-like periplasmic core domain	-	-	-	ko:K02004	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	FtsX,MacB_PCD
LYD3_k127_2217521_0	477184.KYC_24872	2.373e-114	380.0	COG2982@1|root,COG2982@2|Bacteria,1MUME@1224|Proteobacteria,2VIKY@28216|Betaproteobacteria,3T5ZT@506|Alcaligenaceae	28216|Betaproteobacteria	M	Domain of Unknown Function (DUF748)	-	-	-	-	-	-	-	-	-	-	-	-	DUF748
LYD3_k127_2220711_0	1211114.ALIP01000156_gene3003	1.131e-93	327.0	COG2982@1|root,COG2982@2|Bacteria,1MUAN@1224|Proteobacteria,1RNZM@1236|Gammaproteobacteria,1X4Z4@135614|Xanthomonadales	135614|Xanthomonadales	M	protein involved in outer membrane biogenesis	asmA	-	-	ko:K07290	-	-	-	-	ko00000	9.B.121	-	-	AsmA
LYD3_k127_224756_0	1454004.AW11_02348	2.134e-220	699.0	COG0072@1|root,COG0072@2|Bacteria,1MWKS@1224|Proteobacteria,2VHR1@28216|Betaproteobacteria,1KPNC@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	J	Belongs to the phenylalanyl-tRNA synthetase beta subunit family. Type 1 subfamily	pheT	-	6.1.1.20	ko:K01890	ko00970,map00970	M00359,M00360	R03660	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	B3_4,B5,FDX-ACB,tRNA_bind
LYD3_k127_2258333_2	395495.Lcho_0037	2.465e-83	293.0	COG1804@1|root,COG1804@2|Bacteria,1MU5U@1224|Proteobacteria,2VJB6@28216|Betaproteobacteria,1KK5Y@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	CoA-transferase family III	-	-	-	-	-	-	-	-	-	-	-	-	CoA_transf_3
LYD3_k127_2258333_0	296591.Bpro_2353	1.733e-154	493.0	COG0119@1|root,COG0119@2|Bacteria,1MUMX@1224|Proteobacteria,2VI9E@28216|Betaproteobacteria,4AAQ1@80864|Comamonadaceae	28216|Betaproteobacteria	E	Belongs to the alpha-IPM synthase homocitrate synthase family	-	-	4.1.3.4	ko:K01640	ko00072,ko00280,ko00281,ko00650,ko01100,ko04146,map00072,map00280,map00281,map00650,map01100,map04146	M00036,M00088	R01360,R08090	RC00502,RC00503,RC01118,RC01946	ko00000,ko00001,ko00002,ko01000	-	-	-	HMGL-like
LYD3_k127_2258333_5	246197.MXAN_6826	8.04e-64	237.0	COG1668@1|root,COG1668@2|Bacteria,1R3RG@1224|Proteobacteria,43B64@68525|delta/epsilon subdivisions,2X6JN@28221|Deltaproteobacteria,2YVQ4@29|Myxococcales	28221|Deltaproteobacteria	CP	sodium ABC transporter, permease	-	-	-	ko:K09696	ko02010,ko02020,map02010,map02020	M00253	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.115	-	-	ABC2_membrane_2,Abi
LYD3_k127_2258333_4	1384054.N790_13670	1.99e-80	296.0	COG4555@1|root,COG4555@2|Bacteria,1QU2T@1224|Proteobacteria,1RY2V@1236|Gammaproteobacteria,1X307@135614|Xanthomonadales	135614|Xanthomonadales	CP	abc transporter atp-binding protein	-	-	3.6.3.7	ko:K09697	ko02010,ko02020,map02010,map02020	M00253	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.115	-	-	ABC_tran
LYD3_k127_2258333_3	1278073.MYSTI_07426	8.794e-83	296.0	COG0596@1|root,COG0596@2|Bacteria,1R6KU@1224|Proteobacteria,438C4@68525|delta/epsilon subdivisions,2WYM4@28221|Deltaproteobacteria,2YWIJ@29|Myxococcales	28221|Deltaproteobacteria	S	hydrolases or acyltransferases (alpha beta hydrolase superfamily)	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_1
LYD3_k127_2258333_1	1332071.L581_2959	3.741e-117	387.0	COG3483@1|root,COG3483@2|Bacteria,1MW68@1224|Proteobacteria,1RXYM@1236|Gammaproteobacteria,40056@613|Serratia	1236|Gammaproteobacteria	E	Heme-dependent dioxygenase that catalyzes the oxidative cleavage of the L-tryptophan (L-Trp) pyrrole ring and converts L- tryptophan to N-formyl-L-kynurenine. Catalyzes the oxidative cleavage of the indole moiety	kynA	GO:0003674,GO:0003824,GO:0004833,GO:0005488,GO:0006082,GO:0006084,GO:0006139,GO:0006163,GO:0006520,GO:0006568,GO:0006569,GO:0006576,GO:0006586,GO:0006637,GO:0006725,GO:0006732,GO:0006753,GO:0006790,GO:0006793,GO:0006796,GO:0006807,GO:0008150,GO:0008152,GO:0009056,GO:0009063,GO:0009072,GO:0009074,GO:0009117,GO:0009150,GO:0009259,GO:0009308,GO:0009310,GO:0009987,GO:0016043,GO:0016054,GO:0016491,GO:0016701,GO:0016702,GO:0019439,GO:0019441,GO:0019442,GO:0019637,GO:0019693,GO:0019752,GO:0020037,GO:0022607,GO:0033865,GO:0033875,GO:0034032,GO:0034641,GO:0035383,GO:0042180,GO:0042402,GO:0042430,GO:0042436,GO:0042537,GO:0043436,GO:0043603,GO:0043933,GO:0044085,GO:0044106,GO:0044237,GO:0044238,GO:0044248,GO:0044270,GO:0044281,GO:0044282,GO:0046218,GO:0046395,GO:0046483,GO:0046700,GO:0046906,GO:0048037,GO:0051186,GO:0051213,GO:0051259,GO:0051260,GO:0051262,GO:0051289,GO:0055086,GO:0055114,GO:0065003,GO:0070189,GO:0071704,GO:0071840,GO:0072521,GO:0097159,GO:1901135,GO:1901360,GO:1901361,GO:1901363,GO:1901564,GO:1901565,GO:1901575,GO:1901605,GO:1901606	1.13.11.11	ko:K00453	ko00380,ko01100,map00380,map01100	M00038	R00678	RC00356	ko00000,ko00001,ko00002,ko01000	-	-	-	Trp_dioxygenase
LYD3_k127_2260990_3	1336208.JADY01000001_gene704	2.803e-58	213.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2TQQH@28211|Alphaproteobacteria,2JPU2@204441|Rhodospirillales	204441|Rhodospirillales	E	ABC transporter, substrate-binding protein, family 5	-	-	-	ko:K02035	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	SBP_bac_5
LYD3_k127_2260990_0	1366050.N234_04165	2.119e-158	508.0	COG2133@1|root,COG2133@2|Bacteria,1MVK5@1224|Proteobacteria,2VIRC@28216|Betaproteobacteria,1K4ET@119060|Burkholderiaceae	28216|Betaproteobacteria	G	sorbosone dehydrogenase	-	-	-	-	-	-	-	-	-	-	-	-	GSDH,SGL
LYD3_k127_2260990_1	1100720.ALKN01000040_gene2209	2.63e-158	512.0	COG0624@1|root,COG0624@2|Bacteria,1MVBR@1224|Proteobacteria,2VIJP@28216|Betaproteobacteria,4AADC@80864|Comamonadaceae	28216|Betaproteobacteria	E	Belongs to the peptidase M20A family. ArgE subfamily	argE	-	3.5.1.16	ko:K01438	ko00220,ko01100,ko01110,ko01130,ko01210,ko01230,map00220,map01100,map01110,map01130,map01210,map01230	M00028,M00845	R00669,R09107	RC00064,RC00300	ko00000,ko00001,ko00002,ko01000	-	-	-	M20_dimer,Peptidase_M20
LYD3_k127_2260990_2	1207063.P24_03900	8.365e-95	320.0	COG2988@1|root,COG2988@2|Bacteria,1QW6K@1224|Proteobacteria,2TWQ0@28211|Alphaproteobacteria,2JYWE@204441|Rhodospirillales	204441|Rhodospirillales	E	Succinylglutamate desuccinylase / Aspartoacylase family	-	-	-	-	-	-	-	-	-	-	-	-	AstE_AspA
LYD3_k127_2261833_1	215803.DB30_2385	1.173e-51	184.0	COG0499@1|root,COG0499@2|Bacteria,1MUQ2@1224|Proteobacteria,42M83@68525|delta/epsilon subdivisions,2WIZE@28221|Deltaproteobacteria,2YU8Q@29|Myxococcales	28221|Deltaproteobacteria	H	May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine	ahcY	GO:0000096,GO:0003674,GO:0003824,GO:0004013,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006082,GO:0006139,GO:0006520,GO:0006534,GO:0006555,GO:0006575,GO:0006725,GO:0006732,GO:0006790,GO:0006807,GO:0008150,GO:0008152,GO:0009066,GO:0009069,GO:0009116,GO:0009119,GO:0009987,GO:0016787,GO:0016801,GO:0016802,GO:0017144,GO:0019752,GO:0033353,GO:0034641,GO:0042278,GO:0043436,GO:0044237,GO:0044238,GO:0044281,GO:0044424,GO:0044444,GO:0044464,GO:0046128,GO:0046439,GO:0046483,GO:0046498,GO:0046500,GO:0051186,GO:0055086,GO:0071704,GO:0072521,GO:1901135,GO:1901360,GO:1901564,GO:1901605,GO:1901657	3.3.1.1	ko:K01251	ko00270,ko01100,map00270,map01100	M00035	R00192,R04936	RC00056,RC00069,RC01161,RC01243	ko00000,ko00001,ko00002,ko01000,ko01009,ko04147	-	-	-	AdoHcyase,AdoHcyase_NAD
LYD3_k127_2261833_3	257313.BP3239A	5.811e-12	68.0	28ZT2@1|root,2ZMHR@2|Bacteria,1PK44@1224|Proteobacteria,2W8EP@28216|Betaproteobacteria,3T52K@506|Alcaligenaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2261833_5	395965.Msil_2608	1.368e-07	61.0	COG1902@1|root,COG1902@2|Bacteria,1MVE0@1224|Proteobacteria,2TQPY@28211|Alphaproteobacteria,3N9ZY@45404|Beijerinckiaceae	28211|Alphaproteobacteria	C	NADH:flavin oxidoreductase / NADH oxidase family	MA20_39895	-	1.6.99.1	ko:K00354	-	-	R00282	RC00001	ko00000,ko01000	-	-	-	Oxidored_FMN
LYD3_k127_2261833_4	1192868.CAIU01000015_gene1928	9.296e-12	70.0	COG1902@1|root,COG1902@2|Bacteria,1MVE0@1224|Proteobacteria,2TQPY@28211|Alphaproteobacteria,43H9K@69277|Phyllobacteriaceae	28211|Alphaproteobacteria	C	NADH flavin oxidoreductase NADH oxidase	-	-	-	-	-	-	-	-	-	-	-	-	Oxidored_FMN
LYD3_k127_2261833_0	266264.Rmet_0156	8.798e-55	192.0	COG0192@1|root,COG0192@2|Bacteria,1MUFQ@1224|Proteobacteria,2VH7U@28216|Betaproteobacteria,1K2M9@119060|Burkholderiaceae	28216|Betaproteobacteria	H	Catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP. The overall synthetic reaction is composed of two sequential steps, AdoMet formation and the subsequent tripolyphosphate hydrolysis which occurs prior to release of AdoMet from the enzyme	metK	-	2.5.1.6	ko:K00789	ko00270,ko01100,ko01110,ko01230,map00270,map01100,map01110,map01230	M00034,M00035,M00368,M00609	R00177,R04771	RC00021,RC01211	ko00000,ko00001,ko00002,ko01000	-	-	-	S-AdoMet_synt_C,S-AdoMet_synt_M,S-AdoMet_synt_N
LYD3_k127_2264670_0	1286093.C266_18666	5.193e-167	529.0	COG1104@1|root,COG1104@2|Bacteria,1MU1C@1224|Proteobacteria,2VH91@28216|Betaproteobacteria,1K14U@119060|Burkholderiaceae	28216|Betaproteobacteria	E	Master enzyme that delivers sulfur to a number of partners involved in Fe-S cluster assembly, tRNA modification or cofactor biosynthesis. Catalyzes the removal of elemental sulfur atoms from cysteine to produce alanine. Functions as a sulfur delivery protein for Fe-S cluster synthesis onto IscU, an Fe-S scaffold assembly protein, as well as other S acceptor proteins	iscS	-	2.8.1.7	ko:K04487	ko00730,ko01100,ko04122,map00730,map01100,map04122	-	R07460,R11528,R11529	RC01789,RC02313	ko00000,ko00001,ko01000,ko02048,ko03016,ko03029	-	-	-	Aminotran_5
LYD3_k127_2264670_3	1454004.AW11_02994	9.318e-60	213.0	COG1959@1|root,COG1959@2|Bacteria,1RDA4@1224|Proteobacteria,2VRGK@28216|Betaproteobacteria,1KQMC@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	K	Rrf2 family transcriptional regulator, iron-sulfur cluster assembly	iscR	-	-	ko:K13643	-	-	-	-	ko00000,ko03000	-	-	-	Rrf2
LYD3_k127_2264670_1	1123392.AQWL01000003_gene376	1.985e-106	351.0	COG1045@1|root,COG1045@2|Bacteria,1MVFX@1224|Proteobacteria,2VH8C@28216|Betaproteobacteria,1KSH1@119069|Hydrogenophilales	119069|Hydrogenophilales	E	Bacterial transferase hexapeptide (six repeats)	-	-	2.3.1.30	ko:K00640	ko00270,ko00920,ko01100,ko01110,ko01120,ko01200,ko01230,ko05111,map00270,map00920,map01100,map01110,map01120,map01200,map01230,map05111	M00021	R00586	RC00004,RC00041	ko00000,ko00001,ko00002,ko01000	-	-	-	Hexapep,SATase_N
LYD3_k127_2264670_5	1380394.JADL01000001_gene2024	2.03e-17	88.0	2BGD9@1|root,31AHC@2|Bacteria,1Q5N2@1224|Proteobacteria,2VBZA@28211|Alphaproteobacteria,2JXE2@204441|Rhodospirillales	204441|Rhodospirillales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2264670_2	640081.Dsui_2367	1.627e-68	243.0	COG0565@1|root,COG0565@2|Bacteria,1N47Y@1224|Proteobacteria,2VI2D@28216|Betaproteobacteria,2KW30@206389|Rhodocyclales	206389|Rhodocyclales	J	Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA	trmJ	-	-	ko:K02533	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	SpoU_methylase
LYD3_k127_2264670_4	335283.Neut_0407	1.242e-40	152.0	COG0483@1|root,COG0483@2|Bacteria,1MUQT@1224|Proteobacteria,2VIXG@28216|Betaproteobacteria,372NY@32003|Nitrosomonadales	28216|Betaproteobacteria	G	Inositol monophosphatase	suhB	-	3.1.3.25	ko:K01092	ko00521,ko00562,ko01100,ko04070,map00521,map00562,map01100,map04070	M00131	R01185,R01186,R01187	RC00078	ko00000,ko00001,ko00002,ko01000	-	-	-	Inositol_P
LYD3_k127_2301198_4	987059.RBXJA2T_08078	1.755e-56	205.0	COG0823@1|root,COG1506@1|root,COG0823@2|Bacteria,COG1506@2|Bacteria,1MWGR@1224|Proteobacteria,2VN0X@28216|Betaproteobacteria,1KPBW@119065|unclassified Burkholderiales	28216|Betaproteobacteria	EU	Prolyl oligopeptidase family	-	-	-	-	-	-	-	-	-	-	-	-	PD40,Peptidase_S9
LYD3_k127_2301198_1	926550.CLDAP_06320	2.049e-158	504.0	COG0667@1|root,COG0667@2|Bacteria,2G5YU@200795|Chloroflexi	200795|Chloroflexi	C	Aldo/keto reductase family	-	-	-	-	-	-	-	-	-	-	-	-	Aldo_ket_red
LYD3_k127_2301198_3	1123393.KB891330_gene898	2.531e-110	366.0	COG1814@1|root,COG1814@2|Bacteria,1MUZE@1224|Proteobacteria,2VJ27@28216|Betaproteobacteria,1KSVB@119069|Hydrogenophilales	119069|Hydrogenophilales	S	VIT family	-	-	-	-	-	-	-	-	-	-	-	-	VIT1
LYD3_k127_2301198_2	1163617.SCD_n02069	2.492e-142	464.0	COG1092@1|root,COG1092@2|Bacteria,1MUGB@1224|Proteobacteria,2VKNG@28216|Betaproteobacteria	28216|Betaproteobacteria	J	SMART PUA domain containing protein	rlmI	-	2.1.1.191	ko:K06969	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	Methyltrans_SAM
LYD3_k127_2301198_5	62928.azo0195	1.154e-15	83.0	2EGQC@1|root,33AGI@2|Bacteria,1NGA3@1224|Proteobacteria,2VY93@28216|Betaproteobacteria,2KZKF@206389|Rhodocyclales	206389|Rhodocyclales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	PsiF_repeat
LYD3_k127_2301198_0	640081.Dsui_3444	2.116e-168	536.0	COG0722@1|root,COG0722@2|Bacteria,1MU5Q@1224|Proteobacteria,2VH4W@28216|Betaproteobacteria,2KU9M@206389|Rhodocyclales	206389|Rhodocyclales	E	Stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D- arabino-heptulosonate-7-phosphate (DAHP)	aroG	-	2.5.1.54	ko:K01626	ko00400,ko01100,ko01110,ko01130,ko01230,ko02024,map00400,map01100,map01110,map01130,map01230,map02024	M00022	R01826	RC00435	ko00000,ko00001,ko00002,ko01000	-	-	-	DAHP_synth_1
LYD3_k127_231583_0	265072.Mfla_2471	1.679e-180	573.0	COG0147@1|root,COG0147@2|Bacteria,1MVBJ@1224|Proteobacteria,2VI2V@28216|Betaproteobacteria,2KKDB@206350|Nitrosomonadales	206350|Nitrosomonadales	E	Part of a heterotetrameric complex that catalyzes the two-step biosynthesis of anthranilate, an intermediate in the biosynthesis of L-tryptophan. In the first step, the glutamine- binding beta subunit (TrpG) of anthranilate synthase (AS) provides the glutamine amidotransferase activity which generates ammonia as a substrate that, along with chorismate, is used in the second step, catalyzed by the large alpha subunit of AS (TrpE) to produce anthranilate. In the absence of TrpG, TrpE can synthesize anthranilate directly from chorismate and high concentrations of ammonia	trpE	-	4.1.3.27	ko:K01657	ko00400,ko00405,ko01100,ko01110,ko01130,ko01230,ko02024,ko02025,map00400,map00405,map01100,map01110,map01130,map01230,map02024,map02025	M00023	R00985,R00986	RC00010,RC02148,RC02414	ko00000,ko00001,ko00002,ko01000	-	-	-	Anth_synt_I_N,Chorismate_bind
LYD3_k127_231583_3	1123073.KB899242_gene1542	5.568e-47	187.0	2ASS6@1|root,31I79@2|Bacteria,1QFWH@1224|Proteobacteria,1TD7B@1236|Gammaproteobacteria,1XA9E@135614|Xanthomonadales	135614|Xanthomonadales	S	Polysaccharide deacetylase	-	-	-	-	-	-	-	-	-	-	-	-	Polysacc_deac_1
LYD3_k127_231583_5	1121013.P873_00405	3.157e-13	78.0	294S5@1|root,32CGM@2|Bacteria,1QCUX@1224|Proteobacteria,1T8N7@1236|Gammaproteobacteria,1XAZ4@135614|Xanthomonadales	135614|Xanthomonadales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_231583_2	1121921.KB898706_gene2894	9.53e-54	202.0	2BSEF@1|root,32MGE@2|Bacteria,1N9VN@1224|Proteobacteria,1SG8G@1236|Gammaproteobacteria	1236|Gammaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_231583_4	1121013.P873_03300	4.178e-27	128.0	2BIDC@1|root,32CJH@2|Bacteria,1QCWC@1224|Proteobacteria,1T8Q3@1236|Gammaproteobacteria,1XB2H@135614|Xanthomonadales	1121013.P873_03300|-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_231583_1	635013.TherJR_1606	1.406e-78	265.0	COG0512@1|root,COG0512@2|Bacteria,1TT9R@1239|Firmicutes,24FR0@186801|Clostridia,261J7@186807|Peptococcaceae	186801|Clostridia	EH	TIGRFAM glutamine amidotransferase of anthranilate synthase	pabA	-	2.6.1.85,4.1.3.27	ko:K01658,ko:K01664	ko00400,ko00405,ko00790,ko01100,ko01110,ko01130,ko01230,ko02024,ko02025,map00400,map00405,map00790,map01100,map01110,map01130,map01230,map02024,map02025	M00023	R00985,R00986,R01716	RC00010,RC01418,RC02148,RC02414	ko00000,ko00001,ko00002,ko01000	-	-	-	GATase
LYD3_k127_2319088_1	522306.CAP2UW1_0165	2.945e-95	315.0	COG1538@1|root,COG1538@2|Bacteria,1MUA8@1224|Proteobacteria,2VI5V@28216|Betaproteobacteria,1KQSR@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	M	TIGRFAM RND efflux system, outer membrane lipoprotein, NodT family	-	-	-	ko:K18139	ko01501,ko02024,map01501,map02024	M00642,M00643,M00647,M00718,M00768,M00822	-	-	ko00000,ko00001,ko00002,ko01504,ko02000	1.B.17,2.A.6.2	-	-	OEP
LYD3_k127_2319088_0	443598.AUFA01000032_gene6444	7.743e-192	617.0	COG0457@1|root,COG1413@1|root,COG0457@2|Bacteria,COG1413@2|Bacteria,1MX2U@1224|Proteobacteria,2TVI2@28211|Alphaproteobacteria,3JUS1@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	C	Cytochrome c554 and c-prime	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrome_C554,HEAT_2,Paired_CXXCH_1,TPR_14,TPR_16,TPR_19,TPR_2,TPR_8
LYD3_k127_2342655_0	323848.Nmul_A0639	1.063e-150	482.0	COG1197@1|root,COG1197@2|Bacteria,1MUXG@1224|Proteobacteria,2VI7M@28216|Betaproteobacteria,372K8@32003|Nitrosomonadales	28216|Betaproteobacteria	L	Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site	mfd	-	-	ko:K03723	ko03420,map03420	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	CarD_CdnL_TRCF,DEAD,Helicase_C,TRCF
LYD3_k127_2342655_2	62928.azo0398	5.849e-77	282.0	COG0491@1|root,COG0491@2|Bacteria,1NCIF@1224|Proteobacteria,2VJVR@28216|Betaproteobacteria,2KV3A@206389|Rhodocyclales	206389|Rhodocyclales	S	COG0491 Zn-dependent hydrolases, including glyoxylases	-	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B
LYD3_k127_2342655_4	1163617.SCD_n02161	1.198e-51	192.0	COG2353@1|root,COG2353@2|Bacteria,1R9XD@1224|Proteobacteria,2VQTQ@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Belongs to the UPF0312 family	-	-	-	-	-	-	-	-	-	-	-	-	YceI
LYD3_k127_2342655_5	1286631.X805_02110	9.983e-38	155.0	COG2353@1|root,COG2353@2|Bacteria,1RJFZ@1224|Proteobacteria,2VQHC@28216|Betaproteobacteria,1KKZG@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Belongs to the UPF0312 family	-	-	-	-	-	-	-	-	-	-	-	-	YceI
LYD3_k127_2342655_3	1122603.ATVI01000005_gene3152	4.656e-56	201.0	COG3038@1|root,COG3038@2|Bacteria,1MZ7X@1224|Proteobacteria,1S6Y7@1236|Gammaproteobacteria,1X5Y5@135614|Xanthomonadales	135614|Xanthomonadales	C	Cytochrome B561	yodB	-	-	ko:K12262	-	-	-	-	ko00000	-	-	-	Ni_hydr_CYTB
LYD3_k127_2342655_1	859657.RPSI07_0845	1.92e-80	275.0	COG1346@1|root,COG1346@2|Bacteria,1MV81@1224|Proteobacteria,2VH4N@28216|Betaproteobacteria,1K2SA@119060|Burkholderiaceae	28216|Betaproteobacteria	M	PFAM LrgB family protein	lrgB	-	-	-	-	-	-	-	-	-	-	-	LrgB
LYD3_k127_2342655_6	631362.Thi970DRAFT_04062	5.092e-30	127.0	COG1380@1|root,COG1380@2|Bacteria,1N753@1224|Proteobacteria,1SDBW@1236|Gammaproteobacteria,1WYVC@135613|Chromatiales	135613|Chromatiales	S	PFAM LrgA	-	-	-	ko:K06518	-	-	-	-	ko00000,ko02000	1.E.14.2	-	-	LrgA
LYD3_k127_2342655_7	1265313.HRUBRA_01161	2.073e-16	80.0	COG0116@1|root,COG1092@1|root,COG0116@2|Bacteria,COG1092@2|Bacteria,1MUQM@1224|Proteobacteria,1RNMH@1236|Gammaproteobacteria	1236|Gammaproteobacteria	J	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA	rlmL	GO:0000154,GO:0001510,GO:0003674,GO:0003824,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006139,GO:0006364,GO:0006396,GO:0006725,GO:0006807,GO:0008150,GO:0008152,GO:0008168,GO:0008170,GO:0008173,GO:0008649,GO:0008757,GO:0008990,GO:0009451,GO:0009987,GO:0010467,GO:0016070,GO:0016072,GO:0016435,GO:0016740,GO:0016741,GO:0022613,GO:0031167,GO:0032259,GO:0034470,GO:0034641,GO:0034660,GO:0036265,GO:0042254,GO:0043170,GO:0043412,GO:0043414,GO:0044085,GO:0044237,GO:0044238,GO:0044260,GO:0044424,GO:0044444,GO:0044464,GO:0046483,GO:0070043,GO:0070475,GO:0070476,GO:0071704,GO:0071840,GO:0090304,GO:0140098,GO:0140102,GO:1901360	2.1.1.173,2.1.1.264	ko:K12297	-	-	R07234	RC00003	ko00000,ko01000,ko03009	-	-	-	Methyltrans_SAM,THUMP,UPF0020
LYD3_k127_2358322_3	316055.RPE_3220	1.254e-18	91.0	COG1802@1|root,COG1802@2|Bacteria,1NDRT@1224|Proteobacteria,2TUKM@28211|Alphaproteobacteria,3JUR2@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	K	GntR family	MA20_10290	-	-	-	-	-	-	-	-	-	-	-	FCD,GntR
LYD3_k127_2358322_0	76114.ebA2049	2.798e-189	598.0	COG0183@1|root,COG0183@2|Bacteria,1MXYM@1224|Proteobacteria	1224|Proteobacteria	I	Belongs to the thiolase family	-	-	-	-	-	-	-	-	-	-	-	-	Thiolase_C,Thiolase_N
LYD3_k127_2358322_1	76114.ebA2050	2.567e-171	554.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2VH80@28216|Betaproteobacteria,2KW5T@206389|Rhodocyclales	206389|Rhodocyclales	IQ	COG0318 Acyl-CoA synthetases (AMP-forming) AMP-acid ligases II	-	-	-	ko:K00666	-	-	-	-	ko00000,ko01000,ko01004	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_2358322_2	76114.ebA2051	2.54e-56	203.0	COG0145@1|root,COG0145@2|Bacteria,1MU2Y@1224|Proteobacteria,2VJUZ@28216|Betaproteobacteria,2KY97@206389|Rhodocyclales	206389|Rhodocyclales	EQ	Hydantoinase/oxoprolinase N-terminal region	-	-	3.5.2.14	ko:K01473	ko00330,ko01100,map00330,map01100	-	R03187	RC00632	ko00000,ko00001,ko01000	-	-	-	Hydant_A_N,Hydantoinase_A
LYD3_k127_2359133_0	748247.AZKH_2003	0.0	1027.0	COG3459@1|root,COG3459@2|Bacteria,1MVNX@1224|Proteobacteria,2VKDG@28216|Betaproteobacteria,2KUR9@206389|Rhodocyclales	206389|Rhodocyclales	G	Glycosyl hydrolase 36 superfamily, catalytic domain	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_hydro_36,Glyco_transf_36,Glycoamylase
LYD3_k127_2361589_1	1458357.BG58_10655	3.737e-21	94.0	COG0129@1|root,COG0129@2|Bacteria,1MV4I@1224|Proteobacteria,2VKKY@28216|Betaproteobacteria,1K1H9@119060|Burkholderiaceae	28216|Betaproteobacteria	EG	Belongs to the IlvD Edd family	-	-	4.2.1.25	ko:K13875	ko00053,ko01100,map00053,map01100	-	R02522	RC00543	ko00000,ko00001,ko01000	-	-	-	ILVD_EDD
LYD3_k127_2361589_0	543728.Vapar_3684	9.83e-163	518.0	COG3842@1|root,COG3842@2|Bacteria,1MU3I@1224|Proteobacteria,2VGZM@28216|Betaproteobacteria,4A9W1@80864|Comamonadaceae	28216|Betaproteobacteria	P	Belongs to the ABC transporter superfamily	-	-	-	ko:K10112	ko02010,map02010	M00194,M00196,M00197,M00200,M00201,M00206,M00207,M00491,M00602,M00605,M00606	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.1	-	-	ABC_tran,TOBE_2
LYD3_k127_2361589_2	94624.Bpet3942	1.156e-12	67.0	COG2721@1|root,COG2721@2|Bacteria,1MU9V@1224|Proteobacteria,2VHJB@28216|Betaproteobacteria,3T2II@506|Alcaligenaceae	28216|Betaproteobacteria	G	dehydratase	uxaA	-	4.2.1.42,4.2.1.7,4.4.1.24	ko:K01685,ko:K01708,ko:K16846	ko00040,ko00053,ko00270,ko01100,map00040,map00053,map00270,map01100	M00631	R01540,R05608,R07633	RC00543,RC01785	ko00000,ko00001,ko00002,ko01000	-	-	-	GD_AH_C,SAF
LYD3_k127_23622_4	511.JT27_11075	1.127e-86	289.0	COG0191@1|root,COG0191@2|Bacteria,1MURX@1224|Proteobacteria,2VHGI@28216|Betaproteobacteria,3T1MN@506|Alcaligenaceae	28216|Betaproteobacteria	G	catalyzes the reversible aldol condensation of dihydroxyacetonephosphate and glyceraldehyde 3-phosphate in the Calvin cycle, glycolysis and gluconeogenesis	fba	-	4.1.2.13	ko:K01624	ko00010,ko00030,ko00051,ko00680,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00010,map00030,map00051,map00680,map00710,map01100,map01110,map01120,map01130,map01200,map01230	M00001,M00003,M00165,M00167,M00344,M00345	R01068,R01070,R01829,R02568	RC00438,RC00439,RC00603,RC00604	ko00000,ko00001,ko00002,ko01000	-	-	-	F_bP_aldolase
LYD3_k127_23622_1	640081.Dsui_0052	1.172e-203	649.0	COG0469@1|root,COG0469@2|Bacteria,1MU21@1224|Proteobacteria,2VHN5@28216|Betaproteobacteria,2KV4V@206389|Rhodocyclales	206389|Rhodocyclales	G	Belongs to the pyruvate kinase family	pykA	-	2.7.1.40	ko:K00873	ko00010,ko00230,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,ko04922,ko04930,ko05165,ko05203,ko05230,map00010,map00230,map00620,map01100,map01110,map01120,map01130,map01200,map01230,map04922,map04930,map05165,map05203,map05230	M00001,M00002,M00049,M00050	R00200,R00430,R01138,R01858,R02320	RC00002,RC00015	ko00000,ko00001,ko00002,ko01000,ko04131,ko04147	-	-	-	PK,PK_C
LYD3_k127_23622_3	1218076.BAYB01000011_gene2168	4.034e-168	537.0	COG0126@1|root,COG0126@2|Bacteria,1MUNU@1224|Proteobacteria,2VHJK@28216|Betaproteobacteria,1K22I@119060|Burkholderiaceae	28216|Betaproteobacteria	G	Belongs to the phosphoglycerate kinase family	pgk	GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0044424,GO:0044464	2.7.2.3	ko:K00927	ko00010,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00010,map00710,map01100,map01110,map01120,map01130,map01200,map01230	M00001,M00002,M00003,M00165,M00166,M00308,M00552	R01512	RC00002,RC00043	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	PGK
LYD3_k127_23622_2	983917.RGE_44760	7.563e-194	610.0	COG0057@1|root,COG0057@2|Bacteria,1MU93@1224|Proteobacteria,2VHHG@28216|Betaproteobacteria,1KKA5@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	Belongs to the glyceraldehyde-3-phosphate dehydrogenase family	gapA	GO:0000166,GO:0003674,GO:0003824,GO:0004365,GO:0005488,GO:0008150,GO:0008152,GO:0016491,GO:0016620,GO:0016903,GO:0036094,GO:0043891,GO:0048037,GO:0050662,GO:0051287,GO:0055114,GO:0097159,GO:1901265,GO:1901363	1.2.1.12	ko:K00134	ko00010,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,ko04066,ko05010,map00010,map00710,map01100,map01110,map01120,map01130,map01200,map01230,map04066,map05010	M00001,M00002,M00003,M00165,M00166,M00308,M00552	R01061	RC00149	ko00000,ko00001,ko00002,ko01000,ko04131,ko04147	-	-	-	Gp_dh_C,Gp_dh_N
LYD3_k127_23622_6	375286.mma_0832	6.397e-18	93.0	COG0454@1|root,COG0456@2|Bacteria,1N6RY@1224|Proteobacteria,2WENS@28216|Betaproteobacteria,4749G@75682|Oxalobacteraceae	28216|Betaproteobacteria	K	FR47-like protein	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_23622_0	1123367.C666_01960	1.768e-296	928.0	COG0021@1|root,COG0021@2|Bacteria,1MUEY@1224|Proteobacteria,2VHNX@28216|Betaproteobacteria,2KV91@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate	tkt	-	2.2.1.1	ko:K00615	ko00030,ko00710,ko01051,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00030,map00710,map01051,map01100,map01110,map01120,map01130,map01200,map01230	M00004,M00007,M00165,M00167	R01067,R01641,R01830,R06590	RC00032,RC00226,RC00571,RC01560	ko00000,ko00001,ko00002,ko01000	-	-	-	Transket_pyr,Transketolase_C,Transketolase_N
LYD3_k127_23622_5	228410.NE0348	1.904e-29	125.0	COG1586@1|root,COG1586@2|Bacteria,1RH88@1224|Proteobacteria,2W9PG@28216|Betaproteobacteria,374C0@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Catalyzes the decarboxylation of S-adenosylmethionine to S-adenosylmethioninamine (dcAdoMet), the propylamine donor required for the synthesis of the polyamines spermine and spermidine from the diamine putrescine	-	-	4.1.1.50	ko:K01611	ko00270,ko00330,ko01100,map00270,map00330,map01100	M00034,M00133	R00178	RC00299	ko00000,ko00001,ko00002,ko01000	-	-	-	AdoMet_dc
LYD3_k127_2367430_0	1163617.SCD_n01603	9.568e-218	685.0	COG1894@1|root,COG1905@1|root,COG1894@2|Bacteria,COG1905@2|Bacteria,1MV8F@1224|Proteobacteria,2VHW2@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Respiratory-chain NADH dehydrogenase domain 51 kDa subunit	hoxF	GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0044424,GO:0044464	1.12.1.2	ko:K18005	-	-	-	-	ko00000,ko01000	-	-	-	2Fe-2S_thioredx,Complex1_51K,NADH_4Fe-4S,SLBB
LYD3_k127_237281_3	94624.Bpet0613	1.764e-27	111.0	COG1881@1|root,COG1881@2|Bacteria,1N0Y4@1224|Proteobacteria,2VJ4C@28216|Betaproteobacteria,3T2J4@506|Alcaligenaceae	28216|Betaproteobacteria	S	Phospholipid-binding protein	ybhB	-	-	ko:K06910	-	-	-	-	ko00000	-	-	-	PBP
LYD3_k127_237281_0	1123368.AUIS01000001_gene2024	1.311e-220	707.0	COG3975@1|root,COG3975@2|Bacteria,1MUHZ@1224|Proteobacteria,1RR50@1236|Gammaproteobacteria,2NC0C@225057|Acidithiobacillales	225057|Acidithiobacillales	S	M61 glycyl aminopeptidase	-	-	-	-	-	-	-	-	-	-	-	-	PDZ_2,Peptidase_M61
LYD3_k127_237281_2	1121013.P873_01410	6.494e-35	140.0	COG2944@1|root,COG2944@2|Bacteria,1N21E@1224|Proteobacteria,1SS0W@1236|Gammaproteobacteria,1X8P3@135614|Xanthomonadales	135614|Xanthomonadales	K	Helix-turn-helix	-	-	-	-	-	-	-	-	-	-	-	-	HTH_3,HTH_31
LYD3_k127_237281_1	1380391.JIAS01000020_gene1621	7.817e-55	197.0	COG0625@1|root,COG0625@2|Bacteria,1N8XH@1224|Proteobacteria,2TTHQ@28211|Alphaproteobacteria,2JPQW@204441|Rhodospirillales	204441|Rhodospirillales	O	Glutathione S-transferase, C-terminal domain	-	-	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	GST_C_3
LYD3_k127_2432573_0	580332.Slit_2523	1.16e-244	762.0	COG0380@1|root,COG0380@2|Bacteria,1MUIY@1224|Proteobacteria,2VIAZ@28216|Betaproteobacteria	28216|Betaproteobacteria	G	Probably involved in the osmoprotection via the biosynthesis of trehalose. Catalyzes the transfer of glucose from UDP-glucose (UDP-Glc) to D-glucose 6-phosphate (Glc-6-P) to form trehalose-6-phosphate. Acts with retention of the anomeric configuration of the UDP-sugar donor	-	-	2.4.1.15,2.4.1.347	ko:K00697	ko00500,ko01100,map00500,map01100	-	R02737	RC00005,RC00049,RC02748	ko00000,ko00001,ko01000,ko01003	-	GT20	-	Glyco_transf_20
LYD3_k127_2432573_1	311402.Avi_0371	3.473e-27	117.0	COG1877@1|root,COG1877@2|Bacteria,1RGY2@1224|Proteobacteria,2U9NF@28211|Alphaproteobacteria,4BCQC@82115|Rhizobiaceae	28211|Alphaproteobacteria	G	Removes the phosphate from trehalose 6-phosphate to produce free trehalose	otsB	-	3.1.3.12	ko:K01087	ko00500,ko01100,map00500,map01100	-	R02778	RC00017	ko00000,ko00001,ko01000	-	-	-	Trehalose_PPase
LYD3_k127_248000_0	748247.AZKH_2038	2.431e-227	720.0	COG0574@1|root,COG1080@1|root,COG0574@2|Bacteria,COG1080@2|Bacteria,1MU0R@1224|Proteobacteria,2VHQ3@28216|Betaproteobacteria,2KU6V@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the phosphorylation of pyruvate to phosphoenolpyruvate	pps	-	2.7.9.2	ko:K01007	ko00620,ko00680,ko00720,ko01100,ko01120,ko01200,map00620,map00680,map00720,map01100,map01120,map01200	M00173,M00374	R00199	RC00002,RC00015	ko00000,ko00001,ko00002,ko01000	-	-	-	PEP-utilizers,PEP-utilizers_C,PPDK_N
LYD3_k127_2484515_2	1123073.KB899242_gene1441	3.064e-54	200.0	COG0381@1|root,COG0381@2|Bacteria,1MWZN@1224|Proteobacteria,1RPNC@1236|Gammaproteobacteria,1X4MZ@135614|Xanthomonadales	135614|Xanthomonadales	M	UDP-N-acetylglucosamine 2-epimerase	-	-	5.1.3.14	ko:K01791	ko00520,ko01100,ko05111,map00520,map01100,map05111	M00362	R00420	RC00290	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Epimerase_2,Glycos_transf_4
LYD3_k127_2484515_0	331869.BAL199_18123	2.799e-148	478.0	COG0329@1|root,COG0329@2|Bacteria,1MWV5@1224|Proteobacteria,2TRE1@28211|Alphaproteobacteria,4BSYJ@82117|unclassified Alphaproteobacteria	28211|Alphaproteobacteria	EM	Dihydrodipicolinate synthetase family	-	-	4.2.1.43,4.3.3.7	ko:K01714,ko:K13876	ko00053,ko00261,ko00300,ko01100,ko01110,ko01120,ko01130,ko01230,map00053,map00261,map00300,map01100,map01110,map01120,map01130,map01230	M00016,M00525,M00526,M00527	R02278,R10147	RC00429,RC03062,RC03063	ko00000,ko00001,ko00002,ko01000	-	-	-	DHDPS
LYD3_k127_2484515_1	1120960.ATXG01000027_gene1290	6.367e-70	245.0	28KUM@1|root,2ZABC@2|Bacteria	2|Bacteria	S	Protein of unknown function (DUF2868)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2868,DUF3482
LYD3_k127_252321_2	1437882.AZRU01000059_gene4118	6.889e-51	184.0	COG0139@1|root,COG0139@2|Bacteria,1MW67@1224|Proteobacteria,1RMV4@1236|Gammaproteobacteria,1YFSV@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	E	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP	hisI	GO:0000105,GO:0003674,GO:0003824,GO:0004635,GO:0006082,GO:0006520,GO:0006547,GO:0006725,GO:0006807,GO:0008150,GO:0008152,GO:0008652,GO:0009058,GO:0009987,GO:0016053,GO:0016787,GO:0016810,GO:0016814,GO:0018130,GO:0019238,GO:0019438,GO:0019752,GO:0034641,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044281,GO:0044283,GO:0046394,GO:0046483,GO:0052803,GO:0071704,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1901605,GO:1901607	3.5.4.19,3.6.1.31	ko:K01496,ko:K11755	ko00340,ko01100,ko01110,ko01230,map00340,map01100,map01110,map01230	M00026	R04035,R04037	RC00002,RC01055	ko00000,ko00001,ko00002,ko01000	-	-	iJN746.PP_5014	PRA-CH,PRA-PH
LYD3_k127_252321_1	62928.azo3344	8.87e-110	368.0	COG0107@1|root,COG0107@2|Bacteria,1MUS0@1224|Proteobacteria,2VHY0@28216|Betaproteobacteria,2KV5N@206389|Rhodocyclales	206389|Rhodocyclales	E	IGPS catalyzes the conversion of PRFAR and glutamine to IGP, AICAR and glutamate. The HisF subunit catalyzes the cyclization activity that produces IGP and AICAR from PRFAR using the ammonia provided by the HisH subunit	hisF	-	-	ko:K02500	ko00340,ko01100,ko01110,ko01230,map00340,map01100,map01110,map01230	M00026	R04558	RC00010,RC01190,RC01943	ko00000,ko00001,ko00002,ko01000	-	-	-	His_biosynth
LYD3_k127_252321_0	748247.AZKH_0759	1.041e-119	388.0	COG0106@1|root,COG0106@2|Bacteria,1MW6S@1224|Proteobacteria,2VI38@28216|Betaproteobacteria,2KUM6@206389|Rhodocyclales	206389|Rhodocyclales	E	1-(5-phosphoribosyl)-5- (5-phosphoribosylamino)methylideneamino imidazole-4-carboxamide isomerase	hisA	-	5.3.1.16	ko:K01814	ko00340,ko01100,ko01110,ko01230,map00340,map01100,map01110,map01230	M00026	R04640	RC00945	ko00000,ko00001,ko00002,ko01000	-	-	-	His_biosynth
LYD3_k127_264956_0	1485544.JQKP01000001_gene1297	1.379e-96	319.0	COG0541@1|root,COG0541@2|Bacteria,1MVIA@1224|Proteobacteria,2VJ3W@28216|Betaproteobacteria,44VCY@713636|Nitrosomonadales	28216|Betaproteobacteria	U	Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual components	ffh	-	3.6.5.4	ko:K03106	ko02024,ko03060,ko03070,map02024,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko01000,ko02044	3.A.5.1,3.A.5.2,3.A.5.7,3.A.5.8,3.A.5.9	-	-	SRP54,SRP54_N,SRP_SPB
LYD3_k127_264956_2	1121035.AUCH01000007_gene552	4.349e-31	130.0	COG0228@1|root,COG0228@2|Bacteria,1MZCT@1224|Proteobacteria,2VTYP@28216|Betaproteobacteria,2KWWW@206389|Rhodocyclales	206389|Rhodocyclales	J	Belongs to the bacterial ribosomal protein bS16 family	rpsP	-	-	ko:K02959	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011,ko03029	-	-	-	Ribosomal_S16
LYD3_k127_264956_1	62928.azo2899	3.154e-38	152.0	COG0806@1|root,COG0806@2|Bacteria,1MWQR@1224|Proteobacteria,2VQ0H@28216|Betaproteobacteria,2KWFJ@206389|Rhodocyclales	206389|Rhodocyclales	J	An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes	rimM	-	-	ko:K02860	-	-	-	-	ko00000,ko03009	-	-	-	PRC,RimM
LYD3_k127_264956_3	1283300.ATXB01000001_gene1889	0.0003912	43.0	COG0336@1|root,COG0336@2|Bacteria,1MUN1@1224|Proteobacteria,1RMWC@1236|Gammaproteobacteria,1XDQV@135618|Methylococcales	135618|Methylococcales	J	Belongs to the RNA methyltransferase TrmD family	trmD	-	2.1.1.228	ko:K00554	-	-	R00597	RC00003,RC00334	ko00000,ko01000,ko03016	-	-	-	tRNA_m1G_MT
LYD3_k127_2678478_15	1038859.AXAU01000017_gene6283	5.448e-17	80.0	COG3622@1|root,COG3622@2|Bacteria,1MV53@1224|Proteobacteria,2TSVI@28211|Alphaproteobacteria,3JQMJ@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	G	Belongs to the hyi family	MA20_16445	-	5.3.1.35	ko:K22131	-	-	-	-	ko00000,ko01000	-	-	-	AP_endonuc_2
LYD3_k127_2678478_4	159450.NH14_20025	1.018e-173	556.0	COG0641@1|root,COG0641@2|Bacteria,1MX3M@1224|Proteobacteria,2VYFJ@28216|Betaproteobacteria,1K4C2@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Radical SAM superfamily	-	-	-	ko:K06871	-	-	-	-	ko00000	-	-	-	Fer4_12,Radical_SAM,SPASM
LYD3_k127_2678478_1	338969.Rfer_0048	3.389e-212	670.0	COG1012@1|root,COG1012@2|Bacteria,1MVGW@1224|Proteobacteria,2VI2E@28216|Betaproteobacteria,4A9P2@80864|Comamonadaceae	28216|Betaproteobacteria	C	Belongs to the aldehyde dehydrogenase family	calB	-	1.2.1.3,1.2.1.68	ko:K00128,ko:K00154	ko00010,ko00053,ko00071,ko00280,ko00310,ko00330,ko00340,ko00380,ko00410,ko00561,ko00620,ko00625,ko00903,ko00981,ko01100,ko01110,ko01120,ko01130,map00010,map00053,map00071,map00280,map00310,map00330,map00340,map00380,map00410,map00561,map00620,map00625,map00903,map00981,map01100,map01110,map01120,map01130	M00135	R00264,R00631,R00710,R00904,R01752,R01986,R02549,R02678,R02940,R02957,R03283,R03869,R04065,R04506,R04903,R05050,R05237,R05238,R05286,R06366,R08146	RC00047,RC00071,RC00080,RC00186,RC00218,RC00242,RC00816,RC01500	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_2678478_3	1121127.JAFA01000032_gene4366	2.305e-174	557.0	COG1819@1|root,COG1819@2|Bacteria,1MVI7@1224|Proteobacteria,2VRHM@28216|Betaproteobacteria,1K4AB@119060|Burkholderiaceae	28216|Betaproteobacteria	CG	glycosyl transferase	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_28,UDPGT
LYD3_k127_2678478_9	887062.HGR_12422	2.079e-52	200.0	COG0702@1|root,COG0702@2|Bacteria,1MZG7@1224|Proteobacteria,2VRAU@28216|Betaproteobacteria,4AE2V@80864|Comamonadaceae	28216|Betaproteobacteria	GM	Nucleoside-diphosphate-sugar epimerases	-	-	-	-	-	-	-	-	-	-	-	-	NAD_binding_10
LYD3_k127_2678478_14	460265.Mnod_7305	4.591e-19	89.0	COG0288@1|root,COG0288@2|Bacteria,1NGFN@1224|Proteobacteria,2TU0G@28211|Alphaproteobacteria,1JUMY@119045|Methylobacteriaceae	28211|Alphaproteobacteria	P	Reversible hydration of carbon dioxide	-	-	4.2.1.1	ko:K01673	ko00910,map00910	-	R00132,R10092	RC02807	ko00000,ko00001,ko01000	-	-	-	Pro_CA
LYD3_k127_2678478_8	522306.CAP2UW1_1606	2.777e-85	292.0	COG2267@1|root,COG2267@2|Bacteria,1R41P@1224|Proteobacteria,2VNV3@28216|Betaproteobacteria	28216|Betaproteobacteria	I	PFAM alpha beta hydrolase fold	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_1,Abhydrolase_4
LYD3_k127_2678478_17	224911.27350827	0.0003166	44.0	2F0SV@1|root,33TUX@2|Bacteria	2|Bacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2678478_5	1266925.JHVX01000009_gene45	6.083e-116	381.0	COG0142@1|root,COG0142@2|Bacteria,1MUK6@1224|Proteobacteria,2VHX4@28216|Betaproteobacteria,372MJ@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Belongs to the FPP GGPP synthase family	ispB	-	2.5.1.90	ko:K02523	ko00900,ko01110,map00900,map01110	-	R09248	RC00279	ko00000,ko00001,ko01000,ko01006	-	-	-	polyprenyl_synt
LYD3_k127_2678478_10	1163617.SCD_n02106	2.168e-48	175.0	COG0261@1|root,COG0261@2|Bacteria,1MZEW@1224|Proteobacteria,2VSHZ@28216|Betaproteobacteria	28216|Betaproteobacteria	J	This protein binds to 23S rRNA in the presence of protein L20	rplU	-	-	ko:K02888	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L21p
LYD3_k127_2678478_12	640081.Dsui_0164	5.092e-36	139.0	COG0211@1|root,COG0211@2|Bacteria,1MZGH@1224|Proteobacteria,2VU4W@28216|Betaproteobacteria,2KX43@206389|Rhodocyclales	206389|Rhodocyclales	J	Belongs to the bacterial ribosomal protein bL27 family	rpmA	-	-	ko:K02899	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L27
LYD3_k127_2678478_6	1163617.SCD_n00813	3.187e-100	346.0	COG0795@1|root,COG0795@2|Bacteria,1MVW3@1224|Proteobacteria,2VHA1@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Permease, YjgP YjgQ family	lptG	-	-	ko:K11720	ko02010,map02010	M00320	-	-	ko00000,ko00001,ko00002,ko02000	1.B.42.1	-	-	YjgP_YjgQ
LYD3_k127_2678478_7	1163617.SCD_n00812	9.912e-90	308.0	COG0795@1|root,COG0795@2|Bacteria,1MUF2@1224|Proteobacteria,2VH9C@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Permease, YjgP YjgQ family	lptF	-	-	ko:K07091	ko02010,map02010	M00320	-	-	ko00000,ko00001,ko00002,ko02000	1.B.42.1	-	-	YjgP_YjgQ
LYD3_k127_2678478_2	243365.CV_2914	2.695e-205	650.0	COG0260@1|root,COG0260@2|Bacteria,1MUF9@1224|Proteobacteria,2VH79@28216|Betaproteobacteria,2KQ8S@206351|Neisseriales	206351|Neisseriales	E	Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides	pepA	-	3.4.11.1	ko:K01255	ko00480,ko01100,map00480,map01100	-	R00899,R04951	RC00096,RC00141	ko00000,ko00001,ko01000,ko01002	-	-	-	Peptidase_M17,Peptidase_M17_N
LYD3_k127_2678478_13	1163617.SCD_n00810	1.013e-30	131.0	COG2927@1|root,COG2927@2|Bacteria,1MZ3V@1224|Proteobacteria,2VTYC@28216|Betaproteobacteria	28216|Betaproteobacteria	L	dna polymerase III (Chi subunit)	holC	-	2.7.7.7	ko:K02339	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	DNA_pol3_chi
LYD3_k127_2678478_16	443144.GM21_3442	5.075e-14	81.0	2DP14@1|root,3303I@2|Bacteria,1N7JW@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2678478_11	522306.CAP2UW1_3208	2.181e-40	156.0	2CESE@1|root,32S0D@2|Bacteria,1RHTD@1224|Proteobacteria,2VSJ5@28216|Betaproteobacteria,1KQXW@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	Glycine-zipper domain	-	-	-	-	-	-	-	-	-	-	-	-	Gly-zipper_OmpA,Gly-zipper_YMGG
LYD3_k127_2678478_0	395019.Bmul_1874	6.154e-241	758.0	COG0525@1|root,COG0525@2|Bacteria,1MV7B@1224|Proteobacteria,2VH5Z@28216|Betaproteobacteria,1K21B@119060|Burkholderiaceae	28216|Betaproteobacteria	J	amino acids such as threonine, to avoid such errors, it has a posttransfer editing activity that hydrolyzes mischarged Thr-tRNA(Val) in a tRNA-dependent manner	valS	-	6.1.1.9	ko:K01873	ko00970,map00970	M00359,M00360	R03665	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	Anticodon_1,Val_tRNA-synt_C,tRNA-synt_1
LYD3_k127_269233_1	748247.AZKH_3724	5.698e-117	398.0	COG1181@1|root,COG1181@2|Bacteria,1MUTB@1224|Proteobacteria,2VHIW@28216|Betaproteobacteria,2KU92@206389|Rhodocyclales	206389|Rhodocyclales	F	Belongs to the D-alanine--D-alanine ligase family	ddl	-	6.3.2.4	ko:K01921	ko00473,ko00550,ko01100,ko01502,map00473,map00550,map01100,map01502	-	R01150	RC00064,RC00141	ko00000,ko00001,ko01000,ko01011	-	-	-	Dala_Dala_lig_C,Dala_Dala_lig_N
LYD3_k127_269233_2	1485544.JQKP01000002_gene1624	2.39e-95	334.0	COG0812@1|root,COG0812@2|Bacteria,1MXDH@1224|Proteobacteria,2W9FB@28216|Betaproteobacteria,44WEF@713636|Nitrosomonadales	28216|Betaproteobacteria	M	UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain	-	-	1.3.1.98	ko:K00075	ko00520,ko00550,ko01100,map00520,map00550,map01100	-	R03191,R03192	RC02639	ko00000,ko00001,ko01000,ko01011	-	-	-	FAD_binding_4,MurB_C
LYD3_k127_269233_0	1163617.SCD_n02484	3.731e-165	525.0	COG0773@1|root,COG0773@2|Bacteria,1MV68@1224|Proteobacteria,2VIKZ@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Belongs to the MurCDEF family	murC	-	6.3.2.8	ko:K01924	ko00471,ko00550,ko01100,map00471,map00550,map01100	-	R03193	RC00064,RC00141	ko00000,ko00001,ko01000,ko01011	-	-	-	Mur_ligase,Mur_ligase_C,Mur_ligase_M
LYD3_k127_2692773_0	1123368.AUIS01000007_gene2751	1.29e-97	325.0	COG0152@1|root,COG0152@2|Bacteria,1MUR9@1224|Proteobacteria,1RNNY@1236|Gammaproteobacteria,2NCSZ@225057|Acidithiobacillales	225057|Acidithiobacillales	F	cobalamin biosynthetic process	purC	-	6.3.2.6	ko:K01923	ko00230,ko01100,ko01110,ko01130,map00230,map01100,map01110,map01130	M00048	R04591	RC00064,RC00162	ko00000,ko00001,ko00002,ko01000	-	-	-	SAICAR_synt
LYD3_k127_2692773_1	395494.Galf_2199	5.68e-78	265.0	COG1235@1|root,COG1235@2|Bacteria,1R5N4@1224|Proteobacteria,2VKSE@28216|Betaproteobacteria,44V64@713636|Nitrosomonadales	28216|Betaproteobacteria	S	Beta-lactamase superfamily domain	-	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B_2
LYD3_k127_2699269_3	1131553.JIBI01000046_gene1590	2.707e-69	237.0	COG1217@1|root,COG1217@2|Bacteria,1MV5Q@1224|Proteobacteria,2VH2W@28216|Betaproteobacteria,372H8@32003|Nitrosomonadales	28216|Betaproteobacteria	T	protein synthesis factor, GTP-binding	typA	-	-	ko:K06207	-	-	-	-	ko00000	-	-	-	EFG_C,GTP_EFTU,GTP_EFTU_D2
LYD3_k127_2699269_1	1163617.SCD_n01508	1.376e-162	530.0	COG0513@1|root,COG0513@2|Bacteria,1MU49@1224|Proteobacteria,2VH16@28216|Betaproteobacteria	1224|Proteobacteria	L	Belongs to the DEAD box helicase family	rhlE2	GO:0003674,GO:0003724,GO:0003824,GO:0004004,GO:0004386,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0008026,GO:0008104,GO:0008150,GO:0008186,GO:0016462,GO:0016787,GO:0016817,GO:0016818,GO:0016887,GO:0017111,GO:0032991,GO:0033036,GO:0035770,GO:0036464,GO:0042623,GO:0043186,GO:0043226,GO:0043228,GO:0043229,GO:0043232,GO:0044424,GO:0044444,GO:0044464,GO:0045495,GO:0051179,GO:0060293,GO:0070035,GO:0140098,GO:1990904	3.6.4.13	ko:K11927	ko03018,map03018	-	-	-	ko00000,ko00001,ko01000,ko03019	-	-	-	DEAD,Helicase_C
LYD3_k127_2699269_0	1211115.ALIQ01000224_gene1845	8.958e-280	874.0	COG1123@1|root,COG4172@2|Bacteria,1MU09@1224|Proteobacteria,2TQP0@28211|Alphaproteobacteria	28211|Alphaproteobacteria	P	Belongs to the ABC transporter superfamily	-	-	-	ko:K02031,ko:K02032,ko:K13892	ko02010,ko02024,map02010,map02024	M00239,M00348	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.11	-	-	ABC_tran,oligo_HPY
LYD3_k127_2699269_2	864073.HFRIS_011933	1.436e-129	423.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2VHXW@28216|Betaproteobacteria,4764T@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	ABC-type dipeptide transport system, periplasmic	gsiB_6	-	-	ko:K02035,ko:K13889	ko02010,ko02024,map02010,map02024	M00239,M00348	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.11	-	-	SBP_bac_5
LYD3_k127_2700729_1	62928.azo0660	5.047e-53	190.0	COG1132@1|root,COG1132@2|Bacteria,1MUBM@1224|Proteobacteria,2VIAP@28216|Betaproteobacteria,2KVEC@206389|Rhodocyclales	206389|Rhodocyclales	V	COG1132 ABC-type multidrug transport system, ATPase and permease components	-	-	-	ko:K18893	ko02010,map02010	-	-	-	ko00000,ko00001,ko02000	3.A.1	-	-	ABC_membrane,ABC_tran
LYD3_k127_2700729_0	472759.Nhal_3001	5.959e-77	264.0	COG5654@1|root,COG5654@2|Bacteria,1N5WH@1224|Proteobacteria,1T1AI@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	PFAM RES domain	-	-	-	-	-	-	-	-	-	-	-	-	RES
LYD3_k127_2700729_2	666685.R2APBS1_0032	2.312e-48	177.0	COG5642@1|root,COG5642@2|Bacteria,1N1FN@1224|Proteobacteria,1S5GC@1236|Gammaproteobacteria,1X6GX@135614|Xanthomonadales	135614|Xanthomonadales	S	Protein of unknown function (DUF2384)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2384
LYD3_k127_2700729_4	1198452.Jab_1c00310	1.956e-37	147.0	COG0664@1|root,COG0664@2|Bacteria,1N4C9@1224|Proteobacteria,2VVJC@28216|Betaproteobacteria,4761J@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	Cyclic nucleotide-monophosphate binding domain	-	-	-	-	-	-	-	-	-	-	-	-	cNMP_binding
LYD3_k127_2700729_3	640081.Dsui_2429	1.649e-39	161.0	COG0628@1|root,COG0628@2|Bacteria,1PM24@1224|Proteobacteria,2VPEN@28216|Betaproteobacteria,2KVTH@206389|Rhodocyclales	206389|Rhodocyclales	S	AI-2E family transporter	-	-	-	-	-	-	-	-	-	-	-	-	AI-2E_transport
LYD3_k127_2702409_1	472759.Nhal_2760	1.981e-112	381.0	2BVW3@1|root,2Z7TB@2|Bacteria,1MY60@1224|Proteobacteria,1RNI9@1236|Gammaproteobacteria,1WW9W@135613|Chromatiales	135613|Chromatiales	S	PFAM 5'-nucleotidase	-	-	3.1.3.5	ko:K01081	ko00230,ko00240,ko00760,ko01100,ko01110,map00230,map00240,map00760,map01100,map01110	-	R00183,R00511,R00963,R01126,R01227,R01569,R01664,R01968,R02088,R02102,R02323,R02719,R03346	RC00017	ko00000,ko00001,ko01000	-	-	-	5-nucleotidase
LYD3_k127_2702409_5	365046.Rta_11400	6.614e-67	233.0	COG2050@1|root,COG2050@2|Bacteria,1RK46@1224|Proteobacteria,2VPWT@28216|Betaproteobacteria,4ADDQ@80864|Comamonadaceae	28216|Betaproteobacteria	Q	Thioesterase superfamily protein	-	-	-	-	-	-	-	-	-	-	-	-	4HBT
LYD3_k127_2702409_2	864073.HFRIS_012669	5.275e-98	336.0	COG1126@1|root,COG1126@2|Bacteria,1MU9Q@1224|Proteobacteria,2VHIC@28216|Betaproteobacteria	28216|Betaproteobacteria	E	ABC transporter	glnQ	-	3.6.3.21	ko:K02028	-	M00236	-	-	ko00000,ko00002,ko01000,ko02000	3.A.1.3	-	-	ABC_tran
LYD3_k127_2702409_3	999541.bgla_1g23380	2.014e-85	287.0	COG0765@1|root,COG0765@2|Bacteria,1MWF0@1224|Proteobacteria,2VKGV@28216|Betaproteobacteria,1K3BK@119060|Burkholderiaceae	28216|Betaproteobacteria	P	amino acid ABC transporter	-	-	-	ko:K02029,ko:K10009	ko02010,map02010	M00234,M00236	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.3,3.A.1.3.10,3.A.1.3.14	-	-	BPD_transp_1
LYD3_k127_2702409_4	1126627.BAWE01000002_gene109	9.64e-85	294.0	COG0834@1|root,COG0834@2|Bacteria,1MV3Q@1224|Proteobacteria,2VF17@28211|Alphaproteobacteria,3JTJP@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	ET	Bacterial periplasmic substrate-binding proteins	MA20_09790	-	-	ko:K02030	-	M00236	-	-	ko00000,ko00002,ko02000	3.A.1.3	-	-	SBP_bac_3
LYD3_k127_2702409_0	338969.Rfer_0231	9.891e-153	488.0	COG0665@1|root,COG0665@2|Bacteria,1MVGP@1224|Proteobacteria,2VK6W@28216|Betaproteobacteria,4AB5T@80864|Comamonadaceae	28216|Betaproteobacteria	E	FAD dependent oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	DAO
LYD3_k127_2710816_6	596154.Alide2_0601	4.554e-10	70.0	COG1451@1|root,COG1451@2|Bacteria,1MXZU@1224|Proteobacteria,2VNC5@28216|Betaproteobacteria,4A9K3@80864|Comamonadaceae	28216|Betaproteobacteria	S	Protein of unknown function DUF45	-	-	-	ko:K07043	-	-	-	-	ko00000	-	-	-	DUF45
LYD3_k127_2710816_5	305700.B447_08124	5.563e-68	247.0	COG0204@1|root,COG0204@2|Bacteria,1MY51@1224|Proteobacteria,2VNAX@28216|Betaproteobacteria,2KVVS@206389|Rhodocyclales	206389|Rhodocyclales	I	Acyltransferase	nlaB	-	2.3.1.51	ko:K00655	ko00561,ko00564,ko01100,ko01110,map00561,map00564,map01100,map01110	M00089	R02241,R09381	RC00004,RC00037,RC00039	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	Acyltransferase
LYD3_k127_2710816_4	1236959.BAMT01000004_gene817	1.128e-78	267.0	COG0241@1|root,COG0241@2|Bacteria,1RDGR@1224|Proteobacteria,2VQ49@28216|Betaproteobacteria,2KME7@206350|Nitrosomonadales	206350|Nitrosomonadales	E	TIGRFAM histidinol-phosphate phosphatase family protein	-	-	3.1.3.82,3.1.3.83	ko:K03273	ko00540,ko01100,map00540,map01100	M00064	R05647,R09771	RC00017	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Hydrolase_like,PNK3P
LYD3_k127_2710816_0	1095769.CAHF01000001_gene3449	1.402e-215	707.0	COG0751@1|root,COG0751@2|Bacteria,1MV2F@1224|Proteobacteria,2VICG@28216|Betaproteobacteria,472EV@75682|Oxalobacteraceae	28216|Betaproteobacteria	J	Glycyl-tRNA synthetase beta subunit	glyS	-	6.1.1.14	ko:K01879	ko00970,map00970	M00360	R03654	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	DALR_1,tRNA_synt_2f
LYD3_k127_2710816_1	556268.OFAG_01221	4.076e-172	543.0	COG0752@1|root,COG0752@2|Bacteria,1MVCJ@1224|Proteobacteria,2VIQX@28216|Betaproteobacteria,4735F@75682|Oxalobacteraceae	28216|Betaproteobacteria	J	Glycyl-tRNA synthetase, alpha subunit	glyQ	-	6.1.1.14	ko:K01878	ko00970,map00970	M00360	R03654	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	tRNA-synt_2e
LYD3_k127_2710816_2	395494.Galf_1875	9.012e-116	400.0	COG0815@1|root,COG0815@2|Bacteria,1MUBU@1224|Proteobacteria,2VH1I@28216|Betaproteobacteria,44VMW@713636|Nitrosomonadales	28216|Betaproteobacteria	M	Transfers the fatty acyl group on membrane lipoproteins	lnt	-	-	ko:K03820	-	-	-	-	ko00000,ko01000	-	GT2	-	CN_hydrolase
LYD3_k127_2710816_3	1121004.ATVC01000003_gene498	3.19e-93	310.0	COG4535@1|root,COG4535@2|Bacteria,1QTU8@1224|Proteobacteria,2VIU8@28216|Betaproteobacteria,2KPI4@206351|Neisseriales	206351|Neisseriales	P	CBS domain protein	corC	-	-	ko:K06189	-	-	-	-	ko00000,ko02000	9.A.40.1.2	-	-	CBS,CorC_HlyC
LYD3_k127_2718891_14	1244869.H261_12669	1.158e-09	59.0	COG1529@1|root,COG1529@2|Bacteria,1QTTJ@1224|Proteobacteria,2TQVK@28211|Alphaproteobacteria,2JPB3@204441|Rhodospirillales	204441|Rhodospirillales	C	COG1529 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL CutL homologs	-	-	-	-	-	-	-	-	-	-	-	-	Ald_Xan_dh_C2
LYD3_k127_2718891_8	153948.NAL212_0192	1.08e-28	130.0	COG5549@1|root,COG5549@2|Bacteria,1PE84@1224|Proteobacteria,2WC16@28216|Betaproteobacteria,37458@32003|Nitrosomonadales	28216|Betaproteobacteria	O	protein import	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2718891_12	1198452.Jab_1c05920	1.561e-12	79.0	COG1477@1|root,COG1477@2|Bacteria,1MW6K@1224|Proteobacteria,2VPGP@28216|Betaproteobacteria,472BX@75682|Oxalobacteraceae	28216|Betaproteobacteria	H	Flavin transferase that catalyzes the transfer of the FMN moiety of FAD and its covalent binding to the hydroxyl group of a threonine residue in a target flavoprotein	-	-	2.7.1.180	ko:K03734	-	-	-	-	ko00000,ko01000	-	-	-	ApbE
LYD3_k127_2718891_6	1123393.KB891331_gene2916	6.116e-41	164.0	COG1416@1|root,COG1416@2|Bacteria,1RE8C@1224|Proteobacteria,2VV8B@28216|Betaproteobacteria,1KT2D@119069|Hydrogenophilales	119069|Hydrogenophilales	S	DsrE/DsrF-like family	-	-	-	-	-	-	-	-	-	-	-	-	DrsE
LYD3_k127_2718891_7	1121351.AUAP01000005_gene11	6.464e-36	144.0	COG0790@1|root,COG0790@2|Bacteria,1MWPA@1224|Proteobacteria,2VM3A@28216|Betaproteobacteria,2KPMA@206351|Neisseriales	206351|Neisseriales	KLT	Psort location Extracellular, score	-	-	-	ko:K07126	-	-	-	-	ko00000	-	-	-	Sel1
LYD3_k127_2718891_10	1454004.AW11_00603	1.867e-22	100.0	2CHAX@1|root,32ZC9@2|Bacteria,1N6X2@1224|Proteobacteria,2VW2I@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Protein of unknown function (DUF3301)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3301
LYD3_k127_2718891_3	1380391.JIAS01000018_gene973	5.357e-104	351.0	COG2114@1|root,COG2114@2|Bacteria,1QTFI@1224|Proteobacteria,2TRNP@28211|Alphaproteobacteria,2JQC8@204441|Rhodospirillales	204441|Rhodospirillales	T	Adenylyl- / guanylyl cyclase, catalytic domain	-	-	-	-	-	-	-	-	-	-	-	-	Guanylate_cyc
LYD3_k127_2718891_5	216594.MMAR_1414	2.554e-48	182.0	COG2114@1|root,COG2114@2|Bacteria,2IE0W@201174|Actinobacteria,236AM@1762|Mycobacteriaceae	201174|Actinobacteria	T	Adenylate guanylate cyclase	-	-	4.6.1.1	ko:K01768	ko00230,ko02025,ko04113,ko04213,map00230,map02025,map04113,map04213	M00695	R00089,R00434	RC00295	ko00000,ko00001,ko00002,ko01000	-	-	-	Guanylate_cyc,YHS
LYD3_k127_2718891_11	153948.NAL212_1976	1.523e-13	74.0	2EJQP@1|root,33DFH@2|Bacteria,1NI6C@1224|Proteobacteria,2W6P5@28216|Betaproteobacteria,374ES@32003|Nitrosomonadales	28216|Betaproteobacteria	C	Specific class of high-redox-potential 4Fe-4S ferredoxins. Functions in anaerobic electron transport in most purple and in some other photosynthetic bacteria and in at least one genus (Paracoccus) of halophilic, denitrifying bacteria	-	-	-	-	-	-	-	-	-	-	-	-	HIPIP
LYD3_k127_2718891_1	395495.Lcho_2991	2.461e-163	532.0	2EFKN@1|root,339CX@2|Bacteria,1N8ST@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2718891_2	395495.Lcho_2991	2.491e-161	526.0	2EFKN@1|root,339CX@2|Bacteria,1N8ST@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2718891_9	338969.Rfer_1384	2.526e-28	126.0	COG3134@1|root,COG3134@2|Bacteria,1MY27@1224|Proteobacteria,2VMUB@28216|Betaproteobacteria,4AD9C@80864|Comamonadaceae	28216|Betaproteobacteria	S	Beta/Gamma crystallin	-	-	-	-	-	-	-	-	-	-	-	-	Crystall,Rick_17kDa_Anti
LYD3_k127_2718891_16	314270.RB2083_1339	0.0001945	46.0	COG2207@1|root,COG2207@2|Bacteria,1MX23@1224|Proteobacteria,2TT6H@28211|Alphaproteobacteria,3ZIKW@58840|unclassified Rhodobacteraceae	28211|Alphaproteobacteria	K	K COG2207 AraC-type DNA-binding domain-containing proteins	-	-	-	-	-	-	-	-	-	-	-	-	Arabinose_bd,HTH_18
LYD3_k127_2718891_15	522306.CAP2UW1_1272	7.327e-05	51.0	COG4313@1|root,COG4313@2|Bacteria,1PRCN@1224|Proteobacteria,2VQHT@28216|Betaproteobacteria,1KQK1@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	C	Protein involved in meta-pathway of phenol degradation	-	-	-	-	-	-	-	-	-	-	-	-	Phenol_MetA_deg
LYD3_k127_2718891_4	1510531.JQJJ01000014_gene4810	1.704e-83	291.0	COG1082@1|root,COG1082@2|Bacteria,1R3UQ@1224|Proteobacteria,2U2AH@28211|Alphaproteobacteria,3JTVA@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	G	Xylose isomerase-like TIM barrel	-	-	-	-	-	-	-	-	-	-	-	-	AP_endonuc_2
LYD3_k127_2718891_13	266264.Rmet_5587	2.007e-10	70.0	2E7II@1|root,3320V@2|Bacteria,1N91Y@1224|Proteobacteria,2VW18@28216|Betaproteobacteria,1K8QZ@119060|Burkholderiaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2718891_0	1454004.AW11_02387	4.749e-188	598.0	COG2067@1|root,COG2067@2|Bacteria,1MUU4@1224|Proteobacteria,2VHI3@28216|Betaproteobacteria	28216|Betaproteobacteria	I	Outer membrane protein transport protein, Ompp1 FadL TodX	-	-	-	ko:K06076	-	-	-	-	ko00000,ko02000	1.B.9	-	-	Toluene_X
LYD3_k127_2721124_1	1144342.PMI40_02760	5.867e-92	312.0	COG1273@1|root,COG1273@2|Bacteria,1N4UX@1224|Proteobacteria,2VJE3@28216|Betaproteobacteria,472N1@75682|Oxalobacteraceae	28216|Betaproteobacteria	L	With LigD forms a non-homologous end joining (NHEJ) DNA repair enzyme, which repairs dsDNA breaks with reduced fidelity. Binds linear dsDNA with 5'- and 3'- overhangs but not closed circular dsDNA nor ssDNA. Recruits and stimulates the ligase activity of LigD	ku	-	-	ko:K10979	ko03450,map03450	-	-	-	ko00000,ko00001,ko03400	-	-	-	Ku
LYD3_k127_2721124_0	864073.HFRIS_022158	9.037e-247	789.0	COG1793@1|root,COG3285@1|root,COG1793@2|Bacteria,COG3285@2|Bacteria,1MVWY@1224|Proteobacteria,2VIAB@28216|Betaproteobacteria,473CQ@75682|Oxalobacteraceae	28216|Betaproteobacteria	L	DNA polymerase Ligase (LigD)	ligD	-	6.5.1.1	ko:K01971	ko03450,map03450	-	R00381	RC00005	ko00000,ko00001,ko01000,ko03400	-	-	-	DNA_ligase_A_C,DNA_ligase_A_M,LigD_N
LYD3_k127_2721124_2	521719.ATXQ01000004_gene1914	9.661e-14	76.0	2EFZF@1|root,339RM@2|Bacteria,1NH6S@1224|Proteobacteria,1SHEH@1236|Gammaproteobacteria,1YKBP@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2721476_5	1382304.JNIL01000001_gene1215	1.491e-21	108.0	COG2182@1|root,COG2182@2|Bacteria,1TS4D@1239|Firmicutes,4IUKN@91061|Bacilli	91061|Bacilli	G	Bacterial extracellular solute-binding protein	-	-	-	-	-	-	-	-	-	-	-	-	SBP_bac_8
LYD3_k127_2721476_3	1502852.FG94_04946	5.008e-35	136.0	COG0582@1|root,COG0582@2|Bacteria,1P1R9@1224|Proteobacteria,2VJ48@28216|Betaproteobacteria,477H4@75682|Oxalobacteraceae	28216|Betaproteobacteria	L	PFAM integrase family protein	-	-	-	-	-	-	-	-	-	-	-	-	Phage_integrase
LYD3_k127_2721476_2	857087.Metme_3500	2.683e-73	255.0	COG0625@1|root,COG0625@2|Bacteria,1MWY4@1224|Proteobacteria,1RXVJ@1236|Gammaproteobacteria,1XFNQ@135618|Methylococcales	135618|Methylococcales	O	Glutathione S-transferase, C-terminal domain	-	-	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	GST_C,GST_N_3
LYD3_k127_2721476_1	748247.AZKH_p0290	5.342e-214	677.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2VH80@28216|Betaproteobacteria,2KW5T@206389|Rhodocyclales	206389|Rhodocyclales	IQ	COG0318 Acyl-CoA synthetases (AMP-forming) AMP-acid ligases II	-	-	-	-	-	-	-	-	-	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_2721476_0	748247.AZKH_p0291	5.769e-291	903.0	COG0028@1|root,COG0028@2|Bacteria,1MXDW@1224|Proteobacteria,2VI39@28216|Betaproteobacteria	28216|Betaproteobacteria	EH	Belongs to the TPP enzyme family	-	-	2.2.1.6	ko:K01652	ko00290,ko00650,ko00660,ko00770,ko01100,ko01110,ko01130,ko01210,ko01230,map00290,map00650,map00660,map00770,map01100,map01110,map01130,map01210,map01230	M00019,M00570	R00006,R00014,R00226,R03050,R04672,R04673,R08648	RC00027,RC00106,RC01192,RC02744,RC02893	ko00000,ko00001,ko00002,ko01000	-	-	-	TPP_enzyme_C,TPP_enzyme_M,TPP_enzyme_N
LYD3_k127_2721476_4	449447.MAE_60420	4.542e-33	136.0	COG0457@1|root,COG3914@1|root,COG0457@2|Bacteria,COG3914@2|Bacteria	2|Bacteria	O	protein N-acetylglucosaminyltransferase activity	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,TPR_1,TPR_16,TPR_19,TPR_2,TPR_8
LYD3_k127_2729691_9	323848.Nmul_A0303	2.221e-05	51.0	COG3312@1|root,COG3312@2|Bacteria,1NQF1@1224|Proteobacteria,2W4BE@28216|Betaproteobacteria,373BY@32003|Nitrosomonadales	28216|Betaproteobacteria	C	ATP synthase I chain	-	-	-	ko:K02116	-	-	-	-	ko00000,ko00194	3.A.2.1	-	-	ATP-synt_I
LYD3_k127_2729691_8	748247.AZKH_0458	2.73e-16	85.0	COG1977@1|root,COG1977@2|Bacteria,1N9QE@1224|Proteobacteria,2VVR6@28216|Betaproteobacteria,2KXHZ@206389|Rhodocyclales	206389|Rhodocyclales	H	ThiS family	-	-	-	ko:K03636	ko04122,map04122	-	-	-	ko00000,ko00001	-	-	-	ThiS
LYD3_k127_2729691_1	264198.Reut_B4987	5.588e-176	558.0	COG4447@1|root,COG4447@2|Bacteria,1ND1J@1224|Proteobacteria,2VMA5@28216|Betaproteobacteria,1K2TY@119060|Burkholderiaceae	28216|Betaproteobacteria	S	protein related to plant photosystem II stability assembly factor	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2729691_6	1144342.PMI40_03011	2.655e-78	266.0	COG0678@1|root,COG0678@2|Bacteria,1MU0H@1224|Proteobacteria,2VQDH@28216|Betaproteobacteria,4736X@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	Redoxin	ahp1	-	1.11.1.15	ko:K03386	ko04214,map04214	-	-	-	ko00000,ko00001,ko01000,ko04147	-	-	-	Redoxin
LYD3_k127_2729691_4	748247.AZKH_0110	3.177e-90	319.0	COG1475@1|root,COG1475@2|Bacteria,1MW2E@1224|Proteobacteria,2VIG0@28216|Betaproteobacteria,2KU8M@206389|Rhodocyclales	206389|Rhodocyclales	K	Belongs to the ParB family	spoOJ	-	-	ko:K03497	-	-	-	-	ko00000,ko03000,ko03036,ko04812	-	-	-	ParBc
LYD3_k127_2729691_2	1121035.AUCH01000012_gene2975	1.794e-103	346.0	COG1192@1|root,COG1192@2|Bacteria,1MV43@1224|Proteobacteria,2VHNK@28216|Betaproteobacteria,2KV5R@206389|Rhodocyclales	206389|Rhodocyclales	D	involved in chromosome partitioning	-	-	-	ko:K03496	-	-	-	-	ko00000,ko03036,ko04812	-	-	-	AAA_31
LYD3_k127_2729691_7	1123392.AQWL01000013_gene2371	6.059e-61	220.0	COG0357@1|root,COG0357@2|Bacteria,1MY0K@1224|Proteobacteria,2VR3B@28216|Betaproteobacteria,1KRP8@119069|Hydrogenophilales	119069|Hydrogenophilales	J	rRNA small subunit methyltransferase G	-	-	2.1.1.170	ko:K03501	-	-	-	-	ko00000,ko01000,ko03009,ko03036	-	-	-	GidB
LYD3_k127_2729691_0	999541.bgla_1g00800	4.108e-315	974.0	COG0445@1|root,COG0445@2|Bacteria,1MU6F@1224|Proteobacteria,2VIGG@28216|Betaproteobacteria,1K1UR@119060|Burkholderiaceae	28216|Betaproteobacteria	D	NAD-binding protein involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA-cmnm(5)s(2)U34	gidA	-	-	ko:K03495	-	-	R08701	RC00053,RC00209,RC00870	ko00000,ko03016,ko03036	-	-	-	GIDA,GIDA_assoc
LYD3_k127_2729691_5	1211115.ALIQ01000087_gene4485	1.448e-85	293.0	COG0524@1|root,COG0524@2|Bacteria,1MWX4@1224|Proteobacteria,2U5F1@28211|Alphaproteobacteria	28211|Alphaproteobacteria	G	pfkB family carbohydrate kinase	-	-	2.7.1.15,2.7.1.184	ko:K00852,ko:K18478	ko00030,map00030	-	R01051,R02750,R10970	RC00002,RC00017	ko00000,ko00001,ko01000	-	-	-	PfkB
LYD3_k127_2729691_3	1120977.JHUX01000003_gene665	1.537e-98	326.0	COG1274@1|root,COG1274@2|Bacteria,1MX3C@1224|Proteobacteria,1RNGQ@1236|Gammaproteobacteria,3NK9R@468|Moraxellaceae	1236|Gammaproteobacteria	H	Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP), the rate-limiting step in the metabolic pathway that produces glucose from lactate and other precursors derived from the citric acid cycle	pckG	-	4.1.1.32	ko:K01596	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko03320,ko04068,ko04151,ko04152,ko04910,ko04920,ko04922,ko04931,ko04964,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map03320,map04068,map04151,map04152,map04910,map04920,map04922,map04931,map04964	M00003	R00431,R00726	RC00002,RC02741	ko00000,ko00001,ko00002,ko01000	-	-	-	PEPCK_C,PEPCK_N
LYD3_k127_2730098_2	469383.Cwoe_3865	3.018e-09	58.0	COG1574@1|root,COG1574@2|Bacteria,2IK4R@201174|Actinobacteria	201174|Actinobacteria	S	Amidohydrolase family	-	-	-	-	-	-	-	-	-	-	-	-	Amidohydro_3
LYD3_k127_2730098_0	483219.LILAB_17255	4.081e-68	248.0	COG3385@1|root,COG5659@1|root,COG3385@2|Bacteria,COG5659@2|Bacteria,1MXSV@1224|Proteobacteria,42UR2@68525|delta/epsilon subdivisions,2WQER@28221|Deltaproteobacteria,2YWHS@29|Myxococcales	28221|Deltaproteobacteria	L	DDE superfamily endonuclease	-	-	-	-	-	-	-	-	-	-	-	-	DDE_5
LYD3_k127_2730098_1	1267534.KB906759_gene1657	7.659e-38	145.0	COG4700@1|root,COG4700@2|Bacteria,3Y7KZ@57723|Acidobacteria,2JMTS@204432|Acidobacteriia	204432|Acidobacteriia	S	Tetratricopeptide repeat	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2730579_2	864051.BurJ1DRAFT_3298	1.076e-114	377.0	COG0845@1|root,COG0845@2|Bacteria,1NQZ0@1224|Proteobacteria,2VJAC@28216|Betaproteobacteria,1KK3H@119065|unclassified Burkholderiales	28216|Betaproteobacteria	M	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family	-	-	-	-	-	-	-	-	-	-	-	-	Biotin_lipoyl_2,HlyD_D23
LYD3_k127_2730579_0	864051.BurJ1DRAFT_3299	0.0	1720.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VI3F@28216|Betaproteobacteria,1KJIC@119065|unclassified Burkholderiales	28216|Betaproteobacteria	V	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family	-	-	-	-	-	-	-	-	-	-	-	-	ACR_tran
LYD3_k127_2730579_3	1268622.AVS7_01864	1.256e-28	124.0	COG0607@1|root,32YCZ@2|Bacteria,1N6NN@1224|Proteobacteria,2VVV9@28216|Betaproteobacteria,4AFPU@80864|Comamonadaceae	28216|Betaproteobacteria	P	Protein of unknown function (DUF2892)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2892
LYD3_k127_2730579_1	365044.Pnap_2830	8.66e-151	490.0	COG1538@1|root,COG1538@2|Bacteria,1R5FW@1224|Proteobacteria,2VJ56@28216|Betaproteobacteria,4A9Q5@80864|Comamonadaceae	28216|Betaproteobacteria	MU	PFAM Outer membrane efflux protein	-	-	-	ko:K12340	ko01501,ko01503,ko02020,ko03070,ko04626,ko05133,map01501,map01503,map02020,map03070,map04626,map05133	M00325,M00326,M00339,M00571,M00575,M00646,M00647,M00696,M00697,M00709,M00720,M00821	-	-	ko00000,ko00001,ko00002,ko01504,ko02000,ko02044	1.B.17,2.A.6.2	-	-	OEP
LYD3_k127_2737283_3	1223521.BBJX01000002_gene2931	3.512e-23	106.0	COG3154@1|root,COG3154@2|Bacteria,1RB7T@1224|Proteobacteria,2VTWW@28216|Betaproteobacteria,4AENW@80864|Comamonadaceae	28216|Betaproteobacteria	I	SCP-2 sterol transfer family	-	-	-	-	-	-	-	-	-	-	-	-	SCP2
LYD3_k127_2737283_1	760117.JN27_05940	5.253e-112	375.0	COG0826@1|root,COG0826@2|Bacteria,1MWFW@1224|Proteobacteria,2VISF@28216|Betaproteobacteria,472JT@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	Peptidase family U32	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_U32
LYD3_k127_2737283_0	1123368.AUIS01000008_gene2168	2.07e-153	496.0	COG0826@1|root,COG0826@2|Bacteria,1MUQG@1224|Proteobacteria,1RP6X@1236|Gammaproteobacteria,2NCHS@225057|Acidithiobacillales	225057|Acidithiobacillales	O	Peptidase U32	-	-	-	ko:K08303	ko05120,map05120	-	-	-	ko00000,ko00001,ko01000,ko01002	-	-	-	Peptidase_U32
LYD3_k127_2737283_2	1454004.AW11_01054	6.416e-68	241.0	COG1999@1|root,COG1999@2|Bacteria,1N6WC@1224|Proteobacteria,2VMIP@28216|Betaproteobacteria	28216|Betaproteobacteria	S	PFAM electron transport protein SCO1 SenC	-	-	-	ko:K07152	-	-	-	-	ko00000,ko03029	-	-	-	SCO1-SenC
LYD3_k127_2737283_4	522306.CAP2UW1_1789	6.478e-23	101.0	COG0109@1|root,COG0109@2|Bacteria,1MW3S@1224|Proteobacteria,2VM89@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Converts heme B (protoheme IX) to heme O by substitution of the vinyl group on carbon 2 of heme B porphyrin ring with a hydroxyethyl farnesyl side group	-	-	2.5.1.141	ko:K02257	ko00190,ko00860,ko01100,ko01110,ko04714,map00190,map00860,map01100,map01110,map04714	M00154	R07411	RC01786	ko00000,ko00001,ko00002,ko01000,ko01006,ko03029	-	-	-	UbiA
LYD3_k127_2738032_1	243160.BMA2453	1.736e-87	291.0	COG0495@1|root,COG0495@2|Bacteria,1MV47@1224|Proteobacteria,2VH2J@28216|Betaproteobacteria,1K2G2@119060|Burkholderiaceae	28216|Betaproteobacteria	J	Belongs to the class-I aminoacyl-tRNA synthetase family	leuS	-	6.1.1.4	ko:K01869	ko00970,map00970	M00359,M00360	R03657	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016,ko03029	-	-	-	Anticodon_1,tRNA-synt_1,tRNA-synt_1_2
LYD3_k127_2738032_2	1286631.X805_29590	3.733e-64	226.0	COG2119@1|root,COG2119@2|Bacteria,1RDDV@1224|Proteobacteria,2VQ6X@28216|Betaproteobacteria,1KKDE@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Uncharacterized protein family UPF0016	-	-	-	-	-	-	-	-	-	-	-	-	UPF0016
LYD3_k127_2738032_0	522306.CAP2UW1_1652	6.42e-204	648.0	COG4232@1|root,COG4233@1|root,COG4232@2|Bacteria,COG4233@2|Bacteria,1MU8W@1224|Proteobacteria,2VI8I@28216|Betaproteobacteria,1KQEJ@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	CO	Disulphide bond corrector protein DsbC	-	-	1.8.1.8	ko:K04084,ko:K08344	-	-	-	-	ko00000,ko01000,ko02000,ko03110	5.A.1.1,5.A.1.5	-	-	DsbC,DsbD,Thioredoxin_7
LYD3_k127_2741903_0	1123392.AQWL01000005_gene3124	2.724e-141	456.0	COG0533@1|root,COG0533@2|Bacteria,1MU6S@1224|Proteobacteria,2VHDR@28216|Betaproteobacteria,1KRBP@119069|Hydrogenophilales	119069|Hydrogenophilales	J	Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Is involved in the transfer of the threonylcarbamoyl moiety of threonylcarbamoyl-AMP (TC-AMP) to the N6 group of A37, together with TsaE and TsaB. TsaD likely plays a direct catalytic role in this reaction	tsaD	-	2.3.1.234	ko:K01409	-	-	R10648	RC00070,RC00416	ko00000,ko01000,ko03016	-	-	-	Peptidase_M22
LYD3_k127_2741903_2	264198.Reut_A0575	4.414e-64	226.0	COG0344@1|root,COG0344@2|Bacteria,1RD4Z@1224|Proteobacteria,2VQ10@28216|Betaproteobacteria,1K08V@119060|Burkholderiaceae	28216|Betaproteobacteria	I	Catalyzes the transfer of an acyl group from acyl- phosphate (acyl-PO(4)) to glycerol-3-phosphate (G3P) to form lysophosphatidic acid (LPA). This enzyme utilizes acyl-phosphate as fatty acyl donor, but not acyl-CoA or acyl-ACP	plsY	-	2.3.1.15	ko:K08591	ko00561,ko00564,ko01100,ko01110,map00561,map00564,map01100,map01110	M00089	R00851,R09380	RC00004,RC00039,RC00041	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	G3P_acyltransf
LYD3_k127_2741903_4	323848.Nmul_A2063	2.67e-31	126.0	COG1539@1|root,COG1539@2|Bacteria,1MZ8Z@1224|Proteobacteria,2VUVV@28216|Betaproteobacteria,373B3@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Aldolase	folB	-	1.13.11.81,4.1.2.25,5.1.99.8	ko:K01633	ko00790,ko01100,map00790,map01100	M00126,M00840	R03504,R11037,R11073	RC00721,RC00943,RC01479,RC03333,RC03334	ko00000,ko00001,ko00002,ko01000	-	-	-	FolB
LYD3_k127_2741903_1	1304883.KI912532_gene309	1.105e-105	359.0	COG4974@1|root,COG4974@2|Bacteria,1MVNF@1224|Proteobacteria,2VIHD@28216|Betaproteobacteria,2KUYI@206389|Rhodocyclales	206389|Rhodocyclales	D	recombinase XerD	xerD	-	-	ko:K04763	-	-	-	-	ko00000,ko03036	-	-	-	Phage_int_SAM_1,Phage_integrase
LYD3_k127_2741903_3	1163617.SCD_n02457	1.335e-43	165.0	COG0350@1|root,COG0350@2|Bacteria,1N2YQ@1224|Proteobacteria,2VU5R@28216|Betaproteobacteria	28216|Betaproteobacteria	L	PFAM Methylated-DNA- protein -cysteine S-methyltransferase, DNA binding	ogt	-	2.1.1.63	ko:K00567	-	-	-	-	ko00000,ko01000,ko03400	-	-	-	DNA_binding_1
LYD3_k127_2741903_5	391735.Veis_2339	3.099e-16	79.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2VJME@28216|Betaproteobacteria,4AAMJ@80864|Comamonadaceae	28216|Betaproteobacteria	G	PFAM TRAP C4-dicarboxylate transport system permease DctM subunit	siaT_7	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_274804_0	926569.ANT_21940	5.446e-76	272.0	COG3005@1|root,COG3005@2|Bacteria	2|Bacteria	C	denitrification pathway	-	GO:0003674,GO:0003824,GO:0005575,GO:0006091,GO:0008150,GO:0008152,GO:0009055,GO:0009061,GO:0009987,GO:0015980,GO:0016020,GO:0016021,GO:0016491,GO:0022900,GO:0031224,GO:0044237,GO:0044425,GO:0045333,GO:0055114	-	ko:K15876	ko00910,ko01120,map00910,map01120	M00530	R05712	RC00176	ko00000,ko00001,ko00002	-	-	-	Cytochrom_NNT,Cytochrom_c3_2
LYD3_k127_274804_1	1123261.AXDW01000007_gene2130	2.578e-37	141.0	COG0234@1|root,COG0234@2|Bacteria,1MZ2X@1224|Proteobacteria,1S8YR@1236|Gammaproteobacteria,1X6XT@135614|Xanthomonadales	135614|Xanthomonadales	O	Binds to Cpn60 in the presence of Mg-ATP and suppresses the ATPase activity of the latter	groS	-	-	ko:K04078	-	-	-	-	ko00000,ko03029,ko03110	-	-	-	Cpn10
LYD3_k127_2752497_4	426114.THI_2486	2.444e-133	427.0	COG0059@1|root,COG0059@2|Bacteria,1MV7M@1224|Proteobacteria,2VIQ5@28216|Betaproteobacteria,1KIUF@119065|unclassified Burkholderiales	28216|Betaproteobacteria	H	Involved in the biosynthesis of branched-chain amino acids (BCAA). Catalyzes an alkyl-migration followed by a ketol- acid reduction of (S)-2-acetolactate (S2AL) to yield (R)-2,3- dihydroxy-isovalerate. In the isomerase reaction, S2AL is rearranged via a Mg-dependent methyl migration to produce 3- hydroxy-3-methyl-2-ketobutyrate (HMKB). In the reductase reaction, this 2-ketoacid undergoes a metal-dependent reduction by NADPH to yield (R)-2,3-dihydroxy-isovalerate	ilvC	-	1.1.1.86	ko:K00053	ko00290,ko00770,ko01100,ko01110,ko01130,ko01210,ko01230,map00290,map00770,map01100,map01110,map01130,map01210,map01230	M00019,M00570	R03051,R04439,R04440,R05068,R05069,R05071	RC00726,RC00836,RC00837,RC01726	ko00000,ko00001,ko00002,ko01000	-	-	-	IlvC,IlvN
LYD3_k127_2752497_8	76114.ebA7135	4.257e-89	298.0	COG0688@1|root,COG0688@2|Bacteria,1MW45@1224|Proteobacteria,2VHHT@28216|Betaproteobacteria,2KV8H@206389|Rhodocyclales	206389|Rhodocyclales	I	Catalyzes the formation of phosphatidylethanolamine (PtdEtn) from phosphatidylserine (PtdSer)	psd	-	4.1.1.65	ko:K01613	ko00564,ko01100,ko01110,map00564,map01100,map01110	M00093	R02055	RC00299	ko00000,ko00001,ko00002,ko01000	-	-	-	PS_Dcarbxylase
LYD3_k127_2752497_5	76114.ebA7137	9.79e-100	331.0	COG1183@1|root,COG1183@2|Bacteria,1MWD9@1224|Proteobacteria,2VIME@28216|Betaproteobacteria,2KUY1@206389|Rhodocyclales	206389|Rhodocyclales	I	Belongs to the CDP-alcohol phosphatidyltransferase class-I family	pssA	-	2.7.8.8	ko:K17103	ko00260,ko00564,ko01100,ko01110,map00260,map00564,map01100,map01110	M00093	R01800	RC00002,RC00017,RC02795	ko00000,ko00001,ko00002,ko01000	-	-	-	CDP-OH_P_transf
LYD3_k127_2752497_9	1510531.JQJJ01000013_gene39	3.239e-52	213.0	COG1807@1|root,COG1807@2|Bacteria	2|Bacteria	M	4-amino-4-deoxy-L-arabinose transferase activity	-	-	-	-	-	-	-	-	-	-	-	-	DUF2723,PMT_2
LYD3_k127_2752497_3	220664.PFL_5488	5.948e-140	452.0	COG1215@1|root,COG1215@2|Bacteria,1QUUY@1224|Proteobacteria,1RRKW@1236|Gammaproteobacteria,1YSJQ@136843|Pseudomonas fluorescens group	1236|Gammaproteobacteria	M	Glycosyl transferase family 2	-	-	-	-	-	-	-	-	-	-	-	-	Glycos_transf_2
LYD3_k127_2752497_6	1408164.MOLA814_00724	1.824e-98	329.0	COG0500@1|root,COG2226@2|Bacteria,1RFDN@1224|Proteobacteria,2W4ZV@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	Methyltransferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_11
LYD3_k127_2752497_10	220664.PFL_5486	3.115e-20	98.0	2B1Z0@1|root,31UFJ@2|Bacteria,1QSAD@1224|Proteobacteria,1RVPF@1236|Gammaproteobacteria,1YU7S@136843|Pseudomonas fluorescens group	1236|Gammaproteobacteria	S	GtrA-like protein	-	-	-	-	-	-	-	-	-	-	-	-	GtrA
LYD3_k127_2752497_7	1408164.MOLA814_00722	1.737e-89	316.0	COG0702@1|root,COG0702@2|Bacteria	2|Bacteria	GM	epimerase	-	-	-	ko:K10714	ko00680,ko01100,ko01120,ko01200,map00680,map01100,map01120,map01200	-	R08059	RC00202	ko00000,ko00001,ko01000	-	-	-	Mpt_N
LYD3_k127_2752497_2	1408164.MOLA814_00721	2.757e-144	475.0	COG2303@1|root,COG2303@2|Bacteria	2|Bacteria	E	choline dehydrogenase activity	-	-	-	-	-	-	-	-	-	-	-	-	DAO,GMC_oxred_C,GMC_oxred_N,NAD_binding_8,Pyr_redox_2
LYD3_k127_2752497_1	1120936.KB907220_gene1918	1.03e-227	718.0	COG0119@1|root,COG0119@2|Bacteria,2GISX@201174|Actinobacteria,4EH5Q@85012|Streptosporangiales	201174|Actinobacteria	E	Catalyzes the condensation of the acetyl group of acetyl-CoA with 3-methyl-2-oxobutanoate (2-oxoisovalerate) to form 3-carboxy-3-hydroxy-4-methylpentanoate (2-isopropylmalate)	leuA	GO:0000287,GO:0003674,GO:0003824,GO:0003852,GO:0005488,GO:0005575,GO:0005576,GO:0005623,GO:0005886,GO:0006082,GO:0006520,GO:0006551,GO:0006807,GO:0008150,GO:0008152,GO:0008270,GO:0008652,GO:0009058,GO:0009081,GO:0009082,GO:0009098,GO:0009987,GO:0016020,GO:0016053,GO:0016740,GO:0016746,GO:0019752,GO:0030145,GO:0030955,GO:0031420,GO:0040007,GO:0043167,GO:0043169,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044281,GO:0044283,GO:0044464,GO:0046394,GO:0046872,GO:0046912,GO:0046914,GO:0071704,GO:0071944,GO:1901564,GO:1901566,GO:1901576,GO:1901605,GO:1901607	2.3.3.13	ko:K01649	ko00290,ko00620,ko01100,ko01110,ko01210,ko01230,map00290,map00620,map01100,map01110,map01210,map01230	M00432	R01213	RC00004,RC00470,RC02754	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	HMGL-like,LeuA_dimer
LYD3_k127_2752497_0	326427.Cagg_3782	4.681e-235	734.0	COG2225@1|root,COG2225@2|Bacteria,2G63R@200795|Chloroflexi,374XP@32061|Chloroflexia	32061|Chloroflexia	H	TIGRFAM malate synthase A	-	-	2.3.3.9	ko:K01638	ko00620,ko00630,ko01100,ko01110,ko01120,ko01200,map00620,map00630,map01100,map01110,map01120,map01200	M00012	R00472	RC00004,RC00308,RC02747	ko00000,ko00001,ko00002,ko01000	-	-	-	Malate_synthase
LYD3_k127_276149_3	395494.Galf_1737	7.663e-16	79.0	COG0566@1|root,COG0566@2|Bacteria,1R9JA@1224|Proteobacteria,2VQDG@28216|Betaproteobacteria,44VNV@713636|Nitrosomonadales	28216|Betaproteobacteria	J	SpoU rRNA Methylase family	spoU	-	-	ko:K03437	-	-	-	-	ko00000,ko03016	-	-	-	SpoU_methylase
LYD3_k127_276149_2	991905.SL003B_3678	1.265e-74	261.0	COG0524@1|root,COG0524@2|Bacteria,1MV5B@1224|Proteobacteria,2TSUM@28211|Alphaproteobacteria,4BQBZ@82117|unclassified Alphaproteobacteria	28211|Alphaproteobacteria	H	Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5- phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway	rbsK	-	2.7.1.15	ko:K00852	ko00030,map00030	-	R01051,R02750	RC00002,RC00017	ko00000,ko00001,ko01000	-	-	-	PfkB
LYD3_k127_276149_1	1510531.JQJJ01000010_gene2420	4.059e-114	376.0	COG0395@1|root,COG0395@2|Bacteria,1MXTE@1224|Proteobacteria,2U09S@28211|Alphaproteobacteria,3JU5C@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	G	Binding-protein-dependent transport system inner membrane component	-	-	-	ko:K02026	-	M00207	-	-	ko00000,ko00002,ko02000	3.A.1.1	-	-	BPD_transp_1
LYD3_k127_276149_0	1510531.JQJJ01000010_gene2419	1.806e-126	409.0	COG1175@1|root,COG1175@2|Bacteria,1MWB7@1224|Proteobacteria,2TQZY@28211|Alphaproteobacteria,3JSZ8@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	G	Binding-protein-dependent transport system inner membrane component	-	-	-	ko:K02025	-	M00207	-	-	ko00000,ko00002,ko02000	3.A.1.1	-	-	BPD_transp_1
LYD3_k127_2768770_0	1163617.SCD_n00704	3.603e-275	865.0	COG3957@1|root,COG3957@2|Bacteria,1MVSE@1224|Proteobacteria,2VIGM@28216|Betaproteobacteria	28216|Betaproteobacteria	G	D-xylulose 5-phosphate D-fructose 6-phosphate phosphoketolase	xfp	-	4.1.2.22,4.1.2.9	ko:K01621	ko00030,ko00710,ko01100,ko01120,map00030,map00710,map01100,map01120	-	R00761,R01621	RC00032,RC00226	ko00000,ko00001,ko01000	-	-	-	XFP,XFP_C,XFP_N
LYD3_k127_2768770_1	338969.Rfer_4035	2.527e-261	819.0	COG3387@1|root,COG3387@2|Bacteria,1MV08@1224|Proteobacteria,2VHBN@28216|Betaproteobacteria,4AANJ@80864|Comamonadaceae	28216|Betaproteobacteria	G	PFAM Glycoside hydrolase 15-related	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_hydro_15
LYD3_k127_2768770_2	1458427.BAWN01000003_gene144	8.537e-246	773.0	COG2066@1|root,COG2905@1|root,COG2066@2|Bacteria,COG2905@2|Bacteria,1MWB5@1224|Proteobacteria,2VIM8@28216|Betaproteobacteria,4ADKU@80864|Comamonadaceae	28216|Betaproteobacteria	E	Belongs to the glutaminase family	glsA	-	3.5.1.2	ko:K01425	ko00220,ko00250,ko00471,ko01100,ko04724,ko04727,ko04964,ko05206,ko05230,map00220,map00250,map00471,map01100,map04724,map04727,map04964,map05206,map05230	-	R00256,R01579	RC00010,RC02798	ko00000,ko00001,ko01000	-	-	-	Glutaminase
LYD3_k127_2768770_3	1268622.AVS7_01222	2.744e-39	152.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2WEYQ@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_2770851_5	338969.Rfer_0953	2.696e-35	135.0	COG1175@1|root,COG1175@2|Bacteria,1MWB7@1224|Proteobacteria,2VSSA@28216|Betaproteobacteria,4AEKS@80864|Comamonadaceae	28216|Betaproteobacteria	P	PFAM binding-protein-dependent transport systems inner membrane component	-	-	-	ko:K02025	-	M00207	-	-	ko00000,ko00002,ko02000	3.A.1.1	-	-	BPD_transp_1
LYD3_k127_2770851_0	338969.Rfer_0952	1.265e-144	462.0	COG0395@1|root,COG0395@2|Bacteria,1MXTE@1224|Proteobacteria,2VZ7H@28216|Betaproteobacteria,4AJNY@80864|Comamonadaceae	28216|Betaproteobacteria	P	Binding-protein-dependent transport system inner membrane component	-	-	-	ko:K02026	-	M00207	-	-	ko00000,ko00002,ko02000	3.A.1.1	-	-	BPD_transp_1
LYD3_k127_2770851_2	1297865.APJD01000015_gene3469	7.162e-85	287.0	COG3571@1|root,COG3571@2|Bacteria,1RD20@1224|Proteobacteria,2U1XJ@28211|Alphaproteobacteria,3JSHJ@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	hydrolase of the alpha beta-hydrolase fold	-	-	-	ko:K07020	-	-	-	-	ko00000	-	-	-	Abhydrolase_6,DLH,Thioesterase
LYD3_k127_2770851_1	1185652.USDA257_c19740	4.381e-126	413.0	COG1752@1|root,COG1752@2|Bacteria,1MVHW@1224|Proteobacteria,2TS4V@28211|Alphaproteobacteria,4BBFX@82115|Rhizobiaceae	28211|Alphaproteobacteria	S	Patatin-like phospholipase	-	-	-	ko:K07001	-	-	-	-	ko00000	-	-	-	Patatin
LYD3_k127_2770851_6	479432.Sros_0264	2.263e-27	114.0	COG4274@1|root,COG4274@2|Bacteria,2IJ0R@201174|Actinobacteria	201174|Actinobacteria	S	GYD domain	-	-	-	-	-	-	-	-	-	-	-	-	GYD
LYD3_k127_2770851_4	365046.Rta_09270	7.927e-65	226.0	COG2050@1|root,COG2050@2|Bacteria,1N5HF@1224|Proteobacteria,2VQ8W@28216|Betaproteobacteria,4ADFV@80864|Comamonadaceae	28216|Betaproteobacteria	Q	PFAM thioesterase superfamily protein	-	-	-	-	-	-	-	-	-	-	-	-	4HBT
LYD3_k127_2770851_3	159087.Daro_1707	1.21e-74	265.0	2DBM1@1|root,2Z9WN@2|Bacteria,1RDCQ@1224|Proteobacteria,2VS26@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2775168_0	265072.Mfla_0887	0.0	1244.0	COG0046@1|root,COG0047@1|root,COG0046@2|Bacteria,COG0047@2|Bacteria,1MYN4@1224|Proteobacteria,2VHTE@28216|Betaproteobacteria,2KKQX@206350|Nitrosomonadales	206350|Nitrosomonadales	F	Phosphoribosylformylglycinamidine synthase involved in the purines biosynthetic pathway. Catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to yield formylglycinamidine ribonucleotide (FGAM) and glutamate	purL	-	6.3.5.3	ko:K01952	ko00230,ko01100,ko01110,ko01130,map00230,map01100,map01110,map01130	M00048	R04463	RC00010,RC01160	ko00000,ko00001,ko00002,ko01000	-	-	-	AIRS_C,GATase_5
LYD3_k127_2775168_1	1042375.AFPL01000036_gene3002	6.766e-58	205.0	COG0663@1|root,COG0663@2|Bacteria,1MVUI@1224|Proteobacteria,1RYPQ@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Phenylacetic acid degradation protein PaaY	paaY	GO:0003674,GO:0003824,GO:0016289,GO:0016787,GO:0016788,GO:0016790	-	ko:K02617,ko:K08279	-	-	-	-	ko00000	-	-	-	Hexapep
LYD3_k127_2776378_4	522306.CAP2UW1_0809	5.276e-64	232.0	COG1995@1|root,COG1995@2|Bacteria,1MX5W@1224|Proteobacteria,2VJN0@28216|Betaproteobacteria,1KQJ0@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	H	Catalyzes the NAD(P)-dependent oxidation of 4- (phosphohydroxy)-L-threonine (HTP) into 2-amino-3-oxo-4- (phosphohydroxy)butyric acid which spontaneously decarboxylates to form 3-amino-2-oxopropyl phosphate (AHAP)	pdxA	-	1.1.1.262	ko:K00097	ko00750,ko01100,map00750,map01100	M00124	R05681,R05837,R07406	RC00089,RC00675,RC01475	ko00000,ko00001,ko00002,ko01000	-	-	-	PdxA
LYD3_k127_2776378_2	1129794.C427_1742	1.457e-139	479.0	COG1501@1|root,COG1501@2|Bacteria,1MWNJ@1224|Proteobacteria,1RMJ9@1236|Gammaproteobacteria,4679Q@72275|Alteromonadaceae	1236|Gammaproteobacteria	G	Belongs to the glycosyl hydrolase 31 family	yicI	GO:0003674,GO:0003824,GO:0004553,GO:0005488,GO:0005515,GO:0016787,GO:0016798,GO:0042802,GO:0080176	3.2.1.177	ko:K01811	-	-	-	-	ko00000,ko01000	-	GH31	-	Gal_mutarotas_2,Glyco_hydro_31
LYD3_k127_2776378_5	643562.Daes_0280	1.297e-50	189.0	COG1296@1|root,COG1296@2|Bacteria,1P6U3@1224|Proteobacteria,42QVQ@68525|delta/epsilon subdivisions,2WMW1@28221|Deltaproteobacteria,2MCDV@213115|Desulfovibrionales	28221|Deltaproteobacteria	E	AzlC protein	-	-	-	-	-	-	-	-	-	-	-	-	AzlC
LYD3_k127_2776378_7	1316927.ATKI01000031_gene4949	3.58e-16	90.0	COG4392@1|root,COG4392@2|Bacteria,1NH6U@1224|Proteobacteria,1SGUY@1236|Gammaproteobacteria,1YU24@136843|Pseudomonas fluorescens group	1236|Gammaproteobacteria	S	Branched-chain amino acid transport protein (AzlD)	-	-	-	-	-	-	-	-	-	-	-	-	AzlD
LYD3_k127_2776378_1	85643.Tmz1t_1385	1.203e-154	492.0	COG0714@1|root,COG0714@2|Bacteria,1MV5I@1224|Proteobacteria,2VH9H@28216|Betaproteobacteria,2KVTW@206389|Rhodocyclales	206389|Rhodocyclales	O	ATPase (AAA	-	-	-	-	-	-	-	-	-	-	-	-	AAA,AAA_5
LYD3_k127_2776378_3	1031711.RSPO_c02373	5.402e-86	290.0	COG1670@1|root,COG1670@2|Bacteria,1MXEE@1224|Proteobacteria,2VKTD@28216|Betaproteobacteria,1KH15@119060|Burkholderiaceae	28216|Betaproteobacteria	J	Acetyltransferase (GNAT) domain	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_3
LYD3_k127_2776378_0	640081.Dsui_2992	1.407e-165	539.0	COG3825@1|root,COG3825@2|Bacteria,1MUAJ@1224|Proteobacteria,2VJ99@28216|Betaproteobacteria,2KUDU@206389|Rhodocyclales	206389|Rhodocyclales	S	Von Willebrand factor A	-	-	-	ko:K09989	-	-	-	-	ko00000	-	-	-	VWA_CoxE
LYD3_k127_2776378_6	640081.Dsui_1148	8.48e-50	183.0	COG0864@1|root,COG0864@2|Bacteria,1RK4R@1224|Proteobacteria,2VR6M@28216|Betaproteobacteria,2KWDQ@206389|Rhodocyclales	206389|Rhodocyclales	K	Transcriptional regulator	-	-	-	ko:K07722	-	-	-	-	ko00000,ko03000	-	-	-	NikR_C,RHH_1
LYD3_k127_2778968_2	1100720.ALKN01000035_gene961	5.702e-06	51.0	COG0500@1|root,COG0500@2|Bacteria,1QU8V@1224|Proteobacteria,2WGJ7@28216|Betaproteobacteria,4AHEN@80864|Comamonadaceae	28216|Betaproteobacteria	Q	Histone methylation protein DOT1	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_25,Methyltransf_31
LYD3_k127_2778968_0	338969.Rfer_1890	1.596e-106	357.0	COG1024@1|root,COG1024@2|Bacteria,1PJ4R@1224|Proteobacteria,2WEJG@28216|Betaproteobacteria,4AJ3P@80864|Comamonadaceae	28216|Betaproteobacteria	I	Enoyl-CoA hydratase/isomerase	-	-	4.2.1.17	ko:K01692	ko00071,ko00280,ko00281,ko00310,ko00360,ko00362,ko00380,ko00410,ko00627,ko00640,ko00650,ko00903,ko00930,ko01100,ko01110,ko01120,ko01130,ko01212,map00071,map00280,map00281,map00310,map00360,map00362,map00380,map00410,map00627,map00640,map00650,map00903,map00930,map01100,map01110,map01120,map01130,map01212	M00032,M00087	R03026,R03045,R04137,R04170,R04204,R04224,R04738,R04740,R04744,R04746,R04749,R05595,R06411,R06412,R06942,R08093	RC00831,RC00834,RC01086,RC01095,RC01098,RC01103,RC01217,RC02115	ko00000,ko00001,ko00002,ko01000	-	-	-	ECH_1
LYD3_k127_2778968_1	62928.azo2606	1.155e-28	123.0	2E3B5@1|root,32YAP@2|Bacteria,1N7KQ@1224|Proteobacteria,2VWEG@28216|Betaproteobacteria,2KZ8A@206389|Rhodocyclales	206389|Rhodocyclales	S	Protein of unknown function (DUF2721)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2721
LYD3_k127_2778968_3	1500259.JQLD01000006_gene757	8.183e-06	49.0	2B41E@1|root,31WRS@2|Bacteria,1P8VA@1224|Proteobacteria,2TT81@28211|Alphaproteobacteria,4B9BW@82115|Rhizobiaceae	28211|Alphaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2782503_3	1175306.GWL_30500	3.19e-27	120.0	COG1004@1|root,COG1004@2|Bacteria,1MW5U@1224|Proteobacteria,2VGZI@28216|Betaproteobacteria,473V7@75682|Oxalobacteraceae	28216|Betaproteobacteria	M	Belongs to the UDP-glucose GDP-mannose dehydrogenase family	ugd	-	1.1.1.22	ko:K00012	ko00040,ko00053,ko00520,ko01100,map00040,map00053,map00520,map01100	M00014,M00129,M00361,M00362	R00286	RC00291	ko00000,ko00001,ko00002,ko01000	-	-	-	UDPG_MGDP_dh,UDPG_MGDP_dh_C,UDPG_MGDP_dh_N
LYD3_k127_2782503_1	1268237.G114_12993	2.155e-79	271.0	COG0284@1|root,COG0284@2|Bacteria,1MW2C@1224|Proteobacteria,1RNJR@1236|Gammaproteobacteria,1Y3MK@135624|Aeromonadales	135624|Aeromonadales	F	Catalyzes the decarboxylation of orotidine 5'- monophosphate (OMP) to uridine 5'-monophosphate (UMP)	pyrF	-	4.1.1.23	ko:K01591	ko00240,ko01100,map00240,map01100	M00051	R00965	RC00409	ko00000,ko00001,ko00002,ko01000	-	-	-	OMPdecase
LYD3_k127_2782503_0	640081.Dsui_1946	2.939e-143	464.0	COG2956@1|root,COG2956@2|Bacteria,1MVDP@1224|Proteobacteria,2VH49@28216|Betaproteobacteria,2KU7Z@206389|Rhodocyclales	206389|Rhodocyclales	G	Modulates cellular lipopolysaccharide (LPS) levels by regulating LpxC, which is involved in lipid A biosynthesis. May act by modulating the proteolytic activity of FtsH towards LpxC. May also coordinate assembly of proteins involved in LPS synthesis at the plasma membrane	lapB	-	-	ko:K19804	-	-	-	-	ko00000	-	-	-	TPR_16
LYD3_k127_2782503_4	497321.C664_11012	1.017e-06	58.0	COG5416@1|root,COG5416@2|Bacteria,1N4UI@1224|Proteobacteria,2VU63@28216|Betaproteobacteria,2KXEI@206389|Rhodocyclales	206389|Rhodocyclales	S	Lipopolysaccharide assembly protein A domain	-	-	-	ko:K08992	-	-	-	-	ko00000	-	-	-	LapA_dom
LYD3_k127_2782503_2	1121035.AUCH01000001_gene2092	1.446e-32	127.0	COG0776@1|root,COG0776@2|Bacteria,1MZ7M@1224|Proteobacteria,2VSPN@28216|Betaproteobacteria,2KWNF@206389|Rhodocyclales	206389|Rhodocyclales	K	This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control	ihfB	-	-	ko:K05788	-	-	-	-	ko00000,ko03032,ko03036,ko03400	-	-	-	Bac_DNA_binding
LYD3_k127_2788504_1	580332.Slit_2778	1.798e-73	252.0	COG0330@1|root,COG0330@2|Bacteria,1MUM8@1224|Proteobacteria,2VHZW@28216|Betaproteobacteria	28216|Betaproteobacteria	O	PFAM band 7 protein	-	-	-	-	-	-	-	-	-	-	-	-	Band_7
LYD3_k127_2788504_0	580332.Slit_2777	2.651e-148	488.0	COG1030@1|root,COG1030@2|Bacteria,1MUJN@1224|Proteobacteria,2VMUK@28216|Betaproteobacteria	28216|Betaproteobacteria	O	serine protease	nfeD	-	-	ko:K07403	-	-	-	-	ko00000	-	-	-	NfeD
LYD3_k127_2788504_2	987059.RBXJA2T_04763	1.223e-34	133.0	COG0346@1|root,COG0346@2|Bacteria,1N1D4@1224|Proteobacteria,2WE8C@28216|Betaproteobacteria	28216|Betaproteobacteria	E	glyoxalase bleomycin resistance protein dioxygenase	-	-	-	-	-	-	-	-	-	-	-	-	Glyoxalase
LYD3_k127_2791529_0	1123487.KB892844_gene854	3.871e-200	630.0	COG0073@1|root,COG0143@1|root,COG0073@2|Bacteria,COG0143@2|Bacteria,1MUBY@1224|Proteobacteria,2VH19@28216|Betaproteobacteria,2KUGX@206389|Rhodocyclales	206389|Rhodocyclales	J	Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation	metG	-	6.1.1.10	ko:K01874	ko00450,ko00970,map00450,map00970	M00359,M00360	R03659,R04773	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	Anticodon_1,tRNA-synt_1g,tRNA_bind
LYD3_k127_2791529_1	1000565.METUNv1_02967	6.556e-178	563.0	COG0489@1|root,COG0489@2|Bacteria,1MU7R@1224|Proteobacteria,2VIMV@28216|Betaproteobacteria,2KV2W@206389|Rhodocyclales	206389|Rhodocyclales	D	Binds and transfers iron-sulfur (Fe-S) clusters to target apoproteins. Can hydrolyze ATP	mrp	-	-	ko:K03593	-	-	-	-	ko00000,ko03029,ko03036	-	-	-	FeS_assembly_P,ParA
LYD3_k127_2791529_2	264198.Reut_A0688	6.597e-43	158.0	COG0717@1|root,COG0717@2|Bacteria,1MV2J@1224|Proteobacteria,2VIJ0@28216|Betaproteobacteria,1K38F@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Belongs to the dCTP deaminase family	dcd	-	3.5.4.13	ko:K01494	ko00240,ko01100,map00240,map01100	M00053	R00568,R02325	RC00074	ko00000,ko00001,ko00002,ko01000	-	-	-	dUTPase
LYD3_k127_2801654_3	1504672.669785206	9.521e-45	170.0	COG0454@1|root,COG0456@2|Bacteria,1QU9D@1224|Proteobacteria,2VUVY@28216|Betaproteobacteria,4AJK4@80864|Comamonadaceae	28216|Betaproteobacteria	K	Acetyltransferase (GNAT) domain	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1,Acetyltransf_10
LYD3_k127_2801654_5	264198.Reut_B4910	3.793e-13	78.0	2E7II@1|root,3320V@2|Bacteria,1N91Y@1224|Proteobacteria,2VW18@28216|Betaproteobacteria,1K8QZ@119060|Burkholderiaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2801654_0	365046.Rta_37590	9.094e-229	715.0	COG0174@1|root,COG0174@2|Bacteria,1MUGQ@1224|Proteobacteria,2WFJM@28216|Betaproteobacteria,4AD19@80864|Comamonadaceae	28216|Betaproteobacteria	E	Glutamine synthetase, catalytic domain	-	-	6.3.1.2	ko:K01915	ko00220,ko00250,ko00630,ko00910,ko01100,ko01120,ko01230,ko02020,ko04217,ko04724,ko04727,map00220,map00250,map00630,map00910,map01100,map01120,map01230,map02020,map04217,map04724,map04727	-	R00253	RC00010,RC02798	ko00000,ko00001,ko01000,ko04147	-	-	-	Gln-synt_C
LYD3_k127_2801654_2	118166.JH976537_gene1397	3.734e-60	218.0	COG0697@1|root,COG0697@2|Bacteria,1GC6K@1117|Cyanobacteria,1HF1D@1150|Oscillatoriales	1117|Cyanobacteria	EG	EamA-like transporter family	-	-	-	-	-	-	-	-	-	-	-	-	EamA
LYD3_k127_2801654_4	1122963.AUHB01000001_gene560	1.489e-43	177.0	COG3265@1|root,COG3265@2|Bacteria,1RHD0@1224|Proteobacteria,2UBQX@28211|Alphaproteobacteria,370E3@31993|Methylocystaceae	28211|Alphaproteobacteria	G	Shikimate kinase	-	-	2.7.1.12	ko:K00851	ko00030,ko01100,ko01110,ko01120,ko01130,ko01200,map00030,map01100,map01110,map01120,map01130,map01200	-	R01737	RC00002,RC00017	ko00000,ko00001,ko01000	-	-	-	AAA_33,SKI
LYD3_k127_2801654_1	1149133.ppKF707_2490	3.665e-114	377.0	COG0626@1|root,COG0626@2|Bacteria,1MU9E@1224|Proteobacteria,1RQI0@1236|Gammaproteobacteria,1YF63@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	E	Cys/Met metabolism PLP-dependent enzyme	metC	-	4.4.1.8	ko:K01760	ko00270,ko00450,ko01100,ko01110,ko01230,map00270,map00450,map01100,map01110,map01230	M00017	R00782,R01286,R02408,R04941	RC00056,RC00069,RC00382,RC00488,RC00710,RC01245,RC02303	ko00000,ko00001,ko00002,ko01000	-	-	-	Cys_Met_Meta_PP
LYD3_k127_2804643_2	371731.Rsw2DRAFT_1005	1.217e-48	178.0	2CKJ1@1|root,2Z7MP@2|Bacteria,1P4IV@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2806923_2	944435.AXAJ01000001_gene739	2.905e-41	154.0	COG1873@1|root,COG1873@2|Bacteria,1QTWZ@1224|Proteobacteria,2VT3J@28216|Betaproteobacteria,1K7KH@119060|Burkholderiaceae	28216|Betaproteobacteria	S	PFAM PRC-barrel domain protein	-	-	-	-	-	-	-	-	-	-	-	-	PRC
LYD3_k127_2806923_1	450851.PHZ_p0023	1.703e-155	500.0	COG0438@1|root,COG0438@2|Bacteria,1MWSZ@1224|Proteobacteria,2TQQK@28211|Alphaproteobacteria,2KGQB@204458|Caulobacterales	204458|Caulobacterales	M	PFAM glycosyl transferase group 1	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_4,Glycos_transf_1
LYD3_k127_2806923_0	391165.GbCGDNIH1_2158	2.305e-269	848.0	COG3408@1|root,COG3408@2|Bacteria,1MUYU@1224|Proteobacteria,2TQK2@28211|Alphaproteobacteria,2JPA0@204441|Rhodospirillales	204441|Rhodospirillales	G	N-terminal domain of (some) glycogen debranching enzymes	-	-	-	-	-	-	-	-	-	-	-	-	GDE_C,GDE_N_bis
LYD3_k127_2806923_3	1095769.CAHF01000008_gene3614	7.62e-35	140.0	COG5592@1|root,COG5592@2|Bacteria,1RI8J@1224|Proteobacteria,2VT7Y@28216|Betaproteobacteria,478RX@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Hemerythrin HHE cation binding domain	-	-	-	-	-	-	-	-	-	-	-	-	Hemerythrin
LYD3_k127_2808786_7	557598.LHK_02696	5.864e-08	59.0	COG0470@1|root,COG0470@2|Bacteria,1MY1W@1224|Proteobacteria,2VNED@28216|Betaproteobacteria,2KPZ4@206351|Neisseriales	206351|Neisseriales	L	DNA polymerase III, delta	holB	-	2.7.7.7	ko:K02341	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	DNA_pol3_delta2,DNApol3-delta_C
LYD3_k127_2808786_3	1123393.KB891333_gene2569	1.329e-43	162.0	COG3215@1|root,COG3215@2|Bacteria,1RGWZ@1224|Proteobacteria,2VT2B@28216|Betaproteobacteria,1KT2J@119069|Hydrogenophilales	119069|Hydrogenophilales	NU	PilZ domain	-	-	-	ko:K02676	-	-	-	-	ko00000,ko02035,ko02044	-	-	-	PilZ
LYD3_k127_2808786_0	1123392.AQWL01000007_gene925	1.917e-109	361.0	COG0084@1|root,COG0084@2|Bacteria,1MUC0@1224|Proteobacteria,2VHCT@28216|Betaproteobacteria,1KSSY@119069|Hydrogenophilales	119069|Hydrogenophilales	L	TatD related DNase	-	-	-	ko:K03424	-	-	-	-	ko00000,ko01000	-	-	-	TatD_DNase
LYD3_k127_2808786_4	1288494.EBAPG3_17270	1.084e-40	161.0	COG0666@1|root,COG0666@2|Bacteria,1N952@1224|Proteobacteria,2VPIV@28216|Betaproteobacteria,3733C@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Ankyrin repeat	arp3	-	-	ko:K06867	-	-	-	-	ko00000	-	-	-	Ank_2,Ank_3,Ank_4,Ank_5
LYD3_k127_2808786_2	1005048.CFU_2505	1.859e-47	177.0	COG0791@1|root,COG0791@2|Bacteria,1N0EE@1224|Proteobacteria,2VSHN@28216|Betaproteobacteria,474EK@75682|Oxalobacteraceae	28216|Betaproteobacteria	M	NlpC/P60 family	-	-	-	ko:K13695,ko:K19303	-	-	-	-	ko00000,ko01000,ko01002,ko01011	-	-	-	NLPC_P60
LYD3_k127_2808786_6	395495.Lcho_2059	7.855e-13	78.0	COG2914@1|root,COG2914@2|Bacteria,1MZCH@1224|Proteobacteria,2VVNX@28216|Betaproteobacteria,1KMJQ@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Belongs to the UPF0125 (RnfH) family	rnfH	-	-	ko:K09801	-	-	-	-	ko00000	-	-	-	Ub-RnfH
LYD3_k127_2808786_1	1132855.KB913035_gene1731	7.205e-49	181.0	COG2867@1|root,COG2867@2|Bacteria,1RGUH@1224|Proteobacteria,2VR4X@28216|Betaproteobacteria,2KMT8@206350|Nitrosomonadales	206350|Nitrosomonadales	I	Polyketide cyclase / dehydrase and lipid transport	-	-	-	-	-	-	-	-	-	-	-	-	Polyketide_cyc
LYD3_k127_2808786_5	1131553.JIBI01000009_gene1263	1.37e-19	88.0	COG0691@1|root,COG0691@2|Bacteria,1RDFP@1224|Proteobacteria,2VRG9@28216|Betaproteobacteria,37321@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Required for rescue of stalled ribosomes mediated by trans-translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene	smpB	-	-	ko:K03664	-	-	-	-	ko00000	-	-	-	SmpB
LYD3_k127_2829313_0	136993.KB900626_gene2119	3.942e-140	449.0	COG4177@1|root,COG4177@2|Bacteria,1MUPI@1224|Proteobacteria,2TTN2@28211|Alphaproteobacteria,36XX6@31993|Methylocystaceae	28211|Alphaproteobacteria	E	Branched-chain amino acid transport system / permease component	urtC	-	-	ko:K11961	ko02010,map02010	M00323	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4.4,3.A.1.4.5	-	-	BPD_transp_2
LYD3_k127_2829313_2	94624.Bpet0298	1.326e-118	400.0	COG4674@1|root,COG4674@2|Bacteria,1MUBR@1224|Proteobacteria,2VIX4@28216|Betaproteobacteria,3T5CY@506|Alcaligenaceae	28216|Betaproteobacteria	S	Urea ABC transporter ATP-binding protein	urtD	-	-	ko:K11962	ko02010,map02010	M00323	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4.4,3.A.1.4.5	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_2829313_3	1121035.AUCH01000019_gene2828	1.626e-106	349.0	COG0410@1|root,COG0410@2|Bacteria,1MU4Z@1224|Proteobacteria,2VJUP@28216|Betaproteobacteria,2KV7I@206389|Rhodocyclales	206389|Rhodocyclales	E	ABC transporter, ATP-binding protein	urtE	-	-	ko:K11963	ko02010,map02010	M00323	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4.4,3.A.1.4.5	-	-	ABC_tran
LYD3_k127_2829313_1	1121035.AUCH01000001_gene2080	5.548e-132	429.0	COG0635@1|root,COG0635@2|Bacteria,1MV1I@1224|Proteobacteria,2VJ1F@28216|Betaproteobacteria,2KVK4@206389|Rhodocyclales	206389|Rhodocyclales	H	Belongs to the anaerobic coproporphyrinogen-III oxidase family	-	-	-	-	-	-	-	-	-	-	-	-	HemN_C,Radical_SAM
LYD3_k127_2833670_3	1163617.SCD_n01387	4.806e-67	239.0	COG0354@1|root,COG0354@2|Bacteria,1N852@1224|Proteobacteria,2VK2D@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Belongs to the GcvT family	ygfZ	-	-	ko:K06980	-	-	-	-	ko00000,ko03016	-	-	-	GCV_T,GCV_T_C
LYD3_k127_2833670_2	1532557.JL37_27010	1.007e-70	247.0	COG3332@1|root,COG3332@2|Bacteria,1RDBS@1224|Proteobacteria,2VQK6@28216|Betaproteobacteria,3T3RJ@506|Alcaligenaceae	28216|Betaproteobacteria	S	Transport and Golgi organisation 2	-	-	-	-	-	-	-	-	-	-	-	-	TANGO2
LYD3_k127_2833670_6	267608.RSc1774	4.272e-37	156.0	COG2153@1|root,COG2153@2|Bacteria,1MZ86@1224|Proteobacteria,2VMR6@28216|Betaproteobacteria,1K8P2@119060|Burkholderiaceae	28216|Betaproteobacteria	S	PFAM GCN5-related N-acetyltransferase	yjcF	-	-	-	-	-	-	-	-	-	-	-	4HBT,Acetyltransf_10
LYD3_k127_2833670_1	1005048.CFU_1376	3.511e-80	284.0	COG1619@1|root,COG1619@2|Bacteria,1MWIY@1224|Proteobacteria,2VHAS@28216|Betaproteobacteria,4727T@75682|Oxalobacteraceae	28216|Betaproteobacteria	V	LD-carboxypeptidase	ldcA	-	3.4.17.13	ko:K01297	-	-	-	-	ko00000,ko01000,ko01002,ko01011	-	-	-	Peptidase_S66
LYD3_k127_2833670_4	1000565.METUNv1_00894	1.535e-60	213.0	COG0590@1|root,COG0590@2|Bacteria,1RGU0@1224|Proteobacteria,2VR60@28216|Betaproteobacteria,2KW90@206389|Rhodocyclales	206389|Rhodocyclales	FJ	Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2)	tadA	-	3.5.4.33	ko:K11991	-	-	R10223	RC00477	ko00000,ko01000,ko03016	-	-	-	MafB19-deam
LYD3_k127_2833670_5	1128421.JAGA01000002_gene1675	3.814e-44	177.0	COG0251@1|root,COG0251@2|Bacteria,2NR4K@2323|unclassified Bacteria	2|Bacteria	J	Endoribonuclease L-PSP	rutC	-	4.2.99.21	ko:K04782	ko01053,ko01110,ko01130,map01053,map01110,map01130	-	R06602	RC01549,RC02148	ko00000,ko00001,ko01000	-	-	-	Ribonuc_L-PSP
LYD3_k127_2833670_0	580332.Slit_1466	2.787e-270	837.0	COG0518@1|root,COG0519@1|root,COG0518@2|Bacteria,COG0519@2|Bacteria,1MU2A@1224|Proteobacteria,2VHNG@28216|Betaproteobacteria,44V7R@713636|Nitrosomonadales	28216|Betaproteobacteria	F	Catalyzes the synthesis of GMP from XMP	guaA	-	6.3.5.2	ko:K01951	ko00230,ko00983,ko01100,map00230,map00983,map01100	M00050	R01230,R01231,R08244	RC00010,RC00204	ko00000,ko00001,ko00002,ko01000,ko01002	-	-	-	GATase,GMP_synt_C,NAD_synthase
LYD3_k127_2836726_6	640081.Dsui_2151	1.693e-49	180.0	COG1763@1|root,COG1763@2|Bacteria,1RD3Q@1224|Proteobacteria,2VSIP@28216|Betaproteobacteria,2KWDE@206389|Rhodocyclales	206389|Rhodocyclales	H	molybdopterin-guanine dinucleotide biosynthesis protein	-	-	-	ko:K03753	-	-	-	-	ko00000	-	-	-	MobB
LYD3_k127_2836726_12	1120999.JONM01000001_gene1500	3.636e-06	59.0	COG3637@1|root,COG3637@2|Bacteria,1N7U7@1224|Proteobacteria,2VRRF@28216|Betaproteobacteria,2KTSV@206351|Neisseriales	206351|Neisseriales	M	OmpA-like transmembrane domain	-	-	-	-	-	-	-	-	-	-	-	-	OmpA_membrane
LYD3_k127_2836726_9	1163617.SCD_n01272	1.998e-23	102.0	COG1977@1|root,COG1977@2|Bacteria,1N0IE@1224|Proteobacteria,2VVSP@28216|Betaproteobacteria	28216|Betaproteobacteria	H	Involved in sulfur transfer in the conversion of molybdopterin precursor Z to molybdopterin	moaD	-	-	ko:K03636	ko04122,map04122	-	-	-	ko00000,ko00001	-	-	-	ThiS
LYD3_k127_2836726_5	1121035.AUCH01000014_gene2482	8.102e-68	234.0	COG0314@1|root,COG0314@2|Bacteria,1RGUX@1224|Proteobacteria,2VRMG@28216|Betaproteobacteria,2KW54@206389|Rhodocyclales	206389|Rhodocyclales	H	Molybdopterin converting factor, large subunit	moaE	-	2.8.1.12	ko:K03635	ko00790,ko01100,ko04122,map00790,map01100,map04122	-	R09395	RC02507	ko00000,ko00001,ko01000	-	-	-	MoaE
LYD3_k127_2836726_3	1500894.JQNN01000001_gene516	4.915e-71	254.0	COG3734@1|root,COG3734@2|Bacteria,1MWGX@1224|Proteobacteria,2VH7M@28216|Betaproteobacteria,478PT@75682|Oxalobacteraceae	28216|Betaproteobacteria	G	2-keto-3-deoxy-galactonokinase	dgoK	-	2.7.1.58	ko:K00883	ko00052,ko01100,map00052,map01100	M00552	R03387	RC00002,RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	DGOK
LYD3_k127_2836726_4	1163408.UU9_09702	4.429e-69	240.0	COG0800@1|root,COG0800@2|Bacteria,1RD0T@1224|Proteobacteria,1RQMK@1236|Gammaproteobacteria,1X6N3@135614|Xanthomonadales	135614|Xanthomonadales	G	Aldolase	-	-	4.1.2.21	ko:K01631	ko00052,ko01100,map00052,map01100	M00552	R01064	RC00307,RC00435	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldolase
LYD3_k127_2836726_2	1218076.BAYB01000006_gene1100	3.49e-102	342.0	COG0524@1|root,COG0524@2|Bacteria,1MVG2@1224|Proteobacteria,2VKA3@28216|Betaproteobacteria,1K03V@119060|Burkholderiaceae	28216|Betaproteobacteria	G	PFAM PfkB domain protein	kdgK	-	2.7.1.45	ko:K00874	ko00030,ko01100,ko01120,ko01200,map00030,map01100,map01120,map01200	M00061,M00308,M00631	R01541	RC00002,RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	PfkB
LYD3_k127_2836726_11	358220.C380_14795	5.529e-17	86.0	2CGAT@1|root,335PS@2|Bacteria,1NEP6@1224|Proteobacteria,2VX56@28216|Betaproteobacteria,4AFS4@80864|Comamonadaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2836726_7	1163617.SCD_n01459	5.728e-41	156.0	COG0239@1|root,COG0239@2|Bacteria,1MZNH@1224|Proteobacteria,2VUBZ@28216|Betaproteobacteria	28216|Betaproteobacteria	D	Important for reducing fluoride concentration in the cell, thus reducing its toxicity	crcB	-	-	ko:K06199	-	-	-	-	ko00000,ko02000	1.A.43.1,1.A.43.2,1.A.43.3	-	-	CRCB
LYD3_k127_2836726_8	572477.Alvin_0738	4.697e-32	130.0	COG1993@1|root,COG1993@2|Bacteria,1RH30@1224|Proteobacteria,1S7XN@1236|Gammaproteobacteria,1WYP4@135613|Chromatiales	135613|Chromatiales	S	Uncharacterized ACR, COG1993	-	-	-	-	-	-	-	-	-	-	-	-	DUF190
LYD3_k127_2836726_0	420324.KI912076_gene8329	6.57e-143	460.0	COG0604@1|root,COG0604@2|Bacteria,1MWBD@1224|Proteobacteria,2TS3Z@28211|Alphaproteobacteria,1JSVE@119045|Methylobacteriaceae	28211|Alphaproteobacteria	C	PFAM Alcohol dehydrogenase zinc-binding domain protein	qor	-	1.6.5.5	ko:K00344	-	-	-	-	ko00000,ko01000	-	-	-	ADH_N,ADH_zinc_N
LYD3_k127_2836726_1	640081.Dsui_2898	3.329e-129	430.0	COG0062@1|root,COG0063@1|root,COG0062@2|Bacteria,COG0063@2|Bacteria,1MU1Q@1224|Proteobacteria,2VJZD@28216|Betaproteobacteria,2KU9G@206389|Rhodocyclales	206389|Rhodocyclales	H	Bifunctional enzyme that catalyzes the epimerization of the S- and R-forms of NAD(P)HX and the dehydration of the S-form of NAD(P)HX at the expense of ADP, which is converted to AMP. This allows the repair of both epimers of NAD(P)HX, a damaged form of NAD(P)H that is a result of enzymatic or heat-dependent hydration	nnrD	-	-	-	-	-	-	-	-	-	-	-	Carb_kinase,YjeF_N
LYD3_k127_2836726_10	224911.27355883	1.754e-22	107.0	COG0834@1|root,COG0834@2|Bacteria,1MV5D@1224|Proteobacteria,2TTXX@28211|Alphaproteobacteria,3JRKX@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	ET	Bacterial periplasmic substrate-binding proteins	gltI	-	-	ko:K02030,ko:K10001	ko02010,ko02020,map02010,map02020	M00230,M00236	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.3,3.A.1.3.19,3.A.1.3.4	-	-	SBP_bac_3
LYD3_k127_2848071_4	575564.HMPREF0014_01360	1.436e-20	92.0	COG1123@1|root,COG4172@2|Bacteria,1MU09@1224|Proteobacteria,1RMEI@1236|Gammaproteobacteria,3NIPB@468|Moraxellaceae	1236|Gammaproteobacteria	P	Belongs to the ABC transporter superfamily	gsiA	-	-	ko:K02031,ko:K02032,ko:K13896	ko02010,ko02024,map02010,map02024	M00239,M00349	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.21,3.A.1.5.24	-	-	ABC_tran,oligo_HPY
LYD3_k127_2848071_0	1005048.CFU_1981	1.653e-123	408.0	COG0457@1|root,COG0457@2|Bacteria,1MUTV@1224|Proteobacteria,2VSDY@28216|Betaproteobacteria,475DB@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Tetratricopeptide repeat	-	-	-	-	-	-	-	-	-	-	-	-	TPR_16,TPR_19,TPR_8
LYD3_k127_2848071_2	1434929.X946_4169	9.736e-57	209.0	COG0454@1|root,COG0454@2|Bacteria,1QTZ4@1224|Proteobacteria,2VSAH@28216|Betaproteobacteria,1K7CM@119060|Burkholderiaceae	28216|Betaproteobacteria	K	PFAM GCN5-related N-acetyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_2848071_3	306281.AJLK01000106_gene2293	2.287e-56	203.0	COG1247@1|root,COG1247@2|Bacteria,1G5SQ@1117|Cyanobacteria,1JJRD@1189|Stigonemataceae	1117|Cyanobacteria	M	Acetyltransferase (GNAT) domain	-	-	2.3.1.183	ko:K03823	ko00440,ko01130,map00440,map01130	-	R08871,R08938	RC00004,RC00064	ko00000,ko00001,ko01000	-	-	-	Acetyltransf_1,Acetyltransf_4
LYD3_k127_2848071_1	1005048.CFU_3175	1.173e-88	311.0	COG1629@1|root,COG4771@2|Bacteria,1MU9K@1224|Proteobacteria,2VJSU@28216|Betaproteobacteria,472GB@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	TonB dependent receptor	tonR2	-	-	ko:K02014	-	-	-	-	ko00000,ko02000	1.B.14	-	-	Plug,TonB_dep_Rec
LYD3_k127_2875887_2	580332.Slit_1690	2.059e-48	179.0	COG0425@1|root,COG0425@2|Bacteria,1PX23@1224|Proteobacteria,2WCJT@28216|Betaproteobacteria,44W8S@713636|Nitrosomonadales	28216|Betaproteobacteria	O	Sulfurtransferase TusA	-	-	-	-	-	-	-	-	-	-	-	-	TusA
LYD3_k127_2875887_3	1485544.JQKP01000005_gene309	3.057e-43	160.0	COG2920@1|root,COG2920@2|Bacteria,1N2HP@1224|Proteobacteria,2VVGF@28216|Betaproteobacteria,44WH7@713636|Nitrosomonadales	28216|Betaproteobacteria	P	DsrC like protein	-	-	-	ko:K11179	ko04122,map04122	-	-	-	ko00000,ko00001,ko01000,ko03016	-	-	-	DsrC
LYD3_k127_2875887_4	1123392.AQWL01000005_gene3231	2.026e-31	131.0	2CARE@1|root,2Z8Q5@2|Bacteria,1R7S8@1224|Proteobacteria,2VVIY@28216|Betaproteobacteria,1KSNR@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Cas6 Crispr	-	-	-	-	-	-	-	-	-	-	-	-	Cas6
LYD3_k127_2875887_5	292415.Tbd_2486	2.652e-18	89.0	2EMP6@1|root,33FBM@2|Bacteria,1NGBE@1224|Proteobacteria,2VYCB@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2875887_0	640081.Dsui_3442	3.826e-228	714.0	COG0446@1|root,COG0446@2|Bacteria,1N5MC@1224|Proteobacteria,2VKI2@28216|Betaproteobacteria,2KX65@206389|Rhodocyclales	206389|Rhodocyclales	S	FAD-dependent pyridine nucleotide-disulfide oxidoreductase	-	-	1.8.5.4	ko:K17218	ko00920,map00920	-	R10152	RC03155	ko00000,ko00001,ko01000	-	-	-	Pyr_redox_2
LYD3_k127_2875887_1	864051.BurJ1DRAFT_3336	3.013e-140	451.0	COG2221@1|root,COG2221@2|Bacteria,1MWY5@1224|Proteobacteria,2VPWJ@28216|Betaproteobacteria	28216|Betaproteobacteria	C	sulfite reductase, dissimilatory-type alpha subunit	-	-	1.8.99.5	ko:K11180	ko00633,ko00920,ko01100,ko01120,map00633,map00920,map01100,map01120	M00596	R00295,R00861,R08035	RC00065,RC01760	ko00000,ko00001,ko00002,ko01000	-	-	-	NIR_SIR,NIR_SIR_ferr
LYD3_k127_2883143_0	338969.Rfer_2163	1.701e-88	300.0	COG0380@1|root,COG0380@2|Bacteria,1MUIY@1224|Proteobacteria,2VIAZ@28216|Betaproteobacteria,4AJBE@80864|Comamonadaceae	28216|Betaproteobacteria	G	Glycosyltransferase family 20	-	-	2.4.1.15,2.4.1.347	ko:K00697	ko00500,ko01100,map00500,map01100	-	R02737	RC00005,RC00049,RC02748	ko00000,ko00001,ko01000,ko01003	-	GT20	-	Glyco_transf_20
LYD3_k127_2883143_2	543728.Vapar_6326	2.294e-16	84.0	COG2197@1|root,COG2197@2|Bacteria,1NDQC@1224|Proteobacteria,2VRW4@28216|Betaproteobacteria,4AE7N@80864|Comamonadaceae	28216|Betaproteobacteria	T	PFAM response regulator receiver	-	-	-	-	-	-	-	-	-	-	-	-	Response_reg
LYD3_k127_2883143_1	56780.SYN_01953	1.326e-19	89.0	COG2197@1|root,COG2197@2|Bacteria,1MWGM@1224|Proteobacteria,42R03@68525|delta/epsilon subdivisions,2WMTZ@28221|Deltaproteobacteria,2MRIP@213462|Syntrophobacterales	28221|Deltaproteobacteria	T	helix_turn_helix, Lux Regulon	-	-	-	-	-	-	-	-	-	-	-	-	GerE,Response_reg
LYD3_k127_288513_0	113395.AXAI01000009_gene2454	7.003e-60	223.0	COG0457@1|root,COG0457@2|Bacteria,1MUZK@1224|Proteobacteria,2TS0U@28211|Alphaproteobacteria,3JRSC@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	M	Function proposed based on presence of conserved amino acid motif, structural feature or limited homology	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_9,TPR_1,TPR_11,TPR_12,TPR_16,TPR_19,TPR_2,TPR_4,TPR_8
LYD3_k127_288513_2	1242864.D187_006714	1.723e-30	129.0	29AFQ@1|root,2ZXFW@2|Bacteria,1RGFB@1224|Proteobacteria	1224|Proteobacteria	S	Transcription factor zinc-finger	-	-	-	-	-	-	-	-	-	-	-	-	zf-TFIIB
LYD3_k127_288513_1	381666.H16_A2787	3.54e-46	186.0	COG2353@1|root,COG2353@2|Bacteria,1R9XD@1224|Proteobacteria,2VQTQ@28216|Betaproteobacteria,1KC7K@119060|Burkholderiaceae	28216|Betaproteobacteria	S	YceI-like domain	-	-	-	-	-	-	-	-	-	-	-	-	YceI
LYD3_k127_288513_3	1463855.JOHV01000010_gene5603	2.309e-11	72.0	COG0664@1|root,COG0664@2|Bacteria,2IRJW@201174|Actinobacteria	201174|Actinobacteria	T	COG0664 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases	-	-	-	-	-	-	-	-	-	-	-	-	cNMP_binding
LYD3_k127_2885552_4	1282360.ABAC460_00880	1.094e-05	49.0	COG3254@1|root,COG3254@2|Bacteria,1RIRS@1224|Proteobacteria,2UAT0@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	rhamnose metabolic process	-	-	-	-	-	-	-	-	-	-	-	-	ABM
LYD3_k127_2885552_3	1205680.CAKO01000004_gene3614	9.906e-08	58.0	COG5424@1|root,COG5424@2|Bacteria,1PVPF@1224|Proteobacteria,2U38I@28211|Alphaproteobacteria,2JYA4@204441|Rhodospirillales	204441|Rhodospirillales	H	Iron-containing redox enzyme	-	-	1.3.3.11	ko:K06137	-	-	-	-	ko00000,ko01000	-	-	-	Haem_oxygenas_2
LYD3_k127_2885552_0	1205680.CAKO01000004_gene3615	1.715e-74	259.0	COG4638@1|root,COG4638@2|Bacteria	2|Bacteria	P	Rieske (2fe-2S)	-	-	-	ko:K00479	-	-	-	-	ko00000	-	-	-	Rieske,Ring_hydroxyl_A
LYD3_k127_2885552_1	330214.NIDE0018	2.799e-59	213.0	COG1018@1|root,COG1018@2|Bacteria,3J196@40117|Nitrospirae	40117|Nitrospirae	C	Oxidoreductase NAD-binding domain	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2885552_2	395495.Lcho_0045	4.098e-22	103.0	COG2114@1|root,COG3437@1|root,COG2114@2|Bacteria,COG3437@2|Bacteria,1QY14@1224|Proteobacteria,2WH9F@28216|Betaproteobacteria	28216|Betaproteobacteria	T	Belongs to the adenylyl cyclase class-4 guanylyl cyclase family	-	-	4.6.1.1	ko:K01768	ko00230,ko02025,ko04113,ko04213,map00230,map02025,map04113,map04213	M00695	R00089,R00434	RC00295	ko00000,ko00001,ko00002,ko01000	-	-	-	Guanylate_cyc,Response_reg
LYD3_k127_290629_4	640081.Dsui_0891	3.305e-78	266.0	COG0768@1|root,COG0768@2|Bacteria,1MV8C@1224|Proteobacteria,2VHBZ@28216|Betaproteobacteria,2KUYH@206389|Rhodocyclales	206389|Rhodocyclales	M	Catalyzes cross-linking of the peptidoglycan cell wall	mrdA	-	3.4.16.4	ko:K05515	ko00550,ko01501,map00550,map01501	-	-	-	ko00000,ko00001,ko01000,ko01011	-	-	-	PBP_dimer,Transpeptidase
LYD3_k127_290629_1	1266925.JHVX01000007_gene2355	2.12e-146	472.0	COG0772@1|root,COG0772@2|Bacteria,1MUK3@1224|Proteobacteria,2VH8Q@28216|Betaproteobacteria,37261@32003|Nitrosomonadales	28216|Betaproteobacteria	M	Peptidoglycan polymerase that is essential for cell wall elongation	mrdB	-	-	ko:K05837	-	-	-	-	ko00000,ko03036	-	-	-	FTSW_RODA_SPOVE
LYD3_k127_290629_10	420662.Mpe_A0013	5.667e-10	62.0	2CIC8@1|root,33JK4@2|Bacteria,1NH5Z@1224|Proteobacteria,2VYDU@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_290629_5	1288494.EBAPG3_7510	3.83e-52	187.0	COG1403@1|root,COG1403@2|Bacteria,1RGZQ@1224|Proteobacteria,2VSZE@28216|Betaproteobacteria,373EC@32003|Nitrosomonadales	28216|Betaproteobacteria	L	HNH nucleases	-	-	-	-	-	-	-	-	-	-	-	-	HNH
LYD3_k127_290629_11	204773.HEAR0421	2.066e-06	54.0	2EG4X@1|root,339WU@2|Bacteria	2|Bacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_290629_8	381666.H16_A3595	1.285e-36	145.0	2CNK3@1|root,32SH9@2|Bacteria,1N02U@1224|Proteobacteria,2VUNW@28216|Betaproteobacteria,1KDIQ@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Protein of Unknown function (DUF2784)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2784
LYD3_k127_290629_3	62928.azo0179	2.325e-85	299.0	COG0797@1|root,COG3087@1|root,COG0797@2|Bacteria,COG3087@2|Bacteria,1MZ8S@1224|Proteobacteria,2VJAN@28216|Betaproteobacteria,2KUPW@206389|Rhodocyclales	206389|Rhodocyclales	DM	Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides	rlpA	-	-	ko:K03642	-	-	-	-	ko00000	-	-	-	DPBB_1,SPOR
LYD3_k127_290629_0	1163617.SCD_n00676	2.34e-158	512.0	COG0823@1|root,COG0823@2|Bacteria,1MV09@1224|Proteobacteria,2VH9R@28216|Betaproteobacteria	28216|Betaproteobacteria	U	Involved in the tonB-independent uptake of proteins	tolB	-	-	ko:K03641	-	-	-	-	ko00000,ko02000	2.C.1.2	-	-	PD40,TolB_N
LYD3_k127_290629_7	1288494.EBAPG3_9070	1.805e-49	182.0	COG2885@1|root,COG2885@2|Bacteria,1MZTV@1224|Proteobacteria,2VSP6@28216|Betaproteobacteria,3736X@32003|Nitrosomonadales	28216|Betaproteobacteria	M	Belongs to the ompA family	pal	-	-	ko:K03640	-	-	-	-	ko00000,ko02000	2.C.1.2	-	-	OmpA
LYD3_k127_290629_6	1288494.EBAPG3_9060	7.847e-52	195.0	COG1729@1|root,COG1729@2|Bacteria,1MUSV@1224|Proteobacteria,2VIPC@28216|Betaproteobacteria,372B4@32003|Nitrosomonadales	28216|Betaproteobacteria	D	Mediates coordination of peptidoglycan synthesis and outer membrane constriction during cell division	cpoB	-	-	-	-	-	-	-	-	-	-	-	TPR_16,TPR_6,TolA_bind_tri,YfiO
LYD3_k127_290629_2	292415.Tbd_2130	1.074e-111	377.0	COG1194@1|root,COG1194@2|Bacteria,1MUD4@1224|Proteobacteria,2VH21@28216|Betaproteobacteria,1KRJI@119069|Hydrogenophilales	119069|Hydrogenophilales	L	NUDIX domain	-	-	-	ko:K03575	ko03410,map03410	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	HhH-GPD,NUDIX_4
LYD3_k127_290629_9	1198452.Jab_2c30050	4.061e-22	97.0	COG0457@1|root,COG0457@2|Bacteria,1MUTV@1224|Proteobacteria,2VSDY@28216|Betaproteobacteria,475DB@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Tetratricopeptide repeat	-	-	-	-	-	-	-	-	-	-	-	-	TPR_16,TPR_19,TPR_8
LYD3_k127_2915092_0	62928.azo1112	1.718e-207	661.0	COG0188@1|root,COG0188@2|Bacteria,1MURI@1224|Proteobacteria,2VH7P@28216|Betaproteobacteria,2KUX1@206389|Rhodocyclales	206389|Rhodocyclales	L	Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule	parC	-	-	ko:K02621	-	-	-	-	ko00000,ko01000,ko02048,ko03032,ko03036	-	-	-	DNA_gyraseA_C,DNA_topoisoIV
LYD3_k127_2915092_1	1485544.JQKP01000008_gene1753	2.746e-87	295.0	COG0421@1|root,COG0421@2|Bacteria,1RBWW@1224|Proteobacteria,2VK7S@28216|Betaproteobacteria,44V2F@713636|Nitrosomonadales	28216|Betaproteobacteria	E	PFAM Spermine synthase	speE1	-	2.5.1.16	ko:K00797	ko00270,ko00330,ko00410,ko00480,ko01100,map00270,map00330,map00410,map00480,map01100	M00034,M00133	R01920,R02869,R08359	RC00021,RC00053	ko00000,ko00001,ko00002,ko01000	-	-	-	Spermine_synth
LYD3_k127_2915092_3	1163617.SCD_n01370	9.247e-22	96.0	28PZA@1|root,2ZCIS@2|Bacteria,1RCMD@1224|Proteobacteria,2VYEF@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_2915092_2	1128421.JAGA01000003_gene2922	1.758e-57	201.0	COG0479@1|root,COG0479@2|Bacteria,2NPY8@2323|unclassified Bacteria	2|Bacteria	C	TIGRFAM succinate dehydrogenase and fumarate reductase iron-sulfur protein	sdhB	-	1.3.5.1,1.3.5.4	ko:K00240,ko:K00245	ko00020,ko00190,ko00620,ko00650,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko02020,map00020,map00190,map00620,map00650,map00720,map01100,map01110,map01120,map01130,map01200,map02020	M00009,M00011,M00149,M00150,M00173,M00374,M00376	R02164	RC00045	ko00000,ko00001,ko00002,ko01000	-	-	-	Fer2_3,Fer4_7,Fer4_8
LYD3_k127_2918849_2	1122622.ATWJ01000007_gene1519	2.215e-15	82.0	COG0613@1|root,COG0613@2|Bacteria,2GNAP@201174|Actinobacteria,4FF9Y@85021|Intrasporangiaceae	201174|Actinobacteria	S	Metal-dependent phosphoesterase	PPA1328	-	3.1.3.97,3.1.4.57	ko:K07053,ko:K20859	ko00440,map00440	-	R00188,R10972,R10973,R11188	RC00078,RC00296	ko00000,ko00001,ko01000	-	-	-	PHP
LYD3_k127_2918849_0	1288494.EBAPG3_1790	1.776e-66	234.0	COG0613@1|root,COG0613@2|Bacteria,1MWIH@1224|Proteobacteria,2VHB2@28216|Betaproteobacteria,372I4@32003|Nitrosomonadales	28216|Betaproteobacteria	S	PFAM PHP C-terminal	-	GO:0003674,GO:0003824,GO:0005488,GO:0006793,GO:0006796,GO:0008150,GO:0008152,GO:0009987,GO:0016311,GO:0016787,GO:0016788,GO:0016791,GO:0030145,GO:0042578,GO:0043167,GO:0043169,GO:0044237,GO:0046872,GO:0046914,GO:0097657	3.1.3.97	ko:K07053	-	-	R00188,R11188	RC00078	ko00000,ko01000	-	-	-	PHP
LYD3_k127_2918849_1	1120999.JONM01000001_gene1043	2.302e-65	239.0	COG1806@1|root,COG1806@2|Bacteria,1MUHU@1224|Proteobacteria,2VI4R@28216|Betaproteobacteria,2KPDY@206351|Neisseriales	206351|Neisseriales	H	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the phosphoenolpyruvate synthase (PEPS) by catalyzing its phosphorylation dephosphorylation	-	-	2.7.11.33,2.7.4.28	ko:K09773	-	-	-	-	ko00000,ko01000	-	-	-	Kinase-PPPase
LYD3_k127_2928733_0	1175306.GWL_12100	1.116e-174	562.0	COG1034@1|root,COG1034@2|Bacteria,1P8MN@1224|Proteobacteria,2VJYV@28216|Betaproteobacteria,4731E@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	NADH-quinone oxidoreductase	nuoG	-	1.6.5.3	ko:K00336	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Fer2_4,Molybdopterin,Molydop_binding,NADH-G_4Fe-4S_3
LYD3_k127_2928733_1	1123393.KB891327_gene383	1.817e-161	515.0	COG1005@1|root,COG1005@2|Bacteria,1MU2R@1224|Proteobacteria,2VHD0@28216|Betaproteobacteria,1KRDN@119069|Hydrogenophilales	119069|Hydrogenophilales	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient. This subunit may bind ubiquinone	nuoH	-	1.6.5.3	ko:K00337	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	NADHdh
LYD3_k127_2928733_2	1266925.JHVX01000013_gene1663	5.307e-86	304.0	COG1143@1|root,COG1143@2|Bacteria,1MV90@1224|Proteobacteria,2VIQP@28216|Betaproteobacteria,371MN@32003|Nitrosomonadales	28216|Betaproteobacteria	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	nuoI	-	1.6.5.3	ko:K00338	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Fer4
LYD3_k127_2928733_3	292415.Tbd_1151	7.617e-65	235.0	COG0839@1|root,COG0839@2|Bacteria,1MWJV@1224|Proteobacteria,2VJ4G@28216|Betaproteobacteria,1KS7Z@119069|Hydrogenophilales	119069|Hydrogenophilales	C	NADH-ubiquinone/plastoquinone oxidoreductase chain 6	-	-	1.6.5.3	ko:K00339	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q3
LYD3_k127_2928733_4	1348657.M622_09910	6.607e-06	51.0	COG0713@1|root,COG0713@2|Bacteria,1RH0S@1224|Proteobacteria,2VSDV@28216|Betaproteobacteria,2KWQG@206389|Rhodocyclales	206389|Rhodocyclales	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	nuoK	-	1.6.5.3	ko:K00340	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q2
LYD3_k127_2939935_1	1502852.FG94_01123	8.21e-50	184.0	COG3381@1|root,COG3381@2|Bacteria,1MWWM@1224|Proteobacteria,2VJ39@28216|Betaproteobacteria,474I7@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Nitrate reductase delta subunit	torD	-	-	-	-	-	-	-	-	-	-	-	Nitrate_red_del
LYD3_k127_2939935_0	748247.AZKH_0075	0.0	1564.0	COG0243@1|root,COG3383@1|root,COG0243@2|Bacteria,COG3383@2|Bacteria,1MW3N@1224|Proteobacteria,2VJG2@28216|Betaproteobacteria,2KU82@206389|Rhodocyclales	206389|Rhodocyclales	C	Belongs to the prokaryotic molybdopterin-containing oxidoreductase family	-	-	1.17.1.9	ko:K00123	ko00630,ko00680,ko01100,ko01120,ko01200,map00630,map00680,map01100,map01120,map01200	-	R00519	RC02796	ko00000,ko00001,ko01000	-	-	-	Molybdop_Fe4S4,Molybdopterin,Molydop_binding
LYD3_k127_2939935_2	76114.ebA2935	6.061e-10	59.0	COG0437@1|root,COG0437@2|Bacteria,1MU5T@1224|Proteobacteria,2VJXP@28216|Betaproteobacteria,2KVJA@206389|Rhodocyclales	206389|Rhodocyclales	C	4Fe-4S ferredoxin, iron-sulfur binding	-	-	-	ko:K00124	ko00630,ko00680,ko01100,ko01120,ko01200,map00630,map00680,map01100,map01120,map01200	-	R00519	RC02796	ko00000,ko00001	-	-	-	Fer4_7
LYD3_k127_2941834_1	1366050.N234_07045	1.798e-257	799.0	COG3396@1|root,COG3396@2|Bacteria,1MXUK@1224|Proteobacteria,2VH89@28216|Betaproteobacteria,1K485@119060|Burkholderiaceae	28216|Betaproteobacteria	S	benzoyl-CoA oxygenase	bdxB	-	1.14.13.208	ko:K15512	ko00362,map00362	-	R09555	RC01739	ko00000,ko00001,ko01000	-	-	-	-
LYD3_k127_2941834_2	748247.AZKH_4520	9.996e-200	628.0	COG0369@1|root,COG1149@1|root,COG0369@2|Bacteria,COG1149@2|Bacteria,1NCKQ@1224|Proteobacteria,2VIZE@28216|Betaproteobacteria,2KY3Q@206389|Rhodocyclales	206389|Rhodocyclales	C	Oxidoreductase NAD-binding domain	boxA	-	1.14.13.208	ko:K15511	ko00362,map00362	-	R09555	RC01739	ko00000,ko00001,ko01000	-	-	-	FAD_binding_6,Fer4,NAD_binding_1
LYD3_k127_2941834_6	883126.HMPREF9710_03038	5.242e-29	120.0	COG3094@1|root,COG3094@2|Bacteria,1MZN6@1224|Proteobacteria,2VUWN@28216|Betaproteobacteria,474VE@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Invasion gene expression up-regulator, SirB	sirB	-	-	-	-	-	-	-	-	-	-	-	SirB
LYD3_k127_2941834_4	1216976.AX27061_4662	3.706e-36	151.0	COG3945@1|root,COG3945@2|Bacteria,1N0BD@1224|Proteobacteria,2VUY4@28216|Betaproteobacteria,3T3VG@506|Alcaligenaceae	28216|Betaproteobacteria	S	Hemerythrin HHE cation binding domain	-	-	-	-	-	-	-	-	-	-	-	-	Hemerythrin
LYD3_k127_2941834_3	395495.Lcho_0061	1.447e-122	401.0	COG2143@1|root,COG2143@2|Bacteria,1RB3S@1224|Proteobacteria,2VX2X@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Thioredoxin-like	-	-	-	ko:K07152	-	-	-	-	ko00000,ko03029	-	-	-	Thioredoxin_2
LYD3_k127_2941834_0	1502851.FG93_00182	3.477e-266	861.0	COG0642@1|root,COG2203@1|root,COG5002@1|root,COG2203@2|Bacteria,COG2205@2|Bacteria,COG5002@2|Bacteria,1NRP8@1224|Proteobacteria,2TX3Q@28211|Alphaproteobacteria	28211|Alphaproteobacteria	T	Histidine kinase-like ATPases	-	-	-	-	-	-	-	-	-	-	-	-	GAF,GAF_2,HAMP,HATPase_c,HisKA,Hpt,Response_reg,dCache_1
LYD3_k127_2941834_5	338969.Rfer_0637	4.849e-29	121.0	COG2905@1|root,COG2905@2|Bacteria,1N7MU@1224|Proteobacteria,2VVGU@28216|Betaproteobacteria	28216|Betaproteobacteria	T	Domain in cystathionine beta-synthase and other proteins.	-	-	-	-	-	-	-	-	-	-	-	-	CBS
LYD3_k127_2942867_1	1288494.EBAPG3_23170	1.666e-25	116.0	COG0568@1|root,COG0568@2|Bacteria,1MVNJ@1224|Proteobacteria,2VH74@28216|Betaproteobacteria,371SD@32003|Nitrosomonadales	28216|Betaproteobacteria	K	Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth	rpoD	-	-	ko:K03086	-	-	-	-	ko00000,ko03021	-	-	-	Sigma70_ner,Sigma70_r1_1,Sigma70_r1_2,Sigma70_r2,Sigma70_r3,Sigma70_r4
LYD3_k127_2942867_0	1485544.JQKP01000019_gene3	1.425e-135	449.0	COG0358@1|root,COG0358@2|Bacteria,1MUHC@1224|Proteobacteria,2VHI9@28216|Betaproteobacteria,44V8P@713636|Nitrosomonadales	28216|Betaproteobacteria	L	RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication	dnaG	-	-	ko:K02316	ko03030,map03030	-	-	-	ko00000,ko00001,ko01000,ko03032	-	-	-	DnaB_bind,DnaG_DnaB_bind,Toprim_2,Toprim_4,Toprim_N,zf-CHC2
LYD3_k127_2949685_1	1000565.METUNv1_01394	4.818e-137	442.0	COG3808@1|root,COG3808@2|Bacteria,1MUQ3@1224|Proteobacteria,2VI3K@28216|Betaproteobacteria,2KV9E@206389|Rhodocyclales	206389|Rhodocyclales	C	Proton pump that utilizes the energy of pyrophosphate hydrolysis as the driving force for proton movement across the membrane. Generates a proton motive force	hppA	-	3.6.1.1	ko:K15987	ko00190,map00190	-	-	-	ko00000,ko00001,ko01000	3.A.10.1	-	-	H_PPase
LYD3_k127_2949685_2	1380394.JADL01000010_gene4220	1.778e-59	228.0	COG3917@1|root,COG3917@2|Bacteria,1MWB9@1224|Proteobacteria,2U07P@28211|Alphaproteobacteria,2JSP1@204441|Rhodospirillales	204441|Rhodospirillales	Q	DSBA-like thioredoxin domain	-	-	-	-	-	-	-	-	-	-	-	-	DSBA
LYD3_k127_2949685_0	1163617.SCD_n01888	4.294e-205	647.0	COG0205@1|root,COG0205@2|Bacteria,1MVN3@1224|Proteobacteria,2VK7J@28216|Betaproteobacteria	28216|Betaproteobacteria	H	Catalyzes the phosphorylation of D-fructose 6-phosphate, the first committing step of glycolysis. Uses inorganic phosphate (PPi) as phosphoryl donor instead of ATP like common ATP-dependent phosphofructokinases (ATP-PFKs), which renders the reaction reversible, and can thus function both in glycolysis and gluconeogenesis. Consistently, PPi-PFK can replace the enzymes of both the forward (ATP-PFK) and reverse (fructose-bisphosphatase (FBPase)) reactions	pfp	-	2.7.1.11,2.7.1.90	ko:K21071	ko00010,ko00030,ko00051,ko00052,ko00680,ko01100,ko01110,ko01120,ko01130,map00010,map00030,map00051,map00052,map00680,map01100,map01110,map01120,map01130	-	R00756,R00764,R02073,R03236,R04779	RC00002,RC00017	ko00000,ko00001,ko01000	-	-	-	PFK
LYD3_k127_2949685_3	1131553.JIBI01000002_gene1873	1.036e-08	64.0	COG1216@1|root,COG2120@1|root,COG3754@1|root,COG5610@1|root,COG1216@2|Bacteria,COG2120@2|Bacteria,COG3754@2|Bacteria,COG5610@2|Bacteria,1MZSD@1224|Proteobacteria,2VUX2@28216|Betaproteobacteria,3736Y@32003|Nitrosomonadales	28216|Betaproteobacteria	M	Glycosyltransferase like family 2	-	-	-	ko:K20444	-	-	-	-	ko00000,ko01000,ko01005,ko02000	4.D.1.3	GT2,GT4	-	Glyco_transf_7C,Glycos_transf_2,PIG-L
LYD3_k127_295002_1	983917.RGE_36860	3.283e-187	604.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2VHCV@28216|Betaproteobacteria,1KJIQ@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	ABC-type dipeptide transport system, periplasmic component	-	-	-	ko:K02035	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	SBP_bac_5
LYD3_k127_295002_0	557598.LHK_02276	8.526e-310	976.0	COG1643@1|root,COG1643@2|Bacteria,1MUEQ@1224|Proteobacteria,2VI3R@28216|Betaproteobacteria,2KPQG@206351|Neisseriales	206351|Neisseriales	L	ATP-dependent helicase hrpA	hrpA	-	3.6.4.13	ko:K03578	-	-	-	-	ko00000,ko01000	-	-	-	Acetyltransf_10,DEAD,DUF3418,HA2,Helicase_C,OB_NTP_bind
LYD3_k127_2950559_2	1038860.AXAP01000030_gene5845	1.156e-20	104.0	COG3618@1|root,COG3618@2|Bacteria,1QWWJ@1224|Proteobacteria,2TV8V@28211|Alphaproteobacteria,3JTX0@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Amidohydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Amidohydro_2
LYD3_k127_2950559_1	748247.AZKH_4168	2.627e-45	177.0	COG3735@1|root,COG3735@2|Bacteria,1RBFT@1224|Proteobacteria,2VTX0@28216|Betaproteobacteria	28216|Betaproteobacteria	S	TraB family	-	-	-	ko:K09973	-	-	-	-	ko00000	-	-	-	TraB
LYD3_k127_2950559_0	216591.BCAL2782	3.633e-76	267.0	COG0259@1|root,COG0259@2|Bacteria,1NZUU@1224|Proteobacteria,2VIXW@28216|Betaproteobacteria,1JZMU@119060|Burkholderiaceae	28216|Betaproteobacteria	H	Catalyzes the oxidation of either pyridoxine 5'- phosphate (PNP) or pyridoxamine 5'-phosphate (PMP) into pyridoxal 5'-phosphate (PLP)	pdxH	-	1.4.3.5	ko:K00275	ko00750,ko01100,ko01120,map00750,map01100,map01120	M00124	R00277,R00278,R01710,R01711	RC00048,RC00116	ko00000,ko00001,ko00002,ko01000	-	-	-	Hemerythrin,PNP_phzG_C,Putative_PNPOx
LYD3_k127_2999699_0	580332.Slit_0508	9.894e-186	597.0	COG0557@1|root,COG0557@2|Bacteria,1NGSQ@1224|Proteobacteria,2VHMM@28216|Betaproteobacteria,44VP2@713636|Nitrosomonadales	28216|Betaproteobacteria	K	RNB	rnb	-	3.1.13.1	ko:K01147	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	RNB
LYD3_k127_3011900_2	1510531.JQJJ01000008_gene3264	2.827e-13	76.0	COG0500@1|root,COG4797@1|root,COG0500@2|Bacteria,COG4797@2|Bacteria,1MX2X@1224|Proteobacteria,2TSMI@28211|Alphaproteobacteria,3JSA8@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	Q	Predicted methyltransferase regulatory domain	-	-	-	-	-	-	-	-	-	-	-	-	MethyTransf_Reg,Methyltransf_12,Methyltransf_25,Methyltransf_31
LYD3_k127_3011900_1	1211115.ALIQ01000068_gene3488	5.854e-113	371.0	COG4221@1|root,COG4221@2|Bacteria,1MWXS@1224|Proteobacteria,2TQYY@28211|Alphaproteobacteria,3NB18@45404|Beijerinckiaceae	28211|Alphaproteobacteria	S	Belongs to the short-chain dehydrogenases reductases (SDR) family	MA20_32450	-	-	-	-	-	-	-	-	-	-	-	adh_short
LYD3_k127_3011900_0	1123368.AUIS01000003_gene1557	8.742e-249	782.0	COG0488@1|root,COG0488@2|Bacteria,1MU37@1224|Proteobacteria,1RPCU@1236|Gammaproteobacteria,2NC0W@225057|Acidithiobacillales	225057|Acidithiobacillales	S	ABC transporter C-terminal domain	-	-	-	ko:K15738	-	-	-	-	ko00000,ko02000	3.A.1.120.6	-	-	ABC_tran,ABC_tran_CTD,ABC_tran_Xtn
LYD3_k127_3014966_0	1123392.AQWL01000018_gene41	2.627e-114	370.0	COG0090@1|root,COG0090@2|Bacteria,1MVTD@1224|Proteobacteria,2VHSD@28216|Betaproteobacteria,1KRH9@119069|Hydrogenophilales	119069|Hydrogenophilales	J	One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity	rplB	-	-	ko:K02886	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L2,Ribosomal_L2_C
LYD3_k127_3014966_2	76114.ebB125	8.321e-40	152.0	COG0089@1|root,COG0089@2|Bacteria,1MZXX@1224|Proteobacteria,2VU1C@28216|Betaproteobacteria,2KWRX@206389|Rhodocyclales	206389|Rhodocyclales	J	One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome	rplW	-	-	ko:K02892	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L23
LYD3_k127_3014966_1	580332.Slit_0768	2.203e-61	214.0	COG0088@1|root,COG0088@2|Bacteria,1MXPF@1224|Proteobacteria,2VHS6@28216|Betaproteobacteria,44V4P@713636|Nitrosomonadales	28216|Betaproteobacteria	J	Forms part of the polypeptide exit tunnel	rplD	-	-	ko:K02926	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L4
LYD3_k127_3019973_3	519989.ECTPHS_05080	1.493e-34	147.0	COG0767@1|root,COG0767@2|Bacteria,1MVPN@1224|Proteobacteria,1S0WJ@1236|Gammaproteobacteria,1WWFB@135613|Chromatiales	135613|Chromatiales	Q	Permease MlaE	-	-	-	ko:K02066	ko02010,map02010	M00210,M00669,M00670	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.27	-	-	MlaE,STAS_2
LYD3_k127_3019973_4	1304885.AUEY01000013_gene3115	2.735e-21	102.0	2E9FY@1|root,333P7@2|Bacteria,1N8S6@1224|Proteobacteria,42XWP@68525|delta/epsilon subdivisions,2WSIE@28221|Deltaproteobacteria	28221|Deltaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3019973_5	1294143.H681_14775	1.273e-17	83.0	COG3133@1|root,COG3133@2|Bacteria	2|Bacteria	M	Outer membrane lipoprotein	pcp	-	-	ko:K06077	-	-	-	-	ko00000	-	-	-	Rick_17kDa_Anti
LYD3_k127_3019973_6	1198452.Jab_1c21890	2.552e-08	64.0	COG3134@1|root,COG3134@2|Bacteria,1N0SK@1224|Proteobacteria,2WIIM@28216|Betaproteobacteria,474FG@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Glycine zipper 2TM domain	-	-	-	-	-	-	-	-	-	-	-	-	Rick_17kDa_Anti
LYD3_k127_3019973_0	522306.CAP2UW1_2891	5.555e-69	249.0	COG0834@1|root,COG0834@2|Bacteria,1MV5D@1224|Proteobacteria,2VIN1@28216|Betaproteobacteria,1KR64@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	ET	PFAM extracellular solute-binding protein family 3	aapJ	-	-	ko:K02030,ko:K09969,ko:K10001	ko02010,ko02020,map02010,map02020	M00230,M00232,M00236	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.3,3.A.1.3.18,3.A.1.3.19,3.A.1.3.4,3.A.1.3.7,3.A.1.3.8	-	-	SBP_bac_3
LYD3_k127_3019973_1	631362.Thi970DRAFT_01420	1.848e-62	225.0	COG0834@1|root,COG0834@2|Bacteria,1MV5D@1224|Proteobacteria,1RPBX@1236|Gammaproteobacteria	1236|Gammaproteobacteria	ET	ABC-type amino acid transport signal transduction systems periplasmic component domain	gltI	GO:0003333,GO:0003674,GO:0005488,GO:0005575,GO:0005623,GO:0006810,GO:0006811,GO:0006820,GO:0006835,GO:0006836,GO:0006855,GO:0006865,GO:0008150,GO:0015711,GO:0015740,GO:0015800,GO:0015807,GO:0015813,GO:0015849,GO:0015893,GO:0016595,GO:0016597,GO:0030288,GO:0030313,GO:0031406,GO:0031975,GO:0034220,GO:0036094,GO:0042221,GO:0042493,GO:0042597,GO:0043167,GO:0043168,GO:0043177,GO:0044464,GO:0046942,GO:0050896,GO:0051179,GO:0051234,GO:0055085,GO:0070335,GO:0070778,GO:0071702,GO:0071705,GO:0098656,GO:1902475,GO:1903825,GO:1905039	-	ko:K10001	ko02010,ko02020,map02010,map02020	M00230	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.3.19,3.A.1.3.4	-	iECH74115_1262.ECH74115_0748,iECSE_1348.ECSE_0725,iECSP_1301.ECSP_0707,iECW_1372.ECW_m0710,iECs_1301.ECs0694,iEKO11_1354.EKO11_3211,iG2583_1286.G2583_0819,iSFV_1184.SFV_0671,iSF_1195.SF0626,iS_1188.S0648,iWFL_1372.ECW_m0710,iZ_1308.Z0805	SBP_bac_3
LYD3_k127_3019973_2	243233.MCA0638	5.005e-51	190.0	COG2930@1|root,COG2930@2|Bacteria,1RHV6@1224|Proteobacteria,1SDNN@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Las17-binding protein actin regulator	-	-	-	-	-	-	-	-	-	-	-	-	Ysc84
LYD3_k127_30320_0	1288494.EBAPG3_4020	1.167e-111	370.0	COG0330@1|root,COG0330@2|Bacteria,1MV7R@1224|Proteobacteria,2VI9W@28216|Betaproteobacteria,371T3@32003|Nitrosomonadales	28216|Betaproteobacteria	O	HflC and HflK could regulate a protease	hflC	-	-	ko:K04087	-	M00742	-	-	ko00000,ko00002,ko01000	-	-	-	Band_7
LYD3_k127_30320_1	1163617.SCD_n01800	7.708e-111	366.0	COG0330@1|root,COG0330@2|Bacteria,1MUM2@1224|Proteobacteria,2VIG2@28216|Betaproteobacteria	28216|Betaproteobacteria	O	HflC and HflK could encode or regulate a protease	hflK	-	-	ko:K04088	-	M00742	-	-	ko00000,ko00002,ko01000	-	-	-	Band_7,HflK_N
LYD3_k127_3040978_1	977880.RALTA_A2587	7.617e-81	273.0	COG0809@1|root,COG0809@2|Bacteria,1MUH3@1224|Proteobacteria,2VHJF@28216|Betaproteobacteria,1JZW6@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)	queA	GO:0002097,GO:0002099,GO:0003674,GO:0003824,GO:0006139,GO:0006396,GO:0006399,GO:0006400,GO:0006725,GO:0006807,GO:0008033,GO:0008150,GO:0008152,GO:0008616,GO:0009058,GO:0009116,GO:0009119,GO:0009163,GO:0009451,GO:0009987,GO:0010467,GO:0016070,GO:0016740,GO:0016853,GO:0018130,GO:0019438,GO:0034404,GO:0034470,GO:0034641,GO:0034654,GO:0034660,GO:0042455,GO:0043170,GO:0043412,GO:0044237,GO:0044238,GO:0044249,GO:0044271,GO:0044281,GO:0044283,GO:0046116,GO:0046483,GO:0051075,GO:0055086,GO:0071704,GO:0090304,GO:0140098,GO:0140101,GO:1901135,GO:1901137,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1901657,GO:1901659	2.4.99.17	ko:K07568	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	Queuosine_synth
LYD3_k127_3040978_0	62928.azo0907	4.253e-180	570.0	COG0343@1|root,COG0343@2|Bacteria,1MUCA@1224|Proteobacteria,2VIRX@28216|Betaproteobacteria,2KUHH@206389|Rhodocyclales	206389|Rhodocyclales	F	Catalyzes the base-exchange of a guanine (G) residue with the queuine precursor 7-aminomethyl-7-deazaguanine (PreQ1) at position 34 (anticodon wobble position) in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). Catalysis occurs through a double-displacement mechanism. The nucleophile active site attacks the C1' of nucleotide 34 to detach the guanine base from the RNA, forming a covalent enzyme-RNA intermediate. The proton acceptor active site deprotonates the incoming PreQ1, allowing a nucleophilic attack on the C1' of the ribose to form the product. After dissociation, two additional enzymatic reactions on the tRNA convert PreQ1 to queuine (Q), resulting in the hypermodified nucleoside queuosine (7-(((4,5-cis-dihydroxy-2- cyclopenten-1-yl)amino)methyl)-7-deazaguanosine)	tgt	-	2.4.2.29	ko:K00773	-	-	R03789,R10209	RC00063	ko00000,ko01000,ko03016	-	-	-	TGT
LYD3_k127_3040978_3	267608.RSc2714	1.034e-35	141.0	COG1862@1|root,COG1862@2|Bacteria,1MZT2@1224|Proteobacteria,2VU6T@28216|Betaproteobacteria,1K7SV@119060|Burkholderiaceae	28216|Betaproteobacteria	U	Preprotein translocase, YajC subunit	yajC	-	-	ko:K03210	ko02024,ko03060,ko03070,map02024,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko02044	3.A.5.1,3.A.5.2	-	-	YajC
LYD3_k127_3040978_2	1163617.SCD_n02208	3.278e-67	233.0	COG0342@1|root,COG0342@2|Bacteria,1MV5U@1224|Proteobacteria,2VHKD@28216|Betaproteobacteria	28216|Betaproteobacteria	U	Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA	secD	-	-	ko:K03072	ko03060,ko03070,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko02044	2.A.6.4,3.A.5.2,3.A.5.7	-	-	SecD-TM1,SecD_SecF,Sec_GG
LYD3_k127_3058425_2	864051.BurJ1DRAFT_3331	4.7e-56	197.0	COG2920@1|root,COG2920@2|Bacteria,1RGVG@1224|Proteobacteria,2VSFJ@28216|Betaproteobacteria	28216|Betaproteobacteria	P	DsrC like protein	-	-	-	ko:K11179	ko04122,map04122	-	-	-	ko00000,ko00001,ko01000,ko03016	-	-	-	DsrC
LYD3_k127_3058425_1	580332.Slit_1680	9.268e-105	346.0	COG2181@1|root,COG2181@2|Bacteria,1R48S@1224|Proteobacteria,2VPFB@28216|Betaproteobacteria,44W95@713636|Nitrosomonadales	28216|Betaproteobacteria	C	Nitrate reductase gamma subunit	-	-	-	-	-	-	-	-	-	-	-	-	Nitrate_red_gam
LYD3_k127_3058425_0	580332.Slit_1679	8.394e-277	859.0	COG0247@1|root,COG0247@2|Bacteria,1NZIG@1224|Proteobacteria,2VNTI@28216|Betaproteobacteria,44WBR@713636|Nitrosomonadales	28216|Betaproteobacteria	C	Cysteine-rich domain	-	-	-	-	-	-	-	-	-	-	-	-	CCG,Fer4_8
LYD3_k127_3058425_3	864051.BurJ1DRAFT_3327	8.595e-22	108.0	COG0493@1|root,COG1143@1|root,COG0493@2|Bacteria,COG1143@2|Bacteria,1MU2H@1224|Proteobacteria,2VM9R@28216|Betaproteobacteria,1KKEG@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	NADPH-dependent glutamate synthase beta	-	-	-	-	-	-	-	-	-	-	-	-	Fer4_20,Fer4_21,Fer4_7,Pyr_redox_2,Pyr_redox_3
LYD3_k127_3105872_0	381666.H16_A0497	4.753e-172	545.0	COG2255@1|root,COG2255@2|Bacteria,1MU38@1224|Proteobacteria,2VH0J@28216|Betaproteobacteria,1K2TQ@119060|Burkholderiaceae	28216|Betaproteobacteria	L	The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing	ruvB	-	3.6.4.12	ko:K03551	ko03440,map03440	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	RuvB_C,RuvB_N
LYD3_k127_3105872_3	765912.Thimo_0570	7.627e-34	136.0	COG0824@1|root,COG0824@2|Bacteria,1MZH6@1224|Proteobacteria,1S93F@1236|Gammaproteobacteria,1WYUJ@135613|Chromatiales	135613|Chromatiales	S	Tol-Pal system-associated acyl-CoA thioesterase	-	-	-	ko:K07107	-	-	-	-	ko00000,ko01000	-	-	-	4HBT,4HBT_2
LYD3_k127_3105872_1	204773.HEAR2404	6.323e-80	282.0	COG0811@1|root,COG0811@2|Bacteria,1NCWW@1224|Proteobacteria,2VJPW@28216|Betaproteobacteria,47270@75682|Oxalobacteraceae	28216|Betaproteobacteria	U	MotA TolQ ExbB proton channel family	tolQ	-	-	ko:K03561,ko:K03562	ko01120,map01120	-	-	-	ko00000,ko02000	1.A.30.2.1,1.A.30.2.2	-	-	MotA_ExbB
LYD3_k127_3105872_2	1163617.SCD_n00674	1.514e-41	159.0	COG0848@1|root,COG0848@2|Bacteria,1RGWR@1224|Proteobacteria,2VT20@28216|Betaproteobacteria	28216|Betaproteobacteria	U	Pfam Biopolymer transport protein ExbD TolR	tolR	-	-	ko:K03560	-	-	-	-	ko00000,ko02000	1.A.30.2.2	-	-	ExbD
LYD3_k127_3105872_4	1163617.SCD_n00675	5.963e-28	124.0	COG3064@1|root,COG3064@2|Bacteria,1RKZU@1224|Proteobacteria,2WGP5@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Cell division and transport-associated protein TolA	tolA	-	-	ko:K03646	-	-	-	-	ko00000,ko02000	2.C.1.2	-	-	TonB_2
LYD3_k127_3105872_5	1218352.B597_021275	6.516e-07	62.0	2C2C7@1|root,2Z85G@2|Bacteria,1PD07@1224|Proteobacteria,1RP6G@1236|Gammaproteobacteria,1Z099@136846|Pseudomonas stutzeri group	1236|Gammaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_312969_1	159087.Daro_1202	9.962e-117	386.0	COG0604@1|root,COG0604@2|Bacteria,1MV3W@1224|Proteobacteria,2VINX@28216|Betaproteobacteria,2KU9K@206389|Rhodocyclales	206389|Rhodocyclales	C	COG0604 NADPH quinone reductase and related Zn-dependent oxidoreductases	-	-	1.1.1.1	ko:K00001	ko00010,ko00071,ko00350,ko00625,ko00626,ko00830,ko00980,ko00982,ko01100,ko01110,ko01120,ko01130,ko01220,map00010,map00071,map00350,map00625,map00626,map00830,map00980,map00982,map01100,map01110,map01120,map01130,map01220	-	R00623,R00754,R02124,R04805,R04880,R05233,R05234,R06917,R06927,R07105,R08281,R08306,R08310	RC00050,RC00087,RC00088,RC00099,RC00116,RC00649,RC01734,RC02273	ko00000,ko00001,ko01000	-	-	-	ADH_N,ADH_zinc_N
LYD3_k127_312969_0	1095769.CAHF01000011_gene2415	5.423e-132	428.0	COG1485@1|root,COG1485@2|Bacteria,1MUUW@1224|Proteobacteria,2VHQX@28216|Betaproteobacteria,4724Z@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	AFG1-like ATPase	yhcM	-	-	ko:K06916	-	-	-	-	ko00000,ko03036	-	-	-	AFG1_ATPase
LYD3_k127_313292_2	388051.AUFE01000028_gene4996	2.29e-44	164.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2VHCV@28216|Betaproteobacteria,1K2J1@119060|Burkholderiaceae	28216|Betaproteobacteria	E	ABC transporter substrate-binding protein	dppA2	-	-	ko:K02035,ko:K13889	ko02010,ko02024,map02010,map02024	M00239,M00348	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.11	-	-	SBP_bac_5
LYD3_k127_313292_0	296591.Bpro_2531	1.85e-153	492.0	COG0601@1|root,COG0601@2|Bacteria,1MU8Z@1224|Proteobacteria,2VHEF@28216|Betaproteobacteria,4ACHP@80864|Comamonadaceae	28216|Betaproteobacteria	P	PFAM binding-protein-dependent transport systems inner membrane component	dppB2	-	-	ko:K02033	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	BPD_transp_1
LYD3_k127_313292_1	1380394.JADL01000010_gene4344	6.592e-84	300.0	COG1173@1|root,COG1173@2|Bacteria,1MUG0@1224|Proteobacteria,2TT4V@28211|Alphaproteobacteria,2JPM9@204441|Rhodospirillales	204441|Rhodospirillales	EP	N-terminal TM domain of oligopeptide transport permease C	-	-	-	ko:K02034	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	BPD_transp_1,OppC_N
LYD3_k127_3148823_0	1123368.AUIS01000015_gene2660	2.613e-122	404.0	COG0042@1|root,COG0042@2|Bacteria,1MV5V@1224|Proteobacteria,1RMJP@1236|Gammaproteobacteria	1236|Gammaproteobacteria	J	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines	dusB	GO:0002943,GO:0003674,GO:0003824,GO:0006139,GO:0006396,GO:0006399,GO:0006400,GO:0006725,GO:0006807,GO:0008033,GO:0008150,GO:0008152,GO:0009314,GO:0009451,GO:0009628,GO:0009987,GO:0010467,GO:0016070,GO:0016491,GO:0016627,GO:0017150,GO:0034470,GO:0034641,GO:0034660,GO:0043170,GO:0043412,GO:0044237,GO:0044238,GO:0046483,GO:0050896,GO:0055114,GO:0071704,GO:0090304,GO:0140098,GO:0140101,GO:1901360	-	ko:K05540	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	Dus
LYD3_k127_3148823_2	1452718.JBOY01000035_gene2072	3.749e-20	104.0	COG1273@1|root,COG1273@2|Bacteria,1MWCU@1224|Proteobacteria,1RYQ0@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Mj0042 family finger-like	-	-	-	-	-	-	-	-	-	-	-	-	DUF3426,zinc_ribbon_4,zinc_ribbon_5
LYD3_k127_3148823_1	768671.ThimaDRAFT_4018	9.476e-80	273.0	COG2264@1|root,COG2264@2|Bacteria,1MUPC@1224|Proteobacteria,1RNAR@1236|Gammaproteobacteria,1WX2W@135613|Chromatiales	135613|Chromatiales	J	Ribosomal protein L11 methyltransferase	prmA	-	-	ko:K02687	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	PrmA
LYD3_k127_3154471_1	1120999.JONM01000009_gene400	4.273e-71	241.0	COG0623@1|root,COG0623@2|Bacteria,1MV05@1224|Proteobacteria,2VJQ0@28216|Betaproteobacteria,2KQMC@206351|Neisseriales	206351|Neisseriales	I	Enoyl- acyl-carrier-protein reductase NADH	-	-	1.3.1.10,1.3.1.9	ko:K00208	ko00061,ko00333,ko00780,ko01100,ko01130,ko01212,map00061,map00333,map00780,map01100,map01130,map01212	M00083,M00572	R01404,R04429,R04430,R04724,R04725,R04955,R04956,R04958,R04959,R04961,R04962,R04966,R04967,R04969,R04970,R07765,R10118,R10122,R11671	RC00052,RC00076,RC00120	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	adh_short_C2
LYD3_k127_3154471_4	264198.Reut_B3998	1.793e-11	67.0	2FIK0@1|root,34AC1@2|Bacteria,1P0JH@1224|Proteobacteria,2W4AN@28216|Betaproteobacteria,1KA50@119060|Burkholderiaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3154471_0	522306.CAP2UW1_1272	1.524e-144	463.0	COG4313@1|root,COG4313@2|Bacteria,1PRCN@1224|Proteobacteria,2VQHT@28216|Betaproteobacteria,1KQK1@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	C	Protein involved in meta-pathway of phenol degradation	-	-	-	-	-	-	-	-	-	-	-	-	Phenol_MetA_deg
LYD3_k127_3154471_3	351746.Pput_2515	4.481e-17	92.0	COG0385@1|root,COG0385@2|Bacteria,1MXF3@1224|Proteobacteria,1RNZF@1236|Gammaproteobacteria,1YV8I@136845|Pseudomonas putida group	1236|Gammaproteobacteria	S	Bile acid sodium symporter	-	-	-	ko:K03453	-	-	-	-	ko00000	2.A.28	-	-	SBF
LYD3_k127_3154471_2	1144325.PMI22_00275	2.19e-52	194.0	COG1814@1|root,COG1814@2|Bacteria,1R469@1224|Proteobacteria	1224|Proteobacteria	S	membrane	-	-	-	-	-	-	-	-	-	-	-	-	VIT1
LYD3_k127_3159794_1	1121035.AUCH01000017_gene2251	9.686e-80	298.0	COG0664@1|root,COG0668@1|root,COG0664@2|Bacteria,COG0668@2|Bacteria,1R6J6@1224|Proteobacteria,2VPCU@28216|Betaproteobacteria,2KXC3@206389|Rhodocyclales	206389|Rhodocyclales	MT	Mechanosensitive ion channel	-	-	-	-	-	-	-	-	-	-	-	-	MS_channel,cNMP_binding
LYD3_k127_3159794_0	1218076.BAYB01000027_gene4555	1.87e-102	345.0	COG2404@1|root,COG2404@2|Bacteria,1QWB5@1224|Proteobacteria,2VK0T@28216|Betaproteobacteria,1K3E7@119060|Burkholderiaceae	28216|Betaproteobacteria	S	hydrolase activity, acting on ester bonds	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3159794_3	697282.Mettu_0374	3.646e-35	139.0	COG0517@1|root,COG0517@2|Bacteria,1QJRF@1224|Proteobacteria,1THSQ@1236|Gammaproteobacteria,1XFJQ@135618|Methylococcales	135618|Methylococcales	S	Domain in cystathionine beta-synthase and other proteins.	-	-	-	-	-	-	-	-	-	-	-	-	CBS
LYD3_k127_3159794_2	1424334.W822_11125	9.46e-69	248.0	COG3184@1|root,COG3245@1|root,COG3184@2|Bacteria,COG3245@2|Bacteria,1MZBZ@1224|Proteobacteria,2VMBB@28216|Betaproteobacteria,3T2GI@506|Alcaligenaceae	28216|Betaproteobacteria	C	COG3245 Cytochrome c5	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrome_CBB3
LYD3_k127_3159794_4	1071679.BG57_18785	6.915e-08	55.0	COG0034@1|root,COG0034@2|Bacteria,1MU0V@1224|Proteobacteria,2VJM1@28216|Betaproteobacteria,1K0DR@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine	purF	-	2.4.2.14	ko:K00764	ko00230,ko00250,ko01100,ko01110,ko01130,map00230,map00250,map01100,map01110,map01130	M00048	R01072	RC00010,RC02724,RC02752	ko00000,ko00001,ko00002,ko01000,ko01002	-	-	-	GATase_6,GATase_7,Pribosyltran
LYD3_k127_3160740_0	1089551.KE386572_gene835	2.138e-44	186.0	COG2202@1|root,COG2203@1|root,COG3437@1|root,COG4191@1|root,COG2202@2|Bacteria,COG2203@2|Bacteria,COG3437@2|Bacteria,COG4191@2|Bacteria,1RCM9@1224|Proteobacteria,2TQQ9@28211|Alphaproteobacteria,4BP62@82117|unclassified Alphaproteobacteria	28211|Alphaproteobacteria	T	His Kinase A (phosphoacceptor) domain	-	-	-	-	-	-	-	-	-	-	-	-	GAF_2,HATPase_c,HisKA,PAS,PAS_3,PAS_4,PAS_9,Response_reg
LYD3_k127_31640_3	1089551.KE386572_gene3714	2.383e-33	133.0	COG3875@1|root,COG3875@2|Bacteria,1R79Y@1224|Proteobacteria,2U4VR@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	Domain of unknown function (DUF2088)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2088
LYD3_k127_31640_0	1128421.JAGA01000002_gene1496	1.261e-150	492.0	COG3875@1|root,COG3875@2|Bacteria	2|Bacteria	S	lactate racemase activity	-	-	5.1.2.1	ko:K22373	ko00620,map00620	-	R01450	RC00519	ko00000,ko00001,ko01000	-	-	-	DUF2088
LYD3_k127_31640_5	243365.CV_2779	7.168e-12	70.0	2ETDF@1|root,33KX8@2|Bacteria,1NJSQ@1224|Proteobacteria,2W5N4@28216|Betaproteobacteria,2KTKR@206351|Neisseriales	206351|Neisseriales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_31640_2	29581.BW37_02284	1.679e-45	171.0	COG1765@1|root,COG1765@2|Bacteria,1N2BT@1224|Proteobacteria,2VTHB@28216|Betaproteobacteria,4779N@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	OsmC-like protein	-	-	-	ko:K07397	-	-	-	-	ko00000	-	-	-	OsmC
LYD3_k127_31640_1	1244869.H261_18170	3.885e-61	216.0	COG2030@1|root,COG2030@2|Bacteria,1RIBV@1224|Proteobacteria,2U9QR@28211|Alphaproteobacteria,2JTT7@204441|Rhodospirillales	204441|Rhodospirillales	I	MaoC like domain	-	-	-	-	-	-	-	-	-	-	-	-	MaoC_dehydratas
LYD3_k127_31640_4	1122604.JONR01000033_gene8	5.146e-19	86.0	COG4319@1|root,COG4319@2|Bacteria,1N361@1224|Proteobacteria,1S9P8@1236|Gammaproteobacteria,1X7TS@135614|Xanthomonadales	135614|Xanthomonadales	S	Domain of unknown function (DUF4440)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4440,SnoaL_2,SnoaL_3
LYD3_k127_3193009_5	765914.ThisiDRAFT_1056	7.062e-05	45.0	COG0839@1|root,COG0839@2|Bacteria	2|Bacteria	C	Belongs to the complex I subunit 6 family	nuoJ-1	-	1.6.5.3	ko:K00339	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q3
LYD3_k127_3193009_4	379066.GAU_2393	1.307e-30	123.0	COG0713@1|root,COG0713@2|Bacteria,1ZV1C@142182|Gemmatimonadetes	142182|Gemmatimonadetes	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	-	-	1.6.5.3	ko:K00340	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q2
LYD3_k127_3193009_0	379066.GAU_2392	4.632e-281	877.0	COG1009@1|root,COG1009@2|Bacteria,1ZUA7@142182|Gemmatimonadetes	142182|Gemmatimonadetes	CP	NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus	-	-	1.6.5.3	ko:K00341	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Proton_antipo_M,Proton_antipo_N
LYD3_k127_3193009_1	1379698.RBG1_1C00001G1061	4.87e-147	482.0	COG1008@1|root,COG1008@2|Bacteria,2NNQ9@2323|unclassified Bacteria	2|Bacteria	C	NADH-quinone oxidoreductase, chain M	nuoM-1	-	1.6.5.3	ko:K00342	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q5_N,Proton_antipo_M
LYD3_k127_3193009_2	1379270.AUXF01000003_gene3535	9.728e-146	497.0	COG1007@1|root,COG1007@2|Bacteria,1ZUR0@142182|Gemmatimonadetes	142182|Gemmatimonadetes	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	-	-	1.6.5.3	ko:K00343	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Proton_antipo_M
LYD3_k127_3193009_3	546267.NEIPOLOT_02581	5.419e-33	128.0	COG1278@1|root,COG1278@2|Bacteria,1N6Q5@1224|Proteobacteria,2VVTG@28216|Betaproteobacteria,2KRPH@206351|Neisseriales	206351|Neisseriales	K	Cold-shock DNA-binding domain protein	-	-	-	ko:K03704	-	-	-	-	ko00000,ko03000	-	-	-	CSD
LYD3_k127_320279_3	1458357.BG58_09875	3.201e-109	372.0	COG1566@1|root,COG1566@2|Bacteria,1NAMI@1224|Proteobacteria,2VZSW@28216|Betaproteobacteria,1K5Z2@119060|Burkholderiaceae	28216|Betaproteobacteria	V	Biotin-lipoyl like	-	-	-	-	-	-	-	-	-	-	-	-	Biotin_lipoyl_2
LYD3_k127_320279_5	1458357.BG58_09880	2.259e-36	148.0	2E56P@1|root,32ZZD@2|Bacteria,1PYIM@1224|Proteobacteria,2W0YN@28216|Betaproteobacteria,1KATT@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF3302)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3302
LYD3_k127_320279_0	322710.Avin_44010	5e-324	1011.0	COG3243@1|root,COG3243@2|Bacteria,1MUNE@1224|Proteobacteria,1RNZI@1236|Gammaproteobacteria	1236|Gammaproteobacteria	I	Protein of unknown function (DUF3141)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3141
LYD3_k127_320279_2	1454004.AW11_03031	1.361e-156	502.0	COG0280@1|root,COG0280@2|Bacteria,1QTXP@1224|Proteobacteria,2VJ4B@28216|Betaproteobacteria	28216|Betaproteobacteria	C	phosphate	pta	-	2.3.1.8	ko:K00625	ko00430,ko00620,ko00640,ko00680,ko00720,ko01100,ko01120,ko01200,map00430,map00620,map00640,map00680,map00720,map01100,map01120,map01200	M00357,M00579	R00230,R00921	RC00004,RC02746,RC02816	ko00000,ko00001,ko00002,ko01000	-	-	-	PTA_PTB
LYD3_k127_320279_1	322710.Avin_44030	5.5e-167	533.0	COG0282@1|root,COG0282@2|Bacteria,1MW61@1224|Proteobacteria,1RMKB@1236|Gammaproteobacteria	1236|Gammaproteobacteria	F	Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction	ackA	-	2.7.2.1	ko:K00925	ko00430,ko00620,ko00640,ko00680,ko00720,ko01100,ko01120,ko01200,map00430,map00620,map00640,map00680,map00720,map01100,map01120,map01200	M00357,M00579	R00315,R01353	RC00002,RC00043	ko00000,ko00001,ko00002,ko01000	-	-	-	Acetate_kinase
LYD3_k127_320279_4	706587.Desti_5204	6.191e-77	261.0	COG0623@1|root,COG0623@2|Bacteria,1MV05@1224|Proteobacteria,42MA4@68525|delta/epsilon subdivisions,2WIPU@28221|Deltaproteobacteria	28221|Deltaproteobacteria	I	Enoyl- acyl-carrier-protein reductase NADH	fabI	-	1.3.1.10,1.3.1.9	ko:K00208	ko00061,ko00333,ko00780,ko01100,ko01130,ko01212,map00061,map00333,map00780,map01100,map01130,map01212	M00083,M00572	R01404,R04429,R04430,R04724,R04725,R04955,R04956,R04958,R04959,R04961,R04962,R04966,R04967,R04969,R04970,R07765,R10118,R10122,R11671	RC00052,RC00076,RC00120	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	adh_short_C2
LYD3_k127_3214913_4	1304883.KI912532_gene2590	7.241e-36	138.0	COG1806@1|root,COG1806@2|Bacteria,1MUHU@1224|Proteobacteria,2VI4R@28216|Betaproteobacteria,2KVFV@206389|Rhodocyclales	206389|Rhodocyclales	F	Bifunctional serine threonine kinase and phosphorylase involved in the regulation of the phosphoenolpyruvate synthase (PEPS) by catalyzing its phosphorylation dephosphorylation	-	-	2.7.11.33,2.7.4.28	ko:K09773	-	-	-	-	ko00000,ko01000	-	-	-	Kinase-PPPase
LYD3_k127_3214913_2	1121106.JQKB01000017_gene4859	9.48e-97	325.0	COG3618@1|root,COG3618@2|Bacteria,1P5PT@1224|Proteobacteria,2U3BR@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	metal-dependent hydrolase of the TIM-barrel fold	-	-	-	ko:K07046	ko00051,ko01120,map00051,map01120	-	R10689	RC00537	ko00000,ko00001,ko01000	-	-	-	Amidohydro_2
LYD3_k127_3214913_1	1121106.JQKB01000017_gene4860	3.946e-105	352.0	COG0667@1|root,COG0667@2|Bacteria,1MWGQ@1224|Proteobacteria,2TUJ8@28211|Alphaproteobacteria,2JVBV@204441|Rhodospirillales	204441|Rhodospirillales	C	Aldo/keto reductase family	-	-	1.1.1.122	ko:K00064	ko00051,ko00053,ko01100,ko01110,ko01120,map00051,map00053,map01100,map01110,map01120	M00114	R07675,R08926	RC00066,RC00161	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldo_ket_red
LYD3_k127_3214913_3	1268622.AVS7_01017	3.086e-66	238.0	COG0329@1|root,COG0329@2|Bacteria,1MXM5@1224|Proteobacteria,2VIKK@28216|Betaproteobacteria	28216|Betaproteobacteria	EM	Belongs to the DapA family	-	-	4.3.3.7	ko:K01714	ko00261,ko00300,ko01100,ko01110,ko01120,ko01130,ko01230,map00261,map00300,map01100,map01110,map01120,map01130,map01230	M00016,M00525,M00526,M00527	R10147	RC03062,RC03063	ko00000,ko00001,ko00002,ko01000	-	-	-	DHDPS
LYD3_k127_3214913_0	1380394.JADL01000007_gene4652	6.577e-168	547.0	COG1653@1|root,COG1653@2|Bacteria,1MUNZ@1224|Proteobacteria,2U05K@28211|Alphaproteobacteria,2JYQ5@204441|Rhodospirillales	204441|Rhodospirillales	G	Bacterial extracellular solute-binding protein	-	-	-	-	-	-	-	-	-	-	-	-	SBP_bac_1
LYD3_k127_3214913_5	420324.KI912010_gene8977	3.847e-09	60.0	COG1175@1|root,COG1175@2|Bacteria,1MWB7@1224|Proteobacteria,2TQZY@28211|Alphaproteobacteria	28211|Alphaproteobacteria	G	COG1175 ABC-type sugar transport systems permease components	-	-	-	ko:K02025	-	M00207	-	-	ko00000,ko00002,ko02000	3.A.1.1	-	-	BPD_transp_1
LYD3_k127_3221454_3	395495.Lcho_2317	4.175e-14	73.0	COG2304@1|root,COG2304@2|Bacteria,1MXQ7@1224|Proteobacteria,2VHRY@28216|Betaproteobacteria,1KKCR@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Von Willebrand factor type A	-	-	-	ko:K07114	-	-	-	-	ko00000,ko02000	1.A.13.2.2,1.A.13.2.3	-	-	BatA,VWA,VWA_2
LYD3_k127_3221454_4	292415.Tbd_1444	0.0006535	49.0	28XFS@1|root,2ZJDB@2|Bacteria,1P87W@1224|Proteobacteria,2W690@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Protein of unknown function (DUF2934)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2934
LYD3_k127_3221454_0	1266925.JHVX01000004_gene1236	6.034e-148	480.0	COG0477@1|root,COG2814@2|Bacteria,1NE49@1224|Proteobacteria,2VNGV@28216|Betaproteobacteria,3742G@32003|Nitrosomonadales	28216|Betaproteobacteria	EGP	Major Facilitator Superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_3221454_2	1500894.JQNN01000001_gene152	1.611e-60	219.0	COG4798@1|root,COG4798@2|Bacteria,1RHGZ@1224|Proteobacteria,2WCUB@28216|Betaproteobacteria,4787W@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Methyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3221454_1	1266925.JHVX01000006_gene2175	6.884e-62	216.0	COG1718@1|root,COG1718@2|Bacteria,1MXY2@1224|Proteobacteria,2VJ0H@28216|Betaproteobacteria,372PD@32003|Nitrosomonadales	28216|Betaproteobacteria	DT	PFAM RIO-like kinase	-	-	2.7.11.1	ko:K07178	ko03008,map03008	-	-	-	ko00000,ko00001,ko01000,ko01001,ko03009	-	-	-	RIO1
LYD3_k127_3225849_1	360910.BAV2954	1.621e-73	264.0	COG2718@1|root,COG2718@2|Bacteria,1MWQM@1224|Proteobacteria,2VJE2@28216|Betaproteobacteria,3T6WS@506|Alcaligenaceae	28216|Betaproteobacteria	S	Belongs to the UPF0229 family	-	-	-	ko:K09786	-	-	-	-	ko00000	-	-	-	DUF444
LYD3_k127_3225849_0	123899.JPQP01000019_gene2659	1.343e-145	463.0	COG2766@1|root,COG2766@2|Bacteria,1MVW7@1224|Proteobacteria,2VI2M@28216|Betaproteobacteria,3T5UC@506|Alcaligenaceae	28216|Betaproteobacteria	T	PrkA AAA domain	prkA	-	-	ko:K07180	-	-	-	-	ko00000	-	-	-	AAA_PrkA,PrkA
LYD3_k127_325370_0	1235457.C404_23220	3.04e-138	448.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2VHCV@28216|Betaproteobacteria,1K2J1@119060|Burkholderiaceae	28216|Betaproteobacteria	E	ABC transporter substrate-binding protein	dppA	-	-	ko:K02035,ko:K13889	ko02010,ko02024,map02010,map02024	M00239,M00348	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.11	-	-	SBP_bac_5
LYD3_k127_325370_1	1218074.BAXZ01000012_gene2858	7.391e-68	250.0	COG1012@1|root,COG1012@2|Bacteria,1MU1V@1224|Proteobacteria,2VHNV@28216|Betaproteobacteria,1K2BC@119060|Burkholderiaceae	28216|Betaproteobacteria	C	belongs to the aldehyde dehydrogenase family	-	-	1.2.1.3	ko:K00128	ko00010,ko00053,ko00071,ko00280,ko00310,ko00330,ko00340,ko00380,ko00410,ko00561,ko00620,ko00625,ko00903,ko00981,ko01100,ko01110,ko01120,ko01130,map00010,map00053,map00071,map00280,map00310,map00330,map00340,map00380,map00410,map00561,map00620,map00625,map00903,map00981,map01100,map01110,map01120,map01130	M00135	R00264,R00631,R00710,R00904,R01752,R01986,R02549,R02678,R02940,R02957,R03283,R03869,R04065,R04506,R04903,R05050,R05237,R05238,R05286,R06366,R08146	RC00047,RC00071,RC00080,RC00186,RC00218,RC00242,RC00816,RC01500	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_325899_0	1267533.KB906736_gene1460	1.215e-245	794.0	COG0222@1|root,COG0222@2|Bacteria	2|Bacteria	J	mitochondrial gene expression	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_325899_1	1267533.KB906736_gene1459	6.317e-131	433.0	COG0419@1|root,COG0419@2|Bacteria	2|Bacteria	L	ATPase involved in DNA repair	-	-	2.1.1.80,3.1.1.61	ko:K13924	ko02020,ko02030,map02020,map02030	M00506	-	-	ko00000,ko00001,ko00002,ko01000,ko02022,ko02035	-	-	-	AAA_13,AAA_23,Kelch_1,Kelch_4,Peptidase_C14,Tubulin_2,WD40
LYD3_k127_3318252_4	640081.Dsui_2460	5.268e-59	210.0	COG0571@1|root,COG0571@2|Bacteria,1MUQ6@1224|Proteobacteria,2VI4M@28216|Betaproteobacteria,2KW7B@206389|Rhodocyclales	206389|Rhodocyclales	J	Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre- crRNA and tracrRNA of type II CRISPR loci if present in the organism	rnc	-	3.1.26.3	ko:K03685	ko03008,ko05205,map03008,map05205	-	-	-	ko00000,ko00001,ko01000,ko03009,ko03019,ko03036	-	-	-	Ribonucleas_3_3,dsrm
LYD3_k127_3318252_2	748247.AZKH_2834	1.138e-109	366.0	COG1159@1|root,COG1159@2|Bacteria,1MUKT@1224|Proteobacteria,2VHYP@28216|Betaproteobacteria,2KVT3@206389|Rhodocyclales	206389|Rhodocyclales	S	An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism	era	-	-	ko:K03595	-	-	-	-	ko00000,ko03009,ko03029	-	-	-	KH_2,MMR_HSR1
LYD3_k127_3318252_3	497321.C664_06908	7.997e-69	243.0	COG1381@1|root,COG1381@2|Bacteria,1RHIC@1224|Proteobacteria,2VJUC@28216|Betaproteobacteria,2KW9J@206389|Rhodocyclales	206389|Rhodocyclales	L	Involved in DNA repair and RecF pathway recombination	recO	-	-	ko:K03584	ko03440,map03440	-	-	-	ko00000,ko00001,ko03400	-	-	-	RecO_C,RecO_N
LYD3_k127_3318252_0	1000565.METUNv1_00636	1.7e-124	404.0	COG0854@1|root,COG0854@2|Bacteria,1MU9W@1224|Proteobacteria,2VHY7@28216|Betaproteobacteria,2KV09@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the complicated ring closure reaction between the two acyclic compounds 1-deoxy-D-xylulose-5-phosphate (DXP) and 3-amino-2-oxopropyl phosphate (1-amino-acetone-3-phosphate or AAP) to form pyridoxine 5'-phosphate (PNP) and inorganic phosphate	pdxJ	-	2.6.99.2	ko:K03474	ko00750,ko01100,map00750,map01100	M00124	R05838	RC01476	ko00000,ko00001,ko00002,ko01000	-	-	-	PdxJ
LYD3_k127_3318252_1	243365.CV_2073	8.646e-113	377.0	COG1472@1|root,COG1472@2|Bacteria,1MVAJ@1224|Proteobacteria,2VHAR@28216|Betaproteobacteria,2KQ6X@206351|Neisseriales	206351|Neisseriales	M	Plays a role in peptidoglycan recycling by cleaving the terminal beta-1,4-linked N-acetylglucosamine (GlcNAc) from peptide-linked peptidoglycan fragments, giving rise to free GlcNAc, anhydro-N-acetylmuramic acid and anhydro-N-acetylmuramic acid-linked peptides	nagZ	-	3.2.1.52	ko:K01207	ko00520,ko00531,ko01100,ko01501,map00520,map00531,map01100,map01501	M00628	R00022,R05963,R07809,R07810,R10831	RC00049	ko00000,ko00001,ko00002,ko01000	-	-	-	Glyco_hydro_3
LYD3_k127_3318252_5	1380394.JADL01000009_gene3150	2.945e-10	62.0	COG0404@1|root,COG0665@1|root,COG0404@2|Bacteria,COG0665@2|Bacteria,1MUXJ@1224|Proteobacteria,2TRGS@28211|Alphaproteobacteria,2JREU@204441|Rhodospirillales	204441|Rhodospirillales	E	FAD dependent oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	DAO,FAO_M,GCV_T,GCV_T_C
LYD3_k127_3339368_1	76114.ebA4052	3.924e-18	89.0	COG1556@1|root,COG1556@2|Bacteria,1R4TE@1224|Proteobacteria,2VJCF@28216|Betaproteobacteria,2KWJC@206389|Rhodocyclales	206389|Rhodocyclales	S	LUD domain	-	-	-	ko:K00782	-	-	-	-	ko00000	-	-	-	LUD_dom
LYD3_k127_3339368_0	1120985.AUMI01000018_gene2985	2.955e-102	344.0	COG0436@1|root,COG0436@2|Bacteria,1TP0J@1239|Firmicutes,4H20F@909932|Negativicutes	909932|Negativicutes	E	DegT/DnrJ/EryC1/StrS aminotransferase family	-	-	-	-	-	-	-	-	-	-	-	-	Aminotran_1_2
LYD3_k127_3347820_5	1005048.CFU_1184	6.269e-96	320.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VHFI@28216|Betaproteobacteria,472J3@75682|Oxalobacteraceae	28216|Betaproteobacteria	V	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family	mdtB	-	-	ko:K03296,ko:K07788,ko:K07789	ko02020,map02020	M00648	-	-	ko00000,ko00001,ko00002,ko02000	2.A.6.2	-	-	ACR_tran
LYD3_k127_3347820_0	757424.Hsero_1521	0.0	1513.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VHFI@28216|Betaproteobacteria,472J3@75682|Oxalobacteraceae	28216|Betaproteobacteria	V	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family	mdtB	-	-	ko:K03296,ko:K07788,ko:K07789	ko02020,map02020	M00648	-	-	ko00000,ko00001,ko00002,ko02000	2.A.6.2	-	-	ACR_tran
LYD3_k127_3347820_2	1120999.JONM01000007_gene1767	8.092e-135	445.0	COG0845@1|root,COG0845@2|Bacteria,1MW65@1224|Proteobacteria,2VHQP@28216|Betaproteobacteria,2KQ6B@206351|Neisseriales	206351|Neisseriales	M	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family	-	-	-	ko:K07799	ko02020,map02020	M00648	-	-	ko00000,ko00001,ko00002,ko02000	8.A.1	-	-	Biotin_lipoyl_2,HlyD_3
LYD3_k127_3347820_8	349521.HCH_00659	6.914e-54	199.0	COG1073@1|root,COG1073@2|Bacteria,1RIWI@1224|Proteobacteria,1S6JM@1236|Gammaproteobacteria,1XMHV@135619|Oceanospirillales	135619|Oceanospirillales	S	Serine aminopeptidase, S33	-	-	-	ko:K06889	-	-	-	-	ko00000	-	-	-	Hydrolase_4
LYD3_k127_3347820_10	1123057.P872_16695	1.666e-24	108.0	2BWYK@1|root,32R5D@2|Bacteria,4NS4D@976|Bacteroidetes,47UWC@768503|Cytophagia	976|Bacteroidetes	T	PAS domain	-	-	-	-	-	-	-	-	-	-	-	-	PAS_4,PAS_8
LYD3_k127_3347820_6	388413.ALPR1_05140	3.189e-88	299.0	COG1235@1|root,COG1235@2|Bacteria,4NM16@976|Bacteroidetes,47U32@768503|Cytophagia	976|Bacteroidetes	S	Beta-lactamase superfamily domain	-	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B_2
LYD3_k127_3347820_11	595537.Varpa_3073	5.435e-17	86.0	COG1734@1|root,COG1734@2|Bacteria,1NH80@1224|Proteobacteria,2VY9Z@28216|Betaproteobacteria,4AFU1@80864|Comamonadaceae	28216|Betaproteobacteria	K	PFAM zinc finger, DksA TraR C4-type	-	-	-	-	-	-	-	-	-	-	-	-	zf-dskA_traR
LYD3_k127_3347820_1	477184.KYC_18705	7.754e-216	679.0	COG0161@1|root,COG0161@2|Bacteria,1MU2N@1224|Proteobacteria,2VJJ6@28216|Betaproteobacteria,3T1K2@506|Alcaligenaceae	28216|Betaproteobacteria	E	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family	-	-	-	-	-	-	-	-	-	-	-	-	Aminotran_3
LYD3_k127_3347820_9	29581.BW37_05331	1.407e-44	177.0	COG3134@1|root,COG3134@2|Bacteria,1MY27@1224|Proteobacteria,2WA14@28216|Betaproteobacteria,477BS@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Beta/gamma crystallins	-	-	-	-	-	-	-	-	-	-	-	-	Crystall
LYD3_k127_3347820_3	1380355.JNIJ01000046_gene1377	9.391e-123	401.0	28HGI@1|root,2Z7SC@2|Bacteria,1MWKC@1224|Proteobacteria,2TUQY@28211|Alphaproteobacteria,3JWHK@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3347820_7	1123277.KB893179_gene3151	6.561e-62	217.0	COG2080@1|root,COG2080@2|Bacteria,4NM72@976|Bacteroidetes,47XN3@768503|Cytophagia	976|Bacteroidetes	C	[2Fe-2S] binding domain	-	-	1.3.99.16	ko:K07302	-	-	-	-	ko00000,ko01000	-	-	-	Fer2,Fer2_2
LYD3_k127_3347820_4	1353531.AZNX01000005_gene3264	6.728e-109	368.0	COG1529@1|root,COG1529@2|Bacteria,1QTTJ@1224|Proteobacteria,2TQVK@28211|Alphaproteobacteria,4B9W8@82115|Rhizobiaceae	28211|Alphaproteobacteria	C	Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain	MA20_17495	-	1.3.99.16	ko:K07303	-	-	-	-	ko00000,ko01000	-	-	-	Ald_Xan_dh_C2
LYD3_k127_3359136_2	1121127.JAFA01000006_gene5635	1.268e-23	103.0	COG2030@1|root,COG2030@2|Bacteria,1RJ2Z@1224|Proteobacteria,2VT2I@28216|Betaproteobacteria,1K7JI@119060|Burkholderiaceae	28216|Betaproteobacteria	I	N-terminal half of MaoC dehydratase	-	-	-	-	-	-	-	-	-	-	-	-	MaoC_dehydrat_N
LYD3_k127_3359136_1	713586.KB900536_gene2678	4.588e-26	117.0	COG1734@1|root,COG1734@2|Bacteria,1NH80@1224|Proteobacteria,1SAW8@1236|Gammaproteobacteria	1236|Gammaproteobacteria	T	dksA traR	-	-	-	-	-	-	-	-	-	-	-	-	zf-dskA_traR
LYD3_k127_3359136_0	1286631.X805_05380	1.207e-112	380.0	COG1541@1|root,COG1541@2|Bacteria,1P22K@1224|Proteobacteria,2WGC2@28216|Betaproteobacteria,1KK0P@119065|unclassified Burkholderiales	28216|Betaproteobacteria	H	AMP-binding enzyme	-	-	-	-	-	-	-	-	-	-	-	-	AMP-binding
LYD3_k127_3359136_3	748247.AZKH_2012	0.0001101	52.0	COG3712@1|root,COG3712@2|Bacteria,1N941@1224|Proteobacteria,2VIKR@28216|Betaproteobacteria,2KVI1@206389|Rhodocyclales	28216|Betaproteobacteria	PT	iron ion homeostasis	-	-	-	-	-	-	-	-	-	-	-	-	FecR
LYD3_k127_3361256_4	1163617.SCD_n01821	1.777e-44	163.0	COG0825@1|root,COG0825@2|Bacteria,1MURN@1224|Proteobacteria,2VHS0@28216|Betaproteobacteria	28216|Betaproteobacteria	I	Component of the acetyl coenzyme A carboxylase (ACC) complex. First, biotin carboxylase catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the carboxyltransferase to acetyl-CoA to form malonyl-CoA	accA	-	2.1.3.15,6.4.1.2	ko:K01962	ko00061,ko00620,ko00640,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,map00061,map00620,map00640,map00720,map01100,map01110,map01120,map01130,map01200,map01212	M00082,M00376	R00742,R04386	RC00040,RC00253,RC00367	ko00000,ko00001,ko00002,ko01000	-	-	-	ACCA
LYD3_k127_3361256_1	1454004.AW11_03136	6.277e-96	332.0	COG0037@1|root,COG0037@2|Bacteria,1MU85@1224|Proteobacteria,2VP12@28216|Betaproteobacteria,1KPYH@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	J	Ligates lysine onto the cytidine present at position 34 of the AUA codon-specific tRNA(Ile) that contains the anticodon CAU, in an ATP-dependent manner. Cytidine is converted to lysidine, thus changing the amino acid specificity of the tRNA from methionine to isoleucine	tilS	-	6.3.4.19	ko:K04075	-	-	R09597	RC02633,RC02634	ko00000,ko01000,ko03016	-	-	-	ATP_bind_3,TilS,TilS_C
LYD3_k127_3361256_0	94624.Bpet4766	2.548e-152	490.0	COG1638@1|root,COG1638@2|Bacteria,1MVHC@1224|Proteobacteria,2VHPJ@28216|Betaproteobacteria,3T2W1@506|Alcaligenaceae	28216|Betaproteobacteria	G	C4-dicarboxylate ABC transporter	-	-	-	ko:K11688	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.56.1	-	-	DctP
LYD3_k127_3361256_2	1038869.AXAN01000010_gene5152	8.861e-91	302.0	COG3090@1|root,COG3090@2|Bacteria,1R3YK@1224|Proteobacteria,2VQMP@28216|Betaproteobacteria,1KBDW@119060|Burkholderiaceae	28216|Betaproteobacteria	G	Tripartite ATP-independent periplasmic transporters, DctQ component	dctQ	-	-	ko:K11689	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.56.1	-	-	DctQ
LYD3_k127_3361256_3	864073.HFRIS_008726	6.812e-80	272.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2VHJP@28216|Betaproteobacteria,47708@75682|Oxalobacteraceae	28216|Betaproteobacteria	G	Tripartite ATP-independent periplasmic transporter, DctM component	dctM	-	-	ko:K11690	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.56.1	-	-	DctM
LYD3_k127_3362032_2	261292.Nit79A3_0448	1.686e-77	269.0	COG1652@1|root,COG1652@2|Bacteria,1MUBV@1224|Proteobacteria,2VIZJ@28216|Betaproteobacteria,3722Y@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Lysin motif	-	-	-	-	-	-	-	-	-	-	-	-	LysM
LYD3_k127_3362032_1	1123392.AQWL01000002_gene1703	1.713e-99	350.0	COG0758@1|root,COG0758@2|Bacteria,1MVF6@1224|Proteobacteria,2VH3W@28216|Betaproteobacteria,1KRGG@119069|Hydrogenophilales	119069|Hydrogenophilales	LU	DNA recombination-mediator protein A	-	-	-	ko:K04096	-	-	-	-	ko00000	-	-	-	DNA_processg_A
LYD3_k127_3362032_0	1304883.KI912532_gene787	4.786e-119	390.0	COG0550@1|root,COG0550@2|Bacteria,1MUFZ@1224|Proteobacteria,2VHUF@28216|Betaproteobacteria,2KUMN@206389|Rhodocyclales	206389|Rhodocyclales	L	DNA topoisomerase III	-	-	5.99.1.2	ko:K03169	-	-	-	-	ko00000,ko01000,ko03032	-	-	-	Topoisom_bac,Toprim,Toprim_Crpt
LYD3_k127_3363407_0	95619.PM1_0228145	1.849e-152	499.0	COG0662@1|root,COG0836@1|root,COG0662@2|Bacteria,COG0836@2|Bacteria,1MV39@1224|Proteobacteria,1RNQI@1236|Gammaproteobacteria	1236|Gammaproteobacteria	GM	Belongs to the mannose-6-phosphate isomerase type 2 family	-	-	2.7.7.13,5.3.1.8	ko:K00971,ko:K16011	ko00051,ko00520,ko01100,ko01110,ko01130,ko02025,map00051,map00520,map01100,map01110,map01130,map02025	M00114,M00361,M00362	R00885,R01819	RC00002,RC00376	ko00000,ko00001,ko00002,ko01000	-	-	-	MannoseP_isomer,NTP_transferase
LYD3_k127_3363407_1	1384054.N790_05065	4.306e-52	191.0	COG3040@1|root,COG3040@2|Bacteria,1RDAI@1224|Proteobacteria,1S4SZ@1236|Gammaproteobacteria,1X69A@135614|Xanthomonadales	135614|Xanthomonadales	M	lipocalin	-	-	-	ko:K03098	-	-	-	-	ko00000,ko04147	-	-	-	Lipocalin_2
LYD3_k127_3372777_0	1245471.PCA10_23400	1.317e-203	642.0	COG1033@1|root,COG1033@2|Bacteria,1MUE1@1224|Proteobacteria,1RN01@1236|Gammaproteobacteria,1YHSY@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	S	MMPL family	-	-	-	ko:K07003	-	-	-	-	ko00000	-	-	-	MMPL
LYD3_k127_3372777_3	76114.ebA5176	6.042e-27	115.0	COG4103@1|root,COG4103@2|Bacteria,1N6YZ@1224|Proteobacteria,2VU5M@28216|Betaproteobacteria,2KYRQ@206389|Rhodocyclales	206389|Rhodocyclales	S	Tellurite resistance protein TerB	-	-	-	-	-	-	-	-	-	-	-	-	TerB
LYD3_k127_3372777_2	1244869.H261_20215	3.008e-76	267.0	COG4447@1|root,COG4447@2|Bacteria,1RCNG@1224|Proteobacteria,2U748@28211|Alphaproteobacteria,2JSYT@204441|Rhodospirillales	204441|Rhodospirillales	S	Photosynthesis system II assembly factor YCF48	-	-	-	-	-	-	-	-	-	-	-	-	PSII_BNR
LYD3_k127_3372777_1	1125863.JAFN01000001_gene3165	9.766e-130	430.0	COG2010@1|root,COG2010@2|Bacteria,1MUF6@1224|Proteobacteria,42PVV@68525|delta/epsilon subdivisions,2WIN9@28221|Deltaproteobacteria	28221|Deltaproteobacteria	C	Quinohemoprotein amine dehydrogenase, alpha subunit domain II	-	-	-	-	-	-	-	-	-	-	-	-	Dehyd-heme_bind,Qn_am_d_aII,Qn_am_d_aIV
LYD3_k127_3379060_2	1123487.KB892834_gene2786	1.041e-125	406.0	COG1077@1|root,COG1077@2|Bacteria,1MUMW@1224|Proteobacteria,2VIR9@28216|Betaproteobacteria,2KUHG@206389|Rhodocyclales	206389|Rhodocyclales	D	Rod shape-determining protein MreB	mreB	-	-	ko:K03569	-	-	-	-	ko00000,ko02048,ko03036,ko04812	1.A.33.1,9.B.157.1	-	-	MreB_Mbl
LYD3_k127_3379060_3	582744.Msip34_2532	2.351e-29	122.0	COG0721@1|root,COG0721@2|Bacteria,1MZQP@1224|Proteobacteria,2VUFB@28216|Betaproteobacteria,2KN54@206350|Nitrosomonadales	206350|Nitrosomonadales	J	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)	gatC	-	6.3.5.6,6.3.5.7	ko:K02435	ko00970,ko01100,map00970,map01100	-	R03905,R04212	RC00010	ko00000,ko00001,ko01000,ko03029	-	-	-	Glu-tRNAGln
LYD3_k127_3379060_0	76114.ebA3030	4.037e-217	687.0	COG0154@1|root,COG0154@2|Bacteria,1MUVQ@1224|Proteobacteria,2VIG3@28216|Betaproteobacteria,2KUD1@206389|Rhodocyclales	206389|Rhodocyclales	J	Allows the formation of correctly charged Gln-tRNA(Gln) through the transamidation of misacylated Glu-tRNA(Gln) in organisms which lack glutaminyl-tRNA synthetase. The reaction takes place in the presence of glutamine and ATP through an activated gamma-phospho-Glu-tRNA(Gln)	gatA	-	6.3.5.6,6.3.5.7	ko:K02433	ko00970,ko01100,map00970,map01100	-	R03905,R04212	RC00010	ko00000,ko00001,ko01000,ko03029	-	-	-	Amidase
LYD3_k127_3379060_1	1288494.EBAPG3_17600	1.273e-149	481.0	COG0064@1|root,COG0064@2|Bacteria,1MUKG@1224|Proteobacteria,2VI3A@28216|Betaproteobacteria,371YV@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)	gatB	-	6.3.5.6,6.3.5.7	ko:K02434	ko00970,ko01100,map00970,map01100	-	R03905,R04212	RC00010	ko00000,ko00001,ko01000,ko03029	-	-	-	GatB_N,GatB_Yqey
LYD3_k127_3381017_2	1122603.ATVI01000005_gene3780	2.024e-126	411.0	28HWK@1|root,2Z82H@2|Bacteria,1MVDT@1224|Proteobacteria,1RQ61@1236|Gammaproteobacteria,1X30P@135614|Xanthomonadales	135614|Xanthomonadales	S	Protein of unknown function (DUF1615)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1615
LYD3_k127_3381017_3	1122604.JONR01000010_gene3910	3.105e-74	264.0	COG1225@1|root,COG1225@2|Bacteria,1RHSM@1224|Proteobacteria,1RQ8S@1236|Gammaproteobacteria,1X6KF@135614|Xanthomonadales	135614|Xanthomonadales	O	Peroxiredoxin	-	-	-	-	-	-	-	-	-	-	-	-	AhpC-TSA
LYD3_k127_3381017_4	1192124.LIG30_2607	3.056e-56	207.0	COG0589@1|root,COG0589@2|Bacteria,1QD8E@1224|Proteobacteria,2VTUB@28216|Betaproteobacteria,1K0GG@119060|Burkholderiaceae	28216|Betaproteobacteria	T	Belongs to the universal stress protein A family	-	-	-	-	-	-	-	-	-	-	-	-	Usp
LYD3_k127_3381017_6	404380.Gbem_0916	2.147e-10	66.0	COG2350@1|root,COG2350@2|Bacteria,1MZ8Y@1224|Proteobacteria,431ZT@68525|delta/epsilon subdivisions,2WWQ0@28221|Deltaproteobacteria	28221|Deltaproteobacteria	S	YCII-related domain	-	-	-	ko:K09780	-	-	-	-	ko00000	-	-	-	YCII
LYD3_k127_3381017_1	1144342.PMI40_03174	9.662e-144	472.0	COG1538@1|root,COG1538@2|Bacteria,1MUA8@1224|Proteobacteria,2VISZ@28216|Betaproteobacteria,4736U@75682|Oxalobacteraceae	28216|Betaproteobacteria	MU	Outer membrane efflux protein	nodT	-	-	-	-	-	-	-	-	-	-	-	OEP
LYD3_k127_3381017_0	1120999.JONM01000007_gene1769	0.0	1503.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VHFI@28216|Betaproteobacteria,2KPSG@206351|Neisseriales	206351|Neisseriales	V	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family	-	-	-	ko:K07789	ko02020,map02020	M00648	-	-	ko00000,ko00001,ko00002,ko02000	2.A.6.2	-	-	ACR_tran
LYD3_k127_3381017_5	196367.JNFG01000202_gene2413	5.236e-43	159.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VHFI@28216|Betaproteobacteria,1K044@119060|Burkholderiaceae	28216|Betaproteobacteria	V	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family	mdtB	-	-	ko:K03296,ko:K07788	ko02020,map02020	M00648	-	-	ko00000,ko00001,ko00002,ko02000	2.A.6.2	-	-	ACR_tran
LYD3_k127_3385413_3	1163617.SCD_n01957	1.066e-122	398.0	COG0365@1|root,COG0365@2|Bacteria,1MUF5@1224|Proteobacteria,2VIP3@28216|Betaproteobacteria	28216|Betaproteobacteria	I	Catalyzes the conversion of acetate into acetyl-CoA (AcCoA), an essential intermediate at the junction of anabolic and catabolic pathways. AcsA undergoes a two-step reaction. In the first half reaction, AcsA combines acetate with ATP to form acetyl-adenylate (AcAMP) intermediate. In the second half reaction, it can then transfer the acetyl group from AcAMP to the sulfhydryl group of CoA, forming the product AcCoA	acsA	-	6.2.1.1	ko:K01895	ko00010,ko00620,ko00640,ko00680,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00620,map00640,map00680,map00720,map01100,map01110,map01120,map01130,map01200	M00357	R00235,R00236,R00316,R00926,R01354	RC00004,RC00012,RC00043,RC00070,RC02746,RC02816	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	ACAS_N,AMP-binding,AMP-binding_C
LYD3_k127_3385413_0	402626.Rpic_2102	2.734e-277	859.0	COG1838@1|root,COG1951@1|root,COG1838@2|Bacteria,COG1951@2|Bacteria,1MUV9@1224|Proteobacteria,2VIP7@28216|Betaproteobacteria,1K289@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Catalyzes the reversible hydration of fumarate to (S)- malate	fumA	-	4.2.1.2	ko:K01676	ko00020,ko00620,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,map00020,map00620,map00720,map01100,map01110,map01120,map01130,map01200	M00009,M00011,M00173,M00374	R01082	RC00443	ko00000,ko00001,ko00002,ko01000	-	-	-	Fumerase,Fumerase_C
LYD3_k127_3385413_4	318167.Sfri_0415	5.757e-118	408.0	COG5001@1|root,COG5001@2|Bacteria,1MU2C@1224|Proteobacteria,1RM8A@1236|Gammaproteobacteria,2Q8ZG@267890|Shewanellaceae	1236|Gammaproteobacteria	T	Two component regulator three Y domain protein	-	-	-	-	-	-	-	-	-	-	-	-	EAL,GGDEF,PAS_3,PAS_9,Reg_prop,Y_Y_Y
LYD3_k127_3385413_6	1123368.AUIS01000019_gene1216	2.533e-44	180.0	COG2068@1|root,COG2068@2|Bacteria,1MW0X@1224|Proteobacteria,1SCSV@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	MobA-Related Protein	ygfJ	-	2.7.7.76	ko:K07141	ko00790,map00790	-	R11582	-	ko00000,ko00001,ko01000	-	-	-	NTP_transf_3
LYD3_k127_3385413_2	1003200.AXXA_15527	1.794e-154	496.0	COG0683@1|root,COG0683@2|Bacteria,1MXR4@1224|Proteobacteria,2VJXR@28216|Betaproteobacteria,3T1CM@506|Alcaligenaceae	28216|Betaproteobacteria	E	branched-chain amino acid	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_3385413_1	1121004.ATVC01000087_gene304	1.89e-185	586.0	COG0484@1|root,COG0484@2|Bacteria,1MVMS@1224|Proteobacteria,2VHEH@28216|Betaproteobacteria,2KPHJ@206351|Neisseriales	206351|Neisseriales	O	ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, DnaK and GrpE are required for fully efficient folding. Also involved, together with DnaK and GrpE, in the DNA replication of plasmids through activation of initiation proteins	dnaJ	-	-	ko:K03686	-	-	-	-	ko00000,ko03029,ko03110	-	-	-	DnaJ,DnaJ_C,DnaJ_CXXCXGXG
LYD3_k127_3385413_5	748247.AZKH_3094	7.681e-51	185.0	COG0443@1|root,COG0443@2|Bacteria,1MVEN@1224|Proteobacteria,2VH14@28216|Betaproteobacteria,2KVAY@206389|Rhodocyclales	206389|Rhodocyclales	O	Heat shock 70 kDa protein	dnaK	-	-	ko:K04043	ko03018,ko04212,ko05152,map03018,map04212,map05152	-	-	-	ko00000,ko00001,ko03019,ko03029,ko03110,ko04147	1.A.33.1	-	-	HSP70
LYD3_k127_3388489_2	1392838.AWNM01000095_gene3147	7.301e-25	104.0	COG1048@1|root,COG1048@2|Bacteria,1MU9T@1224|Proteobacteria,2VKDZ@28216|Betaproteobacteria,3T36F@506|Alcaligenaceae	28216|Betaproteobacteria	C	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate	acnA	-	4.2.1.3	ko:K01681	ko00020,ko00630,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko01210,ko01230,map00020,map00630,map00720,map01100,map01110,map01120,map01130,map01200,map01210,map01230	M00009,M00010,M00012,M00173,M00740	R01324,R01325,R01900	RC00497,RC00498,RC00618	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Aconitase,Aconitase_C
LYD3_k127_3388489_1	312153.Pnuc_1547	9.04e-73	255.0	COG0697@1|root,COG0697@2|Bacteria,1MZXM@1224|Proteobacteria,2VK90@28216|Betaproteobacteria,1K3YE@119060|Burkholderiaceae	28216|Betaproteobacteria	EG	EamA-like transporter family	-	-	-	ko:K15270	-	-	-	-	ko00000,ko02000	2.A.7.3.7	-	-	EamA
LYD3_k127_3388489_0	1265502.KB905931_gene1642	1.065e-98	336.0	COG0477@1|root,COG2814@2|Bacteria,1MW19@1224|Proteobacteria,2VJ74@28216|Betaproteobacteria,4AB8F@80864|Comamonadaceae	28216|Betaproteobacteria	EGP	Major facilitator superfamily	-	-	-	ko:K07552,ko:K18552	-	-	-	-	br01600,ko00000,ko01504,ko02000	2.A.1.2,2.A.1.2.3	-	-	MFS_1
LYD3_k127_3394660_1	1276756.AUEX01000001_gene1041	2.45e-54	193.0	COG4177@1|root,COG4177@2|Bacteria,1MUPI@1224|Proteobacteria,2VHZA@28216|Betaproteobacteria,4AAWG@80864|Comamonadaceae	28216|Betaproteobacteria	P	Belongs to the binding-protein-dependent transport system permease family	urtC	-	-	ko:K11961	ko02010,map02010	M00323	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4.4,3.A.1.4.5	-	-	BPD_transp_2
LYD3_k127_3394660_0	365046.Rta_32780	5.167e-190	606.0	COG0559@1|root,COG0559@2|Bacteria,1MVND@1224|Proteobacteria,2VJ7X@28216|Betaproteobacteria,4A9YV@80864|Comamonadaceae	28216|Betaproteobacteria	P	Belongs to the binding-protein-dependent transport system permease family	urtB	-	-	ko:K11960	ko02010,map02010	M00323	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4.4,3.A.1.4.5	-	-	BPD_transp_2
LYD3_k127_3403686_5	748247.AZKH_4270	3.873e-54	193.0	COG3609@1|root,COG3609@2|Bacteria,1RHNZ@1224|Proteobacteria,2VSYD@28216|Betaproteobacteria,2KYQE@206389|Rhodocyclales	206389|Rhodocyclales	K	transcriptional regulators containing the CopG Arc MetJ DNA-binding domain	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3403686_0	748247.AZKH_4271	8.418e-152	492.0	COG3509@1|root,COG3509@2|Bacteria,1MXUI@1224|Proteobacteria,2VKEH@28216|Betaproteobacteria,2KYCJ@206389|Rhodocyclales	206389|Rhodocyclales	Q	Esterase PHB depolymerase	-	-	-	-	-	-	-	-	-	-	-	-	Esterase_phd
LYD3_k127_3403686_1	234267.Acid_5901	7.716e-128	412.0	COG0450@1|root,COG0450@2|Bacteria,3Y444@57723|Acidobacteria	57723|Acidobacteria	O	PFAM alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen	-	-	-	-	-	-	-	-	-	-	-	-	1-cysPrx_C,AhpC-TSA
LYD3_k127_3403686_3	1121035.AUCH01000001_gene1812	4.042e-87	294.0	COG0231@1|root,COG0231@2|Bacteria,1MW2J@1224|Proteobacteria,2VH4A@28216|Betaproteobacteria,2KVAS@206389|Rhodocyclales	206389|Rhodocyclales	J	Involved in peptide bond synthesis. Stimulates efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase	efp	-	-	ko:K02356	-	-	-	-	ko00000,ko03012	-	-	-	EFP,EFP_N,Elong-fact-P_C
LYD3_k127_3403686_2	76114.ebA2974	6.136e-112	374.0	COG4394@1|root,COG4394@2|Bacteria,1MYVF@1224|Proteobacteria,2VHIB@28216|Betaproteobacteria,2KU6H@206389|Rhodocyclales	206389|Rhodocyclales	S	protein conserved in bacteria	-	-	-	-	-	-	-	-	-	-	-	-	DUF2331
LYD3_k127_3403686_4	1211115.ALIQ01000177_gene1609	5.097e-55	204.0	COG2761@1|root,COG2761@2|Bacteria,1NXUB@1224|Proteobacteria,2TRJ6@28211|Alphaproteobacteria,3NBDU@45404|Beijerinckiaceae	28211|Alphaproteobacteria	Q	DSBA-like thioredoxin domain	dsb	-	-	-	-	-	-	-	-	-	-	-	DSBA
LYD3_k127_3403686_7	1123392.AQWL01000005_gene2913	8.191e-21	94.0	COG4309@1|root,COG4309@2|Bacteria,1N4MS@1224|Proteobacteria,2VU7H@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Uncharacterized conserved protein (DUF2249)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2249
LYD3_k127_3403686_6	1163617.SCD_n00539	8.694e-30	122.0	COG0053@1|root,COG0053@2|Bacteria,1MUDS@1224|Proteobacteria,2VJ1J@28216|Betaproteobacteria	28216|Betaproteobacteria	P	Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family	fieF	-	-	-	-	-	-	-	-	-	-	-	Cation_efflux,ZT_dimer
LYD3_k127_3407043_2	1000565.METUNv1_02144	3.121e-65	224.0	COG0014@1|root,COG0014@2|Bacteria,1MUGJ@1224|Proteobacteria,2VJ5M@28216|Betaproteobacteria,2KUNP@206389|Rhodocyclales	206389|Rhodocyclales	E	Catalyzes the NADPH-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. The product spontaneously undergoes cyclization to form 1-pyrroline-5- carboxylate	proA	-	1.2.1.41	ko:K00147	ko00330,ko00332,ko01100,ko01110,ko01130,ko01230,map00330,map00332,map01100,map01110,map01130,map01230	M00015	R03313	RC00684	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_3407043_1	395495.Lcho_3292	4.109e-96	321.0	COG0861@1|root,COG0861@2|Bacteria,1MWC9@1224|Proteobacteria,2VJSY@28216|Betaproteobacteria,1KKPM@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	Integral membrane protein TerC family	terC	-	-	-	-	-	-	-	-	-	-	-	CBS,CorC_HlyC,TerC
LYD3_k127_3407043_4	640512.BC1003_2347	4.739e-55	198.0	COG3803@1|root,COG3803@2|Bacteria,1RHYI@1224|Proteobacteria,2VSHT@28216|Betaproteobacteria,1K3V0@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Bacterial protein of unknown function (DUF924)	-	-	-	-	-	-	-	-	-	-	-	-	DUF924
LYD3_k127_3407043_5	85643.Tmz1t_3820	3.522e-54	204.0	COG1057@1|root,COG1057@2|Bacteria,1RD0J@1224|Proteobacteria,2VSQ7@28216|Betaproteobacteria,2KW3W@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the reversible adenylation of nicotinate mononucleotide (NaMN) to nicotinic acid adenine dinucleotide (NaAD)	nadD	-	2.7.7.18	ko:K00969	ko00760,ko01100,map00760,map01100	M00115	R00137,R03005	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	CTP_transf_like
LYD3_k127_3407043_7	1304883.KI912532_gene618	4.604e-37	149.0	COG0799@1|root,COG0799@2|Bacteria,1MZEF@1224|Proteobacteria,2VRRV@28216|Betaproteobacteria,2KWQI@206389|Rhodocyclales	206389|Rhodocyclales	J	Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation	rsfS	-	-	ko:K09710	-	-	-	-	ko00000,ko03009	-	-	-	RsfS
LYD3_k127_3407043_6	1485544.JQKP01000001_gene924	3.015e-47	176.0	COG1576@1|root,COG1576@2|Bacteria,1R9Z2@1224|Proteobacteria,2VQ2M@28216|Betaproteobacteria,44VPN@713636|Nitrosomonadales	28216|Betaproteobacteria	J	Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA	rlmH	-	2.1.1.177	ko:K00783	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	SPOUT_MTase
LYD3_k127_3407043_3	1485544.JQKP01000001_gene923	2.182e-57	206.0	COG0424@1|root,COG0424@2|Bacteria,1RH6H@1224|Proteobacteria,2VQC3@28216|Betaproteobacteria,44VR4@713636|Nitrosomonadales	28216|Betaproteobacteria	D	Maf-like protein	maf	-	-	ko:K06287	-	-	-	-	ko00000	-	-	-	Maf
LYD3_k127_3407043_0	1095769.CAHF01000006_gene1737	4.409e-228	725.0	COG1530@1|root,COG1530@2|Bacteria,1MV65@1224|Proteobacteria,2VI3N@28216|Betaproteobacteria,472QU@75682|Oxalobacteraceae	28216|Betaproteobacteria	J	Ribonuclease E/G family	cafA	-	-	ko:K08301	-	-	-	-	ko00000,ko01000,ko03009,ko03019	-	-	-	RNase_E_G,S1
LYD3_k127_3407700_1	76114.ebA5401	1.005e-43	162.0	COG0437@1|root,COG1013@1|root,COG0437@2|Bacteria,COG1013@2|Bacteria,1MUY9@1224|Proteobacteria,2VKQX@28216|Betaproteobacteria,2KVZU@206389|Rhodocyclales	206389|Rhodocyclales	C	Thiamine pyrophosphate enzyme, C-terminal TPP binding domain	padI	-	1.2.1.58	ko:K18356	ko00360,map00360	-	R02450	RC00004,RC02860	br01601,ko00000,ko00001,ko01000	-	-	-	Fer4_11,Fer4_6,TPP_enzyme_C
LYD3_k127_3407700_0	1157708.KB907462_gene1034	1.393e-144	469.0	COG1014@1|root,COG4231@1|root,COG1014@2|Bacteria,COG4231@2|Bacteria,1MUKS@1224|Proteobacteria,2VJGC@28216|Betaproteobacteria,4AC8V@80864|Comamonadaceae	28216|Betaproteobacteria	C	PFAM pyruvate ferredoxin flavodoxin oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	POR,TPP_enzyme_C
LYD3_k127_3412398_0	580332.Slit_0115	5.888e-257	802.0	COG0067@1|root,COG0069@1|root,COG0070@1|root,COG0067@2|Bacteria,COG0069@2|Bacteria,COG0070@2|Bacteria,1MU7B@1224|Proteobacteria,2VHUY@28216|Betaproteobacteria,44VD7@713636|Nitrosomonadales	28216|Betaproteobacteria	E	glutamate synthase alpha subunit domain protein	gltB	-	1.4.1.13,1.4.1.14,1.4.7.1	ko:K00265,ko:K00284	ko00250,ko00630,ko00910,ko01100,ko01110,ko01120,ko01130,ko01230,map00250,map00630,map00910,map01100,map01110,map01120,map01130,map01230	-	R00021,R00093,R00114,R00248,R10086	RC00006,RC00010,RC02799	ko00000,ko00001,ko01000	-	-	-	GATase_2,GXGXG,Glu_syn_central,Glu_synthase
LYD3_k127_3414057_0	1123367.C666_10345	6.804e-147	485.0	COG1391@1|root,COG1391@2|Bacteria,1MU4I@1224|Proteobacteria,2VH5B@28216|Betaproteobacteria,2KVC4@206389|Rhodocyclales	206389|Rhodocyclales	H	Involved in the regulation of glutamine synthetase GlnA, a key enzyme in the process to assimilate ammonia. When cellular nitrogen levels are high, the C-terminal adenylyl transferase (AT) inactivates GlnA by covalent transfer of an adenylyl group from ATP to specific tyrosine residue of GlnA, thus reducing its activity. Conversely, when nitrogen levels are low, the N-terminal adenylyl removase (AR) activates GlnA by removing the adenylyl group by phosphorolysis, increasing its activity. The regulatory region of GlnE binds the signal transduction protein PII (GlnB) which indicates the nitrogen status of the cell	glnE	-	2.7.7.42,2.7.7.89	ko:K00982	-	-	-	-	ko00000,ko01000	-	-	-	GlnD_UR_UTase,GlnE
LYD3_k127_3414057_1	62928.azo1294	7.711e-64	233.0	COG3164@1|root,COG3164@2|Bacteria,1MXWF@1224|Proteobacteria,2VH52@28216|Betaproteobacteria,2KUGH@206389|Rhodocyclales	206389|Rhodocyclales	S	Protein of unknown function	-	-	-	-	-	-	-	-	-	-	-	-	AsmA_2,DUF3971,DUF748
LYD3_k127_3414948_13	1366050.N234_10795	1.788e-52	189.0	COG0421@1|root,COG0421@2|Bacteria,1P220@1224|Proteobacteria,2VNDM@28216|Betaproteobacteria,1KBX2@119060|Burkholderiaceae	28216|Betaproteobacteria	E	Spermine/spermidine synthase domain	-	-	2.5.1.16	ko:K00797	ko00270,ko00330,ko00410,ko00480,ko01100,map00270,map00330,map00410,map00480,map01100	M00034,M00133	R01920,R02869,R08359	RC00021,RC00053	ko00000,ko00001,ko00002,ko01000	-	-	-	Spermine_synth
LYD3_k127_3414948_1	1265502.KB905961_gene349	1.413e-157	508.0	COG0389@1|root,COG0389@2|Bacteria,1MUUH@1224|Proteobacteria,2VJNS@28216|Betaproteobacteria,4A9Z0@80864|Comamonadaceae	28216|Betaproteobacteria	L	Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII	dinB	GO:0000731,GO:0003674,GO:0003824,GO:0003887,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005737,GO:0006139,GO:0006259,GO:0006281,GO:0006301,GO:0006725,GO:0006807,GO:0006950,GO:0006974,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009987,GO:0016604,GO:0016607,GO:0016740,GO:0016772,GO:0016779,GO:0018130,GO:0019438,GO:0019985,GO:0031974,GO:0031981,GO:0032991,GO:0033554,GO:0034061,GO:0034641,GO:0034645,GO:0034654,GO:0035770,GO:0036464,GO:0042276,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043233,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044271,GO:0044422,GO:0044424,GO:0044428,GO:0044444,GO:0044446,GO:0044451,GO:0044464,GO:0046483,GO:0050896,GO:0051716,GO:0070013,GO:0071704,GO:0071897,GO:0090304,GO:0140097,GO:1901360,GO:1901362,GO:1901576,GO:1990904	2.7.7.7	ko:K02346,ko:K03502	-	-	-	-	ko00000,ko01000,ko03400	-	-	-	IMS,IMS_C,IMS_HHH
LYD3_k127_3414948_12	765913.ThidrDRAFT_0843	2.592e-64	226.0	COG0317@1|root,COG0317@2|Bacteria,1RGUA@1224|Proteobacteria,1S3WT@1236|Gammaproteobacteria,1WY7Z@135613|Chromatiales	135613|Chromatiales	KT	HD domain	-	-	2.7.6.5,3.1.7.2	ko:K01139	ko00230,map00230	-	R00336,R00429	RC00002,RC00078	ko00000,ko00001,ko01000,ko03009	-	-	-	HD_4
LYD3_k127_3414948_10	710686.Mycsm_02925	6.494e-74	254.0	COG4101@1|root,COG4101@2|Bacteria,2II42@201174|Actinobacteria,238YM@1762|Mycobacteriaceae	201174|Actinobacteria	G	Cupin domain	-	-	-	-	-	-	-	-	-	-	-	-	Cupin_2
LYD3_k127_3414948_16	748247.AZKH_1172	7.314e-28	127.0	2DNV8@1|root,32ZAX@2|Bacteria,1R3MW@1224|Proteobacteria,2VWAR@28216|Betaproteobacteria,2KWYT@206389|Rhodocyclales	206389|Rhodocyclales	S	HicA toxin of bacterial toxin-antitoxin,	-	-	-	-	-	-	-	-	-	-	-	-	HicA_toxin
LYD3_k127_3414948_14	1005048.CFU_0494	2.089e-46	192.0	COG0526@1|root,COG0526@2|Bacteria,1MWU8@1224|Proteobacteria,2VPNK@28216|Betaproteobacteria,475CR@75682|Oxalobacteraceae	28216|Betaproteobacteria	M	Thioredoxin-like	-	-	-	-	-	-	-	-	-	-	-	-	Thioredoxin_2,Thioredoxin_7
LYD3_k127_3414948_0	1380394.JADL01000002_gene1743	5.867e-253	795.0	COG1593@1|root,COG3090@1|root,COG1593@2|Bacteria,COG3090@2|Bacteria,1MU0F@1224|Proteobacteria,2TSEZ@28211|Alphaproteobacteria,2JW74@204441|Rhodospirillales	204441|Rhodospirillales	G	Tripartite ATP-independent periplasmic transporters, DctQ component	-	-	-	-	-	-	-	-	-	-	-	-	DctM,DctQ
LYD3_k127_3414948_2	864051.BurJ1DRAFT_2114	4.641e-153	492.0	COG1638@1|root,COG1638@2|Bacteria,1MWXG@1224|Proteobacteria,2VH3H@28216|Betaproteobacteria,1KKIJ@119065|unclassified Burkholderiales	28216|Betaproteobacteria	G	PFAM TRAP dicarboxylate transporter- DctP subunit	-	-	-	-	-	-	-	-	-	-	-	-	DctP,TAT_signal
LYD3_k127_3414948_11	1123060.JONP01000032_gene1870	8.533e-73	253.0	COG1028@1|root,COG1028@2|Bacteria,1MXVZ@1224|Proteobacteria,2TSQ4@28211|Alphaproteobacteria,2JV8X@204441|Rhodospirillales	204441|Rhodospirillales	IQ	KR domain	-	-	-	-	-	-	-	-	-	-	-	-	adh_short_C2
LYD3_k127_3414948_4	1123504.JQKD01000002_gene3927	4.123e-132	445.0	COG0022@1|root,COG0022@2|Bacteria,1R8KB@1224|Proteobacteria,2VKQ0@28216|Betaproteobacteria,4ACTU@80864|Comamonadaceae	28216|Betaproteobacteria	C	PFAM Transketolase central region	-	-	1.2.4.1	ko:K00162,ko:K21417	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,ko04066,ko04922,ko05230,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map01200,map04066,map04922,map05230	M00307	R00014,R00209,R01699,R03270	RC00004,RC00027,RC00627,RC02742,RC02744,RC02882	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Transket_pyr,Transketolase_C
LYD3_k127_3414948_3	864051.BurJ1DRAFT_2112	7.705e-143	461.0	COG1071@1|root,COG1071@2|Bacteria,1MU5R@1224|Proteobacteria,2VIIQ@28216|Betaproteobacteria,1KPB2@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	Dehydrogenase E1 component	pdhA	-	1.2.4.1	ko:K00161,ko:K21416	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,ko04066,ko04922,ko05230,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map01200,map04066,map04922,map05230	M00307	R00014,R00209,R01699,R03270	RC00004,RC00027,RC00627,RC02742,RC02744,RC02882	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	E1_dh
LYD3_k127_3414948_5	697282.Mettu_3534	7.751e-130	421.0	COG0583@1|root,COG0583@2|Bacteria,1MZTA@1224|Proteobacteria,1RN7R@1236|Gammaproteobacteria,1XG29@135618|Methylococcales	135618|Methylococcales	K	LysR substrate binding domain	-	-	-	-	-	-	-	-	-	-	-	-	HTH_1,LysR_substrate
LYD3_k127_3414948_9	1122603.ATVI01000012_gene1127	1.48e-79	270.0	COG1182@1|root,COG1182@2|Bacteria,1P59R@1224|Proteobacteria,1S337@1236|Gammaproteobacteria,1X6B8@135614|Xanthomonadales	135614|Xanthomonadales	I	Catalyzes the reductive cleavage of azo bond in aromatic azo compounds to the corresponding amines. Requires NADH, but not NADPH, as an electron donor for its activity	azoR	-	-	ko:K01118	-	-	-	-	ko00000,ko01000	-	-	-	Flavodoxin_2
LYD3_k127_3414948_7	1454004.AW11_02623	2.036e-119	398.0	COG1741@1|root,COG1741@2|Bacteria,1MWIP@1224|Proteobacteria,2VHGK@28216|Betaproteobacteria,1KQYT@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	Pirin C-terminal cupin domain	-	-	-	ko:K06911	-	-	-	-	ko00000	-	-	-	Pirin,Pirin_C
LYD3_k127_3414948_17	1276756.AUEX01000001_gene1059	3.153e-18	91.0	2CKKR@1|root,332MC@2|Bacteria,1NCAT@1224|Proteobacteria,2VW6M@28216|Betaproteobacteria,4AEWU@80864|Comamonadaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3414948_8	543728.Vapar_2216	9.745e-117	383.0	COG1295@1|root,COG1295@2|Bacteria,1R9UY@1224|Proteobacteria,2VJV0@28216|Betaproteobacteria,4ABY3@80864|Comamonadaceae	28216|Betaproteobacteria	S	Virulence factor BrkB	-	-	-	ko:K07058	-	-	-	-	ko00000	-	-	-	Virul_fac_BrkB
LYD3_k127_3414948_15	305700.B447_15261	1.636e-36	153.0	2BCPH@1|root,3269T@2|Bacteria,1RJN1@1224|Proteobacteria,2W2DM@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Domain of unknown function (DUF4824)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4824
LYD3_k127_3414948_6	1437882.AZRU01000211_gene2672	4.051e-121	394.0	28IWG@1|root,2Z8US@2|Bacteria,1NHDW@1224|Proteobacteria,1RR5V@1236|Gammaproteobacteria,1YDKM@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	S	Predicted membrane protein (DUF2157)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2157
LYD3_k127_3418020_5	93220.LV28_12445	5.194e-48	176.0	COG2857@1|root,COG2857@2|Bacteria,1QFU2@1224|Proteobacteria,2VIR6@28216|Betaproteobacteria,1K1CF@119060|Burkholderiaceae	28216|Betaproteobacteria	P	Cytochrome C1	petC	-	-	ko:K00413	ko00190,ko01100,ko02020,ko04260,ko04714,ko04932,ko05010,ko05012,ko05016,map00190,map01100,map02020,map04260,map04714,map04932,map05010,map05012,map05016	M00151,M00152	-	-	ko00000,ko00001,ko00002	-	-	-	Cytochrom_C1
LYD3_k127_3418020_0	582744.Msip34_0283	8.39e-220	687.0	COG1290@1|root,COG1290@2|Bacteria,1MV97@1224|Proteobacteria,2VHP5@28216|Betaproteobacteria,2KKSW@206350|Nitrosomonadales	206350|Nitrosomonadales	C	Component of the ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex), which is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis	-	-	-	ko:K00412	ko00190,ko01100,ko02020,ko04260,ko04714,ko04932,ko05010,ko05012,ko05016,map00190,map01100,map02020,map04260,map04714,map04932,map05010,map05012,map05016	M00151,M00152	-	-	ko00000,ko00001,ko00002,ko03029	-	-	-	Cytochrom_B_C,Cytochrome_B
LYD3_k127_3418020_2	243365.CV_4008	7.859e-93	309.0	COG0723@1|root,COG0723@2|Bacteria,1RAA2@1224|Proteobacteria,2VK46@28216|Betaproteobacteria,2KQG3@206351|Neisseriales	206351|Neisseriales	C	Component of the ubiquinol-cytochrome c reductase complex (complex III or cytochrome b-c1 complex), which is a respiratory chain that generates an electrochemical potential coupled to ATP synthesis	petA	-	1.10.2.2	ko:K00411	ko00190,ko01100,ko02020,ko04260,ko04714,ko04932,ko05010,ko05012,ko05016,map00190,map01100,map02020,map04260,map04714,map04932,map05010,map05012,map05016	M00151,M00152	-	-	ko00000,ko00001,ko00002,ko01000	-	-	-	Rieske,UCR_Fe-S_N
LYD3_k127_3418020_1	1163617.SCD_n00599	1.241e-131	430.0	COG0265@1|root,COG0265@2|Bacteria,1MU63@1224|Proteobacteria,2VJ9G@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Belongs to the peptidase S1C family	degQ	-	-	ko:K04691,ko:K04772	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	PDZ_2,Trypsin_2
LYD3_k127_3418020_3	640081.Dsui_1424	2.345e-92	310.0	COG0805@1|root,COG0805@2|Bacteria,1MVAY@1224|Proteobacteria,2VI2H@28216|Betaproteobacteria,2KUWA@206389|Rhodocyclales	206389|Rhodocyclales	U	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes. Together with TatB, TatC is part of a receptor directly interacting with Tat signal peptides	tatC	-	-	ko:K03118	ko03060,ko03070,map03060,map03070	M00336	-	-	ko00000,ko00001,ko00002,ko02044	2.A.64	-	-	TatC
LYD3_k127_3418020_7	640081.Dsui_1423	2.931e-28	119.0	COG1826@1|root,COG1826@2|Bacteria,1N73F@1224|Proteobacteria,2VVPX@28216|Betaproteobacteria,2KWT9@206389|Rhodocyclales	206389|Rhodocyclales	U	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes. Together with TatC, TatB is part of a receptor directly interacting with Tat signal peptides. TatB may form an oligomeric binding site that transiently accommodates folded Tat precursor proteins before their translocation	tatB	-	-	ko:K03117	ko03060,ko03070,map03060,map03070	M00336	-	-	ko00000,ko00001,ko00002,ko02044	2.A.64	-	-	MttA_Hcf106
LYD3_k127_3418020_8	1304883.KI912532_gene1672	5.854e-24	107.0	COG1826@1|root,COG1826@2|Bacteria,1N6S4@1224|Proteobacteria,2VVT6@28216|Betaproteobacteria,2KX8N@206389|Rhodocyclales	206389|Rhodocyclales	U	Part of the twin-arginine translocation (Tat) system that transports large folded proteins containing a characteristic twin-arginine motif in their signal peptide across membranes. TatA could form the protein-conducting channel of the Tat system	tatA	-	-	ko:K03116	ko03060,ko03070,map03060,map03070	M00336	-	-	ko00000,ko00001,ko00002,ko02044	2.A.64	-	-	MttA_Hcf106
LYD3_k127_3418020_4	522306.CAP2UW1_4041	5.909e-49	177.0	COG0537@1|root,COG0537@2|Bacteria,1RDCJ@1224|Proteobacteria,2VSMS@28216|Betaproteobacteria,1KQ3Q@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	FG	Nucleotide transport and metabolism Carbohydrate transport and metabolism General function prediction only	hitA	-	-	ko:K02503	-	-	-	-	ko00000,ko04147	-	-	-	DcpS_C,HIT
LYD3_k127_3418020_9	1121324.CLIT_11c02670	8.007e-22	102.0	2E74N@1|root,331P2@2|Bacteria	2|Bacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3418020_6	864051.BurJ1DRAFT_1220	3.381e-38	145.0	COG0140@1|root,COG0140@2|Bacteria,1MZEE@1224|Proteobacteria,2VUN8@28216|Betaproteobacteria,1KM5H@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	Phosphoribosyl-ATP pyrophosphohydrolase	hisE	-	3.6.1.31	ko:K01523	ko00340,ko01100,ko01110,ko01230,map00340,map01100,map01110,map01230	M00026	R04035	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	PRA-PH
LYD3_k127_3418020_10	1304883.KI912532_gene1669	9.76e-17	79.0	COG0139@1|root,COG0139@2|Bacteria,1MW67@1224|Proteobacteria,2VR9B@28216|Betaproteobacteria,2KWD3@206389|Rhodocyclales	206389|Rhodocyclales	E	Catalyzes the hydrolysis of the adenine ring of phosphoribosyl-AMP	hisI	-	3.5.4.19	ko:K01496	ko00340,ko01100,ko01110,ko01230,map00340,map01100,map01110,map01230	M00026	R04037	RC01055	ko00000,ko00001,ko00002,ko01000	-	-	-	PRA-CH
LYD3_k127_3418929_1	883126.HMPREF9710_03785	6.141e-95	319.0	COG0287@1|root,COG0287@2|Bacteria,1QTZA@1224|Proteobacteria,2VIS1@28216|Betaproteobacteria,472S1@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Prephenate dehydrogenase	tyrA	-	1.3.1.12	ko:K04517	ko00400,ko00401,ko01100,ko01110,ko01130,ko01230,map00400,map00401,map01100,map01110,map01130,map01230	M00025	R01728	RC00125	ko00000,ko00001,ko00002,ko01000	-	-	-	PDH
LYD3_k127_3418929_0	497321.C664_10987	2.219e-135	444.0	COG0079@1|root,COG0079@2|Bacteria,1MW7I@1224|Proteobacteria,2VIPQ@28216|Betaproteobacteria,2KV2R@206389|Rhodocyclales	206389|Rhodocyclales	E	Belongs to the class-II pyridoxal-phosphate-dependent aminotransferase family. Histidinol-phosphate aminotransferase subfamily	hisC1	-	2.6.1.9	ko:K00817	ko00340,ko00350,ko00360,ko00400,ko00401,ko00960,ko01100,ko01110,ko01130,ko01230,map00340,map00350,map00360,map00400,map00401,map00960,map01100,map01110,map01130,map01230	M00026	R00694,R00734,R03243	RC00006,RC00888	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_3418929_2	395019.Bmul_2261	5.773e-26	107.0	COG0077@1|root,COG1605@1|root,COG0077@2|Bacteria,COG1605@2|Bacteria,1MU60@1224|Proteobacteria,2VJEV@28216|Betaproteobacteria,1JZU8@119060|Burkholderiaceae	28216|Betaproteobacteria	E	chorismate mutase	pheA	-	4.2.1.51,4.2.1.91,5.4.99.5	ko:K01713,ko:K14170	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00024,M00025	R00691,R01373,R01715	RC00360,RC03116	ko00000,ko00001,ko00002,ko01000	-	-	-	ACT,CM_2,PDT
LYD3_k127_3423423_5	323848.Nmul_A2081	3.676e-12	71.0	COG1521@1|root,COG1521@2|Bacteria,1MUYA@1224|Proteobacteria,2VK1G@28216|Betaproteobacteria,3733Y@32003|Nitrosomonadales	28216|Betaproteobacteria	F	Catalyzes the phosphorylation of pantothenate (Pan), the first step in CoA biosynthesis	coaX	-	2.7.1.33,6.3.4.15	ko:K01947,ko:K03525	ko00770,ko00780,ko01100,map00770,map00780,map01100	M00120	R01074,R02971,R03018,R04391,R05145	RC00002,RC00017,RC00043,RC00070,RC00096,RC02896	ko00000,ko00001,ko00002,ko01000	-	-	-	BPL_C,BPL_LplA_LipB,Pan_kinase
LYD3_k127_3423423_2	1485544.JQKP01000002_gene1391	3.274e-82	284.0	COG0340@1|root,COG1654@1|root,COG0340@2|Bacteria,COG1654@2|Bacteria,1MWCC@1224|Proteobacteria,2VNXD@28216|Betaproteobacteria,44VHY@713636|Nitrosomonadales	28216|Betaproteobacteria	H	Acts both as a biotin-- acetyl-CoA-carboxylase ligase and a repressor	birA	-	6.3.4.15	ko:K03524	ko00780,ko01100,map00780,map01100	-	R01074,R05145	RC00043,RC00070,RC00096,RC02896	ko00000,ko00001,ko01000,ko03000	-	-	-	BPL_C,BPL_LplA_LipB,HTH_11
LYD3_k127_3423423_1	157783.LK03_16850	3.018e-88	301.0	COG0483@1|root,COG0483@2|Bacteria,1PPJ0@1224|Proteobacteria,1S0BD@1236|Gammaproteobacteria	1236|Gammaproteobacteria	G	inositol monophosphatase	-	-	3.1.3.15,3.1.3.25	ko:K01092,ko:K05602	ko00340,ko00521,ko00562,ko01100,ko01110,ko01230,ko04070,map00340,map00521,map00562,map01100,map01110,map01230,map04070	M00026,M00131	R01185,R01186,R01187,R03013	RC00017,RC00078	ko00000,ko00001,ko00002,ko01000	-	-	-	Inositol_P
LYD3_k127_3423423_0	1458275.AZ34_09505	7.939e-105	372.0	COG2084@1|root,COG2084@2|Bacteria,1MV48@1224|Proteobacteria,2VKTQ@28216|Betaproteobacteria,4ABGJ@80864|Comamonadaceae	28216|Betaproteobacteria	I	PFAM 6-phosphogluconate dehydrogenase NAD-binding	-	-	-	-	-	-	-	-	-	-	-	-	NAD_binding_11,NAD_binding_2
LYD3_k127_3423423_4	76114.ebA4959	8.225e-60	220.0	COG0697@1|root,COG0697@2|Bacteria,1MXVF@1224|Proteobacteria,2VKMQ@28216|Betaproteobacteria,2KVQX@206389|Rhodocyclales	206389|Rhodocyclales	EG	EamA-like transporter family	-	-	-	-	-	-	-	-	-	-	-	-	EamA
LYD3_k127_3423423_3	1500301.JQMF01000023_gene5581	3.179e-67	236.0	COG0625@1|root,COG0625@2|Bacteria,1RK1K@1224|Proteobacteria,2V5U1@28211|Alphaproteobacteria,4BGB5@82115|Rhizobiaceae	28211|Alphaproteobacteria	O	Glutathione S-transferase, C-terminal domain	-	-	-	-	-	-	-	-	-	-	-	-	GST_C,GST_N
LYD3_k127_3433612_0	1454004.AW11_03494	1.609e-140	450.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2VI0I@28216|Betaproteobacteria,1KQ8E@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	IQ	AMP-binding enzyme C-terminal domain	fadD	-	6.2.1.3	ko:K01897	ko00061,ko00071,ko01100,ko01212,ko02024,ko03320,ko04146,ko04216,ko04714,ko04920,map00061,map00071,map01100,map01212,map02024,map03320,map04146,map04216,map04714,map04920	M00086	R01280	RC00004,RC00014	ko00000,ko00001,ko00002,ko01000,ko01004,ko04147	4.C.1.1	-	-	AMP-binding,AMP-binding_C
LYD3_k127_3433612_2	1218084.BBJK01000134_gene7206	9.304e-48	177.0	COG1607@1|root,COG1607@2|Bacteria,1MZAZ@1224|Proteobacteria,2VR9M@28216|Betaproteobacteria,1K7QJ@119060|Burkholderiaceae	28216|Betaproteobacteria	I	Thioesterase superfamily protein	yciA	-	-	ko:K10806	ko01040,map01040	-	-	-	ko00000,ko00001,ko01000,ko01004	-	-	-	4HBT
LYD3_k127_3433612_1	580332.Slit_1857	2.505e-96	337.0	COG2067@1|root,COG2067@2|Bacteria,1MUU4@1224|Proteobacteria,2VHI3@28216|Betaproteobacteria,44W9M@713636|Nitrosomonadales	28216|Betaproteobacteria	I	Outer membrane protein transport protein (OMPP1/FadL/TodX)	fadL	-	-	ko:K06076	-	-	-	-	ko00000,ko02000	1.B.9	-	-	Toluene_X
LYD3_k127_3433612_3	748247.AZKH_3561	1.482e-05	58.0	COG2885@1|root,COG2885@2|Bacteria,1N6EM@1224|Proteobacteria,2VM27@28216|Betaproteobacteria,2KYX2@206389|Rhodocyclales	206389|Rhodocyclales	M	OmpA family	-	-	-	ko:K03286	-	-	-	-	ko00000,ko02000	1.B.6	-	-	OmpA
LYD3_k127_3449372_1	1173025.GEI7407_0336	9.426e-64	242.0	COG0457@1|root,COG0859@1|root,COG0457@2|Bacteria,COG0859@2|Bacteria,1G193@1117|Cyanobacteria,1H799@1150|Oscillatoriales	1117|Cyanobacteria	M	Tetratricopeptide repeat	-	-	-	-	-	-	-	-	-	-	-	-	DUF4915,Glyco_transf_9,Glycos_transf_1,TPR_1,TPR_11,TPR_16,TPR_17,TPR_2,TPR_8
LYD3_k127_3449372_3	1234364.AMSF01000001_gene2370	4.169e-06	60.0	COG0653@1|root,COG0653@2|Bacteria,1MUJZ@1224|Proteobacteria,1RM9M@1236|Gammaproteobacteria,1X4SH@135614|Xanthomonadales	135614|Xanthomonadales	U	Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. Has a central role in coupling the hydrolysis of ATP to the transfer of proteins into and across the cell membrane, serving both as a receptor for the preprotein-SecB complex and as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane	secA	GO:0000166,GO:0003674,GO:0003824,GO:0005215,GO:0005488,GO:0005524,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0005886,GO:0005887,GO:0006810,GO:0008104,GO:0008144,GO:0008150,GO:0008320,GO:0008565,GO:0015031,GO:0015399,GO:0015405,GO:0015440,GO:0015450,GO:0015462,GO:0015833,GO:0016020,GO:0016021,GO:0016462,GO:0016787,GO:0016817,GO:0016818,GO:0016887,GO:0017076,GO:0017111,GO:0022804,GO:0022857,GO:0022884,GO:0030554,GO:0031224,GO:0031226,GO:0031522,GO:0032553,GO:0032555,GO:0032559,GO:0032991,GO:0033036,GO:0033220,GO:0035639,GO:0036094,GO:0042623,GO:0042626,GO:0042886,GO:0042887,GO:0043167,GO:0043168,GO:0043492,GO:0043952,GO:0044424,GO:0044425,GO:0044444,GO:0044459,GO:0044464,GO:0045184,GO:0051179,GO:0051234,GO:0055085,GO:0071702,GO:0071705,GO:0071806,GO:0071944,GO:0097159,GO:0097367,GO:1901265,GO:1901363,GO:1904680	-	ko:K03070	ko02024,ko03060,ko03070,map02024,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko02044	3.A.5.1,3.A.5.10,3.A.5.2,3.A.5.4	-	-	SEC-C,SecA_DEAD,SecA_PP_bind,SecA_SW
LYD3_k127_3449372_2	266265.Bxe_B1588	1.134e-45	187.0	2CFS3@1|root,32S2D@2|Bacteria,1N23S@1224|Proteobacteria,2W4T1@28216|Betaproteobacteria,1K72C@119060|Burkholderiaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3449372_0	713587.THITH_10110	1.733e-66	243.0	28KU1@1|root,2ZAAZ@2|Bacteria,1R3VB@1224|Proteobacteria,1RYZK@1236|Gammaproteobacteria,1WWZ6@135613|Chromatiales	135613|Chromatiales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3452822_5	987059.RBXJA2T_04763	5.47e-29	128.0	COG0346@1|root,COG0346@2|Bacteria,1N1D4@1224|Proteobacteria,2WE8C@28216|Betaproteobacteria	28216|Betaproteobacteria	E	glyoxalase bleomycin resistance protein dioxygenase	-	-	-	-	-	-	-	-	-	-	-	-	Glyoxalase
LYD3_k127_3452822_4	883080.HMPREF9697_00158	3.093e-36	146.0	COG3038@1|root,COG3038@2|Bacteria,1MZ7X@1224|Proteobacteria,2UBYU@28211|Alphaproteobacteria,3JU04@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	C	Prokaryotic cytochrome b561	-	-	-	ko:K12262	-	-	-	-	ko00000	-	-	-	Ni_hydr_CYTB
LYD3_k127_3452822_3	754477.Q7C_1344	2.766e-49	180.0	COG2259@1|root,COG2259@2|Bacteria,1N072@1224|Proteobacteria,1SAJR@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	membrane	Z012_09115	-	-	ko:K15977	-	-	-	-	ko00000	-	-	-	DoxX
LYD3_k127_3452822_1	1366050.N234_35850	2.704e-218	694.0	COG0471@1|root,COG0471@2|Bacteria,1MUSA@1224|Proteobacteria,2VJ9R@28216|Betaproteobacteria,1KGZR@119060|Burkholderiaceae	28216|Betaproteobacteria	P	Sodium:sulfate symporter transmembrane region	-	-	-	ko:K11106,ko:K14445	-	-	-	-	ko00000,ko02000	2.A.47.1,2.A.47.3.3	-	-	Na_sulph_symp
LYD3_k127_3452822_0	522306.CAP2UW1_1889	3.158e-301	931.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2VI0I@28216|Betaproteobacteria,1KQ8E@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	IQ	AMP-binding enzyme C-terminal domain	-	-	6.2.1.3	ko:K01897	ko00061,ko00071,ko01100,ko01212,ko02024,ko03320,ko04146,ko04216,ko04714,ko04920,map00061,map00071,map01100,map01212,map02024,map03320,map04146,map04216,map04714,map04920	M00086	R01280	RC00004,RC00014	ko00000,ko00001,ko00002,ko01000,ko01004,ko04147	4.C.1.1	-	-	AMP-binding,AMP-binding_C
LYD3_k127_3452822_2	557598.LHK_01861	1.228e-169	547.0	COG0506@1|root,COG4230@1|root,COG0506@2|Bacteria,COG4230@2|Bacteria,1MV93@1224|Proteobacteria,2VITK@28216|Betaproteobacteria,2KPMR@206351|Neisseriales	206351|Neisseriales	C	Oxidizes proline to glutamate for use as a carbon and nitrogen source	putA	-	1.2.1.88,1.5.5.2	ko:K13821	ko00250,ko00330,ko01100,ko01110,ko01130,map00250,map00330,map01100,map01110,map01130	-	R00245,R00707,R00708,R01253,R04444,R04445,R05051	RC00080,RC00083,RC00216,RC00242,RC00255	ko00000,ko00001,ko01000,ko03000	-	-	-	Aldedh,Pro_dh,Pro_dh-DNA_bdg
LYD3_k127_3453656_1	1122132.AQYH01000002_gene1219	6.784e-17	86.0	COG0550@1|root,COG0550@2|Bacteria,1MUFZ@1224|Proteobacteria,2TRGN@28211|Alphaproteobacteria,4B8A5@82115|Rhizobiaceae	28211|Alphaproteobacteria	L	Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone	topA	-	5.99.1.2	ko:K03168	-	-	-	-	ko00000,ko01000,ko03032,ko03400	-	-	-	Topoisom_bac,Toprim,Toprim_C_rpt,zf-C4_Topoisom
LYD3_k127_3453656_2	1121033.AUCF01000003_gene3139	1.502e-16	85.0	2DSYY@1|root,33HZK@2|Bacteria,1NHRX@1224|Proteobacteria,2VCA2@28211|Alphaproteobacteria,2JY9I@204441|Rhodospirillales	204441|Rhodospirillales	S	Putative peptidoglycan binding domain	-	-	-	-	-	-	-	-	-	-	-	-	PG_binding_1
LYD3_k127_3453656_0	857087.Metme_1871	1.444e-71	254.0	COG0454@1|root,COG0454@2|Bacteria,1QGGX@1224|Proteobacteria,1SDSJ@1236|Gammaproteobacteria	1236|Gammaproteobacteria	K	Protein of unknown function (DUF3616)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3616
LYD3_k127_3458718_2	883126.HMPREF9710_04036	7.552e-10	59.0	2E23Q@1|root,32XB1@2|Bacteria,1N02I@1224|Proteobacteria,2WFUI@28216|Betaproteobacteria,478ZX@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Twin-arginine translocation pathway signal protein	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3458718_0	1095769.CAHF01000022_gene391	6.835e-203	646.0	COG2303@1|root,COG2303@2|Bacteria,1P9UF@1224|Proteobacteria,2VHUP@28216|Betaproteobacteria,4723S@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	GMC oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	GMC_oxred_C,GMC_oxred_N
LYD3_k127_3458718_1	1479237.JMLY01000001_gene1267	3.601e-22	99.0	COG1752@1|root,COG1752@2|Bacteria,1R7RX@1224|Proteobacteria,1RRTH@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	esterase of the alpha-beta hydrolase superfamily	-	-	-	-	-	-	-	-	-	-	-	-	Patatin
LYD3_k127_3459877_2	1288494.EBAPG3_3870	6.021e-60	214.0	COG0704@1|root,COG0704@2|Bacteria,1MUMI@1224|Proteobacteria,2VI2C@28216|Betaproteobacteria,371Y8@32003|Nitrosomonadales	28216|Betaproteobacteria	P	Plays a role in the regulation of phosphate uptake	phoU	-	-	ko:K02039	-	-	-	-	ko00000	-	-	-	PhoU
LYD3_k127_3459877_1	557598.LHK_00165	2.286e-89	310.0	COG0745@1|root,COG0745@2|Bacteria,1MY2Z@1224|Proteobacteria,2VIT4@28216|Betaproteobacteria,2KQ47@206351|Neisseriales	206351|Neisseriales	T	Transcriptional regulatory protein, C terminal	phoB	-	-	ko:K07657	ko02020,map02020	M00434	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	Response_reg,Trans_reg_C
LYD3_k127_3459877_0	1121035.AUCH01000012_gene2989	1.784e-117	394.0	COG5002@1|root,COG5002@2|Bacteria,1MWF3@1224|Proteobacteria,2VIBV@28216|Betaproteobacteria,2KVEJ@206389|Rhodocyclales	206389|Rhodocyclales	T	Histidine kinase	phoR	-	2.7.13.3	ko:K07636	ko02020,map02020	M00434	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	DUF3329,HATPase_c,HisKA,PAS_8
LYD3_k127_3459877_3	215803.DB30_5121	3.934e-05	46.0	COG1454@1|root,COG1454@2|Bacteria,1MVPH@1224|Proteobacteria,42YFS@68525|delta/epsilon subdivisions,2WUBM@28221|Deltaproteobacteria,2YU6D@29|Myxococcales	28221|Deltaproteobacteria	C	Iron-containing alcohol dehydrogenase	-	-	-	-	-	-	-	-	-	-	-	-	Fe-ADH
LYD3_k127_3466336_1	1123504.JQKD01000018_gene2020	2.461e-90	300.0	COG0411@1|root,COG0411@2|Bacteria,1MUTY@1224|Proteobacteria,2VJM6@28216|Betaproteobacteria,4A9JJ@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM ABC transporter related	livG	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_3466336_0	196367.JNFG01000019_gene4457	4.409e-137	442.0	COG4177@1|root,COG4177@2|Bacteria,1MV66@1224|Proteobacteria,2VH43@28216|Betaproteobacteria,1K3R4@119060|Burkholderiaceae	28216|Betaproteobacteria	P	Belongs to the binding-protein-dependent transport system permease family	livM	-	-	ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_3467203_8	1288494.EBAPG3_5960	5.235e-20	92.0	COG0631@1|root,COG0631@2|Bacteria,1MVE7@1224|Proteobacteria,2VIAV@28216|Betaproteobacteria	28216|Betaproteobacteria	T	protein phosphatase 2C domain protein	-	-	3.1.3.16	ko:K20074	-	-	-	-	ko00000,ko01000,ko01009	-	-	-	PP2C_2
LYD3_k127_3467203_7	1538295.JY96_09235	4.073e-33	145.0	COG1652@1|root,COG1652@2|Bacteria,1RJQP@1224|Proteobacteria,2VWKC@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Lysin motif	-	-	-	-	-	-	-	-	-	-	-	-	LysM
LYD3_k127_3467203_2	1288494.EBAPG3_5880	6.857e-91	313.0	COG0726@1|root,COG0726@2|Bacteria,1MVKH@1224|Proteobacteria,2VIWN@28216|Betaproteobacteria,372SU@32003|Nitrosomonadales	28216|Betaproteobacteria	G	Polysaccharide deacetylase	-	-	-	-	-	-	-	-	-	-	-	-	Polysacc_deac_1
LYD3_k127_3467203_0	1538295.JY96_09220	9.209e-158	514.0	COG0515@1|root,COG0515@2|Bacteria,1MV1P@1224|Proteobacteria,2VKJ8@28216|Betaproteobacteria,1KJ47@119065|unclassified Burkholderiales	28216|Betaproteobacteria	KLT	PFAM Protein kinase	-	-	2.7.11.1	ko:K11912,ko:K12132	ko02025,ko03070,map02025,map03070	-	-	-	ko00000,ko00001,ko01000,ko01001,ko02044	-	-	-	HAMP,Pkinase
LYD3_k127_3467203_6	292415.Tbd_2312	1.137e-37	145.0	COG0071@1|root,COG0071@2|Bacteria,1N1RF@1224|Proteobacteria,2VT18@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Belongs to the small heat shock protein (HSP20) family	-	-	-	ko:K13993	ko04141,map04141	-	-	-	ko00000,ko00001,ko03110	-	-	-	HSP20
LYD3_k127_3467203_5	1121933.AUHH01000003_gene1411	7.917e-38	149.0	2BAGV@1|root,323XF@2|Bacteria,2H8NT@201174|Actinobacteria	201174|Actinobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3467203_3	1095769.CAHF01000013_gene3212	7.636e-85	290.0	COG0730@1|root,COG0730@2|Bacteria,1R3V4@1224|Proteobacteria,2VKXN@28216|Betaproteobacteria,474AF@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Sulfite exporter TauE/SafE	-	-	-	ko:K07090	-	-	-	-	ko00000	-	-	-	TauE
LYD3_k127_3467203_4	595537.Varpa_3006	3.346e-71	248.0	COG0668@1|root,COG0668@2|Bacteria,1N2GE@1224|Proteobacteria,2WFQP@28216|Betaproteobacteria,4ABHJ@80864|Comamonadaceae	28216|Betaproteobacteria	M	PFAM Conserved TM helix repeat-containing protein	-	-	-	-	-	-	-	-	-	-	-	-	TM_helix
LYD3_k127_3467203_1	697282.Mettu_0569	3.456e-152	495.0	COG0366@1|root,COG3281@1|root,COG0366@2|Bacteria,COG3281@2|Bacteria,1MVKX@1224|Proteobacteria,1RMSH@1236|Gammaproteobacteria,1XGZE@135618|Methylococcales	135618|Methylococcales	G	Alpha-amylase domain	-	-	3.2.1.20	ko:K01187	ko00052,ko00500,ko01100,map00052,map00500,map01100	-	R00028,R00801,R00802,R06087,R06088	RC00028,RC00049,RC00077	ko00000,ko00001,ko01000	-	GH31	-	Alpha-amylase,Malt_amylase_C
LYD3_k127_3467294_0	105559.Nwat_2279	5.176e-310	956.0	COG0366@1|root,COG3281@1|root,COG0366@2|Bacteria,COG3281@2|Bacteria,1MVKX@1224|Proteobacteria,1RMSH@1236|Gammaproteobacteria,1WY9K@135613|Chromatiales	135613|Chromatiales	G	alpha amylase catalytic	-	-	3.2.1.1,5.4.99.16	ko:K05343	ko00500,ko01100,map00500,map01100	-	R01557,R02108,R02112,R11262	RC01816	ko00000,ko00001,ko01000	-	GH13	-	Alpha-amylase,Malt_amylase_C
LYD3_k127_3467294_1	62928.azo1726	2.522e-296	922.0	COG0366@1|root,COG0366@2|Bacteria,1MWBZ@1224|Proteobacteria,2VK9R@28216|Betaproteobacteria,2KYHA@206389|Rhodocyclales	206389|Rhodocyclales	F	Maltosyltransferase that uses maltose 1-phosphate (M1P) as the sugar donor to elongate linear or branched alpha-(1- 4)- glucans. Is involved in a branched alpha-glucan biosynthetic pathway from trehalose, together with TreS, Mak and GlgB	-	-	2.4.99.16	ko:K16147	ko00500,ko01100,map00500,map01100	-	R09994	-	ko00000,ko00001,ko01000	-	GH13	-	DUF3416
LYD3_k127_3467294_2	76114.ebA7003	4.335e-147	469.0	COG0296@1|root,COG0296@2|Bacteria,1QTVN@1224|Proteobacteria,2VGZZ@28216|Betaproteobacteria,2KUPD@206389|Rhodocyclales	206389|Rhodocyclales	G	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position	glgB	-	2.4.1.18	ko:K00700	ko00500,ko01100,ko01110,map00500,map01100,map01110	M00565	R02110	-	ko00000,ko00001,ko00002,ko01000,ko04147	-	CBM48,GH13	-	Alpha-amylase,Alpha-amylase_C,CBM_48
LYD3_k127_3470281_0	522306.CAP2UW1_3293	8.293e-151	479.0	COG0451@1|root,COG0451@2|Bacteria,1MXKV@1224|Proteobacteria,2VJV2@28216|Betaproteobacteria,1KQIG@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	GM	GDP-mannose 4,6 dehydratase	pmrIb	-	-	-	-	-	-	-	-	-	-	-	Epimerase
LYD3_k127_3470281_2	929713.NIASO_19145	6.574e-25	119.0	COG3548@1|root,COG3548@2|Bacteria	2|Bacteria	S	protein homotetramerization	-	-	-	-	-	-	-	-	-	-	-	-	DUF1211
LYD3_k127_3470281_1	1454004.AW11_03261	4.073e-109	366.0	COG0223@1|root,COG0223@2|Bacteria,1MWH1@1224|Proteobacteria,2VKAI@28216|Betaproteobacteria,1KQ9M@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	J	Formyl transferase, C-terminal domain	pmrIa	-	2.1.2.9	ko:K00604	ko00670,ko00970,map00670,map00970	-	R03940	RC00026,RC00165	ko00000,ko00001,ko01000	-	-	-	Formyl_trans_C,Formyl_trans_N
LYD3_k127_3470281_3	1120999.JONM01000005_gene3784	6.524e-13	72.0	COG0463@1|root,COG0463@2|Bacteria,1MWE5@1224|Proteobacteria,2VJ5G@28216|Betaproteobacteria,2KRG3@206351|Neisseriales	206351|Neisseriales	M	Glycosyltransferase like family 2	-	-	2.4.2.53	ko:K10012	ko00520,ko01503,map00520,map01503	M00721,M00761	R07661	RC00005,RC02954	ko00000,ko00001,ko00002,ko01000,ko01005,ko02000	4.D.2.1.8	GT2	-	Glycos_transf_2
LYD3_k127_3473646_1	397945.Aave_4694	2.548e-57	205.0	COG1881@1|root,COG1881@2|Bacteria,1N0Y4@1224|Proteobacteria,2VJ4C@28216|Betaproteobacteria,4ADIA@80864|Comamonadaceae	28216|Betaproteobacteria	S	Phosphatidylethanolamine-binding protein	bbsI	-	-	ko:K06910	-	-	-	-	ko00000	-	-	-	PBP
LYD3_k127_3473646_2	76114.ebA6536	3.844e-57	214.0	COG0625@1|root,COG0625@2|Bacteria,1N3UG@1224|Proteobacteria	1224|Proteobacteria	O	Glutathione S-transferase, N-terminal domain	-	-	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	GST_C,GST_C_2,GST_N_3
LYD3_k127_3473646_3	1123367.C666_00560	1.174e-11	71.0	2EDY7@1|root,337T3@2|Bacteria,1RKSZ@1224|Proteobacteria,2VTSJ@28216|Betaproteobacteria,2KWV4@206389|Rhodocyclales	206389|Rhodocyclales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3473646_0	85643.Tmz1t_3118	7.264e-87	293.0	COG0277@1|root,COG0277@2|Bacteria,1MU6Y@1224|Proteobacteria,2VH5A@28216|Betaproteobacteria,2KV7J@206389|Rhodocyclales	206389|Rhodocyclales	C	glycolate oxidase subunit GlcD	-	-	-	-	-	-	-	-	-	-	-	-	FAD-oxidase_C,FAD_binding_4
LYD3_k127_3481577_1	1198452.Jab_2c27440	2.448e-108	358.0	COG1914@1|root,COG1914@2|Bacteria,1MW6X@1224|Proteobacteria,2VK6I@28216|Betaproteobacteria,476SK@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Natural resistance-associated macrophage protein	-	-	-	-	-	-	-	-	-	-	-	-	Nramp
LYD3_k127_3481577_2	1247726.MIM_c29070	1.11e-62	224.0	COG3760@1|root,COG3760@2|Bacteria,1RDIG@1224|Proteobacteria,2WBP1@28216|Betaproteobacteria,3T8CW@506|Alcaligenaceae	28216|Betaproteobacteria	S	Aminoacyl-tRNA editing domain	-	-	-	ko:K19055	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	tRNA_edit
LYD3_k127_3481577_0	1038859.AXAU01000013_gene6552	1.597e-150	482.0	COG0111@1|root,COG0111@2|Bacteria,1MW0R@1224|Proteobacteria,2TWC9@28211|Alphaproteobacteria,3JVP3@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	EH	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain	-	-	1.1.1.399,1.1.1.95	ko:K00058	ko00260,ko00680,ko01100,ko01120,ko01130,ko01200,ko01230,map00260,map00680,map01100,map01120,map01130,map01200,map01230	M00020	R01513	RC00031	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	2-Hacid_dh,2-Hacid_dh_C
LYD3_k127_3482004_1	264198.Reut_B5873	8.741e-87	293.0	COG3842@1|root,COG3842@2|Bacteria,1MU3I@1224|Proteobacteria,2VHEJ@28216|Betaproteobacteria,1K2G7@119060|Burkholderiaceae	28216|Betaproteobacteria	P	Belongs to the ABC transporter superfamily	cysA2	-	3.6.3.30	ko:K02010	ko02010,map02010	M00190	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.10	-	-	ABC_tran,TOBE_2
LYD3_k127_3482004_0	887062.HGR_03522	3.783e-158	514.0	COG1840@1|root,COG1840@2|Bacteria,1MXZ8@1224|Proteobacteria,2VKTZ@28216|Betaproteobacteria,4AB2I@80864|Comamonadaceae	28216|Betaproteobacteria	P	TIGRFAM 2-aminoethylphosphonate ABC transport system, 1-aminoethylphosphonate-binding protein component	-	-	-	ko:K02012	ko02010,map02010	M00190	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.10	-	-	SBP_bac_6
LYD3_k127_3482004_2	1005048.CFU_0636	3.683e-64	228.0	COG1802@1|root,COG1802@2|Bacteria,1RE3J@1224|Proteobacteria,2VQMY@28216|Betaproteobacteria	28216|Betaproteobacteria	K	Transcriptional regulator	-	-	-	-	-	-	-	-	-	-	-	-	FCD,GntR
LYD3_k127_3482331_0	292415.Tbd_2360	7.855e-110	364.0	COG0617@1|root,COG1371@1|root,COG0617@2|Bacteria,COG1371@2|Bacteria,1MU2X@1224|Proteobacteria,2VIN5@28216|Betaproteobacteria,1KRHG@119069|Hydrogenophilales	119069|Hydrogenophilales	J	Probable RNA and SrmB- binding site of polymerase A	-	-	2.7.7.72	ko:K00974	ko03013,map03013	-	R09382,R09383,R09384,R09386	RC00078	ko00000,ko00001,ko01000,ko03016	-	-	-	Archease,HD,PolyA_pol,PolyA_pol_RNAbd
LYD3_k127_3482331_1	987059.RBXJA2T_01130	1.048e-69	246.0	COG2941@1|root,COG2941@2|Bacteria,1RAA1@1224|Proteobacteria,2VQRE@28216|Betaproteobacteria,1KKP3@119065|unclassified Burkholderiales	28216|Betaproteobacteria	H	Oxygenase that introduces the hydroxyl group at carbon five of 2-nonaprenyl-3-methyl-6-methoxy-1,4-benzoquinol resulting in the formation of 2-nonaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4- benzoquinol	coq7	-	-	ko:K06134	ko00130,ko01100,ko01110,map00130,map01100,map01110	M00128	R04984,R08775	RC01254	ko00000,ko00001,ko00002,ko01000	-	-	-	COQ7
LYD3_k127_3482331_3	264198.Reut_B5850	6.617e-44	176.0	COG3203@1|root,COG3203@2|Bacteria,1MWUN@1224|Proteobacteria,2VMU4@28216|Betaproteobacteria,1KGPF@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Gram-negative porin	-	-	-	-	-	-	-	-	-	-	-	-	Porin_4
LYD3_k127_3482331_2	1071679.BG57_02195	9.926e-63	229.0	COG0472@1|root,COG0472@2|Bacteria,1MWYW@1224|Proteobacteria,2VQW6@28216|Betaproteobacteria,1KGYA@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Glycosyl transferase, family 4	wbiH	-	-	ko:K13007	-	-	-	-	ko00000,ko01000,ko01003,ko01005	-	-	-	Glycos_transf_4
LYD3_k127_3482331_4	292415.Tbd_1871	3.081e-37	154.0	COG1086@1|root,COG1086@2|Bacteria,1MWKY@1224|Proteobacteria,2VHGF@28216|Betaproteobacteria,1KRIS@119069|Hydrogenophilales	119069|Hydrogenophilales	M	CoA-binding domain	-	-	-	-	-	-	-	-	-	-	-	-	CoA_binding_3,Polysacc_synt_2
LYD3_k127_3487871_3	1123073.KB899241_gene2973	6.03e-81	274.0	COG0179@1|root,COG0179@2|Bacteria,1MVFA@1224|Proteobacteria,1RN6Y@1236|Gammaproteobacteria,1X54M@135614|Xanthomonadales	135614|Xanthomonadales	Q	fumarylacetoacetate hydrolase	-	-	3.7.1.20	ko:K16165	ko00350,ko01100,ko01120,map00350,map01100,map01120	-	R01085	RC00326,RC00446	ko00000,ko00001,ko01000	-	-	-	FAA_hydrolase
LYD3_k127_3487871_4	604331.AUHY01000006_gene822	2.919e-69	249.0	COG0657@1|root,COG0657@2|Bacteria,1WMGU@1297|Deinococcus-Thermus	1297|Deinococcus-Thermus	I	alpha/beta hydrolase fold	-	-	3.5.1.9	ko:K01432	ko00380,ko00630,ko01100,map00380,map00630,map01100	M00038	R00988,R01959,R04911	RC00263,RC00323	ko00000,ko00001,ko00002,ko01000	-	-	-	Abhydrolase_3
LYD3_k127_3487871_11	1485544.JQKP01000003_gene115	2.069e-30	128.0	COG1309@1|root,COG1309@2|Bacteria,1NBKX@1224|Proteobacteria	1224|Proteobacteria	K	Transcriptional regulator	-	-	-	-	-	-	-	-	-	-	-	-	TetR_N
LYD3_k127_3487871_0	1266925.JHVX01000008_gene358	2.411e-155	504.0	COG0108@1|root,COG0807@1|root,COG0108@2|Bacteria,COG0807@2|Bacteria,1MU8P@1224|Proteobacteria,2VH6S@28216|Betaproteobacteria,371M0@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate	ribB	-	3.5.4.25,4.1.99.12	ko:K14652	ko00740,ko00790,ko01100,ko01110,map00740,map00790,map01100,map01110	M00125,M00840	R00425,R07281	RC00293,RC01792,RC01815,RC02504	ko00000,ko00001,ko00002,ko01000	-	-	-	DHBP_synthase,GTP_cyclohydro2
LYD3_k127_3487871_7	667632.KB890184_gene417	1.293e-45	171.0	COG0054@1|root,COG0054@2|Bacteria,1RD9J@1224|Proteobacteria,2VQGE@28216|Betaproteobacteria,1K1B3@119060|Burkholderiaceae	28216|Betaproteobacteria	H	Catalyzes the formation of 6,7-dimethyl-8- ribityllumazine by condensation of 5-amino-6-(D- ribitylamino)uracil with 3,4-dihydroxy-2-butanone 4-phosphate. This is the penultimate step in the biosynthesis of riboflavin	ribH	-	2.5.1.78	ko:K00794	ko00740,ko01100,ko01110,map00740,map01100,map01110	M00125	R04457	RC00960	ko00000,ko00001,ko00002,ko01000	-	-	-	DMRL_synthase
LYD3_k127_3487871_9	1265502.KB905943_gene2725	2.605e-39	153.0	COG0781@1|root,COG0781@2|Bacteria,1RHFZ@1224|Proteobacteria,2VSI6@28216|Betaproteobacteria,4ACUC@80864|Comamonadaceae	28216|Betaproteobacteria	K	Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons	nusB	-	-	ko:K03625	-	-	-	-	ko00000,ko03009,ko03021	-	-	-	NusB
LYD3_k127_3487871_2	1054213.HMPREF9946_03667	4.622e-93	319.0	COG1840@1|root,COG1840@2|Bacteria,1MXZ8@1224|Proteobacteria,2TT9W@28211|Alphaproteobacteria,2JZAF@204441|Rhodospirillales	204441|Rhodospirillales	P	Bacterial extracellular solute-binding protein	-	-	-	ko:K02012	ko02010,map02010	M00190	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.10	-	-	SBP_bac_6
LYD3_k127_3487871_1	76114.ebA3404	4.481e-101	339.0	COG0611@1|root,COG0611@2|Bacteria,1MU9X@1224|Proteobacteria,2VI0Q@28216|Betaproteobacteria,2KV5I@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the ATP-dependent phosphorylation of thiamine- monophosphate (TMP) to form thiamine-pyrophosphate (TPP), the active form of vitamin B1	thiL	-	2.7.4.16	ko:K00946	ko00730,ko01100,map00730,map01100	M00127	R00617	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	AIRS,AIRS_C
LYD3_k127_3487871_8	1288494.EBAPG3_7830	4.901e-43	170.0	COG1267@1|root,COG1267@2|Bacteria,1MZJA@1224|Proteobacteria,2VSP2@28216|Betaproteobacteria,3734R@32003|Nitrosomonadales	28216|Betaproteobacteria	I	Lipid phosphatase which dephosphorylates phosphatidylglycerophosphate (PGP) to phosphatidylglycerol (PG)	pgpA	-	3.1.3.27	ko:K01095	ko00564,ko01100,map00564,map01100	-	R02029	RC00017	ko00000,ko00001,ko01000	-	-	-	PgpA
LYD3_k127_3487871_10	983917.RGE_00590	2.953e-31	138.0	COG0454@1|root,COG0456@2|Bacteria,1N8AT@1224|Proteobacteria,2WE9A@28216|Betaproteobacteria	28216|Betaproteobacteria	K	FR47-like protein	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_3487871_5	85643.Tmz1t_0712	3.081e-55	202.0	COG1546@1|root,COG1546@2|Bacteria,1RH2Y@1224|Proteobacteria,2VSQF@28216|Betaproteobacteria,2KWIK@206389|Rhodocyclales	206389|Rhodocyclales	S	Belongs to the CinA family	-	-	3.5.1.42	ko:K03743	ko00760,map00760	-	R02322	RC00100	ko00000,ko00001,ko01000	-	-	-	CinA
LYD3_k127_3487871_6	1120999.JONM01000001_gene1288	3.911e-46	169.0	COG0468@1|root,COG0468@2|Bacteria,1MU3C@1224|Proteobacteria,2VHNA@28216|Betaproteobacteria,2KQ25@206351|Neisseriales	206351|Neisseriales	L	Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage	recA	-	-	ko:K03553	ko03440,map03440	M00729	-	-	ko00000,ko00001,ko00002,ko03400	-	-	-	RecA
LYD3_k127_3489084_5	1380394.JADL01000003_gene5079	3.707e-93	312.0	COG4177@1|root,COG4177@2|Bacteria,1MWP3@1224|Proteobacteria,2TR99@28211|Alphaproteobacteria,2JPQ6@204441|Rhodospirillales	204441|Rhodospirillales	E	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_3489084_2	426117.M446_3243	7.759e-145	464.0	COG0559@1|root,COG0559@2|Bacteria,1MY1E@1224|Proteobacteria,2TSIQ@28211|Alphaproteobacteria,1JRP0@119045|Methylobacteriaceae	28211|Alphaproteobacteria	E	Branched-chain amino acid transport system / permease component	-	-	-	ko:K01997	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_3489084_1	1100720.ALKN01000033_gene730	3.184e-195	617.0	COG0683@1|root,COG0683@2|Bacteria,1MUCB@1224|Proteobacteria,2VHXC@28216|Betaproteobacteria,4AB9R@80864|Comamonadaceae	28216|Betaproteobacteria	E	Extracellular ligand-binding receptor	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_3489084_3	1211115.ALIQ01000237_gene2514	1.059e-115	377.0	COG0410@1|root,COG0410@2|Bacteria,1MUR3@1224|Proteobacteria,2TSWQ@28211|Alphaproteobacteria,3NC02@45404|Beijerinckiaceae	28211|Alphaproteobacteria	E	ATPases associated with a variety of cellular activities	-	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran
LYD3_k127_3489084_4	1211115.ALIQ01000237_gene2515	3.823e-107	353.0	COG0411@1|root,COG0411@2|Bacteria,1MX51@1224|Proteobacteria,2TTCE@28211|Alphaproteobacteria,3NC5J@45404|Beijerinckiaceae	28211|Alphaproteobacteria	E	Branched-chain amino acid ATP-binding cassette transporter	-	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_3489084_0	85643.Tmz1t_2648	4.733e-229	730.0	COG2176@1|root,COG2176@2|Bacteria,1QUVW@1224|Proteobacteria,2VHZ3@28216|Betaproteobacteria,2KUQR@206389|Rhodocyclales	206389|Rhodocyclales	L	DNA polymerase III	-	-	2.7.7.7	ko:K02342	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	RNase_T
LYD3_k127_3489084_7	296591.Bpro_4150	1.833e-49	179.0	COG0745@1|root,COG0745@2|Bacteria,1RHCU@1224|Proteobacteria,2VT7U@28216|Betaproteobacteria,4AEF6@80864|Comamonadaceae	28216|Betaproteobacteria	T	Response regulator receiver domain	-	-	-	-	-	-	-	-	-	-	-	-	Response_reg
LYD3_k127_3489084_6	1454004.AW11_01100	8.956e-70	241.0	COG0591@1|root,COG0642@1|root,COG0591@2|Bacteria,COG2205@2|Bacteria,1MUY7@1224|Proteobacteria,2VKRS@28216|Betaproteobacteria	28216|Betaproteobacteria	T	histidine kinase A domain protein	-	-	-	-	-	-	-	-	-	-	-	-	HATPase_c,HisKA,PAS_7,Response_reg
LYD3_k127_3514697_0	1038867.AXAY01000010_gene966	1.13e-217	689.0	COG3333@1|root,COG3333@2|Bacteria,1MUKR@1224|Proteobacteria,2TR4Q@28211|Alphaproteobacteria,3JT7G@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Tripartite tricarboxylate transporter TctA family	MA20_43210	-	-	ko:K07793	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.80.1	-	-	TctA
LYD3_k127_3514697_3	1380355.JNIJ01000011_gene837	6.563e-74	254.0	2BKYI@1|root,32FF5@2|Bacteria,1MY1A@1224|Proteobacteria,2U1KI@28211|Alphaproteobacteria,3JRGN@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Tripartite tricarboxylate transporter TctB family	-	-	-	-	-	-	-	-	-	-	-	-	TctB
LYD3_k127_3514697_1	1380355.JNIJ01000011_gene838	2.879e-176	572.0	COG3181@1|root,COG3181@2|Bacteria,1MXEX@1224|Proteobacteria,2TT5Y@28211|Alphaproteobacteria,3JUU2@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	MA20_43200	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_3514697_2	94624.Bpet4354	2.433e-128	421.0	COG1024@1|root,COG1024@2|Bacteria,1MXBB@1224|Proteobacteria,2VICM@28216|Betaproteobacteria,3T393@506|Alcaligenaceae	28216|Betaproteobacteria	I	enoyl-CoA hydratase	-	-	-	-	-	-	-	-	-	-	-	-	ECH_1
LYD3_k127_3514697_4	1007105.PT7_1569	9.166e-46	179.0	COG1804@1|root,COG1804@2|Bacteria,1MU2K@1224|Proteobacteria,2VJJD@28216|Betaproteobacteria,3T2PV@506|Alcaligenaceae	28216|Betaproteobacteria	C	CoA-transferase family III	-	-	2.8.3.16	ko:K07749	-	-	-	-	ko00000,ko01000	-	-	-	CoA_transf_3
LYD3_k127_3520663_7	497321.C664_02660	6.484e-27	111.0	COG2885@1|root,COG2885@2|Bacteria,1N6EM@1224|Proteobacteria,2VM27@28216|Betaproteobacteria,2KW20@206389|Rhodocyclales	206389|Rhodocyclales	M	Belongs to the ompA family	-	-	-	ko:K03286	-	-	-	-	ko00000,ko02000	1.B.6	-	-	OmpA
LYD3_k127_3520663_5	159087.Daro_1552	1.361e-43	167.0	COG0810@1|root,COG0810@2|Bacteria,1MZQW@1224|Proteobacteria,2VU0N@28216|Betaproteobacteria,2KWXI@206389|Rhodocyclales	206389|Rhodocyclales	M	Chalcone isomerase-like	-	-	-	-	-	-	-	-	-	-	-	-	Chalcone_3
LYD3_k127_3520663_0	365046.Rta_02380	3.999e-135	441.0	2C7F6@1|root,2Z8AK@2|Bacteria,1PEE5@1224|Proteobacteria,2VKQ6@28216|Betaproteobacteria,4ABA6@80864|Comamonadaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3520663_8	69395.JQLZ01000002_gene1078	5.178e-16	87.0	2E902@1|root,3339H@2|Bacteria,1N9U6@1224|Proteobacteria,2UFG4@28211|Alphaproteobacteria,2KH8D@204458|Caulobacterales	204458|Caulobacterales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3520663_6	1123368.AUIS01000003_gene1841	4.035e-33	132.0	COG4783@1|root,COG4783@2|Bacteria,1N76P@1224|Proteobacteria,1T4CE@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Tetratricopeptide repeat	-	-	-	-	-	-	-	-	-	-	-	-	TPR_16
LYD3_k127_3520663_4	864051.BurJ1DRAFT_2481	6.729e-70	239.0	COG0328@1|root,COG0328@2|Bacteria,1RCZ1@1224|Proteobacteria,2VR4W@28216|Betaproteobacteria,1KKSW@119065|unclassified Burkholderiales	28216|Betaproteobacteria	L	Endonuclease that specifically degrades the RNA of RNA- DNA hybrids	rnhA	-	3.1.26.4	ko:K03469	ko03030,map03030	-	-	-	ko00000,ko00001,ko01000,ko03032	-	-	-	RNase_H
LYD3_k127_3520663_3	292415.Tbd_1664	1.773e-75	263.0	COG0500@1|root,COG2226@2|Bacteria,1QTWC@1224|Proteobacteria,2VQ89@28216|Betaproteobacteria,1KRS7@119069|Hydrogenophilales	119069|Hydrogenophilales	Q	Methyltransferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_11
LYD3_k127_3520663_1	1485544.JQKP01000004_gene542	8.526e-125	420.0	COG0741@1|root,COG0741@2|Bacteria,1MWKE@1224|Proteobacteria,2VIR7@28216|Betaproteobacteria,44V2P@713636|Nitrosomonadales	28216|Betaproteobacteria	M	LysM domain	mltD	-	-	ko:K08307	-	-	-	-	ko00000,ko01000,ko01011	-	-	-	LysM,SLT
LYD3_k127_3520663_2	85643.Tmz1t_0830	1.521e-90	302.0	COG0019@1|root,COG0019@2|Bacteria,1MUA6@1224|Proteobacteria,2VI3M@28216|Betaproteobacteria,2KVC9@206389|Rhodocyclales	206389|Rhodocyclales	E	Specifically catalyzes the decarboxylation of meso- diaminopimelate (meso-DAP) to L-lysine	lysA	-	4.1.1.20	ko:K01586	ko00300,ko01100,ko01110,ko01120,ko01130,ko01230,map00300,map01100,map01110,map01120,map01130,map01230	M00016,M00525,M00526,M00527	R00451	RC00299	ko00000,ko00001,ko00002,ko01000	-	-	-	Orn_Arg_deC_N,Orn_DAP_Arg_deC
LYD3_k127_3525395_2	1000565.METUNv1_03362	4.461e-124	416.0	2ESTR@1|root,33KC5@2|Bacteria,1NHBB@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3525395_0	1500894.JQNN01000001_gene675	4.046e-152	492.0	COG0709@1|root,COG0709@2|Bacteria,1MWFG@1224|Proteobacteria,2VJSD@28216|Betaproteobacteria,4732T@75682|Oxalobacteraceae	28216|Betaproteobacteria	H	Synthesizes selenophosphate from selenide and ATP	selD	-	2.7.9.3	ko:K01008	ko00450,ko01100,map00450,map01100	-	R03595	RC00002,RC02878	ko00000,ko00001,ko01000,ko03016	-	-	-	AIRS,AIRS_C
LYD3_k127_3525395_3	398767.Glov_0956	1.044e-88	309.0	2AAQ3@1|root,31026@2|Bacteria,1PN2B@1224|Proteobacteria,4313Y@68525|delta/epsilon subdivisions,2WWKT@28221|Deltaproteobacteria	28221|Deltaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3525395_1	1187851.A33M_4207	7.298e-145	466.0	COG0543@1|root,COG0543@2|Bacteria	2|Bacteria	C	2 iron, 2 sulfur cluster binding	gltA	-	1.18.1.2,1.19.1.1,1.4.1.13,1.4.1.14	ko:K00266,ko:K00528,ko:K02823	ko00240,ko00250,ko00910,ko01100,ko01110,ko01120,ko01130,ko01230,map00240,map00250,map00910,map01100,map01110,map01120,map01130,map01230	-	R00093,R00114,R00248,R10159	RC00006,RC00010,RC02799	ko00000,ko00001,ko01000	-	-	-	DHODB_Fe-S_bind,FAD_binding_6,Fer4_20,NAD_binding_1,Pyr_redox_2
LYD3_k127_3525395_4	1187851.A33M_4208	9.062e-29	123.0	COG0493@1|root,COG0493@2|Bacteria,1MU2H@1224|Proteobacteria,2TSE2@28211|Alphaproteobacteria,3FCY5@34008|Rhodovulum	28211|Alphaproteobacteria	E	Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster	-	-	-	-	-	-	-	-	-	-	-	-	DHODB_Fe-S_bind,Fer4_20,Pyr_redox_2
LYD3_k127_3543523_2	1223521.BBJX01000004_gene2511	1.405e-15	83.0	COG2823@1|root,COG2823@2|Bacteria,1RITC@1224|Proteobacteria,2VSSR@28216|Betaproteobacteria,4AEQX@80864|Comamonadaceae	28216|Betaproteobacteria	S	BON domain	-	-	-	-	-	-	-	-	-	-	-	-	BON
LYD3_k127_3543523_1	292415.Tbd_1055	4.791e-59	224.0	COG0500@1|root,COG2226@2|Bacteria,1N0SX@1224|Proteobacteria,2VTFD@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	Methyltransferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_23
LYD3_k127_3543523_0	1038869.AXAN01000010_gene5155	3.056e-165	527.0	COG2079@1|root,COG2079@2|Bacteria,1R5UM@1224|Proteobacteria,2VI2F@28216|Betaproteobacteria,1K248@119060|Burkholderiaceae	28216|Betaproteobacteria	S	MmgE PrpD family protein	-	-	-	-	-	-	-	-	-	-	-	-	MmgE_PrpD
LYD3_k127_3544466_3	870187.Thini_2405	3.734e-75	257.0	COG1014@1|root,COG1014@2|Bacteria,1N12F@1224|Proteobacteria,1S7UK@1236|Gammaproteobacteria	1236|Gammaproteobacteria	C	2-oxoacid acceptor oxidoreductase, gamma subunit, pyruvate 2-ketoisovalerate	-	-	1.2.7.1	ko:K00172	ko00010,ko00020,ko00620,ko00633,ko00640,ko00650,ko00680,ko00720,ko01100,ko01120,ko01130,ko01200,map00010,map00020,map00620,map00633,map00640,map00650,map00680,map00720,map01100,map01120,map01130,map01200	M00173,M00307,M00374,M00620	R01196,R01199,R08034	RC00004,RC00250,RC02742,RC02833	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	POR
LYD3_k127_3544466_1	395495.Lcho_2150	2.487e-193	613.0	COG0674@1|root,COG0674@2|Bacteria,1MVM0@1224|Proteobacteria,2VJSA@28216|Betaproteobacteria,1KK3S@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	Pyruvate:ferredoxin oxidoreductase core domain II	porA	-	1.2.7.1	ko:K00169	ko00010,ko00020,ko00620,ko00633,ko00640,ko00650,ko00680,ko00720,ko01100,ko01120,ko01130,ko01200,map00010,map00020,map00620,map00633,map00640,map00650,map00680,map00720,map01100,map01120,map01130,map01200	M00173,M00307,M00374,M00620	R01196,R01199,R08034	RC00004,RC00250,RC02742,RC02833	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	PFOR_II,POR_N
LYD3_k127_3544466_2	338969.Rfer_2185	1.094e-169	539.0	COG1013@1|root,COG1013@2|Bacteria,1MUY9@1224|Proteobacteria,2VKQX@28216|Betaproteobacteria,4AH00@80864|Comamonadaceae	28216|Betaproteobacteria	C	Thiamine pyrophosphate enzyme, C-terminal TPP binding domain	porB	-	1.2.1.58,1.2.7.1	ko:K00170,ko:K18356	ko00010,ko00020,ko00360,ko00620,ko00633,ko00640,ko00650,ko00680,ko00720,ko01100,ko01120,ko01130,ko01200,map00010,map00020,map00360,map00620,map00633,map00640,map00650,map00680,map00720,map01100,map01120,map01130,map01200	M00173,M00307,M00374,M00620	R01196,R01199,R02450,R08034	RC00004,RC00250,RC02742,RC02833,RC02860	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Fer4_11,Fer4_6,TPP_enzyme_C
LYD3_k127_3544466_0	864051.BurJ1DRAFT_4547	6.43e-200	645.0	COG0493@1|root,COG1144@1|root,COG0493@2|Bacteria,COG1144@2|Bacteria,1MU2H@1224|Proteobacteria,2VM9R@28216|Betaproteobacteria,1KKEG@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	NADPH-dependent glutamate synthase beta	-	-	-	-	-	-	-	-	-	-	-	-	Fer4,Fer4_20,Pyr_redox_2,Pyr_redox_3
LYD3_k127_3547_0	339670.Bamb_4568	2.37e-101	350.0	COG5373@1|root,COG5373@2|Bacteria,1N08V@1224|Proteobacteria,2VKJT@28216|Betaproteobacteria,1K158@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Predicted membrane protein (DUF2339)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2339
LYD3_k127_3547_1	279714.FuraDRAFT_2221	2.946e-89	299.0	COG0204@1|root,COG0204@2|Bacteria,1MWDY@1224|Proteobacteria,2VJ4I@28216|Betaproteobacteria,2KPYV@206351|Neisseriales	206351|Neisseriales	I	Transporter, major facilitator family protein	-	-	-	-	-	-	-	-	-	-	-	-	Acyltransferase,MFS_1
LYD3_k127_3555777_1	580332.Slit_0924	1.334e-116	380.0	COG0574@1|root,COG1080@1|root,COG0574@2|Bacteria,COG1080@2|Bacteria,1MU0R@1224|Proteobacteria,2VJK5@28216|Betaproteobacteria	28216|Betaproteobacteria	G	pyruvate phosphate dikinase	ppdK	-	2.7.9.1,2.7.9.2	ko:K01006,ko:K01007	ko00620,ko00680,ko00710,ko00720,ko01100,ko01120,ko01200,map00620,map00680,map00710,map00720,map01100,map01120,map01200	M00169,M00171,M00172,M00173,M00374	R00199,R00206	RC00002,RC00015	ko00000,ko00001,ko00002,ko01000	-	-	-	PEP-utilizers,PEP-utilizers_C,PPDK_N
LYD3_k127_3555777_0	648757.Rvan_1133	3.525e-155	504.0	COG1523@1|root,COG1640@1|root,COG1523@2|Bacteria,COG1640@2|Bacteria,1MU19@1224|Proteobacteria,2TRVS@28211|Alphaproteobacteria,3N6M1@45401|Hyphomicrobiaceae	28211|Alphaproteobacteria	G	Carbohydrate-binding module 48 (Isoamylase N-terminal domain)	-	-	3.2.1.196	ko:K02438	ko00500,ko01100,map00500,map01100	-	R02111	-	ko00000,ko00001,ko01000	-	CBM48,GH13	-	Alpha-amylase,CBM_48,Glyco_hydro_77
LYD3_k127_356564_1	639283.Snov_0473	2.443e-79	269.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2TR2W@28211|Alphaproteobacteria,3EXX8@335928|Xanthobacteraceae	28211|Alphaproteobacteria	IQ	PFAM AMP-dependent synthetase and ligase	-	-	-	ko:K18661	ko00280,map00280	-	R03383	RC00004,RC00137	ko00000,ko00001,ko01000	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_356564_2	76114.ebA6535	1.897e-59	211.0	COG2606@1|root,COG2606@2|Bacteria,1N10Y@1224|Proteobacteria,2VRXM@28216|Betaproteobacteria,2KYQK@206389|Rhodocyclales	206389|Rhodocyclales	S	Aminoacyl-tRNA editing domain	-	-	-	ko:K19055	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	tRNA_edit
LYD3_k127_356564_4	1229205.BUPH_04525	1.218e-10	66.0	COG0491@1|root,COG0491@2|Bacteria,1NMU0@1224|Proteobacteria,2W825@28216|Betaproteobacteria,1K57H@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Metallo-beta-lactamase superfamily	-	-	-	-	-	-	-	-	-	-	-	-	Fer4_13,Lactamase_B_5
LYD3_k127_356564_3	1266925.JHVX01000008_gene305	5.067e-53	203.0	COG0212@1|root,COG0212@2|Bacteria,1MZG0@1224|Proteobacteria,2VJZE@28216|Betaproteobacteria,372VK@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family	fthC	-	6.3.3.2	ko:K01934	ko00670,ko01100,map00670,map01100	-	R02301	RC00183	ko00000,ko00001,ko01000	-	-	-	5-FTHF_cyc-lig
LYD3_k127_356564_0	388051.AUFE01000015_gene5960	1.416e-142	459.0	COG0583@1|root,COG0583@2|Bacteria,1MWVU@1224|Proteobacteria,2VJJH@28216|Betaproteobacteria,1JZPR@119060|Burkholderiaceae	28216|Betaproteobacteria	K	Transcriptional regulator	-	-	-	ko:K21703	-	-	-	-	ko00000,ko03000	-	-	-	HTH_1,LysR_substrate
LYD3_k127_3580584_2	1244869.H261_09869	2.63e-09	64.0	COG1894@1|root,COG1905@1|root,COG1894@2|Bacteria,COG1905@2|Bacteria,1MV8F@1224|Proteobacteria,2TR1V@28211|Alphaproteobacteria,2JQZQ@204441|Rhodospirillales	204441|Rhodospirillales	C	COG1905 NADH ubiquinone oxidoreductase 24 kD subunit	-	-	1.12.1.2	ko:K00124,ko:K18005	ko00630,ko00680,ko01100,ko01120,ko01200,map00630,map00680,map01100,map01120,map01200	-	R00519	RC02796	ko00000,ko00001,ko01000	-	-	-	2Fe-2S_thioredx,Complex1_51K,NADH_4Fe-4S
LYD3_k127_3580584_1	1121033.AUCF01000012_gene850	1.539e-74	260.0	28I53@1|root,2Z88I@2|Bacteria,1NE5N@1224|Proteobacteria,2TTBB@28211|Alphaproteobacteria,2JSU5@204441|Rhodospirillales	204441|Rhodospirillales	S	Protein of unknown function (DUF3750)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3750
LYD3_k127_3580584_0	1122604.JONR01000032_gene71	1.863e-149	486.0	28HD5@1|root,2Z7PV@2|Bacteria,1R46T@1224|Proteobacteria,1T5SW@1236|Gammaproteobacteria	1236|Gammaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3588949_1	397945.Aave_2513	2.025e-178	563.0	COG4799@1|root,COG4799@2|Bacteria,1MVAX@1224|Proteobacteria,2VIYF@28216|Betaproteobacteria,4AAS7@80864|Comamonadaceae	28216|Betaproteobacteria	I	PFAM carboxyl transferase	pccB	-	2.1.3.15,6.4.1.3	ko:K01966	ko00280,ko00630,ko00640,ko01100,ko01120,ko01130,ko01200,map00280,map00630,map00640,map01100,map01120,map01130,map01200	M00373,M00741	R01859	RC00097,RC00609	ko00000,ko00001,ko00002,ko01000	-	-	-	Carboxyl_trans
LYD3_k127_3588949_2	522306.CAP2UW1_1138	2.503e-123	410.0	COG1703@1|root,COG1703@2|Bacteria,1MVI0@1224|Proteobacteria,2VIRF@28216|Betaproteobacteria,1KQJP@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	E	ArgK protein	argK	-	-	ko:K07588	-	-	-	-	ko00000,ko01000	-	-	-	ArgK
LYD3_k127_3588949_0	1265502.KB905940_gene2971	5.484e-293	906.0	COG1884@1|root,COG2185@1|root,COG1884@2|Bacteria,COG2185@2|Bacteria,1MUXX@1224|Proteobacteria,2VIT2@28216|Betaproteobacteria,4AA6N@80864|Comamonadaceae	28216|Betaproteobacteria	I	Methylmalonyl-CoA mutase large subunit	icmF	-	5.4.99.2	ko:K01847	ko00280,ko00630,ko00640,ko00720,ko01100,ko01120,ko01200,map00280,map00630,map00640,map00720,map01100,map01120,map01200	M00373,M00376,M00741	R00833	RC00395	ko00000,ko00001,ko00002,ko01000	-	-	-	B12-binding,MM_CoA_mutase
LYD3_k127_3590271_2	1380394.JADL01000002_gene1394	3.181e-208	654.0	COG0006@1|root,COG0006@2|Bacteria,1MVX5@1224|Proteobacteria,2TRMK@28211|Alphaproteobacteria,2JT4J@204441|Rhodospirillales	204441|Rhodospirillales	E	Metallopeptidase family M24	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_M24
LYD3_k127_3590271_9	1244869.H261_19908	1.954e-112	371.0	COG2084@1|root,COG2084@2|Bacteria,1P0X0@1224|Proteobacteria,2U2X9@28211|Alphaproteobacteria,2JTJW@204441|Rhodospirillales	204441|Rhodospirillales	I	NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase	-	-	-	-	-	-	-	-	-	-	-	-	NAD_binding_11,NAD_binding_2
LYD3_k127_3590271_10	977880.RALTA_B1405	2.404e-104	348.0	COG3181@1|root,COG3181@2|Bacteria	2|Bacteria	E	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_3590271_6	595537.Varpa_2577	7.58e-124	404.0	COG3181@1|root,COG3181@2|Bacteria,1R4FY@1224|Proteobacteria,2W0CX@28216|Betaproteobacteria,4AH9C@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_3590271_3	1218076.BAYB01000022_gene3873	7.316e-139	452.0	COG2828@1|root,COG2828@2|Bacteria,1MXVV@1224|Proteobacteria,2VJAW@28216|Betaproteobacteria,1K42I@119060|Burkholderiaceae	28216|Betaproteobacteria	S	PrpF protein	fldA	-	5.3.2.8	ko:K16514	ko00362,ko01120,map00362,map01120	-	R07839	RC02426	ko00000,ko00001,ko01000	-	-	-	PrpF,TctC
LYD3_k127_3590271_7	742159.HMPREF0004_4029	2.212e-118	384.0	COG2120@1|root,COG2120@2|Bacteria,1PE5I@1224|Proteobacteria,2WC3P@28216|Betaproteobacteria,3T66Y@506|Alcaligenaceae	28216|Betaproteobacteria	S	GlcNAc-PI de-N-acetylase	-	-	4.2.1.83	ko:K16515	ko00362,map00362	-	R04478	RC00498	ko00000,ko00001,ko01000	-	-	-	PIG-L
LYD3_k127_3590271_11	1028801.RG1141_CH37840	1.268e-84	299.0	COG0684@1|root,COG0684@2|Bacteria,1MW9P@1224|Proteobacteria,2TTGT@28211|Alphaproteobacteria,4B9GM@82115|Rhizobiaceae	28211|Alphaproteobacteria	H	Aldolase/RraA	ligK	-	4.1.3.17	ko:K02553,ko:K10218	ko00362,ko00660,ko01120,map00362,map00660,map01120	-	R00008,R00350	RC00067,RC00502,RC01205	ko00000,ko00001,ko01000,ko03019	-	-	-	RraA-like
LYD3_k127_3590271_1	497321.C664_15668	7.744e-217	680.0	COG3384@1|root,COG3384@2|Bacteria,1MW77@1224|Proteobacteria,2VI4U@28216|Betaproteobacteria	28216|Betaproteobacteria	S	PFAM Extradiol ring-cleavage dioxygenase class III protein subunit B	ligB	-	1.13.11.57	ko:K04099	ko00627,ko01120,map00627,map01120	-	R03550,R04280,R09565	RC00233,RC00535,RC02567,RC02694	ko00000,ko00001,ko01000	-	-	-	LigA,LigB
LYD3_k127_3590271_8	614083.AWQR01000028_gene3145	1.19e-116	388.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VHK8@28216|Betaproteobacteria,4A9R8@80864|Comamonadaceae	28216|Betaproteobacteria	S	PFAM conserved	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_3590271_14	62928.azo2540	5.24e-82	284.0	COG2084@1|root,COG2084@2|Bacteria,1MX8V@1224|Proteobacteria,2VMCM@28216|Betaproteobacteria	28216|Betaproteobacteria	I	Dehydrogenase	-	-	1.1.1.31	ko:K00020	ko00280,ko01100,map00280,map01100	-	R05066	RC00099	ko00000,ko00001,ko01000	-	-	-	DUF1932,NAD_binding_2
LYD3_k127_3590271_5	264198.Reut_A0255	6.763e-126	410.0	COG1250@1|root,COG1250@2|Bacteria,1MU9P@1224|Proteobacteria,2VGZU@28216|Betaproteobacteria,1K0VY@119060|Burkholderiaceae	28216|Betaproteobacteria	I	Dehydrogenase	paaH1	-	1.1.1.157	ko:K00074	ko00360,ko00362,ko00650,ko01100,ko01120,map00360,map00362,map00650,map01100,map01120	-	R01976,R05576,R06941	RC00029,RC00117	ko00000,ko00001,ko01000	-	-	-	3HCDH,3HCDH_N
LYD3_k127_3590271_12	76114.ebA2092	2.036e-84	306.0	COG1703@1|root,COG1975@1|root,COG1703@2|Bacteria,COG1975@2|Bacteria,1MVI0@1224|Proteobacteria,2VIRF@28216|Betaproteobacteria,2KVDF@206389|Rhodocyclales	28216|Betaproteobacteria	E	periplasmic protein kinase ArgK and related GTPases of G3E family	-	-	-	ko:K07588	-	-	-	-	ko00000,ko01000	-	-	-	ArgK
LYD3_k127_3590271_0	110319.CF8_0950	1.494e-229	725.0	COG1884@1|root,COG1884@2|Bacteria,2GM65@201174|Actinobacteria,4DPNX@85009|Propionibacteriales	201174|Actinobacteria	I	Methylmalonyl-CoA mutase	-	-	5.4.99.2	ko:K01848	ko00280,ko00630,ko00640,ko00720,ko01100,ko01120,ko01200,map00280,map00630,map00640,map00720,map01100,map01120,map01200	M00375,M00376,M00741	R00833	RC00395	ko00000,ko00001,ko00002,ko01000	-	-	-	MM_CoA_mutase
LYD3_k127_3590271_16	78245.Xaut_5044	3.984e-50	181.0	COG2185@1|root,COG2185@2|Bacteria,1NVW6@1224|Proteobacteria,2US8B@28211|Alphaproteobacteria	28211|Alphaproteobacteria	I	B12 binding domain	-	GO:0003674,GO:0003824,GO:0005488,GO:0006139,GO:0006163,GO:0006637,GO:0006725,GO:0006732,GO:0006753,GO:0006790,GO:0006793,GO:0006796,GO:0006807,GO:0008144,GO:0008150,GO:0008152,GO:0009117,GO:0009150,GO:0009259,GO:0009987,GO:0016853,GO:0016866,GO:0019637,GO:0019693,GO:0019842,GO:0031419,GO:0033865,GO:0033875,GO:0034032,GO:0034641,GO:0034784,GO:0035383,GO:0036094,GO:0043603,GO:0044237,GO:0044238,GO:0044281,GO:0046483,GO:0046906,GO:0048037,GO:0051186,GO:0055086,GO:0071704,GO:0072521,GO:0097159,GO:1901135,GO:1901360,GO:1901363,GO:1901564	5.4.99.2	ko:K01849	ko00280,ko00630,ko00640,ko00720,ko01100,ko01120,ko01200,map00280,map00630,map00640,map00720,map01100,map01120,map01200	M00375,M00376,M00741	R00833	RC00395	ko00000,ko00001,ko00002,ko01000	-	-	-	B12-binding
LYD3_k127_3590271_15	1354722.JQLS01000004_gene4225	2.443e-51	188.0	COG1309@1|root,COG1309@2|Bacteria,1N2QP@1224|Proteobacteria,2UD2J@28211|Alphaproteobacteria	28211|Alphaproteobacteria	K	transcriptional regulator	-	-	-	-	-	-	-	-	-	-	-	-	TetR_N
LYD3_k127_3590271_13	640081.Dsui_1107	3.748e-83	288.0	COG0664@1|root,COG0664@2|Bacteria,1MUHT@1224|Proteobacteria,2VI43@28216|Betaproteobacteria,2KY92@206389|Rhodocyclales	206389|Rhodocyclales	K	Cyclic nucleotide-monophosphate binding domain	-	-	-	-	-	-	-	-	-	-	-	-	HTH_Crp_2,cNMP_binding
LYD3_k127_3590271_4	640081.Dsui_1108	2.365e-126	408.0	COG1022@1|root,COG1022@2|Bacteria,1MU4D@1224|Proteobacteria,2VI0U@28216|Betaproteobacteria,2KV98@206389|Rhodocyclales	206389|Rhodocyclales	I	AMP-dependent synthetase and ligase	-	-	6.2.1.3	ko:K01897	ko00061,ko00071,ko01100,ko01212,ko02024,ko03320,ko04146,ko04216,ko04714,ko04920,map00061,map00071,map01100,map01212,map02024,map03320,map04146,map04216,map04714,map04920	M00086	R01280	RC00004,RC00014	ko00000,ko00001,ko00002,ko01000,ko01004,ko04147	4.C.1.1	-	-	AMP-binding
LYD3_k127_3590908_0	1163617.SCD_n00511	3.604e-151	484.0	COG0317@1|root,COG0317@2|Bacteria,1MU44@1224|Proteobacteria,2VIA1@28216|Betaproteobacteria	28216|Betaproteobacteria	KT	In eubacteria ppGpp (guanosine 3'-diphosphate 5-' diphosphate) is a mediator of the stringent response that coordinates a variety of cellular activities in response to changes in nutritional abundance	spoT	-	2.7.6.5,3.1.7.2	ko:K01139	ko00230,map00230	-	R00336,R00429	RC00002,RC00078	ko00000,ko00001,ko01000,ko03009	-	-	-	ACT_4,HD_4,RelA_SpoT,TGS
LYD3_k127_3590908_3	1123487.KB892868_gene1248	2.156e-27	111.0	COG1758@1|root,COG1758@2|Bacteria,1N6TX@1224|Proteobacteria,2VVUH@28216|Betaproteobacteria,2KX71@206389|Rhodocyclales	206389|Rhodocyclales	K	Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits	rpoZ	-	2.7.7.6	ko:K03060	ko00230,ko00240,ko01100,ko03020,map00230,map00240,map01100,map03020	M00183	R00435,R00441,R00442,R00443	RC02795	br01611,ko00000,ko00001,ko00002,ko01000,ko03021,ko03400	-	-	-	RNA_pol_Rpb6
LYD3_k127_3590908_1	1304883.KI912532_gene1162	1.985e-72	250.0	COG0194@1|root,COG0194@2|Bacteria,1MW92@1224|Proteobacteria,2VPCK@28216|Betaproteobacteria,2KVFX@206389|Rhodocyclales	206389|Rhodocyclales	F	Essential for recycling GMP and indirectly, cGMP	gmk	-	2.7.4.8	ko:K00942	ko00230,ko01100,map00230,map01100	M00050	R00332,R02090	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	Guanylate_kin
LYD3_k127_3590908_2	748280.NH8B_0515	2.108e-48	177.0	COG1561@1|root,COG1561@2|Bacteria,1MWRA@1224|Proteobacteria,2VIFC@28216|Betaproteobacteria,2KPIX@206351|Neisseriales	206351|Neisseriales	S	Psort location Cytoplasmic, score 8.96	-	-	-	-	-	-	-	-	-	-	-	-	DUF1732,YicC_N
LYD3_k127_3598581_3	1095769.CAHF01000015_gene2817	1.464e-06	51.0	COG4091@1|root,COG4091@2|Bacteria,1MUZX@1224|Proteobacteria,2VI2Z@28216|Betaproteobacteria	28216|Betaproteobacteria	E	homoserine dehydrogenase	-	-	-	-	-	-	-	-	-	-	-	-	GFO_IDH_MocA,NAD_binding_3,SAF
LYD3_k127_3598581_1	1095769.CAHF01000015_gene2818	3.46e-151	484.0	COG3181@1|root,COG3181@2|Bacteria,1MXEX@1224|Proteobacteria,2VKSV@28216|Betaproteobacteria	1224|Proteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_3598581_2	794846.AJQU01000055_gene1246	6.744e-29	124.0	2BKYI@1|root,32FF5@2|Bacteria,1MY1A@1224|Proteobacteria,2U1KI@28211|Alphaproteobacteria,4BFSA@82115|Rhizobiaceae	28211|Alphaproteobacteria	S	Tripartite tricarboxylate transporter TctB family	-	-	-	-	-	-	-	-	-	-	-	-	TctB
LYD3_k127_3598581_0	1095769.CAHF01000015_gene2822	2.847e-184	587.0	COG3333@1|root,COG3333@2|Bacteria,1MUKR@1224|Proteobacteria,2VHKU@28216|Betaproteobacteria,473X8@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter TctA family	-	-	-	ko:K07793	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.80.1	-	-	TctA
LYD3_k127_3618567_11	1300345.LF41_1119	2.578e-28	123.0	COG0288@1|root,COG0288@2|Bacteria,1NGFN@1224|Proteobacteria,1S237@1236|Gammaproteobacteria,1X7P7@135614|Xanthomonadales	135614|Xanthomonadales	P	Reversible hydration of carbon dioxide	cynT1	-	4.2.1.1	ko:K01673	ko00910,map00910	-	R00132,R10092	RC02807	ko00000,ko00001,ko01000	-	-	-	Pro_CA
LYD3_k127_3618567_1	1095769.CAHF01000011_gene2301	2.249e-148	482.0	COG2304@1|root,COG2304@2|Bacteria,1MXQ7@1224|Proteobacteria,2VHRY@28216|Betaproteobacteria	28216|Betaproteobacteria	S	von Willebrand factor, type A	-	-	-	ko:K07114	-	-	-	-	ko00000,ko02000	1.A.13.2.2,1.A.13.2.3	-	-	BatA,VWA,VWA_2
LYD3_k127_3618567_2	1095769.CAHF01000011_gene2300	1.512e-139	450.0	COG1721@1|root,COG1721@2|Bacteria,1MWPG@1224|Proteobacteria,2W98D@28216|Betaproteobacteria,476N1@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	von Willebrand factor (vWF) type A domain	-	-	-	-	-	-	-	-	-	-	-	-	DUF58
LYD3_k127_3618567_0	62928.azo2862	9.666e-171	541.0	COG0714@1|root,COG0714@2|Bacteria,1MUFN@1224|Proteobacteria,2VKJJ@28216|Betaproteobacteria,2KW6R@206389|Rhodocyclales	206389|Rhodocyclales	S	ATPase family associated with various cellular activities (AAA)	-	-	-	ko:K03924	-	-	-	-	ko00000,ko01000	-	-	-	AAA_3
LYD3_k127_3618567_4	1265502.KB905932_gene1907	8.475e-101	338.0	COG0265@1|root,COG0265@2|Bacteria,1QWA4@1224|Proteobacteria,2VK6X@28216|Betaproteobacteria,4A9X2@80864|Comamonadaceae	28216|Betaproteobacteria	O	peptidase S1 and S6, chymotrypsin Hap	-	-	-	-	-	-	-	-	-	-	-	-	Trypsin_2
LYD3_k127_3618567_10	62928.azo2142	3.428e-32	130.0	COG2905@1|root,COG2905@2|Bacteria,1N7MU@1224|Proteobacteria,2VVGU@28216|Betaproteobacteria,2KZVZ@206389|Rhodocyclales	206389|Rhodocyclales	T	Domain in cystathionine beta-synthase and other proteins.	-	-	-	-	-	-	-	-	-	-	-	-	CBS
LYD3_k127_3618567_3	1231391.AMZF01000014_gene2393	3.032e-102	342.0	COG0484@1|root,COG0484@2|Bacteria,1MUZ4@1224|Proteobacteria,2VHMU@28216|Betaproteobacteria,3T3QN@506|Alcaligenaceae	28216|Betaproteobacteria	O	DnaJ C terminal domain	cbpA	-	-	ko:K05516	-	-	-	-	ko00000,ko03036,ko03110	-	-	-	DnaJ,DnaJ_C
LYD3_k127_3618567_12	666681.M301_0546	1.56e-15	81.0	COG0789@1|root,COG0789@2|Bacteria,1NJX0@1224|Proteobacteria,2VY6U@28216|Betaproteobacteria	28216|Betaproteobacteria	K	MerR HTH family regulatory protein	-	-	-	ko:K18997	-	-	-	-	ko00000,ko03036	-	-	-	MerR_2
LYD3_k127_3618567_6	420662.Mpe_A2471	3.024e-77	270.0	COG0664@1|root,COG0664@2|Bacteria,1MVGE@1224|Proteobacteria,2VH04@28216|Betaproteobacteria,1KJZH@119065|unclassified Burkholderiales	28216|Betaproteobacteria	K	Regulator	-	-	-	ko:K01420	-	-	-	-	ko00000,ko03000	-	-	-	HTH_Crp_2,cNMP_binding
LYD3_k127_3618567_7	640081.Dsui_1646	7.627e-64	229.0	COG0664@1|root,COG0664@2|Bacteria,1MVGE@1224|Proteobacteria,2VH04@28216|Betaproteobacteria,2KUDT@206389|Rhodocyclales	206389|Rhodocyclales	K	COG0664 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases	fnr	-	-	ko:K01420	-	-	-	-	ko00000,ko03000	-	-	-	HTH_Crp_2,cNMP_binding
LYD3_k127_3618567_8	522306.CAP2UW1_1863	1.387e-44	172.0	COG2755@1|root,COG2755@2|Bacteria,1QVTB@1224|Proteobacteria,2VTTN@28216|Betaproteobacteria	28216|Betaproteobacteria	E	lipolytic protein G-D-S-L family	-	-	-	-	-	-	-	-	-	-	-	-	Lipase_GDSL_2
LYD3_k127_3618567_5	323848.Nmul_A0501	2.74e-89	306.0	COG0605@1|root,COG0605@2|Bacteria,1MVW2@1224|Proteobacteria,2VI2Y@28216|Betaproteobacteria,37245@32003|Nitrosomonadales	28216|Betaproteobacteria	C	Destroys radicals which are normally produced within the cells and which are toxic to biological systems	sodA	-	1.15.1.1	ko:K04564	ko04013,ko04068,ko04146,ko04211,ko04212,ko04213,ko05016,map04013,map04068,map04146,map04211,map04212,map04213,map05016	-	-	-	ko00000,ko00001,ko01000	-	-	-	Sod_Fe_C,Sod_Fe_N
LYD3_k127_3618567_9	595537.Varpa_1336	2.534e-41	159.0	COG2304@1|root,COG2304@2|Bacteria,1MXQ7@1224|Proteobacteria,2VHRY@28216|Betaproteobacteria,4ACKS@80864|Comamonadaceae	28216|Betaproteobacteria	S	von Willebrand factor, type A	-	-	-	ko:K07114	-	-	-	-	ko00000,ko02000	1.A.13.2.2,1.A.13.2.3	-	-	BatA,VWA
LYD3_k127_3618888_0	1163617.SCD_n00952	1.152e-115	378.0	COG1007@1|root,COG1007@2|Bacteria,1MV56@1224|Proteobacteria,2VHWX@28216|Betaproteobacteria	28216|Betaproteobacteria	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	nuoN	-	1.6.5.3	ko:K00343	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Proton_antipo_M
LYD3_k127_3618888_1	76114.ebA4050	1.303e-107	356.0	COG0247@1|root,COG0247@2|Bacteria,1MWTK@1224|Proteobacteria,2VNV2@28216|Betaproteobacteria,2KUPV@206389|Rhodocyclales	206389|Rhodocyclales	C	Cysteine-rich domain	-	-	-	ko:K18928	-	-	-	-	ko00000	-	-	-	CCG
LYD3_k127_3618888_2	1095769.CAHF01000011_gene2738	2.656e-58	208.0	COG1139@1|root,COG1139@2|Bacteria,1MV6J@1224|Proteobacteria,2VJ3Y@28216|Betaproteobacteria,476B8@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	LUD domain	lutB	-	-	ko:K18929	-	-	-	-	ko00000	-	-	-	DUF3390,Fer4_8,LUD_dom
LYD3_k127_362458_2	365044.Pnap_3548	8.496e-138	451.0	COG0845@1|root,COG0845@2|Bacteria,1MU8D@1224|Proteobacteria,2VH9K@28216|Betaproteobacteria,4AB0C@80864|Comamonadaceae	28216|Betaproteobacteria	M	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family	-	-	-	ko:K02005,ko:K13888	-	M00709	-	-	ko00000,ko00002,ko02000	8.A.1	-	-	HlyD_D23
LYD3_k127_362458_1	1276756.AUEX01000026_gene250	2.611e-145	479.0	COG1538@1|root,COG1538@2|Bacteria,1MUA8@1224|Proteobacteria,2VJ1B@28216|Betaproteobacteria,4AAFT@80864|Comamonadaceae	28216|Betaproteobacteria	M	RND efflux system, outer membrane lipoprotein, NodT	-	-	-	-	-	-	-	-	-	-	-	-	OEP
LYD3_k127_362458_6	1123504.JQKD01000006_gene1612	0.0004875	51.0	2DG9F@1|root,32U6V@2|Bacteria,1N0HX@1224|Proteobacteria,2VTXA@28216|Betaproteobacteria,4AF33@80864|Comamonadaceae	28216|Betaproteobacteria	S	LTXXQ motif family protein	-	-	-	-	-	-	-	-	-	-	-	-	LTXXQ
LYD3_k127_362458_3	1038859.AXAU01000001_gene3348	2.204e-135	439.0	COG1995@1|root,COG1995@2|Bacteria,1MXGJ@1224|Proteobacteria,2TUEU@28211|Alphaproteobacteria,3JU0Y@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	H	Pyridoxal phosphate biosynthetic protein PdxA	pdxA_2	-	1.1.1.262	ko:K00097	ko00750,ko01100,map00750,map01100	M00124	R05681,R05837,R07406	RC00089,RC00675,RC01475	ko00000,ko00001,ko00002,ko01000	-	-	-	PdxA
LYD3_k127_362458_0	522306.CAP2UW1_3401	4.791e-245	766.0	COG1752@1|root,COG1752@2|Bacteria,1MUI6@1224|Proteobacteria,2VHA3@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Phospholipase, patatin family	-	-	-	ko:K07001	-	-	-	-	ko00000	-	-	-	Patatin
LYD3_k127_362458_5	1122132.AQYH01000019_gene313	9.637e-05	49.0	COG4312@1|root,COG4312@2|Bacteria,1NAXN@1224|Proteobacteria,2U16Z@28211|Alphaproteobacteria,4B8VE@82115|Rhizobiaceae	28211|Alphaproteobacteria	S	protein conserved in bacteria	-	-	-	-	-	-	-	-	-	-	-	-	DUF899
LYD3_k127_362458_4	640081.Dsui_1642	7.996e-71	254.0	COG3278@1|root,COG3278@2|Bacteria,1P8T0@1224|Proteobacteria,2VNAW@28216|Betaproteobacteria,2KU91@206389|Rhodocyclales	206389|Rhodocyclales	O	Belongs to the heme-copper respiratory oxidase family	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3628923_2	472759.Nhal_3631	5.92e-100	337.0	COG0438@1|root,COG1216@1|root,COG2230@1|root,COG4372@1|root,COG0438@2|Bacteria,COG1216@2|Bacteria,COG2230@2|Bacteria,COG4372@2|Bacteria,1QP7Y@1224|Proteobacteria,1RR12@1236|Gammaproteobacteria,1WXJ8@135613|Chromatiales	135613|Chromatiales	M	glycosyl transferase family 2	-	-	-	ko:K20444	-	-	-	-	ko00000,ko01000,ko01005,ko02000	4.D.1.3	GT2,GT4	-	Glyco_trans_1_4,Glycos_transf_2,Methyltransf_23
LYD3_k127_3628923_6	1121015.N789_11495	1.229e-49	193.0	COG2227@1|root,COG2227@2|Bacteria,1N6SE@1224|Proteobacteria,1SCC1@1236|Gammaproteobacteria,1X6AF@135614|Xanthomonadales	135614|Xanthomonadales	H	Methyltransferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_11
LYD3_k127_3628923_5	1333998.M2A_0005	3.224e-51	196.0	COG1835@1|root,COG1835@2|Bacteria,1RKTJ@1224|Proteobacteria,2U0S1@28211|Alphaproteobacteria	28211|Alphaproteobacteria	I	PFAM Acyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	Acyl_transf_3
LYD3_k127_3628923_1	1384054.N790_11625	2.329e-111	369.0	COG0641@1|root,COG0641@2|Bacteria	2|Bacteria	C	radical SAM	-	-	-	ko:K06871	-	-	-	-	ko00000	-	-	-	Fer4_12,Fer4_14,Radical_SAM,SPASM
LYD3_k127_3628923_0	323261.Noc_2181	7.176e-135	439.0	COG1134@1|root,COG1134@2|Bacteria,1MWWC@1224|Proteobacteria,1RN2T@1236|Gammaproteobacteria,1X0NN@135613|Chromatiales	135613|Chromatiales	GM	pfam abc	-	-	-	ko:K09691	ko02010,map02010	M00250	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.103	-	-	ABC_tran
LYD3_k127_3628923_4	472759.Nhal_3635	1.94e-57	211.0	COG1682@1|root,COG1682@2|Bacteria,1N0X3@1224|Proteobacteria,1S0H9@1236|Gammaproteobacteria,1X247@135613|Chromatiales	135613|Chromatiales	GM	ABC-2 type transporter	-	-	-	ko:K09690	ko02010,map02010	M00250	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.103	-	-	ABC2_membrane
LYD3_k127_3628923_7	472759.Nhal_3644	4.756e-37	154.0	COG0760@1|root,COG0760@2|Bacteria,1MZDK@1224|Proteobacteria,1SB9C@1236|Gammaproteobacteria	1236|Gammaproteobacteria	M	PPIC-type PPIASE domain	-	-	5.2.1.8	ko:K03769	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	Rotamase_3
LYD3_k127_3628923_3	472759.Nhal_3646	1.187e-84	299.0	28M2W@1|root,2ZAH9@2|Bacteria,1R8GG@1224|Proteobacteria,1SB5G@1236|Gammaproteobacteria,1X1BP@135613|Chromatiales	135613|Chromatiales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_364463_0	85643.Tmz1t_0606	2.029e-125	407.0	COG0646@1|root,COG1410@1|root,COG0646@2|Bacteria,COG1410@2|Bacteria,1MV6G@1224|Proteobacteria,2VHYQ@28216|Betaproteobacteria,2KUFA@206389|Rhodocyclales	206389|Rhodocyclales	H	methionine synthase	metH	-	2.1.1.13	ko:K00548	ko00270,ko00450,ko00670,ko01100,ko01110,ko01230,map00270,map00450,map00670,map01100,map01110,map01230	M00017	R00946,R09365	RC00035,RC00113,RC01241	ko00000,ko00001,ko00002,ko01000	-	-	-	B12-binding,B12-binding_2,Met_synt_B12,Pterin_bind,S-methyl_trans
LYD3_k127_364463_3	1288494.EBAPG3_12200	1.903e-21	99.0	COG2010@1|root,COG2010@2|Bacteria,1NF1C@1224|Proteobacteria,2VVP1@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Cytochrome c	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_364463_2	604331.AUHY01000056_gene1320	1.252e-47	177.0	COG0824@1|root,COG0824@2|Bacteria,1WNB2@1297|Deinococcus-Thermus	1297|Deinococcus-Thermus	S	Thioesterase-like superfamily	-	-	-	ko:K07107	-	-	-	-	ko00000,ko01000	-	-	-	4HBT,4HBT_2
LYD3_k127_364463_1	1123261.AXDW01000008_gene891	4.644e-59	212.0	COG3812@1|root,COG3812@2|Bacteria,1RGUV@1224|Proteobacteria,1S24N@1236|Gammaproteobacteria,1X6RD@135614|Xanthomonadales	135614|Xanthomonadales	S	Domain of unknown function (DUF1993)	-	-	-	ko:K09983	-	-	-	-	ko00000	-	-	-	DUF1993
LYD3_k127_364463_4	279714.FuraDRAFT_1546	2.805e-21	94.0	COG0598@1|root,COG0598@2|Bacteria,1R7FC@1224|Proteobacteria,2VKBA@28216|Betaproteobacteria	28216|Betaproteobacteria	P	Magnesium transport protein CorA	-	-	-	-	-	-	-	-	-	-	-	-	CorA
LYD3_k127_3650677_2	546274.EIKCOROL_02535	1.271e-22	104.0	COG1555@1|root,COG1555@2|Bacteria,1N6Q3@1224|Proteobacteria,2VVT0@28216|Betaproteobacteria,2KRXT@206351|Neisseriales	206351|Neisseriales	L	Psort location CytoplasmicMembrane, score	-	-	-	ko:K02237	-	M00429	-	-	ko00000,ko00002,ko02044	3.A.11.1,3.A.11.2	-	-	HHH_3
LYD3_k127_3650677_0	1163617.SCD_n01041	1.081e-143	464.0	COG0451@1|root,COG0451@2|Bacteria,1MVE4@1224|Proteobacteria,2VH69@28216|Betaproteobacteria	28216|Betaproteobacteria	GM	Catalyzes the interconversion between ADP-D-glycero- beta-D-manno-heptose and ADP-L-glycero-beta-D-manno-heptose via an epimerization at carbon 6 of the heptose	hldD	-	5.1.3.20	ko:K03274	ko00540,ko01100,map00540,map01100	M00064	R05176	RC01291	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Epimerase
LYD3_k127_3650677_1	1163617.SCD_n01786	1.945e-116	385.0	COG0787@1|root,COG0787@2|Bacteria,1MV0Q@1224|Proteobacteria,2VIXM@28216|Betaproteobacteria	28216|Betaproteobacteria	E	Catalyzes the interconversion of L-alanine and D- alanine. May also act on other amino acids	alr	-	5.1.1.1	ko:K01775	ko00473,ko01100,ko01502,map00473,map01100,map01502	-	R00401	RC00285	ko00000,ko00001,ko01000,ko01011	-	-	-	Ala_racemase_C,Ala_racemase_N
LYD3_k127_3650677_3	1366050.N234_11765	1.395e-06	51.0	COG0477@1|root,COG2814@2|Bacteria,1QTWR@1224|Proteobacteria,2VIC5@28216|Betaproteobacteria,1K04F@119060|Burkholderiaceae	28216|Betaproteobacteria	EGP	PFAM major facilitator superfamily MFS_1	lplT	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_3673031_3	522306.CAP2UW1_0979	5.98e-75	254.0	COG0332@1|root,COG0332@2|Bacteria,1MU9N@1224|Proteobacteria,2VK77@28216|Betaproteobacteria	28216|Betaproteobacteria	I	synthase	-	-	2.3.1.207	ko:K16872	-	-	-	-	ko00000,ko01000	-	-	-	ACP_syn_III,ACP_syn_III_C
LYD3_k127_3673031_0	1158292.JPOE01000002_gene2075	1.15e-208	659.0	COG1960@1|root,COG1960@2|Bacteria,1MU2V@1224|Proteobacteria,2VI1V@28216|Betaproteobacteria,1KK5Q@119065|unclassified Burkholderiales	28216|Betaproteobacteria	I	acyl-CoA dehydrogenase	-	-	1.3.8.7	ko:K00249	ko00071,ko00280,ko00410,ko00640,ko01100,ko01110,ko01130,ko01200,ko01212,ko03320,map00071,map00280,map00410,map00640,map01100,map01110,map01130,map01200,map01212,map03320	M00013,M00036,M00087	R00924,R01175,R01279,R02661,R03172,R03777,R03857,R03990,R04095,R04432,R04751,R04754	RC00052,RC00068,RC00076,RC00095,RC00148,RC00246	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_3673031_1	1158292.JPOE01000002_gene2076	6.244e-151	485.0	COG3173@1|root,COG3173@2|Bacteria,1MWAK@1224|Proteobacteria,2VJ31@28216|Betaproteobacteria,1KKBT@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Aminoglycoside phosphotransferase	-	-	-	-	-	-	-	-	-	-	-	-	APH
LYD3_k127_3673031_2	1472716.KBK24_0112920	5.983e-100	333.0	COG1028@1|root,COG1028@2|Bacteria,1MVYJ@1224|Proteobacteria,2VH22@28216|Betaproteobacteria,1K4AS@119060|Burkholderiaceae	28216|Betaproteobacteria	IQ	Involved in the nonphosphorylative, ketogenic oxidation of glucose and oxidizes gluconate to 5-ketogluconate	-	-	1.1.1.69	ko:K00046	-	-	-	-	ko00000,ko01000	-	-	-	adh_short,adh_short_C2
LYD3_k127_3673031_4	1173027.Mic7113_2374	3.633e-24	110.0	COG2091@1|root,COG2091@2|Bacteria,1G5GA@1117|Cyanobacteria,1HAPE@1150|Oscillatoriales	1117|Cyanobacteria	H	Belongs to the P-Pant transferase superfamily	hetI	GO:0003674,GO:0003824,GO:0006082,GO:0006520,GO:0006553,GO:0006807,GO:0008150,GO:0008152,GO:0008652,GO:0008897,GO:0009058,GO:0009066,GO:0009067,GO:0009085,GO:0009987,GO:0016053,GO:0016740,GO:0016772,GO:0016780,GO:0019752,GO:0019878,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044281,GO:0044283,GO:0046394,GO:0071704,GO:1901564,GO:1901566,GO:1901576,GO:1901605,GO:1901607	-	ko:K06133	ko00770,map00770	-	R01625	RC00002	ko00000,ko00001,ko01000	-	-	-	ACPS
LYD3_k127_3677231_2	85643.Tmz1t_3371	4.287e-75	256.0	COG1703@1|root,COG1884@1|root,COG2185@1|root,COG1703@2|Bacteria,COG1884@2|Bacteria,COG2185@2|Bacteria,1MUXX@1224|Proteobacteria,2VH05@28216|Betaproteobacteria,2KVJX@206389|Rhodocyclales	206389|Rhodocyclales	EI	Catalyzes the reversible interconversion of isobutyryl- CoA and n-butyryl-CoA, using radical chemistry. Also exhibits GTPase activity, associated with its G-protein domain (MeaI) that functions as a chaperone that assists cofactor delivery and proper holo-enzyme assembly	icmF	-	5.4.99.13	ko:K11942	-	-	-	-	ko00000,ko01000	-	-	-	ArgK,B12-binding,MM_CoA_mutase
LYD3_k127_3677231_1	159087.Daro_1971	6.157e-93	315.0	COG1355@1|root,COG1355@2|Bacteria,1MXK5@1224|Proteobacteria,2VKXP@28216|Betaproteobacteria,2KVTT@206389|Rhodocyclales	206389|Rhodocyclales	S	Belongs to the MEMO1 family	-	-	-	ko:K06990	-	-	-	-	ko00000,ko04812	-	-	-	Memo
LYD3_k127_3677231_4	580332.Slit_1845	3.56e-53	197.0	COG2078@1|root,COG2078@2|Bacteria,1RJP4@1224|Proteobacteria,2VRE4@28216|Betaproteobacteria,44WF2@713636|Nitrosomonadales	28216|Betaproteobacteria	S	PFAM AMMECR1 domain protein	-	-	-	-	-	-	-	-	-	-	-	-	AMMECR1
LYD3_k127_3677231_0	1123368.AUIS01000008_gene2237	9.674e-183	586.0	COG1180@1|root,COG1180@2|Bacteria,1NQC1@1224|Proteobacteria,1T90P@1236|Gammaproteobacteria,2NDQR@225057|Acidithiobacillales	225057|Acidithiobacillales	C	Radical SAM superfamily	-	-	1.97.1.4	ko:K04069	-	-	R04710	-	ko00000,ko01000	-	-	-	Radical_SAM
LYD3_k127_3677231_3	1198452.Jab_1c17060	3.862e-65	229.0	COG0612@1|root,COG0612@2|Bacteria,1MVST@1224|Proteobacteria,2VHVB@28216|Betaproteobacteria,473XY@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Belongs to the peptidase M16 family	pqqL	-	-	ko:K07263	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_M16,Peptidase_M16_C
LYD3_k127_3685232_0	1144342.PMI40_04908	1.07e-112	366.0	COG1022@1|root,COG1022@2|Bacteria,1MU4D@1224|Proteobacteria,2VI0U@28216|Betaproteobacteria,476H1@75682|Oxalobacteraceae	28216|Betaproteobacteria	I	AMP-binding enzyme	-	-	6.2.1.3	ko:K01897	ko00061,ko00071,ko01100,ko01212,ko02024,ko03320,ko04146,ko04216,ko04714,ko04920,map00061,map00071,map01100,map01212,map02024,map03320,map04146,map04216,map04714,map04920	M00086	R01280	RC00004,RC00014	ko00000,ko00001,ko00002,ko01000,ko01004,ko04147	4.C.1.1	-	-	AMP-binding
LYD3_k127_3685232_2	1207063.P24_04020	5.232e-104	353.0	COG0411@1|root,COG0411@2|Bacteria,1MUTY@1224|Proteobacteria,2TQK1@28211|Alphaproteobacteria,2JPE4@204441|Rhodospirillales	204441|Rhodospirillales	E	COG0411 ABC-type branched-chain amino acid transport systems, ATPase component	-	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_3685232_1	640081.Dsui_1110	9.263e-112	367.0	COG0559@1|root,COG0559@2|Bacteria,1N54M@1224|Proteobacteria,2VIID@28216|Betaproteobacteria,2KVZ8@206389|Rhodocyclales	206389|Rhodocyclales	U	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01997	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_3697381_1	756883.Halar_3431	1.331e-123	413.0	COG0146@1|root,arCOG01512@2157|Archaea	2157|Archaea	EQ	N-methylhydantoinase B acetone carboxylase alpha subunit	hyuB	GO:0003674,GO:0003824,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006518,GO:0006575,GO:0006749,GO:0006790,GO:0006807,GO:0008150,GO:0008152,GO:0009987,GO:0016787,GO:0016810,GO:0016812,GO:0017168,GO:0034641,GO:0043603,GO:0044237,GO:0044424,GO:0044444,GO:0044464,GO:0051186,GO:0071704,GO:1901564	3.5.2.14	ko:K01474	ko00330,ko01100,map00330,map01100	-	R03187	RC00632	ko00000,ko00001,ko01000	-	-	-	Hydantoinase_B
LYD3_k127_3697381_0	1244869.H261_14145	4.263e-177	571.0	COG1804@1|root,COG1804@2|Bacteria,1MU2K@1224|Proteobacteria	1224|Proteobacteria	C	L-carnitine dehydratase bile acid-inducible protein F	-	-	2.8.3.22	ko:K18289	ko00660,map00660	-	R02407,R03154	RC00014	ko00000,ko00001,ko01000	-	-	-	CoA_transf_3
LYD3_k127_3697381_4	1123229.AUBC01000005_gene733	8.503e-43	172.0	COG1309@1|root,COG1309@2|Bacteria,1MY9K@1224|Proteobacteria,2U3PH@28211|Alphaproteobacteria,3JXKW@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	K	Bacterial regulatory proteins, tetR family	-	-	-	-	-	-	-	-	-	-	-	-	TetR_N
LYD3_k127_3697381_3	1033734.CAET01000041_gene416	3.214e-43	172.0	COG4126@1|root,COG4126@2|Bacteria,1V0N4@1239|Firmicutes,4HP78@91061|Bacilli,1ZEWI@1386|Bacillus	91061|Bacilli	E	Hydantoin racemase	-	-	5.1.99.3	ko:K16841	ko00230,ko01120,map00230,map01120	-	R03925	RC01027	ko00000,ko00001,ko01000	-	-	-	Asp_Glu_race
LYD3_k127_3697381_2	1123073.KB899242_gene945	3.312e-70	241.0	COG1801@1|root,COG1801@2|Bacteria,1MU7F@1224|Proteobacteria,1RYRW@1236|Gammaproteobacteria,1X4IY@135614|Xanthomonadales	135614|Xanthomonadales	S	Protein of unknown function DUF72	-	-	-	-	-	-	-	-	-	-	-	-	DUF72
LYD3_k127_3715803_2	388739.RSK20926_04642	1.36e-13	85.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,2TR15@28211|Alphaproteobacteria,2P0Z1@2433|Roseobacter	28211|Alphaproteobacteria	C	COG1960 Acyl-CoA dehydrogenases	MA20_40160	-	1.3.8.7	ko:K00249	ko00071,ko00280,ko00410,ko00640,ko01100,ko01110,ko01130,ko01200,ko01212,ko03320,map00071,map00280,map00410,map00640,map01100,map01110,map01130,map01200,map01212,map03320	M00013,M00036,M00087	R00924,R01175,R01279,R02661,R03172,R03777,R03857,R03990,R04095,R04432,R04751,R04754	RC00052,RC00068,RC00076,RC00095,RC00148,RC00246	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_3715803_1	391625.PPSIR1_40340	3.02e-203	654.0	COG1022@1|root,COG1022@2|Bacteria,1MU4D@1224|Proteobacteria,42N2G@68525|delta/epsilon subdivisions,2WIXB@28221|Deltaproteobacteria,2YTZ2@29|Myxococcales	28221|Deltaproteobacteria	I	COG1022 Long-chain acyl-CoA synthetases (AMP-forming)	-	-	6.2.1.3	ko:K01897	ko00061,ko00071,ko01100,ko01212,ko02024,ko03320,ko04146,ko04216,ko04714,ko04920,map00061,map00071,map01100,map01212,map02024,map03320,map04146,map04216,map04714,map04920	M00086	R01280	RC00004,RC00014	ko00000,ko00001,ko00002,ko01000,ko01004,ko04147	4.C.1.1	-	-	AMP-binding
LYD3_k127_3715803_0	420662.Mpe_A2185	1.206e-272	847.0	COG1132@1|root,COG1132@2|Bacteria,1MUBM@1224|Proteobacteria,2VIAP@28216|Betaproteobacteria,1KJ8T@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	ABC transporter transmembrane region	-	-	-	ko:K06147,ko:K18893	ko02010,map02010	-	-	-	ko00000,ko00001,ko02000	3.A.1,3.A.1.106,3.A.1.109,3.A.1.21	-	-	ABC_membrane,ABC_tran
LYD3_k127_3740203_6	69395.JQLZ01000007_gene1773	1.198e-78	269.0	COG0642@1|root,COG2205@2|Bacteria,1NRP8@1224|Proteobacteria,2TWFB@28211|Alphaproteobacteria,2KFH9@204458|Caulobacterales	204458|Caulobacterales	T	histidine kinase A domain protein	-	-	-	-	-	-	-	-	-	-	-	-	HATPase_c,HisKA,Hpt,PAS,PAS_9,Response_reg
LYD3_k127_3740203_5	1496688.ER33_11280	1.149e-93	324.0	COG1235@1|root,COG2199@1|root,COG2203@1|root,COG1235@2|Bacteria,COG2203@2|Bacteria,COG3706@2|Bacteria,1G1UR@1117|Cyanobacteria,22TIW@167375|Cyanobium	1117|Cyanobacteria	T	Beta-lactamase superfamily domain	-	-	3.1.26.11	ko:K00784	ko03013,map03013	-	-	-	ko00000,ko00001,ko01000,ko03016	-	-	-	Lactamase_B_2
LYD3_k127_3740203_8	399795.CtesDRAFT_PD4719	1.14e-30	126.0	2DNIN@1|root,32XPX@2|Bacteria,1N56X@1224|Proteobacteria,2VU83@28216|Betaproteobacteria,4AF24@80864|Comamonadaceae	28216|Betaproteobacteria	S	YXWGXW repeat (2 copies)	-	-	-	-	-	-	-	-	-	-	-	-	YXWGXW
LYD3_k127_3740203_0	1212548.B381_10913	1.418e-164	533.0	COG1502@1|root,COG1502@2|Bacteria,1MUDJ@1224|Proteobacteria,1RMIF@1236|Gammaproteobacteria,1Z1W2@136846|Pseudomonas stutzeri group	1236|Gammaproteobacteria	I	COG1502 Phosphatidylserine phosphatidylglycerophosphate cardiolipi n synthases and related enzymes	clsC	GO:0003674,GO:0003824,GO:0005575,GO:0006629,GO:0006644,GO:0006650,GO:0006655,GO:0006793,GO:0006796,GO:0008150,GO:0008152,GO:0008610,GO:0008654,GO:0008808,GO:0009058,GO:0009987,GO:0016020,GO:0016740,GO:0016772,GO:0016780,GO:0019637,GO:0030572,GO:0032048,GO:0032049,GO:0044237,GO:0044238,GO:0044249,GO:0044255,GO:0045017,GO:0046471,GO:0046474,GO:0046486,GO:0071704,GO:0090407,GO:0090483,GO:1901576	-	ko:K06132	ko00564,ko01100,map00564,map01100	-	R11062	RC00017	ko00000,ko00001,ko01000	-	-	-	PLDc_2
LYD3_k127_3740203_7	266264.Rmet_5781	3.531e-56	214.0	2E3FB@1|root,32YE4@2|Bacteria	2|Bacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3740203_1	1232410.KI421426_gene1482	3.267e-133	430.0	COG2326@1|root,COG2326@2|Bacteria,1MVE2@1224|Proteobacteria,42M26@68525|delta/epsilon subdivisions,2WKQV@28221|Deltaproteobacteria,43V5R@69541|Desulfuromonadales	28221|Deltaproteobacteria	S	Polyphosphate kinase 2 (PPK2)	-	-	2.7.4.1	ko:K22468	ko00190,ko03018,map00190,map03018	-	-	-	ko00000,ko00001,ko01000,ko03019	-	-	-	PPK2
LYD3_k127_3740203_3	640511.BC1002_5550	9.43e-107	371.0	COG4786@1|root,COG4786@2|Bacteria,1MZXB@1224|Proteobacteria,2VKSZ@28216|Betaproteobacteria,1K5PF@119060|Burkholderiaceae	28216|Betaproteobacteria	N	Protein of unknown function (DUF2950)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2950
LYD3_k127_3740203_4	640511.BC1002_5549	4.107e-94	324.0	COG3115@1|root,COG3115@2|Bacteria,1QVM5@1224|Proteobacteria,2WI17@28216|Betaproteobacteria,1KG8X@119060|Burkholderiaceae	28216|Betaproteobacteria	D	Protein of unknown function (DUF3300)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3300
LYD3_k127_3740203_9	1218084.BBJK01000057_gene4403	1.676e-20	97.0	2E5SP@1|root,330H2@2|Bacteria,1NDBY@1224|Proteobacteria,2VXDV@28216|Betaproteobacteria,1K76Z@119060|Burkholderiaceae	28216|Betaproteobacteria	S	YMGG-like Gly-zipper	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3740203_2	1502851.FG93_05707	1.568e-128	423.0	COG1529@1|root,COG1529@2|Bacteria,1QTTJ@1224|Proteobacteria,2TQVK@28211|Alphaproteobacteria,3JSW3@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	C	Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain	MA20_17495	-	1.3.99.16	ko:K07303	-	-	-	-	ko00000,ko01000	-	-	-	Ald_Xan_dh_C2
LYD3_k127_3744726_0	1231391.AMZF01000047_gene981	2.518e-202	636.0	COG0466@1|root,COG0466@2|Bacteria,1MUV2@1224|Proteobacteria,2VNZD@28216|Betaproteobacteria,3T6RV@506|Alcaligenaceae	28216|Betaproteobacteria	O	ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner	lon2	-	3.4.21.53	ko:K01338	ko04112,map04112	-	-	-	ko00000,ko00001,ko01000,ko01002	-	-	-	AAA,LON_substr_bdg,Lon_C
LYD3_k127_3744726_2	931627.MycrhDRAFT_3935	9.331e-05	53.0	29XPJ@1|root,30JF5@2|Bacteria,2GX0B@201174|Actinobacteria	201174|Actinobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3744726_1	1123261.AXDW01000001_gene1005	4.279e-129	422.0	COG3569@1|root,COG3569@2|Bacteria,1MVJ9@1224|Proteobacteria,1S0DC@1236|Gammaproteobacteria,1X4QX@135614|Xanthomonadales	135614|Xanthomonadales	L	topoisomerase	-	-	-	-	-	-	-	-	-	-	-	-	Topoisom_I
LYD3_k127_376108_0	1005048.CFU_0647	3.194e-161	516.0	COG3842@1|root,COG3842@2|Bacteria,1MU3I@1224|Proteobacteria,2VHEJ@28216|Betaproteobacteria,472GH@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Part of the ABC transporter complex PotABCD involved in spermidine putrescine import. Responsible for energy coupling to the transport system	potA	-	3.6.3.31	ko:K11072	ko02010,map02010	M00299	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.11.1	-	-	ABC_tran,TOBE_2
LYD3_k127_376108_1	204773.HEAR2850	4.312e-108	357.0	COG1176@1|root,COG1176@2|Bacteria,1MVGM@1224|Proteobacteria,2VHYC@28216|Betaproteobacteria,473P7@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Binding-protein-dependent transport system inner membrane component	potB	-	-	ko:K02054,ko:K11071,ko:K11075	ko02010,ko02024,map02010,map02024	M00193,M00299,M00300	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.11,3.A.1.11.1,3.A.1.11.2	-	-	BPD_transp_1
LYD3_k127_3763944_1	323848.Nmul_A2468	1.781e-122	405.0	COG0209@1|root,COG0209@2|Bacteria,1MUJ8@1224|Proteobacteria,2VJIV@28216|Betaproteobacteria,372QB@32003|Nitrosomonadales	28216|Betaproteobacteria	F	Catalyzes the reduction of ribonucleotides to deoxyribonucleotides. May function to provide a pool of deoxyribonucleotide precursors for DNA repair during oxygen limitation and or for immediate growth after restoration of oxygen	nrdA	GO:0000166,GO:0003674,GO:0003824,GO:0004748,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0005971,GO:0006139,GO:0006725,GO:0006753,GO:0006793,GO:0006796,GO:0006807,GO:0008150,GO:0008152,GO:0009058,GO:0009117,GO:0009165,GO:0009262,GO:0009263,GO:0009987,GO:0016491,GO:0016725,GO:0016728,GO:0018130,GO:0019438,GO:0019637,GO:0032991,GO:0034641,GO:0034654,GO:0036094,GO:0042802,GO:0044237,GO:0044238,GO:0044249,GO:0044271,GO:0044281,GO:0044424,GO:0044444,GO:0044445,GO:0044464,GO:0046483,GO:0055086,GO:0055114,GO:0061731,GO:0071704,GO:0090407,GO:0097159,GO:1901135,GO:1901137,GO:1901265,GO:1901293,GO:1901360,GO:1901362,GO:1901363,GO:1901576,GO:1902494,GO:1990204	1.17.4.1	ko:K00525	ko00230,ko00240,ko01100,map00230,map00240,map01100	M00053	R02017,R02018,R02019,R02024	RC00613	ko00000,ko00001,ko00002,ko01000,ko03400	-	-	-	ATP-cone,Ribonuc_red_lgC,Ribonuc_red_lgN
LYD3_k127_3763944_2	1411123.JQNH01000001_gene929	8.617e-85	297.0	COG1028@1|root,COG1028@2|Bacteria,1MWB6@1224|Proteobacteria,2TTVF@28211|Alphaproteobacteria	28211|Alphaproteobacteria	IQ	COG1028 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases)	-	-	1.1.1.69	ko:K00046	-	-	-	-	ko00000,ko01000	-	-	-	adh_short_C2
LYD3_k127_3763944_0	1380394.JADL01000002_gene1193	8.464e-304	947.0	COG1014@1|root,COG4231@1|root,COG1014@2|Bacteria,COG4231@2|Bacteria,1MUKS@1224|Proteobacteria,2TSHH@28211|Alphaproteobacteria,2JQ67@204441|Rhodospirillales	204441|Rhodospirillales	C	COG4231 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits	-	-	1.2.7.8	ko:K04090	-	-	-	-	br01601,ko00000,ko01000	-	-	-	POR,TPP_enzyme_C
LYD3_k127_3766964_3	331869.BAL199_28465	1.393e-141	458.0	COG0559@1|root,COG0559@2|Bacteria,1MY1E@1224|Proteobacteria,2TSIQ@28211|Alphaproteobacteria	28211|Alphaproteobacteria	E	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01997	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_3766964_1	1122135.KB893167_gene2353	3.249e-225	705.0	COG0683@1|root,COG0683@2|Bacteria,1MUCB@1224|Proteobacteria,2TRWV@28211|Alphaproteobacteria	28211|Alphaproteobacteria	E	COG0683 ABC-type branched-chain amino acid transport systems, periplasmic component	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6,TAT_signal
LYD3_k127_3766964_2	331869.BAL199_28475	5.482e-159	520.0	COG1396@1|root,COG3800@1|root,COG1396@2|Bacteria,COG3800@2|Bacteria,1MU50@1224|Proteobacteria,2TRKE@28211|Alphaproteobacteria,4BPBX@82117|unclassified Alphaproteobacteria	28211|Alphaproteobacteria	K	Transcriptional regulator	-	-	-	ko:K07110	-	-	-	-	ko00000,ko03000	-	-	-	DUF2083,HTH_19,HTH_3,HTH_31,Peptidase_M78
LYD3_k127_3766964_4	331869.BAL199_28425	3.162e-37	156.0	COG0745@1|root,COG0745@2|Bacteria,1RHCU@1224|Proteobacteria,2U98H@28211|Alphaproteobacteria	28211|Alphaproteobacteria	T	COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain	tcrX	-	-	-	-	-	-	-	-	-	-	-	Response_reg
LYD3_k127_3766964_6	1110502.TMO_0931	1.338e-11	68.0	2BU2Z@1|root,32PBR@2|Bacteria,1Q8R9@1224|Proteobacteria,2UXUU@28211|Alphaproteobacteria,2JXYH@204441|Rhodospirillales	204441|Rhodospirillales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3766964_0	331869.BAL199_28435	0.0	1042.0	COG0591@1|root,COG0642@1|root,COG0591@2|Bacteria,COG2205@2|Bacteria,1MUY7@1224|Proteobacteria,2TR1M@28211|Alphaproteobacteria,4BR5K@82117|unclassified Alphaproteobacteria	28211|Alphaproteobacteria	T	His Kinase A (phosphoacceptor) domain	resE	-	-	-	-	-	-	-	-	-	-	-	HATPase_c,HisKA,PAS_7,Response_reg,SSF
LYD3_k127_3766964_5	614083.AWQR01000028_gene3193	4.83e-15	76.0	COG0583@1|root,COG0583@2|Bacteria,1MZTA@1224|Proteobacteria,2VJTZ@28216|Betaproteobacteria,4A9RY@80864|Comamonadaceae	28216|Betaproteobacteria	K	Transcriptional regulator	allS_2	-	-	-	-	-	-	-	-	-	-	-	HTH_1,LysR_substrate
LYD3_k127_3792445_2	935567.JAES01000009_gene1715	5.508e-93	316.0	COG0382@1|root,COG0560@1|root,COG0382@2|Bacteria,COG0560@2|Bacteria,1MXCM@1224|Proteobacteria,1RRWB@1236|Gammaproteobacteria,1X353@135614|Xanthomonadales	135614|Xanthomonadales	H	UbiA prenyltransferase family	-	-	-	-	-	-	-	-	-	-	-	-	HAD,UbiA
LYD3_k127_3792445_4	1156935.QWE_21586	1.679e-30	129.0	COG0382@1|root,COG0560@1|root,COG0382@2|Bacteria,COG0560@2|Bacteria,1MXCM@1224|Proteobacteria,2TS0Z@28211|Alphaproteobacteria,4BC0V@82115|Rhizobiaceae	28211|Alphaproteobacteria	H	UbiA prenyltransferase family	-	-	-	-	-	-	-	-	-	-	-	-	HAD,UbiA
LYD3_k127_3792445_3	1123073.KB899241_gene3223	6.357e-51	193.0	28IZ5@1|root,2Z8WP@2|Bacteria,1R6WI@1224|Proteobacteria,1S87I@1236|Gammaproteobacteria,1X8SF@135614|Xanthomonadales	135614|Xanthomonadales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_3792445_0	1288494.EBAPG3_23040	4.893e-135	442.0	COG1686@1|root,COG1686@2|Bacteria,1MUU7@1224|Proteobacteria,2VH46@28216|Betaproteobacteria,3721U@32003|Nitrosomonadales	28216|Betaproteobacteria	M	Belongs to the peptidase S11 family	dacC	-	3.4.16.4	ko:K01286,ko:K07258	ko00550,ko01100,map00550,map01100	-	-	-	ko00000,ko00001,ko01000,ko01002,ko01011	-	-	-	PBP5_C,Peptidase_S11
LYD3_k127_3792445_1	1163617.SCD_n00104	5.53e-107	356.0	COG0115@1|root,COG0115@2|Bacteria,1MVAT@1224|Proteobacteria,2VIVK@28216|Betaproteobacteria	28216|Betaproteobacteria	EH	Aminotransferase class IV	dat	-	2.6.1.21	ko:K00824	ko00310,ko00330,ko00360,ko00472,ko00473,ko01100,map00310,map00330,map00360,map00472,map00473,map01100	-	R01148,R01582,R02459,R02851,R02924,R05053	RC00006,RC00008,RC00025	ko00000,ko00001,ko01000,ko01007	-	-	-	Aminotran_4
LYD3_k127_380345_1	580332.Slit_2529	2.476e-65	227.0	COG0672@1|root,COG0672@2|Bacteria,1MX1M@1224|Proteobacteria,2VHEE@28216|Betaproteobacteria,44WAH@713636|Nitrosomonadales	28216|Betaproteobacteria	P	PFAM iron permease FTR1	-	-	-	ko:K07243	-	-	-	-	ko00000,ko02000	2.A.108.1,2.A.108.2	-	-	FTR1
LYD3_k127_380345_0	640081.Dsui_3500	1.072e-132	436.0	COG0860@1|root,COG0860@2|Bacteria,1MUQK@1224|Proteobacteria,2VHXN@28216|Betaproteobacteria,2KV54@206389|Rhodocyclales	206389|Rhodocyclales	M	N-acetylmuramoyl-L-alanine amidase	-	-	3.5.1.28	ko:K01448	ko01503,map01503	M00727	R04112	RC00064,RC00141	ko00000,ko00001,ko00002,ko01000,ko01011,ko03036	-	-	-	AMIN,Amidase_3
LYD3_k127_380345_2	1288494.EBAPG3_28880	1.234e-19	91.0	COG0802@1|root,COG0802@2|Bacteria,1RGYU@1224|Proteobacteria,2VSJY@28216|Betaproteobacteria,3735C@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Threonylcarbamoyl adenosine biosynthesis protein TsaE	yjeE	-	-	ko:K06925	-	-	-	-	ko00000,ko03016	-	-	-	TsaE
LYD3_k127_3814637_0	666681.M301_1105	1.088e-176	580.0	COG2204@1|root,COG2204@2|Bacteria,1MU0N@1224|Proteobacteria,2VHSB@28216|Betaproteobacteria,2KM7W@206350|Nitrosomonadales	206350|Nitrosomonadales	T	Sigma-54 interaction domain	-	-	-	ko:K07715	ko02020,ko02024,map02020,map02024	M00502	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	HTH_8,Response_reg,Sigma54_activat
LYD3_k127_3814637_1	1123368.AUIS01000005_gene447	7.304e-112	379.0	COG0642@1|root,COG2205@2|Bacteria,1N58A@1224|Proteobacteria,1RP34@1236|Gammaproteobacteria,2NBSM@225057|Acidithiobacillales	225057|Acidithiobacillales	T	HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain	-	-	2.7.13.3	ko:K07711	ko02020,ko02024,map02020,map02024	M00502	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	HATPase_c,HisKA
LYD3_k127_3814637_2	1123392.AQWL01000001_gene1433	1.696e-42	161.0	COG0262@1|root,COG0262@2|Bacteria,1RH0P@1224|Proteobacteria,2VSH8@28216|Betaproteobacteria,1KRS3@119069|Hydrogenophilales	119069|Hydrogenophilales	H	Dihydrofolate reductase	-	-	1.5.1.3	ko:K00287	ko00670,ko00790,ko01100,ko01523,map00670,map00790,map01100,map01523	M00126,M00840	R00936,R00937,R00939,R00940,R02235,R02236,R11765	RC00109,RC00110,RC00158	ko00000,ko00001,ko00002,ko01000	-	-	-	DHFR_1
LYD3_k127_3843371_3	1095769.CAHF01000019_gene870	1.283e-135	453.0	COG5001@1|root,COG5001@2|Bacteria,1MU2C@1224|Proteobacteria,2VH3V@28216|Betaproteobacteria,475G8@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	Putative diguanylate phosphodiesterase	-	-	-	-	-	-	-	-	-	-	-	-	EAL,GGDEF,PAS_3,PAS_4,PAS_9
LYD3_k127_3843371_5	1198452.Jab_2c26080	1.249e-103	364.0	COG2199@1|root,COG2199@2|Bacteria,1RKMU@1224|Proteobacteria,2WBGU@28216|Betaproteobacteria,475SJ@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	diguanylate cyclase	-	-	-	-	-	-	-	-	-	-	-	-	GGDEF
LYD3_k127_3843371_2	748247.AZKH_p0193	8.237e-163	522.0	COG0265@1|root,COG3016@1|root,COG0265@2|Bacteria,COG3016@2|Bacteria,1MX1I@1224|Proteobacteria,2VPEA@28216|Betaproteobacteria,2KXIP@206389|Rhodocyclales	206389|Rhodocyclales	O	Haem-binding uptake, Tiki superfamily, ChaN	-	-	-	-	-	-	-	-	-	-	-	-	Cofac_haem_bdg,PDZ_2
LYD3_k127_3843371_1	748247.AZKH_p0194	4.661e-287	912.0	COG0308@1|root,COG0308@2|Bacteria,1PVVK@1224|Proteobacteria,2VIU3@28216|Betaproteobacteria,2KY1X@206389|Rhodocyclales	206389|Rhodocyclales	E	Peptidase M1 membrane alanine aminopeptidase	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_M1
LYD3_k127_3843371_0	748247.AZKH_1945	4.141e-292	904.0	COG0318@1|root,COG0318@2|Bacteria,1MUMC@1224|Proteobacteria,2VGZE@28216|Betaproteobacteria,2KV0T@206389|Rhodocyclales	28216|Betaproteobacteria	IQ	AMP-binding enzyme	alkK	-	6.2.1.44	ko:K00666,ko:K20034	ko00920,map00920	-	R10820	RC00004,RC00014	ko00000,ko00001,ko01000,ko01004	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_3843371_6	1123504.JQKD01000006_gene1502	1.545e-47	181.0	COG1075@1|root,COG1075@2|Bacteria,1NJNA@1224|Proteobacteria,2VPNT@28216|Betaproteobacteria,4ABJK@80864|Comamonadaceae	28216|Betaproteobacteria	S	Alpha beta hydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_1,Abhydrolase_6,PGAP1
LYD3_k127_3843371_4	565045.NOR51B_2931	3.543e-108	374.0	COG1020@1|root,COG1020@2|Bacteria,1N7HY@1224|Proteobacteria,1RZG3@1236|Gammaproteobacteria,1J5K2@118884|unclassified Gammaproteobacteria	1236|Gammaproteobacteria	Q	Protein of unknown function (DUF1298)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1298,WES_acyltransf
LYD3_k127_386288_1	477184.KYC_15647	1.094e-88	300.0	COG2721@1|root,COG2721@2|Bacteria,1MU9V@1224|Proteobacteria,2VHJB@28216|Betaproteobacteria,3T2II@506|Alcaligenaceae	28216|Betaproteobacteria	G	dehydratase	uxaA	-	4.2.1.7,4.4.1.24	ko:K01685,ko:K16846	ko00040,ko00270,ko01100,map00040,map00270,map01100	M00631	R01540,R07633	RC00543,RC01785	ko00000,ko00001,ko00002,ko01000	-	-	-	GD_AH_C,SAF
LYD3_k127_386288_0	1100721.ALKO01000024_gene470	1.1e-159	507.0	COG4948@1|root,COG4948@2|Bacteria,1MYZE@1224|Proteobacteria,2VHG7@28216|Betaproteobacteria,4AAXP@80864|Comamonadaceae	28216|Betaproteobacteria	M	mandelate racemase muconate lactonizing	-	-	4.2.1.156,4.2.1.42	ko:K20023	ko00053,map00053	-	R05608	RC00543	ko00000,ko00001,ko01000	-	-	-	MR_MLE_C,MR_MLE_N
LYD3_k127_3888508_0	398527.Bphyt_6076	3.281e-134	436.0	COG2207@1|root,COG2207@2|Bacteria,1N0FA@1224|Proteobacteria,2VKR0@28216|Betaproteobacteria,1K2I8@119060|Burkholderiaceae	28216|Betaproteobacteria	K	Cupin	-	-	-	-	-	-	-	-	-	-	-	-	Cupin_6,HTH_18
LYD3_k127_3888508_1	742159.HMPREF0004_0170	1.811e-72	267.0	COG0625@1|root,COG0625@2|Bacteria,1RHSK@1224|Proteobacteria,2VRHW@28216|Betaproteobacteria,3T3MY@506|Alcaligenaceae	28216|Betaproteobacteria	O	Glutathione S-transferase	-	-	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	GST_C_2,GST_N_3
LYD3_k127_3888508_2	1121013.P873_05400	6.871e-19	88.0	COG2199@1|root,COG3706@2|Bacteria,1RD8D@1224|Proteobacteria,1S0XV@1236|Gammaproteobacteria,1X7WG@135614|Xanthomonadales	135614|Xanthomonadales	T	diguanylate cyclase	-	-	-	-	-	-	-	-	-	-	-	-	GGDEF
LYD3_k127_397583_2	1122236.KB905141_gene1669	1.519e-13	71.0	COG0597@1|root,COG0597@2|Bacteria,1RGV9@1224|Proteobacteria,2VSEP@28216|Betaproteobacteria,2KMS9@206350|Nitrosomonadales	206350|Nitrosomonadales	MU	This protein specifically catalyzes the removal of signal peptides from prolipoproteins	lspA	-	3.4.23.36	ko:K03101	ko03060,map03060	-	-	-	ko00000,ko00001,ko01000,ko01002	-	-	-	Peptidase_A8
LYD3_k127_397583_0	1123367.C666_07810	2.543e-147	473.0	COG0761@1|root,COG0761@2|Bacteria,1MU7G@1224|Proteobacteria,2VHM8@28216|Betaproteobacteria,2KU8H@206389|Rhodocyclales	206389|Rhodocyclales	IM	Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)- butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP MEP pathway for isoprenoid precursor biosynthesis	ispH	-	1.17.7.4	ko:K03527	ko00900,ko01100,ko01110,ko01130,map00900,map01100,map01110,map01130	M00096	R05884,R08210	RC01137,RC01487	ko00000,ko00001,ko00002,ko01000	-	-	-	LYTB
LYD3_k127_397583_1	626418.bglu_1g21680	4.251e-20	95.0	COG3308@1|root,COG3308@2|Bacteria,1N1EF@1224|Proteobacteria,2VU3C@28216|Betaproteobacteria,1K8ZZ@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Predicted membrane protein (DUF2069)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2069
LYD3_k127_401262_0	626887.J057_08496	4.651e-240	756.0	COG1024@1|root,COG1250@1|root,COG1024@2|Bacteria,COG1250@2|Bacteria,1MU9P@1224|Proteobacteria,1RMZ8@1236|Gammaproteobacteria,464P3@72275|Alteromonadaceae	1236|Gammaproteobacteria	I	Belongs to the enoyl-CoA hydratase isomerase family	fadN	-	1.1.1.35	ko:K07516	ko00071,ko00362,ko00650,ko01100,ko01120,ko01200,ko01212,map00071,map00362,map00650,map01100,map01120,map01200,map01212	M00087	R01975,R04737,R04739,R04741,R04743,R04745,R04748,R05305	RC00029,RC00117	ko00000,ko00001,ko00002,ko01000	-	-	-	3HCDH,3HCDH_N,ECH_1
LYD3_k127_4016656_2	1122613.ATUP01000001_gene2020	3.587e-95	324.0	COG0627@1|root,COG0627@2|Bacteria,1QIRQ@1224|Proteobacteria,2TUU5@28211|Alphaproteobacteria,43Z22@69657|Hyphomonadaceae	28211|Alphaproteobacteria	S	Putative esterase	-	-	-	-	-	-	-	-	-	-	-	-	Esterase
LYD3_k127_4016656_1	1031711.RSPO_c00950	7.835e-99	331.0	COG2321@1|root,COG2321@2|Bacteria,1MU4U@1224|Proteobacteria,2VH8U@28216|Betaproteobacteria,1K376@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Putative neutral zinc metallopeptidase	-	-	-	ko:K07054	-	-	-	-	ko00000	-	-	-	Zn_peptidase
LYD3_k127_4016656_0	760117.JN27_23090	1.862e-139	455.0	COG4579@1|root,COG4579@2|Bacteria,1MVRB@1224|Proteobacteria,2VJMA@28216|Betaproteobacteria,4739B@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	Bifunctional enzyme which can phosphorylate or dephosphorylate isocitrate dehydrogenase (IDH) on a specific serine residue. This is a regulatory mechanism which enables bacteria to bypass the Krebs cycle via the glyoxylate shunt in response to the source of carbon. When bacteria are grown on glucose, IDH is fully active and unphosphorylated, but when grown on acetate or ethanol, the activity of IDH declines drastically concomitant with its phosphorylation	aceK	-	2.7.11.5	ko:K00906	-	-	-	-	ko00000,ko01000	-	-	-	AceK
LYD3_k127_4016771_3	1157708.KB907470_gene236	3.311e-68	239.0	COG0477@1|root,COG0477@2|Bacteria,1QTWJ@1224|Proteobacteria,2WGG4@28216|Betaproteobacteria	28216|Betaproteobacteria	P	major facilitator superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_4016771_1	365044.Pnap_1548	5.686e-104	355.0	COG3618@1|root,COG3618@2|Bacteria,1N2QM@1224|Proteobacteria,2VRWM@28216|Betaproteobacteria,4AHJU@80864|Comamonadaceae	28216|Betaproteobacteria	S	Amidohydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Amidohydro_2
LYD3_k127_4016771_2	1961.JOAK01000016_gene5504	8.114e-84	302.0	COG3391@1|root,COG5492@1|root,COG3391@2|Bacteria,COG5492@2|Bacteria,2GK45@201174|Actinobacteria	201174|Actinobacteria	M	40-residue YVTN family beta-propeller repeat	-	-	-	-	-	-	-	-	-	-	-	-	Big_3_5,Cytochrom_D1,Lactonase
LYD3_k127_4016771_0	1123261.AXDW01000018_gene823	1.611e-209	654.0	COG1062@1|root,COG1062@2|Bacteria,1MUK4@1224|Proteobacteria,1RNQ4@1236|Gammaproteobacteria,1X3UT@135614|Xanthomonadales	135614|Xanthomonadales	C	Belongs to the zinc-containing alcohol dehydrogenase family. Class-III subfamily	adhC	-	1.1.1.1,1.1.1.284	ko:K00121	ko00010,ko00071,ko00350,ko00625,ko00626,ko00680,ko00830,ko00980,ko00982,ko01100,ko01110,ko01120,ko01130,ko01200,ko01220,ko05204,map00010,map00071,map00350,map00625,map00626,map00680,map00830,map00980,map00982,map01100,map01110,map01120,map01130,map01200,map01220,map05204	-	R00623,R00754,R02124,R04880,R05233,R05234,R06917,R06927,R06983,R07105,R08281,R08306,R08310	RC00050,RC00087,RC00088,RC00099,RC00116,RC00649,RC01715,RC01734,RC02273	ko00000,ko00001,ko01000	-	-	-	ADH_N,ADH_zinc_N
LYD3_k127_4020924_0	1003200.AXXA_29862	2.617e-278	867.0	COG0060@1|root,COG0060@2|Bacteria,1MVBQ@1224|Proteobacteria,2VIEJ@28216|Betaproteobacteria,3T1IX@506|Alcaligenaceae	28216|Betaproteobacteria	J	amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile)	ileS	-	6.1.1.5	ko:K01870	ko00970,map00970	M00359,M00360	R03656	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	Anticodon_1,tRNA-synt_1,zf-FPG_IleRS
LYD3_k127_4020924_1	1121035.AUCH01000007_gene497	3.267e-98	331.0	COG0196@1|root,COG0196@2|Bacteria,1MV9I@1224|Proteobacteria,2VHIP@28216|Betaproteobacteria,2KVAZ@206389|Rhodocyclales	206389|Rhodocyclales	H	Belongs to the ribF family	ribF	-	2.7.1.26,2.7.7.2	ko:K11753	ko00740,ko01100,ko01110,map00740,map01100,map01110	M00125	R00161,R00549	RC00002,RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	FAD_syn,Flavokinase
LYD3_k127_4020924_2	1463857.JOFZ01000007_gene289	3.312e-12	67.0	COG0656@1|root,COG0656@2|Bacteria,2H09X@201174|Actinobacteria	201174|Actinobacteria	S	aldo keto reductase	-	-	-	-	-	-	-	-	-	-	-	-	Aldo_ket_red
LYD3_k127_4021026_1	460265.Mnod_4822	2.62e-77	261.0	COG0223@1|root,COG0223@2|Bacteria,1MW07@1224|Proteobacteria,2U0GD@28211|Alphaproteobacteria,1JSQ7@119045|Methylobacteriaceae	28211|Alphaproteobacteria	H	PFAM formyl transferase domain protein	-	-	2.1.2.9	ko:K00604	ko00670,ko00970,map00670,map00970	-	R03940	RC00026,RC00165	ko00000,ko00001,ko01000	-	-	-	Formyl_trans_C,Formyl_trans_N
LYD3_k127_4021026_0	472759.Nhal_2430	1.828e-271	845.0	COG1894@1|root,COG1905@1|root,COG1894@2|Bacteria,COG1905@2|Bacteria,1MV8F@1224|Proteobacteria,1RMUD@1236|Gammaproteobacteria,1X03E@135613|Chromatiales	135613|Chromatiales	C	Respiratory-chain NADH dehydrogenase domain, 51 kDa subunit	-	-	1.17.1.9	ko:K00122	ko00630,ko00680,ko01100,ko01120,ko01200,map00630,map00680,map01100,map01120,map01200	-	R00519	RC02796	ko00000,ko00001,ko01000	-	-	-	2Fe-2S_thioredx,Complex1_51K,NADH_4Fe-4S,SLBB
LYD3_k127_4021026_2	1276756.AUEX01000001_gene1069	4.597e-27	128.0	COG3383@1|root,COG3383@2|Bacteria,1QTZB@1224|Proteobacteria,2VP2Q@28216|Betaproteobacteria,4AAQA@80864|Comamonadaceae	28216|Betaproteobacteria	C	formate dehydrogenase, alpha subunit	fdhA1	-	1.17.1.9,1.17.99.7	ko:K00123,ko:K22015	ko00630,ko00680,ko01100,ko01120,ko01200,map00630,map00680,map01100,map01120,map01200	-	R00519	RC02796	ko00000,ko00001,ko01000	-	-	-	Fer2_4,Fer4,Fer4_9,Molybdop_Fe4S4,Molybdopterin,Molydop_binding,NADH-G_4Fe-4S_3
LYD3_k127_4021590_0	85643.Tmz1t_2948	5.977e-114	374.0	COG1924@1|root,COG1924@2|Bacteria,1R6HU@1224|Proteobacteria,2VSQQ@28216|Betaproteobacteria,2KXX8@206389|Rhodocyclales	206389|Rhodocyclales	I	BadF/BadG/BcrA/BcrD ATPase family	-	-	1.3.7.8	ko:K04115	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	M00541	R02451	RC00002,RC01839	ko00000,ko00001,ko00002,ko01000	-	-	-	BcrAD_BadFG
LYD3_k127_4021590_3	316057.RPD_1533	1.047e-37	142.0	COG1145@1|root,COG1145@2|Bacteria,1MZ6H@1224|Proteobacteria,2UG0Z@28211|Alphaproteobacteria	28211|Alphaproteobacteria	C	ferredoxin	-	-	-	-	-	-	-	-	-	-	-	-	Fer4
LYD3_k127_4021590_5	338969.Rfer_0862	0.0007058	43.0	COG1853@1|root,COG1853@2|Bacteria,1NB1B@1224|Proteobacteria,2VQ0V@28216|Betaproteobacteria,4AGUW@80864|Comamonadaceae	28216|Betaproteobacteria	S	Flavin reductase like domain	-	-	-	-	-	-	-	-	-	-	-	-	Flavin_Reduct
LYD3_k127_4021590_1	1163617.SCD_n00446	1.184e-113	377.0	COG4243@1|root,COG4243@2|Bacteria,1MW9C@1224|Proteobacteria,2VPG2@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Vitamin k epoxide reductase	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4021590_4	1123392.AQWL01000005_gene2958	1.879e-33	132.0	COG2151@1|root,COG2151@2|Bacteria,1MZ9Y@1224|Proteobacteria,2VUA0@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Iron-sulfur cluster assembly protein	-	-	-	-	-	-	-	-	-	-	-	-	FeS_assembly_P
LYD3_k127_4021590_2	1244869.H261_21688	1.852e-67	244.0	COG0454@1|root,COG0456@2|Bacteria,1RGZ2@1224|Proteobacteria	1224|Proteobacteria	K	Acetyltransferase (GNAT) family	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_4022634_0	748247.AZKH_4246	1.872e-158	513.0	COG1200@1|root,COG1200@2|Bacteria,1MWN2@1224|Proteobacteria,2VHE8@28216|Betaproteobacteria,2KUCJ@206389|Rhodocyclales	206389|Rhodocyclales	L	Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y-DNA)	recG	-	3.6.4.12	ko:K03655	ko03440,map03440	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	DEAD,Helicase_C,RecG_wedge
LYD3_k127_4022634_2	1120999.JONM01000006_gene2471	1.838e-42	160.0	COG0251@1|root,COG0251@2|Bacteria,1MZ3J@1224|Proteobacteria,2VRQ3@28216|Betaproteobacteria,2KR3Y@206351|Neisseriales	206351|Neisseriales	J	endoribonuclease L-PSP	-	-	-	-	-	-	-	-	-	-	-	-	Ribonuc_L-PSP
LYD3_k127_4022634_1	375286.mma_1899	1.837e-90	305.0	COG0586@1|root,COG0607@1|root,COG0586@2|Bacteria,COG0607@2|Bacteria,1R6F1@1224|Proteobacteria,2VMW2@28216|Betaproteobacteria,4723X@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	SNARE associated Golgi protein	dedA_2	-	-	-	-	-	-	-	-	-	-	-	Rhodanese,SNARE_assoc
LYD3_k127_4031289_3	243233.MCA0516	2.336e-51	185.0	COG0652@1|root,COG0652@2|Bacteria,1R9ZQ@1224|Proteobacteria,1S222@1236|Gammaproteobacteria,1XDKY@135618|Methylococcales	135618|Methylococcales	M	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides	-	-	5.2.1.8	ko:K03768	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	Pro_isomerase
LYD3_k127_4031289_1	339670.Bamb_2116	9.739e-73	254.0	COG0652@1|root,COG0652@2|Bacteria,1R9ZQ@1224|Proteobacteria,2VQ3Z@28216|Betaproteobacteria,1K11Z@119060|Burkholderiaceae	28216|Betaproteobacteria	O	PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides	ppiB	-	5.2.1.8	ko:K03768	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	Pro_isomerase
LYD3_k127_4031289_2	1384056.N787_05765	1.32e-64	238.0	COG2908@1|root,COG2908@2|Bacteria,1N3U7@1224|Proteobacteria,1RP1X@1236|Gammaproteobacteria,1X5K2@135614|Xanthomonadales	135614|Xanthomonadales	S	Hydrolyzes the pyrophosphate bond of UDP-2,3- diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate (lipid X) and UMP by catalyzing the attack of water at the alpha-P atom. Involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell	lpxH	-	3.6.1.54	ko:K03269	ko00540,ko01100,map00540,map01100	M00060	R04549	RC00002	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Metallophos,Metallophos_2
LYD3_k127_4031289_0	1349767.GJA_3602	3.658e-142	457.0	COG2873@1|root,COG2873@2|Bacteria,1NQME@1224|Proteobacteria,2VI2K@28216|Betaproteobacteria,475QE@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Cys/Met metabolism PLP-dependent enzyme	mdeA_1	-	2.5.1.48,2.5.1.49	ko:K01739,ko:K01740	ko00270,ko00450,ko00920,ko01100,ko01110,ko01130,ko01230,map00270,map00450,map00920,map01100,map01110,map01130,map01230	M00017	R00999,R01287,R01288,R02508,R03217,R03260,R04859,R04944,R04945,R04946	RC00020,RC00056,RC00069,RC00420,RC02821,RC02848,RC02866	ko00000,ko00001,ko00002,ko01000	-	-	-	Cys_Met_Meta_PP
LYD3_k127_4031391_1	1288494.EBAPG3_5950	1.446e-49	181.0	COG1716@1|root,COG3456@1|root,COG1716@2|Bacteria,COG3456@2|Bacteria,1R3R7@1224|Proteobacteria,2VPTI@28216|Betaproteobacteria	28216|Betaproteobacteria	T	TIGRFAM type VI secretion system FHA domain protein	-	-	-	ko:K07169,ko:K11913	ko02025,ko03070,map02025,map03070	-	-	-	ko00000,ko00001,ko02044	-	-	-	FHA
LYD3_k127_4031391_0	1298867.AUES01000038_gene820	1.458e-61	235.0	COG0659@1|root,COG0664@1|root,COG0659@2|Bacteria,COG0664@2|Bacteria,1MVWV@1224|Proteobacteria,2UNZ9@28211|Alphaproteobacteria,3K2C1@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	PT	Sulfate permease family	-	-	-	-	-	-	-	-	-	-	-	-	STAS,Sulfate_transp,cNMP_binding
LYD3_k127_4036333_1	243233.MCA0908	1.773e-191	606.0	COG0464@1|root,COG0464@2|Bacteria,1MW4T@1224|Proteobacteria,1RPUI@1236|Gammaproteobacteria	1236|Gammaproteobacteria	O	COG0464 ATPases of the AAA class	-	-	-	-	-	-	-	-	-	-	-	-	AAA
LYD3_k127_4036333_0	448385.sce0762	2.235e-225	719.0	COG1505@1|root,COG1505@2|Bacteria,1NZ7N@1224|Proteobacteria,437WU@68525|delta/epsilon subdivisions,2X9PZ@28221|Deltaproteobacteria,2YUI9@29|Myxococcales	28221|Deltaproteobacteria	E	Prolyl oligopeptidase, N-terminal beta-propeller domain	-	-	3.4.21.26	ko:K01322	ko04614,map04614	-	-	-	ko00000,ko00001,ko01000,ko01002	-	-	-	Peptidase_S9,Peptidase_S9_N
LYD3_k127_4036333_7	1144310.PMI07_005776	5.705e-05	54.0	COG1028@1|root,COG1028@2|Bacteria,1R3U8@1224|Proteobacteria,2U1SI@28211|Alphaproteobacteria,4BJER@82115|Rhizobiaceae	28211|Alphaproteobacteria	IQ	KR domain	-	-	-	-	-	-	-	-	-	-	-	-	adh_short_C2
LYD3_k127_4036333_6	305700.B447_20588	1.507e-84	294.0	COG2933@1|root,COG2933@2|Bacteria,1MWBM@1224|Proteobacteria,2VJ71@28216|Betaproteobacteria,2KVEG@206389|Rhodocyclales	206389|Rhodocyclales	J	Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA methyltransferase RlmE family. RlmM subfamily	rlmM	-	2.1.1.186	ko:K06968	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	FtsJ
LYD3_k127_4036333_5	762376.AXYL_01604	2.264e-120	398.0	COG3191@1|root,COG3191@2|Bacteria,1MWDP@1224|Proteobacteria,2VKAV@28216|Betaproteobacteria,3T22D@506|Alcaligenaceae	28216|Betaproteobacteria	EQ	Peptidase family S58	dmpA	-	3.4.11.19	ko:K01266	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_S58
LYD3_k127_4036333_3	1031711.RSPO_c01975	1.501e-153	490.0	COG1173@1|root,COG1173@2|Bacteria,1MWMX@1224|Proteobacteria,2VIGP@28216|Betaproteobacteria,1K3XX@119060|Burkholderiaceae	28216|Betaproteobacteria	EP	PFAM binding-protein-dependent transport systems inner membrane component	gsiD	-	-	ko:K13891	ko02010,map02010	M00348	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5.11	-	-	BPD_transp_1,OppC_N
LYD3_k127_4036333_2	257310.BB3711	1.659e-155	494.0	COG0601@1|root,COG0601@2|Bacteria,1MU8Z@1224|Proteobacteria,2VJVG@28216|Betaproteobacteria,3T1XS@506|Alcaligenaceae	28216|Betaproteobacteria	P	ABC-type dipeptide oligopeptide nickel transport systems, permease components	dppB1	-	-	ko:K13890	ko02010,map02010	M00348	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5.11	-	-	BPD_transp_1
LYD3_k127_4036333_4	1144319.PMI16_02450	1.566e-125	406.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2VHXW@28216|Betaproteobacteria,4764T@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	ABC-type dipeptide transport system, periplasmic	gsiB_6	-	-	ko:K02035,ko:K13889	ko02010,ko02024,map02010,map02024	M00239,M00348	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.11	-	-	SBP_bac_5
LYD3_k127_4037581_0	228410.NE1762	9.81e-119	387.0	COG0326@1|root,COG0326@2|Bacteria,1MUUE@1224|Proteobacteria,2VHHJ@28216|Betaproteobacteria,372VA@32003|Nitrosomonadales	28216|Betaproteobacteria	O	Molecular chaperone. Has ATPase activity	htpG	-	-	ko:K04079	ko04141,ko04151,ko04217,ko04612,ko04621,ko04626,ko04657,ko04659,ko04914,ko04915,ko05200,ko05215,ko05418,map04141,map04151,map04217,map04612,map04621,map04626,map04657,map04659,map04914,map04915,map05200,map05215,map05418	-	-	-	ko00000,ko00001,ko01009,ko03029,ko03051,ko03110,ko04131,ko04147	-	-	-	HATPase_c,HATPase_c_3,HSP90
LYD3_k127_4037581_2	394221.Mmar10_1196	3.886e-28	125.0	COG4094@1|root,COG4094@2|Bacteria,1RDHB@1224|Proteobacteria,2TQWY@28211|Alphaproteobacteria,43YD2@69657|Hyphomonadaceae	28211|Alphaproteobacteria	S	NnrU protein	nnrU	-	-	-	-	-	-	-	-	-	-	-	NnrU
LYD3_k127_4037581_1	279714.FuraDRAFT_3604	2.916e-100	342.0	COG0548@1|root,COG0548@2|Bacteria,1MU17@1224|Proteobacteria,2VIIY@28216|Betaproteobacteria,2KPN1@206351|Neisseriales	206351|Neisseriales	E	Belongs to the acetylglutamate kinase family. ArgB subfamily	argB	-	2.7.2.8	ko:K00930	ko00220,ko01100,ko01110,ko01130,ko01210,ko01230,map00220,map01100,map01110,map01130,map01210,map01230	M00028	R02649	RC00002,RC00043	ko00000,ko00001,ko00002,ko01000	-	-	-	AA_kinase
LYD3_k127_4037581_3	1211115.ALIQ01000238_gene3256	7.885e-11	66.0	COG2242@1|root,COG2242@2|Bacteria,1R0I9@1224|Proteobacteria,2TZR6@28211|Alphaproteobacteria	28211|Alphaproteobacteria	H	Histone methylation protein DOT1	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_31
LYD3_k127_4053481_0	1121033.AUCF01000012_gene844	1.274e-34	143.0	COG0483@1|root,COG0483@2|Bacteria,1R3TP@1224|Proteobacteria,2U4FB@28211|Alphaproteobacteria,2JT38@204441|Rhodospirillales	204441|Rhodospirillales	G	Inositol monophosphatase family	-	-	3.1.3.25	ko:K01092	ko00521,ko00562,ko01100,ko04070,map00521,map00562,map01100,map04070	M00131	R01185,R01186,R01187	RC00078	ko00000,ko00001,ko00002,ko01000	-	-	-	Inositol_P
LYD3_k127_4053481_1	1123392.AQWL01000005_gene3179	8.318e-20	94.0	COG0695@1|root,COG0695@2|Bacteria,1N7X3@1224|Proteobacteria,2VVPB@28216|Betaproteobacteria,1KSYP@119069|Hydrogenophilales	119069|Hydrogenophilales	O	Domain of unknown function (DUF4124)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4124,Glutaredoxin
LYD3_k127_4054328_0	883078.HMPREF9695_01045	3.169e-284	882.0	COG1154@1|root,COG1154@2|Bacteria,1MUSJ@1224|Proteobacteria,2TRDD@28211|Alphaproteobacteria,3JSDV@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	H	Catalyzes the acyloin condensation reaction between C atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D-xylulose-5-phosphate (DXP)	dxs	-	2.2.1.7	ko:K01662	ko00730,ko00900,ko01100,ko01110,ko01130,map00730,map00900,map01100,map01110,map01130	M00096	R05636	RC00032	ko00000,ko00001,ko00002,ko01000	-	-	-	DXP_synthase_N,Transket_pyr,Transketolase_C
LYD3_k127_4054328_2	883078.HMPREF9695_01044	1.068e-141	456.0	COG0761@1|root,COG0761@2|Bacteria,1MU7G@1224|Proteobacteria,2TRNR@28211|Alphaproteobacteria,3JS8Q@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	IM	Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)- butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP MEP pathway for isoprenoid precursor biosynthesis	ispH	-	1.17.7.4	ko:K03527	ko00900,ko01100,ko01110,ko01130,map00900,map01100,map01110,map01130	M00096	R05884,R08210	RC01137,RC01487	ko00000,ko00001,ko00002,ko01000	-	-	-	LYTB
LYD3_k127_4054328_1	1366050.N234_32370	6.025e-199	624.0	COG0535@1|root,COG0535@2|Bacteria,1MXM1@1224|Proteobacteria,2VNRX@28216|Betaproteobacteria,1K451@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Hopanoid biosynthesis associated radical SAM protein HpnH	hpnH	-	-	-	-	-	-	-	-	-	-	-	DUF3463,Fer4_14,Radical_SAM
LYD3_k127_4054328_4	666684.AfiDRAFT_0072	0.0002146	48.0	COG1570@1|root,COG1570@2|Bacteria,1QW7S@1224|Proteobacteria,2TRHG@28211|Alphaproteobacteria,3JVEV@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	L	LTXXQ motif family protein	-	-	-	-	-	-	-	-	-	-	-	-	LTXXQ
LYD3_k127_4054328_3	1187851.A33M_4201	4.545e-52	185.0	COG1657@1|root,COG1657@2|Bacteria,1MUIP@1224|Proteobacteria,2TRF3@28211|Alphaproteobacteria	28211|Alphaproteobacteria	I	Squalene--hopene cyclase	shc	-	4.2.1.129,5.4.99.17	ko:K06045	ko00909,ko01110,map00909,map01110	-	R07322,R07323	RC01850,RC01851	ko00000,ko00001,ko01000	-	-	-	SQHop_cyclase_C,SQHop_cyclase_N
LYD3_k127_4056232_4	426114.THI_0449	5.313e-31	122.0	COG0527@1|root,COG0527@2|Bacteria,1MW3H@1224|Proteobacteria,2VINP@28216|Betaproteobacteria,1KJ9U@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	Belongs to the aspartokinase family	lysC	GO:0003674,GO:0003824,GO:0004072,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0006082,GO:0006520,GO:0006793,GO:0006796,GO:0006807,GO:0008150,GO:0008152,GO:0008652,GO:0009058,GO:0009507,GO:0009532,GO:0009536,GO:0009570,GO:0009987,GO:0016053,GO:0016301,GO:0016310,GO:0016740,GO:0016772,GO:0016774,GO:0019202,GO:0019752,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044281,GO:0044283,GO:0044422,GO:0044424,GO:0044434,GO:0044435,GO:0044444,GO:0044446,GO:0044464,GO:0046394,GO:0071704,GO:1901564,GO:1901566,GO:1901576	2.7.2.4	ko:K00928	ko00260,ko00261,ko00270,ko00300,ko01100,ko01110,ko01120,ko01130,ko01210,ko01230,map00260,map00261,map00270,map00300,map01100,map01110,map01120,map01130,map01210,map01230	M00016,M00017,M00018,M00033,M00525,M00526,M00527	R00480	RC00002,RC00043	ko00000,ko00001,ko00002,ko01000	-	-	-	AA_kinase,ACT,ACT_7
LYD3_k127_4056232_0	1000565.METUNv1_00622	3.222e-197	623.0	COG0304@1|root,COG0304@2|Bacteria,1MU1X@1224|Proteobacteria,2VI6I@28216|Betaproteobacteria,2KUW2@206389|Rhodocyclales	206389|Rhodocyclales	I	Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP	-	-	2.3.1.179	ko:K09458	ko00061,ko00780,ko01100,ko01212,map00061,map00780,map01100,map01212	M00083,M00572	R04355,R04726,R04952,R04957,R04960,R04963,R04968,R07762,R10115,R10119	RC00039,RC02728,RC02729,RC02888	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	Ketoacyl-synt_C,ketoacyl-synt
LYD3_k127_4056232_3	62928.azo1626	1.57e-34	136.0	COG0236@1|root,COG0236@2|Bacteria,1MZ4P@1224|Proteobacteria,2VTZH@28216|Betaproteobacteria,2KWX1@206389|Rhodocyclales	206389|Rhodocyclales	IQ	Carrier of the growing fatty acid chain in fatty acid biosynthesis	acpP	-	-	ko:K02078	-	-	-	-	ko00000,ko00001	-	-	-	PP-binding
LYD3_k127_4056232_2	519989.ECTPHS_03212	4.68e-101	336.0	COG1028@1|root,COG1028@2|Bacteria,1MU6X@1224|Proteobacteria,1RMBB@1236|Gammaproteobacteria,1WXR9@135613|Chromatiales	135613|Chromatiales	IQ	PFAM Short-chain dehydrogenase reductase SDR	fabG	-	1.1.1.100	ko:K00059	ko00061,ko00333,ko00780,ko01040,ko01100,ko01130,ko01212,map00061,map00333,map00780,map01040,map01100,map01130,map01212	M00083,M00572	R04533,R04534,R04536,R04543,R04566,R04953,R04964,R07759,R07763,R10116,R10120,R11671	RC00029,RC00117	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	adh_short_C2
LYD3_k127_4056232_1	640081.Dsui_2447	2.327e-104	346.0	COG0331@1|root,COG0331@2|Bacteria,1MV6N@1224|Proteobacteria,2VJF7@28216|Betaproteobacteria,2KV8M@206389|Rhodocyclales	206389|Rhodocyclales	I	malonyl CoA-acyl carrier protein transacylase	fabD	-	2.3.1.39	ko:K00645	ko00061,ko00333,ko01100,ko01130,ko01212,map00061,map00333,map01100,map01130,map01212	M00082	R01626,R11671	RC00004,RC00039,RC02727	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	Acyl_transf_1
LYD3_k127_4057606_0	1385517.N800_04625	4.367e-283	884.0	COG1028@1|root,COG3320@1|root,COG1028@2|Bacteria,COG3320@2|Bacteria,1QSHC@1224|Proteobacteria,1RQP8@1236|Gammaproteobacteria,1X3FH@135614|Xanthomonadales	135614|Xanthomonadales	Q	Male sterility protein	-	-	-	-	-	-	-	-	-	-	-	-	NAD_binding_4,adh_short
LYD3_k127_4057606_5	365046.Rta_08670	3.707e-15	88.0	COG3937@1|root,COG3937@2|Bacteria,1RIXG@1224|Proteobacteria,2VT1J@28216|Betaproteobacteria,4ADWD@80864|Comamonadaceae	28216|Betaproteobacteria	S	PFAM poly granule associated family protein	-	-	-	-	-	-	-	-	-	-	-	-	Phasin
LYD3_k127_4057606_4	357808.RoseRS_0103	1.9e-25	108.0	COG4281@1|root,COG4281@2|Bacteria,2G98T@200795|Chloroflexi,377KT@32061|Chloroflexia	32061|Chloroflexia	I	PFAM acyl-coA-binding protein, ACBP	-	-	-	-	-	-	-	-	-	-	-	-	ACBP
LYD3_k127_4057606_1	1123253.AUBD01000001_gene1592	2.857e-131	436.0	COG1020@1|root,COG1020@2|Bacteria,1N7HY@1224|Proteobacteria,1S1HS@1236|Gammaproteobacteria,1X48P@135614|Xanthomonadales	135614|Xanthomonadales	Q	Protein of unknown function (DUF1298)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1298,WES_acyltransf
LYD3_k127_4057606_3	402626.Rpic_0826	2.397e-75	274.0	COG0834@1|root,COG0834@2|Bacteria,1MV5D@1224|Proteobacteria,2VIWR@28216|Betaproteobacteria,1K6RP@119060|Burkholderiaceae	28216|Betaproteobacteria	ET	Amino acid ABC transporter substrate-binding protein	-	-	-	ko:K10001	ko02010,ko02020,map02010,map02020	M00230	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.3.19,3.A.1.3.4	-	-	SBP_bac_3
LYD3_k127_4057606_2	1454004.AW11_03507	8.35e-88	297.0	COG0457@1|root,COG0457@2|Bacteria,1R3PT@1224|Proteobacteria,2VN88@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Tetratricopeptide repeat	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4060320_0	1158292.JPOE01000005_gene217	6.108e-151	492.0	COG2230@1|root,COG2230@2|Bacteria,1MX3U@1224|Proteobacteria,2VSBW@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Mycolic acid cyclopropane synthetase	-	-	2.1.1.79	ko:K00574	-	-	-	-	ko00000,ko01000	-	-	-	CMAS
LYD3_k127_4060320_1	1288494.EBAPG3_16330	1.78e-150	488.0	COG0513@1|root,COG0513@2|Bacteria,1MU49@1224|Proteobacteria,2VH16@28216|Betaproteobacteria,371SP@32003|Nitrosomonadales	28216|Betaproteobacteria	JKL	Belongs to the DEAD box helicase family	rhlE1	GO:0003674,GO:0003724,GO:0003824,GO:0004004,GO:0004386,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0008026,GO:0008104,GO:0008150,GO:0008186,GO:0016462,GO:0016787,GO:0016817,GO:0016818,GO:0016887,GO:0017111,GO:0032991,GO:0033036,GO:0035770,GO:0036464,GO:0042623,GO:0043186,GO:0043226,GO:0043228,GO:0043229,GO:0043232,GO:0044424,GO:0044444,GO:0044464,GO:0045495,GO:0051179,GO:0060293,GO:0070035,GO:0140098,GO:1990904	-	-	-	-	-	-	-	-	-	-	DEAD,Helicase_C
LYD3_k127_4060320_3	748247.AZKH_2906	5.261e-81	281.0	COG3327@1|root,COG3327@2|Bacteria,1R4IF@1224|Proteobacteria,2VP5N@28216|Betaproteobacteria,2KVFG@206389|Rhodocyclales	206389|Rhodocyclales	K	PaaX family	padR	-	-	ko:K02616	-	-	-	-	ko00000,ko03000	-	-	-	PaaX,PaaX_C
LYD3_k127_4060320_2	760117.JN27_17490	1.699e-136	454.0	COG3396@1|root,COG3396@2|Bacteria,1MVQ7@1224|Proteobacteria,2VHQZ@28216|Betaproteobacteria,473RH@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Phenylacetic acid catabolic protein	paaA	-	1.14.13.149	ko:K02609	ko00360,ko01120,map00360,map01120	-	R09838	RC02690	ko00000,ko00001,ko01000	-	-	-	PaaA_PaaC
LYD3_k127_4062345_3	935557.ATYB01000008_gene5336	4.314e-05	50.0	COG1123@1|root,COG4172@2|Bacteria,1MU09@1224|Proteobacteria,2TQP0@28211|Alphaproteobacteria,4BD6E@82115|Rhizobiaceae	28211|Alphaproteobacteria	P	Belongs to the ABC transporter superfamily	-	-	-	ko:K02031,ko:K02032,ko:K13892	ko02010,ko02024,map02010,map02024	M00239,M00348	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.11	-	-	ABC_tran,oligo_HPY
LYD3_k127_4062345_1	395495.Lcho_1273	1.181e-144	467.0	COG4239@1|root,COG4239@2|Bacteria,1MUM5@1224|Proteobacteria,2VHVN@28216|Betaproteobacteria,1KPAN@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	PFAM binding-protein-dependent transport systems inner membrane component	dppC2	-	-	ko:K13895	ko02010,map02010	M00349	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5.21,3.A.1.5.24	-	-	BPD_transp_1,OppC_N
LYD3_k127_4062345_0	395495.Lcho_1274	6.67e-169	539.0	COG4174@1|root,COG4174@2|Bacteria,1MVKE@1224|Proteobacteria,2VIBF@28216|Betaproteobacteria,1KM5Y@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	PFAM binding-protein-dependent transport systems inner membrane component	yejB	-	-	ko:K13894	ko02010,map02010	M00349	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5.21,3.A.1.5.24	-	-	BPD_transp_1
LYD3_k127_4062345_2	395495.Lcho_1277	3.406e-66	233.0	COG4166@1|root,COG4166@2|Bacteria,1MUVU@1224|Proteobacteria,2VHFM@28216|Betaproteobacteria,1KP9M@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	Bacterial extracellular solute-binding proteins, family 5 Middle	-	-	-	ko:K02035,ko:K13893	ko02010,ko02024,map02010,map02024	M00239,M00349	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.21,3.A.1.5.24	-	-	SBP_bac_5
LYD3_k127_4078981_1	375286.mma_3104	4.144e-24	102.0	COG1177@1|root,COG1177@2|Bacteria,1MVC5@1224|Proteobacteria,2VHYY@28216|Betaproteobacteria,473TP@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Binding-protein-dependent transport system inner membrane component	potC	-	-	ko:K11070,ko:K11074	ko02010,map02010	M00299,M00300	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.11.1,3.A.1.11.2	-	-	BPD_transp_1
LYD3_k127_4078981_0	1005048.CFU_0650	5.376e-168	535.0	COG0687@1|root,COG0687@2|Bacteria,1MUYW@1224|Proteobacteria,2VJDV@28216|Betaproteobacteria,472IF@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Required for the activity of the bacterial periplasmic transport system of putrescine	potD	-	-	ko:K02055,ko:K11069,ko:K11073	ko02010,ko02024,map02010,map02024	M00193,M00299,M00300	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.11,3.A.1.11.1,3.A.1.11.2	-	-	SBP_bac_6,SBP_bac_8
LYD3_k127_4078981_2	871968.DESME_02605	1.778e-22	104.0	COG1246@1|root,COG1246@2|Bacteria,1V9D3@1239|Firmicutes,25DDN@186801|Clostridia	186801|Clostridia	E	Acetyltransferase (GNAT) domain	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_4087591_6	261292.Nit79A3_0535	0.0007844	42.0	COG1925@1|root,COG1925@2|Bacteria,1N6RM@1224|Proteobacteria,2VU8W@28216|Betaproteobacteria,373GS@32003|Nitrosomonadales	28216|Betaproteobacteria	G	phosphocarrier HPr protein	ptsH	GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0044424,GO:0044464	-	ko:K11189	-	-	-	-	ko00000,ko02000	4.A.2.1	-	-	PTS-HPr
LYD3_k127_4087591_3	1123367.C666_13380	1.597e-46	171.0	COG2893@1|root,COG2893@2|Bacteria,1RHH7@1224|Proteobacteria,2VT9I@28216|Betaproteobacteria,2KWTC@206389|Rhodocyclales	206389|Rhodocyclales	G	Phosphotransferase system, mannose fructose-specific component IIA	ptsL	-	2.7.1.194	ko:K02821	ko00053,ko01100,ko01120,ko02060,map00053,map01100,map01120,map02060	M00283,M00550	R07671	RC00017,RC03206	ko00000,ko00001,ko00002,ko01000,ko02000	4.A.7.1	-	-	EIIA-man
LYD3_k127_4087591_1	522306.CAP2UW1_0674	1.032e-125	413.0	COG0189@1|root,COG0189@2|Bacteria,1MVUA@1224|Proteobacteria,2VIZ3@28216|Betaproteobacteria,1KPRN@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	H	Belongs to the prokaryotic GSH synthase family	gshB	-	6.3.2.3	ko:K01920	ko00270,ko00480,ko01100,map00270,map00480,map01100	M00118	R00497,R10994	RC00096,RC00141	ko00000,ko00001,ko00002,ko01000	-	-	-	GSH-S_ATP,GSH-S_N
LYD3_k127_4087591_2	1123073.KB899242_gene1444	7.296e-48	181.0	COG0500@1|root,COG2226@2|Bacteria,1PVTT@1224|Proteobacteria	1224|Proteobacteria	Q	Methyltransferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_25
LYD3_k127_4087591_0	1123073.KB899242_gene1443	1.149e-146	494.0	COG0438@1|root,COG1216@1|root,COG0438@2|Bacteria,COG1216@2|Bacteria	2|Bacteria	V	Glycosyl transferase, family 2	-	-	2.4.1.268,2.4.1.83	ko:K00721,ko:K07011,ko:K12990,ko:K14597,ko:K16555,ko:K21349	ko00510,ko00906,ko01100,ko02024,ko02025,map00510,map00906,map01100,map02024,map02025	-	R01009,R07544,R07546	RC00005,RC00262	ko00000,ko00001,ko01000,ko01003,ko01005	-	GT2,GT81	-	Glyco_trans_1_4,Glyco_trans_4_4,Glycos_transf_2
LYD3_k127_4087591_5	745310.G432_03515	2.042e-23	104.0	COG0381@1|root,COG0381@2|Bacteria,1MWZN@1224|Proteobacteria,2TTGZ@28211|Alphaproteobacteria,2K0V2@204457|Sphingomonadales	204457|Sphingomonadales	M	Belongs to the UDP-N-acetylglucosamine 2-epimerase family	wecB	-	5.1.3.14	ko:K01791	ko00520,ko01100,ko05111,map00520,map01100,map05111	M00362	R00420	RC00290	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Epimerase_2
LYD3_k127_4092956_4	159087.Daro_3859	3.274e-24	105.0	COG3245@1|root,COG3245@2|Bacteria,1MZBZ@1224|Proteobacteria,2VMBB@28216|Betaproteobacteria,2KWMI@206389|Rhodocyclales	206389|Rhodocyclales	C	cytochrome c5	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrome_CBB3
LYD3_k127_4092956_5	1163617.SCD_n02744	1.732e-21	97.0	COG4654@1|root,COG4654@2|Bacteria,1MZJM@1224|Proteobacteria,2VV99@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Pfam cytochrome c	-	-	-	ko:K08738	ko00920,ko01100,ko01120,ko01524,ko02020,ko04115,ko04210,ko04214,ko04215,ko04932,ko05010,ko05012,ko05014,ko05016,ko05134,ko05145,ko05152,ko05161,ko05164,ko05167,ko05168,ko05200,ko05210,ko05222,ko05416,map00920,map01100,map01120,map01524,map02020,map04115,map04210,map04214,map04215,map04932,map05010,map05012,map05014,map05016,map05134,map05145,map05152,map05161,map05164,map05167,map05168,map05200,map05210,map05222,map05416	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	3.D.4.6	-	-	Cytochrom_C
LYD3_k127_4092956_1	580332.Slit_2495	1.478e-78	267.0	COG3005@1|root,COG3005@2|Bacteria,1MWV2@1224|Proteobacteria,2VPKX@28216|Betaproteobacteria	28216|Betaproteobacteria	C	cytochrome c-type protein	napC	-	-	ko:K02569	-	-	-	-	ko00000	-	-	-	Cytochrom_NNT
LYD3_k127_4092956_6	93220.LV28_13565	9.978e-08	63.0	COG3258@1|root,COG4654@1|root,COG3258@2|Bacteria,COG4654@2|Bacteria,1QTYW@1224|Proteobacteria,2VIQV@28216|Betaproteobacteria,1K6FN@119060|Burkholderiaceae	28216|Betaproteobacteria	C	cytochrome	-	-	-	ko:K08738	ko00920,ko01100,ko01120,ko01524,ko02020,ko04115,ko04210,ko04214,ko04215,ko04932,ko05010,ko05012,ko05014,ko05016,ko05134,ko05145,ko05152,ko05161,ko05164,ko05167,ko05168,ko05200,ko05210,ko05222,ko05416,map00920,map01100,map01120,map01524,map02020,map04115,map04210,map04214,map04215,map04932,map05010,map05012,map05014,map05016,map05134,map05145,map05152,map05161,map05164,map05167,map05168,map05200,map05210,map05222,map05416	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	3.D.4.6	-	-	Cytochrom_C,Cytochrome_CBB3
LYD3_k127_4092956_3	580332.Slit_2498	1.496e-24	113.0	COG4654@1|root,COG4654@2|Bacteria,1MZJM@1224|Proteobacteria,2VV99@28216|Betaproteobacteria,44WKN@713636|Nitrosomonadales	28216|Betaproteobacteria	C	PFAM cytochrome c class I	-	-	-	ko:K08738	ko00920,ko01100,ko01120,ko01524,ko02020,ko04115,ko04210,ko04214,ko04215,ko04932,ko05010,ko05012,ko05014,ko05016,ko05134,ko05145,ko05152,ko05161,ko05164,ko05167,ko05168,ko05200,ko05210,ko05222,ko05416,map00920,map01100,map01120,map01524,map02020,map04115,map04210,map04214,map04215,map04932,map05010,map05012,map05014,map05016,map05134,map05145,map05152,map05161,map05164,map05167,map05168,map05200,map05210,map05222,map05416	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	3.D.4.6	-	-	Cytochrom_C
LYD3_k127_4092956_0	391625.PPSIR1_12063	4.936e-154	501.0	COG1726@1|root,COG1726@2|Bacteria,1MU36@1224|Proteobacteria,42PMT@68525|delta/epsilon subdivisions,2WK84@28221|Deltaproteobacteria	28221|Deltaproteobacteria	C	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol	nqrA	-	1.6.5.8	ko:K00346	-	-	-	-	ko00000,ko01000	-	-	-	Fer4_10,NQRA,NQRA_SLBB
LYD3_k127_4092956_2	344747.PM8797T_12006	6.357e-43	164.0	COG4658@1|root,COG4658@2|Bacteria,2IY8E@203682|Planctomycetes	203682|Planctomycetes	C	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol	nqrB	-	-	-	-	-	-	-	-	-	-	-	NQR2_RnfD_RnfE
LYD3_k127_4094539_1	713587.THITH_10375	2.186e-67	233.0	COG0852@1|root,COG0852@2|Bacteria	2|Bacteria	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	nuoC	GO:0003674,GO:0003824,GO:0003954,GO:0006091,GO:0006119,GO:0006120,GO:0006139,GO:0006163,GO:0006725,GO:0006753,GO:0006793,GO:0006796,GO:0006807,GO:0008137,GO:0008150,GO:0008152,GO:0009117,GO:0009123,GO:0009126,GO:0009141,GO:0009144,GO:0009150,GO:0009161,GO:0009167,GO:0009199,GO:0009205,GO:0009259,GO:0009987,GO:0015980,GO:0016310,GO:0016491,GO:0016651,GO:0016655,GO:0017144,GO:0019637,GO:0019693,GO:0022900,GO:0022904,GO:0034641,GO:0042773,GO:0042775,GO:0044237,GO:0044238,GO:0044281,GO:0045333,GO:0046034,GO:0046483,GO:0050136,GO:0055086,GO:0055114,GO:0071704,GO:0072521,GO:1901135,GO:1901360,GO:1901564	1.6.5.3	ko:K00332	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	iAF987.Gmet_3353	Complex1_30kDa
LYD3_k127_4094539_0	379066.GAU_2400	4.755e-223	699.0	COG0649@1|root,COG0649@2|Bacteria,1ZUHC@142182|Gemmatimonadetes	142182|Gemmatimonadetes	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	-	-	1.6.5.3	ko:K00333	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Complex1_49kDa
LYD3_k127_4102767_0	882378.RBRH_01169	2.348e-257	808.0	COG0258@1|root,COG0749@1|root,COG0258@2|Bacteria,COG0749@2|Bacteria,1MU31@1224|Proteobacteria,2VJ57@28216|Betaproteobacteria,1K0FY@119060|Burkholderiaceae	28216|Betaproteobacteria	L	In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity	polA	-	2.7.7.7	ko:K02335	ko00230,ko00240,ko01100,ko03030,ko03410,ko03420,ko03440,map00230,map00240,map01100,map03030,map03410,map03420,map03440	-	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko01000,ko03032,ko03400	-	-	-	5_3_exonuc,5_3_exonuc_N,DNA_pol_A,DNA_pol_A_exo1
LYD3_k127_4104653_1	288000.BBta_1264	7.357e-70	246.0	COG1116@1|root,COG1116@2|Bacteria,1MUIM@1224|Proteobacteria,2TRHM@28211|Alphaproteobacteria,3JWIN@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	P	ATPases associated with a variety of cellular activities	-	-	-	ko:K02049	-	M00188	-	-	ko00000,ko00002,ko02000	3.A.1.16,3.A.1.17	-	-	ABC_tran
LYD3_k127_4104653_0	1380387.JADM01000001_gene138	7.941e-113	372.0	COG0715@1|root,COG0715@2|Bacteria,1MXA3@1224|Proteobacteria,1RR27@1236|Gammaproteobacteria	1236|Gammaproteobacteria	P	COG0715 ABC-type nitrate sulfonate bicarbonate transport systems, periplasmic components	-	-	-	ko:K02051	-	M00188	-	-	ko00000,ko00002,ko02000	3.A.1.16,3.A.1.17	-	-	NMT1
LYD3_k127_4106256_1	1123368.AUIS01000008_gene2247	5.411e-152	483.0	COG0309@1|root,COG0309@2|Bacteria,1MVCC@1224|Proteobacteria,1RQBE@1236|Gammaproteobacteria,2NC8X@225057|Acidithiobacillales	225057|Acidithiobacillales	O	hydrogenase expression formation protein HypE	-	-	-	ko:K04655	-	-	-	-	ko00000	-	-	-	AIRS,AIRS_C
LYD3_k127_4106256_0	1121033.AUCF01000019_gene3701	3.209e-209	679.0	COG0223@1|root,COG1024@1|root,COG0223@2|Bacteria,COG1024@2|Bacteria,1MWYJ@1224|Proteobacteria,2U064@28211|Alphaproteobacteria,2JVQ0@204441|Rhodospirillales	204441|Rhodospirillales	IJ	Belongs to the enoyl-CoA hydratase isomerase family	-	-	-	ko:K19640	-	-	-	-	ko00000,ko02022	-	-	-	ECH_1,Formyl_trans_C,Formyl_trans_N
LYD3_k127_4106256_5	666681.M301_0384	3.409e-13	76.0	COG4654@1|root,COG4654@2|Bacteria,1N6UN@1224|Proteobacteria,2VW1Y@28216|Betaproteobacteria,2KMZ0@206350|Nitrosomonadales	206350|Nitrosomonadales	C	PFAM cytochrome c, class I	-	-	-	ko:K08738	ko00920,ko01100,ko01120,ko01524,ko02020,ko04115,ko04210,ko04214,ko04215,ko04932,ko05010,ko05012,ko05014,ko05016,ko05134,ko05145,ko05152,ko05161,ko05164,ko05167,ko05168,ko05200,ko05210,ko05222,ko05416,map00920,map01100,map01120,map01524,map02020,map04115,map04210,map04214,map04215,map04932,map05010,map05012,map05014,map05016,map05134,map05145,map05152,map05161,map05164,map05167,map05168,map05200,map05210,map05222,map05416	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	3.D.4.6	-	-	Cytochrom_C,Cytochrome_CBB3
LYD3_k127_4106256_4	1165096.ARWF01000001_gene1179	3.338e-14	76.0	COG4654@1|root,COG4654@2|Bacteria,1N6UN@1224|Proteobacteria,2VW1Y@28216|Betaproteobacteria,2KMZ0@206350|Nitrosomonadales	206350|Nitrosomonadales	C	PFAM cytochrome c, class I	-	-	-	ko:K08738	ko00920,ko01100,ko01120,ko01524,ko02020,ko04115,ko04210,ko04214,ko04215,ko04932,ko05010,ko05012,ko05014,ko05016,ko05134,ko05145,ko05152,ko05161,ko05164,ko05167,ko05168,ko05200,ko05210,ko05222,ko05416,map00920,map01100,map01120,map01524,map02020,map04115,map04210,map04214,map04215,map04932,map05010,map05012,map05014,map05016,map05134,map05145,map05152,map05161,map05164,map05167,map05168,map05200,map05210,map05222,map05416	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	3.D.4.6	-	-	Cytochrom_C,Cytochrome_CBB3
LYD3_k127_4106256_3	1485544.JQKP01000002_gene1605	3.644e-17	83.0	COG2104@1|root,COG2104@2|Bacteria,1NG8E@1224|Proteobacteria,2WARD@28216|Betaproteobacteria,44W4B@713636|Nitrosomonadales	28216|Betaproteobacteria	H	ThiS family	-	-	-	ko:K03154	ko04122,map04122	-	-	-	ko00000,ko00001	-	-	-	ThiS
LYD3_k127_4106256_2	323848.Nmul_A0070	9.13e-129	418.0	COG2022@1|root,COG2022@2|Bacteria,1N0N5@1224|Proteobacteria,2VJ8T@28216|Betaproteobacteria,371NQ@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Catalyzes the rearrangement of 1-deoxy-D-xylulose 5- phosphate (DXP) to produce the thiazole phosphate moiety of thiamine. Sulfur is provided by the thiocarboxylate moiety of the carrier protein ThiS. In vitro, sulfur can be provided by H(2)S	thiG	-	2.8.1.10	ko:K03149	ko00730,ko01100,map00730,map01100	-	R10247	RC03096,RC03097,RC03461	ko00000,ko00001,ko01000	-	-	-	ThiG
LYD3_k127_4110468_4	1000565.METUNv1_02660	1.949e-31	128.0	COG3170@1|root,COG3170@2|Bacteria,1MXV7@1224|Proteobacteria,2VHX1@28216|Betaproteobacteria,2KUPN@206389|Rhodocyclales	206389|Rhodocyclales	NU	COG3170 Tfp pilus assembly protein FimV	-	-	-	ko:K08086	-	-	-	-	ko00000	-	-	-	LysM
LYD3_k127_4110468_0	323848.Nmul_A1917	6.055e-180	572.0	COG0136@1|root,COG0136@2|Bacteria,1MUHG@1224|Proteobacteria,2VH2N@28216|Betaproteobacteria,3729Z@32003|Nitrosomonadales	28216|Betaproteobacteria	E	Catalyzes the NADPH-dependent formation of L-aspartate- semialdehyde (L-ASA) by the reductive dephosphorylation of L- aspartyl-4-phosphate	asd	-	1.2.1.11	ko:K00133	ko00260,ko00261,ko00270,ko00300,ko01100,ko01110,ko01120,ko01130,ko01210,ko01230,map00260,map00261,map00270,map00300,map01100,map01110,map01120,map01130,map01210,map01230	M00016,M00017,M00018,M00033,M00525,M00526,M00527	R02291	RC00684	ko00000,ko00001,ko00002,ko01000	-	-	-	Semialdhyde_dh,Semialdhyde_dhC
LYD3_k127_4110468_1	395494.Galf_0493	7.483e-160	511.0	COG0473@1|root,COG0473@2|Bacteria,1MUH4@1224|Proteobacteria,2VH2M@28216|Betaproteobacteria,44VCP@713636|Nitrosomonadales	28216|Betaproteobacteria	C	Catalyzes the oxidation of 3-carboxy-2-hydroxy-4- methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2- oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate	leuB	GO:0003674,GO:0003824,GO:0003862,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006082,GO:0006520,GO:0006551,GO:0006807,GO:0008150,GO:0008152,GO:0008652,GO:0009058,GO:0009081,GO:0009082,GO:0009098,GO:0009987,GO:0016053,GO:0016491,GO:0016614,GO:0016616,GO:0019752,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0046394,GO:0055114,GO:0071704,GO:1901564,GO:1901566,GO:1901576,GO:1901605,GO:1901607	1.1.1.85	ko:K00052	ko00290,ko00660,ko01100,ko01110,ko01210,ko01230,map00290,map00660,map01100,map01110,map01210,map01230	M00432,M00535	R00994,R04426,R10052	RC00084,RC00417,RC03036	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Iso_dh
LYD3_k127_4110468_2	1095769.CAHF01000011_gene2553	1.134e-107	354.0	COG0066@1|root,COG0066@2|Bacteria,1MVXB@1224|Proteobacteria,2VIJC@28216|Betaproteobacteria,472UP@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate	leuD	-	4.2.1.33,4.2.1.35	ko:K01704	ko00290,ko00660,ko01100,ko01110,ko01210,ko01230,map00290,map00660,map01100,map01110,map01210,map01230	M00432,M00535	R03896,R03898,R03968,R04001,R10170	RC00976,RC00977,RC01041,RC01046,RC03072	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Aconitase_C
LYD3_k127_4110468_3	204773.HEAR1215	1.419e-98	323.0	COG0065@1|root,COG0065@2|Bacteria,1MVYR@1224|Proteobacteria,2VHSH@28216|Betaproteobacteria,472YE@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate	leuC	-	4.2.1.33,4.2.1.35	ko:K01703	ko00290,ko00660,ko00966,ko01100,ko01110,ko01210,ko01230,map00290,map00660,map00966,map01100,map01110,map01210,map01230	M00432,M00535	R03896,R03898,R03968,R04001,R08620,R08624,R08628,R08634,R08641,R08645,R10170	RC00497,RC00976,RC00977,RC01041,RC01046,RC03072	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Aconitase
LYD3_k127_4115215_5	6211.A0A068XYE0	0.0002163	53.0	COG0666@1|root,KOG4177@2759|Eukaryota,38BVK@33154|Opisthokonta,3BAXI@33208|Metazoa,3D42P@33213|Bilateria	33208|Metazoa	M	Ankyrin repeats (many copies)	ANK1	GO:0002262,GO:0002376,GO:0002520,GO:0003674,GO:0005198,GO:0005200,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005737,GO:0005783,GO:0005829,GO:0005856,GO:0005886,GO:0005938,GO:0006725,GO:0006778,GO:0006779,GO:0006807,GO:0006810,GO:0006811,GO:0006812,GO:0006887,GO:0006888,GO:0006996,GO:0007010,GO:0007163,GO:0007275,GO:0008092,GO:0008093,GO:0008104,GO:0008150,GO:0008152,GO:0009058,GO:0009987,GO:0010638,GO:0012505,GO:0014731,GO:0015672,GO:0016020,GO:0016043,GO:0016192,GO:0016323,GO:0016528,GO:0016529,GO:0018130,GO:0019438,GO:0019899,GO:0030011,GO:0030016,GO:0030017,GO:0030018,GO:0030097,GO:0030099,GO:0030154,GO:0030218,GO:0030424,GO:0030507,GO:0030673,GO:0030674,GO:0030863,GO:0031252,GO:0031253,GO:0031256,GO:0031430,GO:0031672,GO:0031674,GO:0032501,GO:0032502,GO:0032589,GO:0032940,GO:0033013,GO:0033014,GO:0033036,GO:0033043,GO:0033267,GO:0034101,GO:0034613,GO:0034641,GO:0035088,GO:0035090,GO:0042383,GO:0042592,GO:0042995,GO:0043005,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043292,GO:0044237,GO:0044249,GO:0044271,GO:0044304,GO:0044422,GO:0044424,GO:0044425,GO:0044444,GO:0044448,GO:0044449,GO:0044456,GO:0044459,GO:0044463,GO:0044464,GO:0045197,GO:0045199,GO:0045202,GO:0045211,GO:0046483,GO:0046903,GO:0046907,GO:0048193,GO:0048468,GO:0048513,GO:0048518,GO:0048522,GO:0048534,GO:0048731,GO:0048821,GO:0048856,GO:0048869,GO:0048872,GO:0048878,GO:0050789,GO:0050794,GO:0050801,GO:0051117,GO:0051128,GO:0051130,GO:0051179,GO:0051186,GO:0051188,GO:0051234,GO:0051641,GO:0051649,GO:0055065,GO:0055072,GO:0055076,GO:0055080,GO:0060090,GO:0061245,GO:0061515,GO:0065007,GO:0065008,GO:0070727,GO:0071704,GO:0071840,GO:0071944,GO:0072657,GO:0072659,GO:0097060,GO:0097458,GO:0098590,GO:0098771,GO:0098794,GO:0099080,GO:0099081,GO:0099512,GO:0099568,GO:0120025,GO:0120038,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1990778	-	ko:K10380,ko:K15503	ko04624,ko05205,map04624,map05205	-	-	-	ko00000,ko00001,ko01009,ko03400,ko04812	-	-	-	Ank,Ank_2,Ank_3,Ank_4,Ank_5,Death,ZU5
LYD3_k127_4115215_3	1123392.AQWL01000011_gene2273	1.644e-43	167.0	COG2315@1|root,COG2315@2|Bacteria	2|Bacteria	V	Protein conserved in bacteria	-	-	-	-	-	-	-	-	-	-	-	-	YjbR
LYD3_k127_4115215_0	395495.Lcho_1065	1.627e-148	477.0	COG0673@1|root,COG0673@2|Bacteria,1MZIG@1224|Proteobacteria,2VSX2@28216|Betaproteobacteria,1KMKV@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Oxidoreductase family, NAD-binding Rossmann fold	-	-	-	-	-	-	-	-	-	-	-	-	GFO_IDH_MocA,GFO_IDH_MocA_C
LYD3_k127_4115215_2	335283.Neut_0144	1.151e-68	238.0	COG3791@1|root,COG3791@2|Bacteria,1RCYS@1224|Proteobacteria,2WA8I@28216|Betaproteobacteria,3733T@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Glutathione-dependent formaldehyde-activating	-	-	-	-	-	-	-	-	-	-	-	-	GFA
LYD3_k127_4115215_4	550540.Fbal_2376	1.287e-25	123.0	COG1404@1|root,COG1653@1|root,COG1404@2|Bacteria,COG1653@2|Bacteria,1R5TB@1224|Proteobacteria,1RSBF@1236|Gammaproteobacteria	1236|Gammaproteobacteria	G	Domain of unknown function (DUF4397)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4397
LYD3_k127_4115215_1	296591.Bpro_3547	5.715e-69	235.0	COG0330@1|root,COG0330@2|Bacteria,1MUM8@1224|Proteobacteria,2VHZW@28216|Betaproteobacteria,4ACVW@80864|Comamonadaceae	28216|Betaproteobacteria	O	PFAM band 7 protein	-	-	-	-	-	-	-	-	-	-	-	-	Band_7
LYD3_k127_4118477_3	582744.Msip34_0531	2.458e-148	478.0	COG1294@1|root,COG1294@2|Bacteria,1MURP@1224|Proteobacteria,2VHSQ@28216|Betaproteobacteria,2KMGQ@206350|Nitrosomonadales	28216|Betaproteobacteria	C	Cytochrome bd terminal oxidase subunit II	cydB	-	1.10.3.14	ko:K00426	ko00190,ko01100,ko02020,map00190,map01100,map02020	M00153	R11325	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.4.3	-	-	Cyt_bd_oxida_II
LYD3_k127_4118477_1	1144319.PMI16_01553	2.87e-239	749.0	COG1271@1|root,COG1271@2|Bacteria,1MV60@1224|Proteobacteria,2VHFR@28216|Betaproteobacteria,473J2@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Cytochrome bd-type quinol oxidase, subunit 1	cydA	-	1.10.3.14	ko:K00425	ko00190,ko01100,ko02020,map00190,map01100,map02020	M00153	R11325	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.4.3	-	-	Cyt_bd_oxida_I
LYD3_k127_4118477_2	1380355.JNIJ01000041_gene5232	9.374e-206	655.0	COG3243@1|root,COG3243@2|Bacteria,1MU68@1224|Proteobacteria,2TR7S@28211|Alphaproteobacteria,3JTJH@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	I	Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus	-	-	-	ko:K03821	ko00650,map00650	-	R04254	RC00004	ko00000,ko00001,ko01000	-	-	-	PhaC_N
LYD3_k127_4118477_0	1454004.AW11_02124	0.0	1018.0	COG0446@1|root,COG1902@1|root,COG0446@2|Bacteria,COG1902@2|Bacteria,1MVE0@1224|Proteobacteria,2VIW3@28216|Betaproteobacteria	28216|Betaproteobacteria	C	NADH flavin oxidoreductase NADH oxidase	fadH	-	1.3.1.34	ko:K00219	-	-	-	-	ko00000,ko01000	-	-	-	Oxidored_FMN,Pyr_redox_2
LYD3_k127_4118477_4	159450.NH14_16310	7.757e-53	194.0	COG2030@1|root,COG2030@2|Bacteria,1RD6F@1224|Proteobacteria,2VTTS@28216|Betaproteobacteria,1K7GD@119060|Burkholderiaceae	28216|Betaproteobacteria	I	MaoC like domain	-	-	-	-	-	-	-	-	-	-	-	-	MaoC_dehydratas
LYD3_k127_4118477_5	1127134.NOCYR_1973	1.365e-29	120.0	COG2030@1|root,COG2030@2|Bacteria,2IKE4@201174|Actinobacteria,4G1PK@85025|Nocardiaceae	201174|Actinobacteria	I	N-terminal half of MaoC dehydratase	-	-	-	-	-	-	-	-	-	-	-	-	MaoC_dehydrat_N
LYD3_k127_412006_0	1163407.UU7_13333	1.057e-77	262.0	COG2239@1|root,COG2239@2|Bacteria,1MW24@1224|Proteobacteria,1RNE4@1236|Gammaproteobacteria,1X4NW@135614|Xanthomonadales	135614|Xanthomonadales	P	Acts as a magnesium transporter	-	-	-	ko:K06213	-	-	-	-	ko00000,ko02000	1.A.26.1	-	-	CBS,MgtE,MgtE_N
LYD3_k127_412006_5	652103.Rpdx1_4260	7.799e-46	171.0	COG4315@1|root,COG4315@2|Bacteria,1MZC6@1224|Proteobacteria,2UCKS@28211|Alphaproteobacteria,3JYSQ@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Secreted repeat of unknown function	MA20_31645	-	-	-	-	-	-	-	-	-	-	-	Lipoprotein_15
LYD3_k127_412006_6	292415.Tbd_1654	5.964e-42	163.0	COG1595@1|root,COG1595@2|Bacteria,1MZMC@1224|Proteobacteria,2VSEK@28216|Betaproteobacteria,1KT1T@119069|Hydrogenophilales	119069|Hydrogenophilales	K	Sigma-70, region 4	-	-	-	ko:K03088	-	-	-	-	ko00000,ko03021	-	-	-	Sigma70_r2,Sigma70_r4_2
LYD3_k127_412006_2	1163617.SCD_n00185	8.811e-59	213.0	COG5662@1|root,COG5662@2|Bacteria,1RK1X@1224|Proteobacteria,2VQDP@28216|Betaproteobacteria	28216|Betaproteobacteria	K	transmembrane transcriptional regulator (Anti-sigma factor)	prtR	-	-	-	-	-	-	-	-	-	-	-	zf-HC2
LYD3_k127_412006_3	926560.KE387023_gene2496	8.626e-54	197.0	COG0346@1|root,COG0346@2|Bacteria,1WMMN@1297|Deinococcus-Thermus	1297|Deinococcus-Thermus	E	Glyoxalase-like domain	-	-	-	-	-	-	-	-	-	-	-	-	Glyoxalase_3
LYD3_k127_412006_7	1380394.JADL01000001_gene2775	2.094e-38	153.0	COG0346@1|root,COG0346@2|Bacteria,1N7R0@1224|Proteobacteria,2U4YP@28211|Alphaproteobacteria,2JU5E@204441|Rhodospirillales	204441|Rhodospirillales	E	Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	-	-	-	-	-	-	-	-	-	-	-	-	Glyoxalase
LYD3_k127_412006_4	1366050.N234_32025	8.214e-47	182.0	COG3509@1|root,COG3509@2|Bacteria,1MXUI@1224|Proteobacteria,2WENF@28216|Betaproteobacteria,1KHT8@119060|Burkholderiaceae	28216|Betaproteobacteria	Q	Esterase PHB depolymerase	-	-	3.1.1.75	ko:K05973	ko00650,map00650	-	R05118	-	ko00000,ko00001,ko01000	-	-	-	Esterase_phd
LYD3_k127_412006_8	375286.mma_0537	4.781e-08	54.0	COG1530@1|root,COG1530@2|Bacteria,1MV65@1224|Proteobacteria,2VI3N@28216|Betaproteobacteria,472QU@75682|Oxalobacteraceae	28216|Betaproteobacteria	J	Ribonuclease E/G family	cafA	-	-	ko:K08301	-	-	-	-	ko00000,ko01000,ko03009,ko03019	-	-	-	RNase_E_G,S1
LYD3_k127_412006_1	261292.Nit79A3_1901	2.103e-60	210.0	COG1530@1|root,COG1530@2|Bacteria,1MV65@1224|Proteobacteria,2VI3N@28216|Betaproteobacteria,372DK@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Ribonuclease E/G family	cafA	-	-	ko:K08301	-	-	-	-	ko00000,ko01000,ko03009,ko03019	-	-	-	RNase_E_G,S1
LYD3_k127_4122805_2	977880.RALTA_B0605	6.067e-83	286.0	COG0322@1|root,COG0847@1|root,COG0322@2|Bacteria,COG0847@2|Bacteria,1MV8Z@1224|Proteobacteria,2VK3W@28216|Betaproteobacteria,1K0AS@119060|Burkholderiaceae	28216|Betaproteobacteria	L	DNA polymerase III, epsilon subunit	-	-	2.7.7.7	ko:K02342	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	GIY-YIG,RNase_T
LYD3_k127_4122805_0	414684.RC1_0997	8.149e-188	599.0	COG0161@1|root,COG0161@2|Bacteria,1MU2N@1224|Proteobacteria,2TQND@28211|Alphaproteobacteria,2JPGU@204441|Rhodospirillales	204441|Rhodospirillales	H	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family	-	-	2.6.1.96	ko:K16871	ko00250,ko00650,ko01100,ko01120,map00250,map00650,map01100,map01120	M00027	R10178	RC00008,RC00062	ko00000,ko00001,ko00002,ko01000	-	-	-	Aminotran_3
LYD3_k127_4122805_1	1123020.AUIE01000017_gene3009	3.378e-128	441.0	COG3842@1|root,COG3842@2|Bacteria,1MU3I@1224|Proteobacteria,1RNPX@1236|Gammaproteobacteria,1YDBM@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	E	Part of the ABC transporter complex PotABCD involved in spermidine putrescine import. Responsible for energy coupling to the transport system	-	-	-	ko:K02052	ko02024,map02024	M00193	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.11	-	-	ABC_tran,TOBE_2
LYD3_k127_4122805_3	595537.Varpa_1073	3.216e-16	85.0	COG0687@1|root,COG0687@2|Bacteria,1MU0I@1224|Proteobacteria,2VICQ@28216|Betaproteobacteria,4AAM0@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM extracellular solute-binding protein family 1	-	-	-	ko:K02055	ko02024,map02024	M00193	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.11	-	-	SBP_bac_8
LYD3_k127_4130692_0	535289.Dtpsy_0975	1.525e-181	574.0	COG0114@1|root,COG0114@2|Bacteria,1MUQI@1224|Proteobacteria,2VHA5@28216|Betaproteobacteria,4AAGV@80864|Comamonadaceae	28216|Betaproteobacteria	C	Involved in the TCA cycle. Catalyzes the stereospecific interconversion of fumarate to L-malate	fumC	-	4.2.1.2	ko:K01679	ko00020,ko00620,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko04934,ko05200,ko05211,map00020,map00620,map00720,map01100,map01110,map01120,map01130,map01200,map04934,map05200,map05211	M00009,M00011,M00173,M00376	R01082	RC00443	ko00000,ko00001,ko00002,ko01000	-	-	-	FumaraseC_C,Lyase_1
LYD3_k127_4130692_1	1454004.AW11_02808	4.871e-56	200.0	COG0494@1|root,COG0494@2|Bacteria,1RH6N@1224|Proteobacteria,2VR3U@28216|Betaproteobacteria,1KQXY@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	L	NUDIX domain	ntpA	-	3.6.1.67	ko:K08310	ko00790,map00790	M00126	R04638	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	NUDIX
LYD3_k127_4132380_3	1070319.CAGGBEG34_240038	4.985e-20	94.0	COG0825@1|root,COG0825@2|Bacteria,1MURN@1224|Proteobacteria,2VHS0@28216|Betaproteobacteria,1K130@119060|Burkholderiaceae	28216|Betaproteobacteria	I	Component of the acetyl coenzyme A carboxylase (ACC) complex. First, biotin carboxylase catalyzes the carboxylation of biotin on its carrier protein (BCCP) and then the CO(2) group is transferred by the carboxyltransferase to acetyl-CoA to form malonyl-CoA	accA	-	2.1.3.15,6.4.1.2	ko:K01962	ko00061,ko00620,ko00640,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,map00061,map00620,map00640,map00720,map01100,map01110,map01120,map01130,map01200,map01212	M00082,M00376	R00742,R04386	RC00040,RC00253,RC00367	ko00000,ko00001,ko00002,ko01000	-	-	-	ACCA
LYD3_k127_4132380_0	375286.mma_3603	3.62e-41	160.0	COG2153@1|root,COG2153@2|Bacteria,1MZHA@1224|Proteobacteria,2VTYH@28216|Betaproteobacteria,474TY@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Acetyltransferase (GNAT) domain	elaA	-	-	ko:K02348	-	-	-	-	ko00000	-	-	-	Acetyltransf_10
LYD3_k127_4132380_1	1279038.KB907338_gene936	1.526e-36	143.0	COG1673@1|root,COG1673@2|Bacteria,1RIBH@1224|Proteobacteria,2UDNF@28211|Alphaproteobacteria,2JX20@204441|Rhodospirillales	204441|Rhodospirillales	S	EVE domain	-	-	-	-	-	-	-	-	-	-	-	-	EVE
LYD3_k127_4132380_2	94624.Bpet3077	1.636e-30	121.0	COG0473@1|root,COG0473@2|Bacteria,1MUH4@1224|Proteobacteria,2VJ9X@28216|Betaproteobacteria,3T1KF@506|Alcaligenaceae	28216|Betaproteobacteria	CE	Tartrate dehydrogenase	ttuC	GO:0003674,GO:0003824,GO:0003862,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006082,GO:0006520,GO:0006551,GO:0006807,GO:0008150,GO:0008152,GO:0008652,GO:0009058,GO:0009081,GO:0009082,GO:0009098,GO:0009987,GO:0016053,GO:0016491,GO:0016614,GO:0016616,GO:0019752,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0046394,GO:0055114,GO:0071704,GO:1901564,GO:1901566,GO:1901576,GO:1901605,GO:1901607	1.1.1.83,1.1.1.93,4.1.1.73	ko:K07246	ko00630,ko00650,map00630,map00650	-	R00215,R01751,R02545,R06180	RC00084,RC00105,RC00594	ko00000,ko00001,ko01000	-	-	-	Iso_dh
LYD3_k127_4144907_5	1158292.JPOE01000002_gene2081	3.194e-83	277.0	COG0183@1|root,COG0183@2|Bacteria,1MU5G@1224|Proteobacteria,2VIF8@28216|Betaproteobacteria,1KIWW@119065|unclassified Burkholderiales	28216|Betaproteobacteria	I	Belongs to the thiolase family	-	-	2.3.1.9	ko:K00626	ko00071,ko00072,ko00280,ko00310,ko00362,ko00380,ko00620,ko00630,ko00640,ko00650,ko00720,ko00900,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,ko02020,map00071,map00072,map00280,map00310,map00362,map00380,map00620,map00630,map00640,map00650,map00720,map00900,map01100,map01110,map01120,map01130,map01200,map01212,map02020	M00088,M00095,M00373,M00374,M00375	R00238,R01177	RC00004,RC00326	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Thiolase_C,Thiolase_N
LYD3_k127_4144907_1	1095769.CAHF01000006_gene1781	3.672e-163	522.0	COG1960@1|root,COG1960@2|Bacteria,1MVJC@1224|Proteobacteria,2VIQT@28216|Betaproteobacteria,473D7@75682|Oxalobacteraceae	28216|Betaproteobacteria	I	Acyl-CoA dehydrogenase, middle domain	-	-	-	-	-	-	-	-	-	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_4144907_2	626887.J057_08481	4.609e-127	419.0	COG1960@1|root,COG1960@2|Bacteria,1MUBH@1224|Proteobacteria,1RPNI@1236|Gammaproteobacteria,464IY@72275|Alteromonadaceae	1236|Gammaproteobacteria	I	Acyl-CoA dehydrogenase, middle domain	-	-	-	-	-	-	-	-	-	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_4144907_6	1158292.JPOE01000002_gene2083	1.568e-72	254.0	COG2045@1|root,COG2045@2|Bacteria	2|Bacteria	H	2-phosphosulfolactate phosphatase activity	comB	GO:0003674,GO:0003824,GO:0016829,GO:0016830,GO:0016831,GO:0050545	3.1.3.71	ko:K05979	ko00680,ko01120,map00680,map01120	M00358	R05789	RC00428	ko00000,ko00001,ko00002,ko01000	-	-	-	2-ph_phosp
LYD3_k127_4144907_13	266264.Rmet_5043	3.917e-24	111.0	COG5490@1|root,COG5490@2|Bacteria,1MZ74@1224|Proteobacteria,2VWIQ@28216|Betaproteobacteria,1K7GN@119060|Burkholderiaceae	28216|Betaproteobacteria	S	TIGRFAM phasin family protein	-	-	-	-	-	-	-	-	-	-	-	-	Phasin_2
LYD3_k127_4144907_0	1122609.AUGT01000009_gene3160	1.814e-170	540.0	COG0451@1|root,COG0451@2|Bacteria,2I2EG@201174|Actinobacteria,4DP7C@85009|Propionibacteriales	201174|Actinobacteria	M	RmlD substrate binding domain	-	-	4.2.1.46,5.1.3.2	ko:K01710,ko:K01784	ko00052,ko00520,ko00521,ko00523,ko00525,ko01055,ko01100,ko01130,map00052,map00520,map00521,map00523,map00525,map01055,map01100,map01130	M00361,M00362,M00632,M00793	R00291,R02984,R06513	RC00289,RC00402	ko00000,ko00001,ko00002,ko01000	-	-	-	Epimerase,GDP_Man_Dehyd
LYD3_k127_4144907_10	748280.NH8B_1882	3.898e-35	140.0	2FHC1@1|root,3496B@2|Bacteria,1P3SU@1224|Proteobacteria,2W4GA@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4144907_12	323848.Nmul_A0905	4.829e-32	128.0	COG1544@1|root,COG1544@2|Bacteria,1RJ55@1224|Proteobacteria,2VR5Q@28216|Betaproteobacteria,372T2@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Sigma 54 modulation protein / S30EA ribosomal protein	-	-	-	-	-	-	-	-	-	-	-	-	CSD,Ribosomal_S30AE
LYD3_k127_4144907_7	316055.RPE_0481	1.609e-62	220.0	COG1943@1|root,COG1943@2|Bacteria,1RCWW@1224|Proteobacteria,2U5BB@28211|Alphaproteobacteria,3K3YY@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	L	Transposase IS200 like	-	-	-	ko:K07491	-	-	-	-	ko00000	-	-	-	Y1_Tnp
LYD3_k127_4144907_3	1380394.JADL01000003_gene4961	4.865e-123	404.0	COG1087@1|root,COG1087@2|Bacteria,1MUHI@1224|Proteobacteria,2TTC7@28211|Alphaproteobacteria,2JP95@204441|Rhodospirillales	204441|Rhodospirillales	M	Belongs to the NAD(P)-dependent epimerase dehydratase family	-	-	5.1.3.2,5.1.3.5	ko:K01784,ko:K12448	ko00052,ko00520,ko01100,map00052,map00520,map01100	M00361,M00362,M00632	R00291,R01473,R02984	RC00289,RC00528	ko00000,ko00001,ko00002,ko01000	-	-	-	Epimerase
LYD3_k127_4144907_11	1122929.KB908221_gene2817	6.257e-35	144.0	COG3219@1|root,COG3219@2|Bacteria,1QAP4@1224|Proteobacteria,2TTIN@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	Putative DNA-binding domain	-	-	-	-	-	-	-	-	-	-	-	-	DUF2063
LYD3_k127_4144907_4	666685.R2APBS1_3810	3.564e-103	346.0	COG3220@1|root,COG3220@2|Bacteria,1MURE@1224|Proteobacteria,1RQ9H@1236|Gammaproteobacteria,1X35S@135614|Xanthomonadales	135614|Xanthomonadales	S	Belongs to the UPF0276 family	-	-	-	ko:K09930	-	-	-	-	ko00000	-	-	-	DUF692
LYD3_k127_4144907_14	243365.CV_3512	2.721e-19	91.0	COG5572@1|root,COG5572@2|Bacteria,1MZ6Q@1224|Proteobacteria,2VWC8@28216|Betaproteobacteria,2KRX5@206351|Neisseriales	206351|Neisseriales	S	Predicted integral membrane protein (DUF2282)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2282
LYD3_k127_4144907_9	743836.AYNA01000019_gene2625	5.643e-44	163.0	COG0500@1|root,COG4797@1|root,COG0500@2|Bacteria,COG4797@2|Bacteria,1MX2X@1224|Proteobacteria,2TSMI@28211|Alphaproteobacteria,371I5@31993|Methylocystaceae	28211|Alphaproteobacteria	Q	Predicted methyltransferase regulatory domain	-	-	-	-	-	-	-	-	-	-	-	-	MethyTransf_Reg,Methyltransf_12,Methyltransf_25,Methyltransf_31
LYD3_k127_4144907_16	243090.RB9942	3.463e-05	54.0	COG0500@1|root,COG4797@1|root,COG0500@2|Bacteria,COG4797@2|Bacteria,2IX32@203682|Planctomycetes	203682|Planctomycetes	Q	Predicted methyltransferase regulatory domain	-	-	-	-	-	-	-	-	-	-	-	-	MethyTransf_Reg,Methyltransf_25,Methyltransf_31
LYD3_k127_4144907_15	62928.azo2858	3.93e-08	58.0	COG5660@1|root,COG5660@2|Bacteria,1NH4R@1224|Proteobacteria,2VXXB@28216|Betaproteobacteria,2KXMX@206389|Rhodocyclales	206389|Rhodocyclales	S	Putative zinc-finger	-	-	-	-	-	-	-	-	-	-	-	-	zf-HC2
LYD3_k127_4144907_8	1144319.PMI16_02657	2.929e-52	188.0	COG1595@1|root,COG1595@2|Bacteria,1RHKM@1224|Proteobacteria,2VRMP@28216|Betaproteobacteria,474SQ@75682|Oxalobacteraceae	28216|Betaproteobacteria	K	Sigma-70 region 2	-	-	-	ko:K03088	-	-	-	-	ko00000,ko03021	-	-	-	Sigma70_r2,Sigma70_r4_2
LYD3_k127_4145097_5	1401065.HMPREF2130_08510	6.068e-67	230.0	COG1488@1|root,COG1488@2|Bacteria,1MV8U@1224|Proteobacteria,2VGZ5@28216|Betaproteobacteria,3T1GS@506|Alcaligenaceae	28216|Betaproteobacteria	F	Catalyzes the synthesis of beta-nicotinate D- ribonucleotide from nicotinate and 5-phospho-D-ribose 1-phosphate at the expense of ATP	pncB	GO:0000183,GO:0001302,GO:0003674,GO:0003824,GO:0004516,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0006139,GO:0006325,GO:0006342,GO:0006348,GO:0006355,GO:0006725,GO:0006732,GO:0006733,GO:0006753,GO:0006793,GO:0006796,GO:0006807,GO:0006996,GO:0007568,GO:0007569,GO:0008150,GO:0008152,GO:0009058,GO:0009108,GO:0009117,GO:0009165,GO:0009889,GO:0009890,GO:0009892,GO:0009987,GO:0010468,GO:0010556,GO:0010558,GO:0010605,GO:0010629,GO:0016043,GO:0016458,GO:0016874,GO:0016879,GO:0018130,GO:0019219,GO:0019222,GO:0019357,GO:0019358,GO:0019362,GO:0019363,GO:0019365,GO:0019438,GO:0019637,GO:0031323,GO:0031324,GO:0031326,GO:0031327,GO:0032502,GO:0034641,GO:0034654,GO:0040029,GO:0043094,GO:0043173,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0044237,GO:0044238,GO:0044249,GO:0044271,GO:0044281,GO:0044424,GO:0044464,GO:0045814,GO:0045892,GO:0045934,GO:0046483,GO:0046497,GO:0048519,GO:0048523,GO:0048869,GO:0050789,GO:0050794,GO:0051171,GO:0051172,GO:0051186,GO:0051188,GO:0051252,GO:0051253,GO:0051276,GO:0055086,GO:0060255,GO:0065007,GO:0071704,GO:0071840,GO:0072524,GO:0072525,GO:0080090,GO:0090407,GO:1901293,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1902679,GO:1903506,GO:1903507,GO:2000112,GO:2000113,GO:2001141	6.3.4.21	ko:K00763	ko00760,ko01100,map00760,map01100	-	R01724	RC00033	ko00000,ko00001,ko01000	-	-	-	NAPRTase
LYD3_k127_4145097_0	1357272.AVEO02000167_gene2478	1.115e-221	702.0	COG2804@1|root,COG2804@2|Bacteria,1MU7V@1224|Proteobacteria,1RMBS@1236|Gammaproteobacteria,1Z546@136849|Pseudomonas syringae group	1236|Gammaproteobacteria	NU	Type IV pilus biogenesis protein	gspE	-	-	ko:K02454	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	T2SSE,T2SSE_N
LYD3_k127_4145097_9	472759.Nhal_3623	3.04e-10	74.0	COG1404@1|root,COG1404@2|Bacteria,1RDZC@1224|Proteobacteria,1S91S@1236|Gammaproteobacteria	1236|Gammaproteobacteria	O	Subtilase family	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_S8
LYD3_k127_4145097_8	1218076.BAYB01000031_gene5017	2.076e-12	81.0	COG4188@1|root,COG4188@2|Bacteria,1MW2N@1224|Proteobacteria,2VSKA@28216|Betaproteobacteria,1K3U9@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Dienelactone hydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Hydrolase_4,PAF-AH_p_II
LYD3_k127_4145097_2	365046.Rta_27580	5.813e-181	581.0	COG2918@1|root,COG2918@2|Bacteria,1MW9B@1224|Proteobacteria,2VKVU@28216|Betaproteobacteria,4AA8S@80864|Comamonadaceae	28216|Betaproteobacteria	H	Belongs to the glutamate--cysteine ligase type 1 family. Type 1 subfamily	gshA	-	6.3.2.2	ko:K01919	ko00270,ko00480,ko01100,map00270,map00480,map01100	M00118	R00894,R10993	RC00064,RC00090	ko00000,ko00001,ko00002,ko01000	-	-	-	Glu_cys_ligase
LYD3_k127_4145097_7	216591.BCAM2467	3.01e-17	87.0	COG3547@1|root,COG3547@2|Bacteria,1MUER@1224|Proteobacteria,2VJ5H@28216|Betaproteobacteria,1K2CZ@119060|Burkholderiaceae	28216|Betaproteobacteria	L	transposase IS116 IS110 IS902 family	-	-	-	ko:K07486	-	-	-	-	ko00000	-	-	-	DEDD_Tnp_IS110,Transposase_20
LYD3_k127_4145097_4	485913.Krac_12419	1.176e-92	317.0	COG3391@1|root,COG3391@2|Bacteria	2|Bacteria	CO	amine dehydrogenase activity	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4145097_6	1380394.JADL01000002_gene1294	4.274e-31	123.0	2DJKR@1|root,32YT5@2|Bacteria,1NACC@1224|Proteobacteria,2UIBJ@28211|Alphaproteobacteria	28211|Alphaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4145097_1	1122603.ATVI01000010_gene925	2.218e-197	627.0	COG0467@1|root,COG0467@2|Bacteria,1NEWW@1224|Proteobacteria,1RR5C@1236|Gammaproteobacteria,1X46T@135614|Xanthomonadales	135614|Xanthomonadales	T	RecA-superfamily ATPases implicated in signal transduction	-	-	-	ko:K08482	-	-	-	-	ko00000	-	-	-	ATPase
LYD3_k127_4145097_3	1123261.AXDW01000010_gene290	1.892e-133	443.0	COG0642@1|root,COG2205@2|Bacteria,1NRP8@1224|Proteobacteria,1RQ3H@1236|Gammaproteobacteria,1X3SI@135614|Xanthomonadales	135614|Xanthomonadales	T	two-component system sensor protein	-	-	-	-	-	-	-	-	-	-	-	-	HATPase_c,HisKA,Response_reg
LYD3_k127_4148482_2	1454004.AW11_01331	1.704e-81	274.0	COG1309@1|root,COG1309@2|Bacteria,1MWF7@1224|Proteobacteria,2VMVD@28216|Betaproteobacteria	28216|Betaproteobacteria	K	regulatory protein TetR	-	-	-	-	-	-	-	-	-	-	-	-	TetR_C_4,TetR_N
LYD3_k127_4148482_1	580332.Slit_1133	5.045e-112	376.0	COG0845@1|root,COG0845@2|Bacteria,1MV1R@1224|Proteobacteria,2VHJC@28216|Betaproteobacteria,44WE6@713636|Nitrosomonadales	28216|Betaproteobacteria	M	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family	-	-	-	ko:K02005	-	-	-	-	ko00000	-	-	-	Biotin_lipoyl_2,HlyD_D23
LYD3_k127_4148482_0	580332.Slit_1134	1.329e-187	593.0	COG0577@1|root,COG0577@2|Bacteria,1MVSU@1224|Proteobacteria,2VKTK@28216|Betaproteobacteria,44W6X@713636|Nitrosomonadales	28216|Betaproteobacteria	V	MacB-like periplasmic core domain	-	-	-	ko:K02004	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	FtsX,MacB_PCD
LYD3_k127_4150983_0	266265.Bxe_A2766	2.526e-142	458.0	COG2267@1|root,COG2267@2|Bacteria,1MUFB@1224|Proteobacteria,2VRAQ@28216|Betaproteobacteria,1K14I@119060|Burkholderiaceae	28216|Betaproteobacteria	I	Serine aminopeptidase, S33	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_1,Abhydrolase_6,Hydrolase_4
LYD3_k127_4150983_1	1007105.PT7_3528	8.457e-76	261.0	COG0400@1|root,COG0400@2|Bacteria,1RA02@1224|Proteobacteria,2VJ6G@28216|Betaproteobacteria,3T3D2@506|Alcaligenaceae	28216|Betaproteobacteria	S	Carboxylesterase	estB	-	-	ko:K06999	-	-	-	-	ko00000	-	-	-	Abhydrolase_2
LYD3_k127_4150983_2	1247649.D560_1901	1.503e-31	126.0	COG4231@1|root,COG4231@2|Bacteria,1MUKS@1224|Proteobacteria,2VJGC@28216|Betaproteobacteria,3T78H@506|Alcaligenaceae	28216|Betaproteobacteria	C	Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits	-	-	1.2.7.8	ko:K04090	-	-	-	-	br01601,ko00000,ko01000	-	-	-	POR,TPP_enzyme_C
LYD3_k127_4154564_0	765912.Thimo_2264	1.122e-183	582.0	COG1155@1|root,COG1155@2|Bacteria,1MWRR@1224|Proteobacteria,1S12J@1236|Gammaproteobacteria,1WWCP@135613|Chromatiales	135613|Chromatiales	F	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit	-	-	3.6.3.14,3.6.3.15	ko:K02117	ko00190,ko01100,map00190,map01100	M00159	-	-	ko00000,ko00001,ko00002,ko01000	3.A.2.2,3.A.2.3	-	-	ATP-synt_ab,ATP-synt_ab_N,ATP-synt_ab_Xtn
LYD3_k127_4154564_1	768671.ThimaDRAFT_4706	1.252e-53	192.0	COG1156@1|root,COG1156@2|Bacteria,1R4RB@1224|Proteobacteria,1RQ6N@1236|Gammaproteobacteria,1WX18@135613|Chromatiales	135613|Chromatiales	C	Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit	-	-	-	ko:K02118	ko00190,ko01100,map00190,map01100	M00159	-	-	ko00000,ko00001,ko00002	3.A.2.2,3.A.2.3	-	-	ATP-synt_ab,ATP-synt_ab_N
LYD3_k127_4158564_4	1288494.EBAPG3_1980	9.436e-48	178.0	COG0576@1|root,COG0576@2|Bacteria,1RH8T@1224|Proteobacteria,2VSEQ@28216|Betaproteobacteria,3733D@32003|Nitrosomonadales	28216|Betaproteobacteria	O	Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ	grpE	-	-	ko:K03687	-	-	-	-	ko00000,ko03029,ko03110	-	-	-	GrpE
LYD3_k127_4158564_1	795666.MW7_2710	8.585e-121	406.0	COG0276@1|root,COG0276@2|Bacteria,1MVR1@1224|Proteobacteria,2VH7Z@28216|Betaproteobacteria,1K1UG@119060|Burkholderiaceae	28216|Betaproteobacteria	H	Catalyzes the ferrous insertion into protoporphyrin IX	hemH	-	4.99.1.1,4.99.1.9	ko:K01772	ko00860,ko01100,ko01110,map00860,map01100,map01110	M00121	R00310,R11329	RC01012	ko00000,ko00001,ko00002,ko01000	-	-	-	Ferrochelatase
LYD3_k127_4158564_3	1523503.JPMY01000010_gene2462	2.485e-50	184.0	COG3631@1|root,COG3631@2|Bacteria,1MZ0P@1224|Proteobacteria,1S7Z4@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Ketosteroid	-	-	-	ko:K06893	-	-	-	-	ko00000	-	-	-	SnoaL_2
LYD3_k127_4158564_0	640081.Dsui_3074	1.402e-137	448.0	COG1420@1|root,COG1420@2|Bacteria,1MVX4@1224|Proteobacteria,2VHCK@28216|Betaproteobacteria,2KUP3@206389|Rhodocyclales	206389|Rhodocyclales	K	Negative regulator of class I heat shock genes (grpE- dnaK-dnaJ and groELS operons). Prevents heat-shock induction of these operons	hrcA	-	-	ko:K03705	-	-	-	-	ko00000,ko03000	-	-	-	HrcA,HrcA_DNA-bdg
LYD3_k127_4158564_2	795666.MW7_2712	1.151e-90	310.0	COG0061@1|root,COG0061@2|Bacteria,1MUBC@1224|Proteobacteria,2VIV0@28216|Betaproteobacteria,1K12C@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Involved in the regulation of the intracellular balance of NAD and NADP, and is a key enzyme in the biosynthesis of NADP. Catalyzes specifically the phosphorylation on 2'-hydroxyl of the adenosine moiety of NAD to yield NADP	nadK	-	2.7.1.23	ko:K00858	ko00760,ko01100,map00760,map01100	-	R00104	RC00002,RC00078	ko00000,ko00001,ko01000	-	-	-	NAD_kinase
LYD3_k127_4160573_3	595537.Varpa_0813	4.619e-09	57.0	COG0179@1|root,COG0179@2|Bacteria,1MUPF@1224|Proteobacteria,2VI5Z@28216|Betaproteobacteria,4AA1T@80864|Comamonadaceae	28216|Betaproteobacteria	Q	PFAM fumarylacetoacetate (FAA) hydrolase	-	-	-	-	-	-	-	-	-	-	-	-	FAA_hydrolase
LYD3_k127_4160573_1	296591.Bpro_3961	6.032e-89	323.0	COG1028@1|root,COG1028@2|Bacteria,1MURZ@1224|Proteobacteria,2VJVQ@28216|Betaproteobacteria,4ABNS@80864|Comamonadaceae	28216|Betaproteobacteria	IQ	PFAM Short-chain dehydrogenase reductase SDR	-	-	-	ko:K18335	ko00051,ko01120,map00051,map01120	-	R10690	RC00089	ko00000,ko00001,ko01000	-	-	-	adh_short_C2
LYD3_k127_4160573_0	1380350.JIAP01000001_gene1186	1.981e-201	634.0	COG4948@1|root,COG4948@2|Bacteria,1NI9F@1224|Proteobacteria,2TVSH@28211|Alphaproteobacteria	28211|Alphaproteobacteria	M	mandelate racemase muconate lactonizing	gudD	-	4.2.1.40	ko:K01706	ko00053,ko01100,map00053,map01100	-	R02752,R08056	RC00543	ko00000,ko00001,ko01000	-	-	-	MR_MLE_C,MR_MLE_N
LYD3_k127_4160573_2	864051.BurJ1DRAFT_3900	6.589e-52	190.0	COG2186@1|root,COG2186@2|Bacteria,1MY1K@1224|Proteobacteria,2VP3Y@28216|Betaproteobacteria	28216|Betaproteobacteria	K	Regulatory protein GntR HTH	-	-	-	-	-	-	-	-	-	-	-	-	FCD,GntR
LYD3_k127_4165542_0	1163617.SCD_n01627	1.57e-176	567.0	COG4775@1|root,COG4775@2|Bacteria,1MU0D@1224|Proteobacteria,2VHTX@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane	bamA	-	-	ko:K07277	-	-	-	-	ko00000,ko02000,ko03029	1.B.33	-	-	Bac_surface_Ag,POTRA
LYD3_k127_4175927_1	1097668.BYI23_A003920	2.516e-86	295.0	COG0697@1|root,COG0697@2|Bacteria,1R6KH@1224|Proteobacteria,2VNEM@28216|Betaproteobacteria,1K5AJ@119060|Burkholderiaceae	28216|Betaproteobacteria	EG	EamA-like transporter family	-	-	-	-	-	-	-	-	-	-	-	-	EamA
LYD3_k127_4175927_2	1163617.SCD_n00920	1.351e-70	242.0	COG0782@1|root,COG0782@2|Bacteria,1RCXW@1224|Proteobacteria,2VQ16@28216|Betaproteobacteria	28216|Betaproteobacteria	K	Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus. GreA releases sequences of 2 to 3 nucleotides	greA	-	-	ko:K03624	-	-	-	-	ko00000,ko03021	-	-	-	GreA_GreB,GreA_GreB_N
LYD3_k127_4175927_0	1304883.KI912532_gene31	0.0	1686.0	COG0458@1|root,COG0458@2|Bacteria,1MUDZ@1224|Proteobacteria,2VI4A@28216|Betaproteobacteria,2KUXH@206389|Rhodocyclales	206389|Rhodocyclales	EF	Belongs to the CarB family	carB	-	6.3.5.5	ko:K01955	ko00240,ko00250,ko01100,map00240,map00250,map01100	M00051	R00256,R00575,R01395,R10948,R10949	RC00002,RC00010,RC00043,RC02750,RC02798,RC03314	ko00000,ko00001,ko00002,ko01000	-	-	-	CPSase_L_D2,CPSase_L_D3,MGS
LYD3_k127_4188415_2	264198.Reut_A0130	5.809e-40	152.0	COG4221@1|root,COG4221@2|Bacteria,1QTVZ@1224|Proteobacteria,2WGPF@28216|Betaproteobacteria,1KIIB@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Belongs to the short-chain dehydrogenases reductases (SDR) family	-	-	-	-	-	-	-	-	-	-	-	-	adh_short
LYD3_k127_4188415_1	1163617.SCD_n03013	4.207e-50	187.0	COG1651@1|root,COG1651@2|Bacteria,1RGWH@1224|Proteobacteria,2VSFV@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Thiol disulfide interchange protein	dsbA	-	-	ko:K03673	ko01503,map01503	M00728	-	-	ko00000,ko00001,ko00002,ko03110	-	-	-	DSBA,Thioredoxin_4
LYD3_k127_4188415_3	640081.Dsui_0674	1.929e-24	113.0	COG3087@1|root,COG3087@2|Bacteria,1RI6A@1224|Proteobacteria,2VR10@28216|Betaproteobacteria,2KWVJ@206389|Rhodocyclales	206389|Rhodocyclales	D	cell division protein	ftsN	-	-	-	-	-	-	-	-	-	-	-	SPOR
LYD3_k127_4188415_0	395495.Lcho_4230	1.299e-79	270.0	COG0018@1|root,COG0018@2|Bacteria,1MU4J@1224|Proteobacteria,2VHT1@28216|Betaproteobacteria,1KJQ9@119065|unclassified Burkholderiales	28216|Betaproteobacteria	J	Arginyl-tRNA synthetase	argS	-	6.1.1.19	ko:K01887	ko00970,map00970	M00359,M00360	R03646	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016,ko03029	-	-	-	Arg_tRNA_synt_N,DALR_1,tRNA-synt_1d
LYD3_k127_4189266_4	696369.KI912183_gene2344	4.317e-16	79.0	COG5496@1|root,COG5496@2|Bacteria,1VAZJ@1239|Firmicutes,24MWR@186801|Clostridia,262M7@186807|Peptococcaceae	186801|Clostridia	S	PFAM thioesterase superfamily	-	-	3.1.2.29	ko:K18700	-	-	-	-	ko00000,ko01000	-	-	-	4HBT
LYD3_k127_4189266_0	296591.Bpro_2642	1.085e-76	263.0	28H7B@1|root,2Z7JJ@2|Bacteria,1MX57@1224|Proteobacteria,2W2KR@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Putative 2OG-Fe(II) oxygenase	-	-	-	-	-	-	-	-	-	-	-	-	2OG-FeII_Oxy_5
LYD3_k127_4189266_3	1366050.N234_24345	1.502e-23	102.0	2E7PS@1|root,3325B@2|Bacteria,1PVAH@1224|Proteobacteria,2VVUK@28216|Betaproteobacteria,1KAP4@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Evidence 4 Homologs of previously reported genes of	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4189266_2	935863.AWZR01000002_gene892	1.678e-37	145.0	COG1522@1|root,COG1522@2|Bacteria,1RH53@1224|Proteobacteria,1S493@1236|Gammaproteobacteria,1X6K7@135614|Xanthomonadales	135614|Xanthomonadales	K	Transcriptional regulator	-	-	-	-	-	-	-	-	-	-	-	-	AsnC_trans_reg,HTH_24
LYD3_k127_4189266_1	1005048.CFU_3201	8.097e-69	238.0	COG1748@1|root,COG1748@2|Bacteria,1MY1G@1224|Proteobacteria,2VMNG@28216|Betaproteobacteria,475ZH@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Saccharopine dehydrogenase C-terminal domain	-	-	1.5.1.7	ko:K00290	ko00300,ko00310,ko01100,ko01110,ko01130,ko01230,map00300,map00310,map01100,map01110,map01130,map01230	M00030,M00032	R00715	RC00217,RC01532	ko00000,ko00001,ko00002,ko01000	-	-	-	Sacchrp_dh_C,Sacchrp_dh_NADP
LYD3_k127_419289_1	1454004.AW11_02707	1.615e-74	252.0	COG1272@1|root,COG1272@2|Bacteria,1PGRH@1224|Proteobacteria,2VJR4@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Hemolysin III	hlyIII	-	-	ko:K11068	-	-	-	-	ko00000,ko02042	-	-	-	HlyIII
LYD3_k127_419289_0	1288494.EBAPG3_26320	1.297e-242	764.0	COG0204@1|root,COG0318@1|root,COG0204@2|Bacteria,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2WGHZ@28216|Betaproteobacteria,37225@32003|Nitrosomonadales	28216|Betaproteobacteria	IQ	AMP-dependent synthetase	-	-	-	-	-	-	-	-	-	-	-	-	AMP-binding,Acyltransferase,PP-binding
LYD3_k127_4196523_1	314607.KB13_642	7.705e-96	315.0	COG1217@1|root,COG1217@2|Bacteria,1MV5Q@1224|Proteobacteria,2VH2W@28216|Betaproteobacteria,1KPUE@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	T	GTP-binding protein	typA	-	-	ko:K06207	-	-	-	-	ko00000	-	-	-	EFG_C,GTP_EFTU,GTP_EFTU_D2
LYD3_k127_4196523_0	522306.CAP2UW1_3925	1.088e-139	458.0	COG1322@1|root,COG1322@2|Bacteria,1MWHV@1224|Proteobacteria,2VJVZ@28216|Betaproteobacteria,1KPQ8@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	DNA recombination protein RmuC	rmuC	-	-	ko:K09760	-	-	-	-	ko00000	-	-	-	RmuC
LYD3_k127_4196523_2	323848.Nmul_A1873	2.768e-78	269.0	COG3228@1|root,COG3228@2|Bacteria,1RAHF@1224|Proteobacteria,2VJTJ@28216|Betaproteobacteria,372KR@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Belongs to the MtfA family	mtfA	-	-	ko:K09933	-	-	-	-	ko00000,ko01002	-	-	-	Peptidase_M90
LYD3_k127_4196523_3	1286631.X805_12500	3.69e-67	239.0	COG0697@1|root,COG0697@2|Bacteria,1RFZW@1224|Proteobacteria,2VJS5@28216|Betaproteobacteria,1KJ5V@119065|unclassified Burkholderiales	28216|Betaproteobacteria	EG	EamA-like transporter family	-	-	-	-	-	-	-	-	-	-	-	-	EamA
LYD3_k127_4200254_0	398525.KB900701_gene6702	2.485e-321	986.0	COG3119@1|root,COG3119@2|Bacteria,1MV92@1224|Proteobacteria,2TTXG@28211|Alphaproteobacteria,3JVJZ@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	P	Sulfatase	-	-	3.1.6.1	ko:K01130	ko00140,ko00600,map00140,map00600	-	R03980,R04856	RC00128,RC00231	ko00000,ko00001,ko01000	-	-	-	Sulfatase
LYD3_k127_4200254_1	1380394.JADL01000003_gene4756	1.391e-130	443.0	COG2159@1|root,COG2159@2|Bacteria,1N0C7@1224|Proteobacteria,2TRXY@28211|Alphaproteobacteria,2JUHF@204441|Rhodospirillales	204441|Rhodospirillales	S	Amidohydrolase	-	-	-	ko:K07045	-	-	-	-	ko00000	-	-	-	Amidohydro_2
LYD3_k127_4200254_2	113395.AXAI01000026_gene1838	1.115e-83	292.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2TQWK@28211|Alphaproteobacteria,3K63T@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_4200254_3	388051.AUFE01000001_gene2099	1.878e-68	243.0	COG0111@1|root,COG0111@2|Bacteria,1MW1U@1224|Proteobacteria,2VP96@28216|Betaproteobacteria,1K5RB@119060|Burkholderiaceae	28216|Betaproteobacteria	EH	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain	-	-	1.1.1.399,1.1.1.79,1.1.1.81,1.1.1.95	ko:K00058,ko:K12972	ko00260,ko00620,ko00630,ko00680,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00260,map00620,map00630,map00680,map01100,map01110,map01120,map01130,map01200,map01230	M00020	R00465,R01388,R01392,R01513,R02527	RC00031,RC00042,RC00670	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	2-Hacid_dh_C
LYD3_k127_4200254_4	640081.Dsui_0720	3.661e-29	120.0	COG0842@1|root,COG0842@2|Bacteria,1N55T@1224|Proteobacteria,2VJ7R@28216|Betaproteobacteria,2KVIE@206389|Rhodocyclales	206389|Rhodocyclales	V	ABC-2 type transporter	nodJ	-	-	ko:K09694	ko02010,map02010	M00252	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.102	-	-	ABC2_membrane
LYD3_k127_4200842_4	1198452.Jab_2c11030	3.37e-16	83.0	COG4309@1|root,COG4309@2|Bacteria,1NHRT@1224|Proteobacteria,2VXM5@28216|Betaproteobacteria,4758A@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Uncharacterized conserved protein (DUF2249)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2249
LYD3_k127_4200842_2	999541.bgla_2g22740	3.191e-66	234.0	COG0760@1|root,COG0760@2|Bacteria,1RDD3@1224|Proteobacteria,2VQZD@28216|Betaproteobacteria,1K4FS@119060|Burkholderiaceae	28216|Betaproteobacteria	O	peptidyl-prolyl cis-trans isomerase	-	-	5.2.1.8	ko:K03769	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	Rotamase
LYD3_k127_4200842_1	1532557.JL37_27705	3.882e-89	299.0	COG2181@1|root,COG2181@2|Bacteria,1MXGZ@1224|Proteobacteria,2VK31@28216|Betaproteobacteria,3T2F8@506|Alcaligenaceae	28216|Betaproteobacteria	C	Nitrate reductase	narI	-	1.7.5.1	ko:K00374	ko00910,ko01120,ko02020,map00910,map01120,map02020	M00529,M00530	R00798,R01106,R09497	RC02812	ko00000,ko00001,ko00002,ko01000	5.A.3.1	-	-	Nitrate_red_gam
LYD3_k127_4200842_3	1317124.DW2_04149	8.093e-48	191.0	COG2180@1|root,COG2180@2|Bacteria,1MY4E@1224|Proteobacteria,2U19T@28211|Alphaproteobacteria,2XP6C@285107|Thioclava	28211|Alphaproteobacteria	C	Nitrate reductase delta subunit	narJ	-	-	ko:K00373	ko02020,map02020	-	-	-	ko00000,ko00001	-	-	-	Nitrate_red_del
LYD3_k127_4200842_0	1268622.AVS7_02765	1.487e-170	538.0	COG1140@1|root,COG1140@2|Bacteria,1MW9Q@1224|Proteobacteria,2VJ1V@28216|Betaproteobacteria,4AAER@80864|Comamonadaceae	28216|Betaproteobacteria	C	Nitrate reductase beta subunit	narH	-	1.7.5.1	ko:K00371,ko:K17051	ko00910,ko01120,ko02020,map00910,map01120,map02020	M00529,M00530,M00804	R00798,R01106,R09497	RC02812	ko00000,ko00001,ko00002,ko01000,ko02000	5.A.3.1,5.A.3.8	-	-	Fer4_11,Nitr_red_bet_C
LYD3_k127_4203832_0	326427.Cagg_0379	1.173e-55	196.0	COG4799@1|root,COG4799@2|Bacteria,2G5IX@200795|Chloroflexi,376MS@32061|Chloroflexia	32061|Chloroflexia	I	PFAM carboxyl transferase	-	-	-	-	-	-	-	-	-	-	-	-	Carboxyl_trans
LYD3_k127_4203832_2	326427.Cagg_0380	1.045e-29	123.0	COG3630@1|root,COG3630@2|Bacteria	2|Bacteria	C	sodium ion export across plasma membrane	oadG	GO:0003674,GO:0003824,GO:0006810,GO:0006811,GO:0006812,GO:0006814,GO:0008150,GO:0008948,GO:0015672,GO:0016829,GO:0016830,GO:0016831,GO:0030001,GO:0051179,GO:0051234	4.1.1.3	ko:K01573	ko00620,ko01100,map00620,map01100	-	R00217	RC00040	ko00000,ko00001,ko01000,ko02000	3.B.1.1.1	-	-	OAD_gamma
LYD3_k127_4203832_3	684949.ATTJ01000001_gene2187	4.715e-29	127.0	COG4770@1|root,COG4770@2|Bacteria	2|Bacteria	I	CoA carboxylase activity	pccA	-	6.4.1.3	ko:K01965	ko00280,ko00630,ko00640,ko01100,ko01120,ko01130,ko01200,map00280,map00630,map00640,map01100,map01120,map01130,map01200	M00373,M00741	R01859	RC00097,RC00609	ko00000,ko00001,ko00002,ko01000	-	-	-	Biotin_carb_C,Biotin_carb_N,Biotin_lipoyl,CPSase_L_D2
LYD3_k127_4203832_1	326427.Cagg_0382	4.079e-48	174.0	COG1883@1|root,COG1883@2|Bacteria,2G7ZJ@200795|Chloroflexi,3768I@32061|Chloroflexia	32061|Chloroflexia	C	PFAM Na transporting methylmalonyl-CoA oxaloacetate decarboxylase beta subunit	-	-	4.1.1.3	ko:K01572	ko00620,ko01100,map00620,map01100	-	R00217	RC00040	ko00000,ko00001,ko01000,ko02000	3.B.1.1.1	-	-	OAD_beta
LYD3_k127_4203977_13	1384056.N787_08320	4.551e-78	264.0	COG4805@1|root,COG4805@2|Bacteria,1MUBX@1224|Proteobacteria,1RMT7@1236|Gammaproteobacteria,1X39Z@135614|Xanthomonadales	135614|Xanthomonadales	S	protein conserved in bacteria	-	-	-	-	-	-	-	-	-	-	-	-	DUF885
LYD3_k127_4203977_0	935567.JAES01000012_gene938	1.129e-287	894.0	COG2987@1|root,COG2987@2|Bacteria,1MU4W@1224|Proteobacteria,1RP89@1236|Gammaproteobacteria,1X3IN@135614|Xanthomonadales	135614|Xanthomonadales	E	Catalyzes the conversion of urocanate to 4-imidazolone- 5-propionate	hutU	-	4.2.1.49	ko:K01712	ko00340,ko01100,map00340,map01100	M00045	R02914	RC00804	ko00000,ko00001,ko00002,ko01000	-	-	-	Urocanase,Urocanase_C,Urocanase_N
LYD3_k127_4203977_4	322710.Avin_26290	3.193e-191	619.0	COG2986@1|root,COG2986@2|Bacteria,1MU6K@1224|Proteobacteria,1RP02@1236|Gammaproteobacteria	1236|Gammaproteobacteria	E	histidine ammonia-lyase	hutH	GO:0003674,GO:0003824,GO:0004397,GO:0006082,GO:0006520,GO:0006807,GO:0008150,GO:0008152,GO:0009987,GO:0016829,GO:0016840,GO:0016841,GO:0019752,GO:0043436,GO:0044237,GO:0044238,GO:0044281,GO:0071704,GO:1901564	4.3.1.3	ko:K01745	ko00340,ko01100,map00340,map01100	M00045	R01168	RC00361	ko00000,ko00001,ko00002,ko01000	-	-	-	Lyase_aromatic
LYD3_k127_4203977_15	1298867.AUES01000038_gene820	2.404e-67	262.0	COG0659@1|root,COG0664@1|root,COG0659@2|Bacteria,COG0664@2|Bacteria,1MVWV@1224|Proteobacteria,2UNZ9@28211|Alphaproteobacteria,3K2C1@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	PT	Sulfate permease family	-	-	-	-	-	-	-	-	-	-	-	-	STAS,Sulfate_transp,cNMP_binding
LYD3_k127_4203977_1	748247.AZKH_p0479	4.218e-262	812.0	COG0477@1|root,COG0477@2|Bacteria,1MU46@1224|Proteobacteria,2VHKK@28216|Betaproteobacteria,2KW0D@206389|Rhodocyclales	206389|Rhodocyclales	EGP	Sugar (and other) transporter	-	-	-	-	-	-	-	-	-	-	-	-	Sugar_tr
LYD3_k127_4203977_2	1157708.KB907450_gene5117	4.704e-252	802.0	COG1082@1|root,COG3185@1|root,COG1082@2|Bacteria,COG3185@2|Bacteria,1MUVZ@1224|Proteobacteria,2VP26@28216|Betaproteobacteria,4AJX2@80864|Comamonadaceae	28216|Betaproteobacteria	C	PFAM Xylose isomerase domain protein TIM barrel	-	-	1.13.11.27	ko:K00457	ko00130,ko00350,ko00360,ko01100,map00130,map00350,map00360,map01100	M00044	R01372,R02521	RC00505,RC00738	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	AP_endonuc_2,Glyoxalase,Glyoxalase_4,Glyoxalase_5
LYD3_k127_4203977_8	279714.FuraDRAFT_0934	4.35e-129	417.0	COG0169@1|root,COG0169@2|Bacteria,1MVW5@1224|Proteobacteria,2VJU3@28216|Betaproteobacteria,2KQED@206351|Neisseriales	206351|Neisseriales	E	Shikimate dehydrogenase substrate binding domain	-	-	1.1.1.25	ko:K00014	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00022	R02413	RC00206	ko00000,ko00001,ko00002,ko01000	-	-	-	Shikimate_dh_N,ThiF
LYD3_k127_4203977_14	439375.Oant_4427	1.394e-68	239.0	COG1309@1|root,COG1309@2|Bacteria,1R5AI@1224|Proteobacteria,2U5HX@28211|Alphaproteobacteria	28211|Alphaproteobacteria	K	Transcriptional regulator	-	-	-	-	-	-	-	-	-	-	-	-	TetR_C_9,TetR_N
LYD3_k127_4203977_3	68570.DC74_1113	1.419e-196	626.0	COG0318@1|root,COG0318@2|Bacteria,2GIUC@201174|Actinobacteria	201174|Actinobacteria	IQ	PFAM AMP-dependent synthetase and ligase	-	-	-	ko:K00666	-	-	-	-	ko00000,ko01000,ko01004	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_4203977_17	1034943.BN1094_00822	4.791e-47	175.0	COG2128@1|root,COG2128@2|Bacteria,1MVWP@1224|Proteobacteria,1SE5X@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Carboxymuconolactone decarboxylase family	-	-	-	-	-	-	-	-	-	-	-	-	CMD
LYD3_k127_4203977_9	748280.NH8B_2488	7.289e-126	407.0	COG3485@1|root,COG3485@2|Bacteria,1MUYX@1224|Proteobacteria,2VNMM@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	protocatechuate 3,4-dioxygenase	pcaH	-	1.13.11.3	ko:K00449	ko00362,ko00624,ko01100,ko01120,ko01220,map00362,map00624,map01100,map01120,map01220	-	R01631,R03549	RC00388,RC00953	br01602,ko00000,ko00001,ko01000	-	-	-	Dioxygenase_C,PCDO_beta_N
LYD3_k127_4203977_10	748280.NH8B_2489	1.417e-99	347.0	COG3485@1|root,COG3485@2|Bacteria,1MV3B@1224|Proteobacteria,2VINQ@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	protocatechuate 3,4-dioxygenase	pcaG	-	1.13.11.3	ko:K00448	ko00362,ko00624,ko01100,ko01120,ko01220,map00362,map00624,map01100,map01120,map01220	-	R01631,R03549	RC00388,RC00953	br01602,ko00000,ko00001,ko01000	-	-	-	Dioxygenase_C
LYD3_k127_4203977_5	1294143.H681_11400	1.546e-145	473.0	COG0015@1|root,COG0015@2|Bacteria,1MXNN@1224|Proteobacteria,1RS00@1236|Gammaproteobacteria	1236|Gammaproteobacteria	F	3-carboxy-cis,cis-muconate cycloisomerase	pcaB	GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0044424,GO:0044464	5.5.1.2	ko:K01857	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	-	R03307	RC00902	ko00000,ko00001,ko01000	-	-	-	ADSL_C,Lyase_1
LYD3_k127_4203977_11	1217718.ALOU01000009_gene1023	1.385e-87	307.0	COG1028@1|root,COG1028@2|Bacteria,1MXWI@1224|Proteobacteria,2VJIU@28216|Betaproteobacteria	28216|Betaproteobacteria	IQ	Short-chain dehydrogenase reductase (SDR)	-	-	-	-	-	-	-	-	-	-	-	-	adh_short_C2
LYD3_k127_4203977_19	1442599.JAAN01000026_gene1203	1.074e-05	57.0	28KIX@1|root,2Z9Y0@2|Bacteria,1R427@1224|Proteobacteria,1RRGI@1236|Gammaproteobacteria,1XD2H@135614|Xanthomonadales	135614|Xanthomonadales	S	Poly(R)-hydroxyalkanoic acid synthase subunit	-	-	-	-	-	-	-	-	-	-	-	-	PHA_synth_III_E
LYD3_k127_4203977_7	693986.MOC_2837	2.188e-129	437.0	COG3243@1|root,COG3243@2|Bacteria,1MU68@1224|Proteobacteria,2VFW2@28211|Alphaproteobacteria,1JU3K@119045|Methylobacteriaceae	28211|Alphaproteobacteria	I	TIGRFAM poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit	-	-	-	ko:K03821	ko00650,map00650	-	R04254	RC00004	ko00000,ko00001,ko01000	-	-	-	Abhydrolase_1,PhaC_N
LYD3_k127_4203977_6	1366050.N234_37260	5.746e-142	454.0	COG3246@1|root,COG3246@2|Bacteria,1MZTP@1224|Proteobacteria,2VM5G@28216|Betaproteobacteria,1KGV7@119060|Burkholderiaceae	28216|Betaproteobacteria	S	beta-keto acid cleavage enzyme	-	-	-	-	-	-	-	-	-	-	-	-	BKACE
LYD3_k127_4203977_12	1095769.CAHF01000022_gene381	6.335e-87	296.0	COG0596@1|root,COG0596@2|Bacteria,1QTTN@1224|Proteobacteria,2WGN7@28216|Betaproteobacteria,474GN@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Serine aminopeptidase, S33	-	-	3.1.1.24	ko:K01055	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	M00568	R02991	RC00825	ko00000,ko00001,ko00002,ko01000	-	-	-	Abhydrolase_1
LYD3_k127_4203977_16	748280.NH8B_2495	2.256e-50	190.0	COG0599@1|root,COG0599@2|Bacteria,1RDSG@1224|Proteobacteria,2VTMI@28216|Betaproteobacteria,2KTV0@206351|Neisseriales	206351|Neisseriales	S	Carboxymuconolactone decarboxylase family	-	-	4.1.1.44	ko:K01607	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	-	R03470	RC00938	ko00000,ko00001,ko01000	-	-	-	CMD
LYD3_k127_4203977_18	279714.FuraDRAFT_1987	5.624e-08	61.0	2E7II@1|root,3320V@2|Bacteria,1N91Y@1224|Proteobacteria,2VW18@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4205056_0	420662.Mpe_A3396	4.341e-32	137.0	COG0265@1|root,COG0457@1|root,COG0265@2|Bacteria,COG0457@2|Bacteria,1RG0B@1224|Proteobacteria,2WFG8@28216|Betaproteobacteria,1KNDT@119065|unclassified Burkholderiales	28216|Betaproteobacteria	O	Trypsin-like peptidase domain	-	-	-	-	-	-	-	-	-	-	-	-	Trypsin_2
LYD3_k127_4229989_0	580332.Slit_0332	9.488e-28	129.0	2A8Z1@1|root,30Y2U@2|Bacteria,1PJYG@1224|Proteobacteria,2VJ83@28216|Betaproteobacteria,44W4N@713636|Nitrosomonadales	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4229989_1	543913.D521_1894	4.449e-13	68.0	COG0247@1|root,COG0277@1|root,COG1146@1|root,COG0247@2|Bacteria,COG0277@2|Bacteria,COG1146@2|Bacteria,1MU43@1224|Proteobacteria,2VHYU@28216|Betaproteobacteria,1KQIK@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	C	Domain of unknown function (DUF3400)	glpCD	-	-	-	-	-	-	-	-	-	-	-	CCG,DUF3400,DUF3683,FAD-oxidase_C,FAD_binding_4,Fer4_8
LYD3_k127_4231179_1	85643.Tmz1t_0147	4.95e-141	468.0	COG4108@1|root,COG4108@2|Bacteria,1MU7X@1224|Proteobacteria,2VIV3@28216|Betaproteobacteria,2KU7K@206389|Rhodocyclales	206389|Rhodocyclales	J	Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF- 1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP	prfC	-	-	ko:K02837	-	-	-	-	ko00000,ko03012	-	-	-	GTP_EFTU,GTP_EFTU_D2,RF3_C
LYD3_k127_4231179_2	296591.Bpro_4278	5.39e-92	309.0	COG2518@1|root,COG2518@2|Bacteria,1MXQC@1224|Proteobacteria,2VQ3B@28216|Betaproteobacteria,4AACE@80864|Comamonadaceae	28216|Betaproteobacteria	O	protein-L-isoaspartate O-methyltransferase	pcm	-	2.1.1.77	ko:K00573	-	-	-	-	ko00000,ko01000	-	-	-	PCMT
LYD3_k127_4231179_0	381666.H16_A1621	5.447e-211	668.0	COG0421@1|root,COG0421@2|Bacteria,1P220@1224|Proteobacteria,2VNDM@28216|Betaproteobacteria,1KBX2@119060|Burkholderiaceae	28216|Betaproteobacteria	E	Spermine/spermidine synthase domain	-	-	2.5.1.16	ko:K00797	ko00270,ko00330,ko00410,ko00480,ko01100,map00270,map00330,map00410,map00480,map01100	M00034,M00133	R01920,R02869,R08359	RC00021,RC00053	ko00000,ko00001,ko00002,ko01000	-	-	-	Spermine_synth
LYD3_k127_4231880_0	1380394.JADL01000013_gene659	5.154e-293	909.0	COG0058@1|root,COG0058@2|Bacteria,1MW4J@1224|Proteobacteria,2TRER@28211|Alphaproteobacteria,2JQ58@204441|Rhodospirillales	204441|Rhodospirillales	G	Phosphorylase is an important allosteric enzyme in carbohydrate metabolism. Enzymes from different sources differ in their regulatory mechanisms and in their natural substrates. However, all known phosphorylases share catalytic and structural properties	glgP	-	2.4.1.1	ko:K00688	ko00500,ko01100,ko01110,ko02026,ko04217,ko04910,ko04922,ko04931,map00500,map01100,map01110,map02026,map04217,map04910,map04922,map04931	-	R02111	-	ko00000,ko00001,ko01000	-	GT35	-	Phosphorylase
LYD3_k127_4234447_1	1216976.AX27061_0554	1.406e-123	401.0	COG3435@1|root,COG3435@2|Bacteria,1MVJP@1224|Proteobacteria,2VM1T@28216|Betaproteobacteria,3T63J@506|Alcaligenaceae	28216|Betaproteobacteria	Q	Gentisate 1,2-dioxygenase	nagI	-	1.13.11.4	ko:K00450	ko00350,ko01100,ko01120,map00350,map01100,map01120	-	R02656	RC00764	ko00000,ko00001,ko01000	-	-	-	Cupin_2
LYD3_k127_4234447_0	85643.Tmz1t_4043	0.0	1060.0	COG0446@1|root,COG1902@1|root,COG0446@2|Bacteria,COG1902@2|Bacteria,1MVE0@1224|Proteobacteria,2VZ75@28216|Betaproteobacteria,2KXX2@206389|Rhodocyclales	206389|Rhodocyclales	C	NADH:flavin oxidoreductase / NADH oxidase family	-	-	-	-	-	-	-	-	-	-	-	-	Oxidored_FMN,Pyr_redox_2
LYD3_k127_4234447_5	76114.ebD49	6.936e-20	102.0	2FCJI@1|root,344NU@2|Bacteria,1P2FU@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4234447_6	85643.Tmz1t_4045	4.013e-14	82.0	2EGIY@1|root,33AB5@2|Bacteria,1NPCU@1224|Proteobacteria,2W5VN@28216|Betaproteobacteria,2KZH6@206389|Rhodocyclales	206389|Rhodocyclales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4234447_4	1163617.SCD_n00447	2.958e-30	122.0	COG4309@1|root,COG4309@2|Bacteria,1NCXM@1224|Proteobacteria,2VW64@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Uncharacterized conserved protein (DUF2249)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2249
LYD3_k127_4234447_3	666684.AfiDRAFT_3692	1.091e-54	196.0	2ED3M@1|root,3370H@2|Bacteria,1NB6I@1224|Proteobacteria,2UE8V@28211|Alphaproteobacteria,3K53J@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4234447_2	76114.ebA6545	1.644e-120	391.0	COG3961@1|root,COG3961@2|Bacteria,1MW2F@1224|Proteobacteria,2VIQN@28216|Betaproteobacteria,2KUVZ@206389|Rhodocyclales	206389|Rhodocyclales	C	Thiamine pyrophosphate enzyme, central domain	-	-	4.1.1.74	ko:K04103	ko00380,ko01100,map00380,map01100	-	R01974	RC00506	ko00000,ko00001,ko01000	-	-	-	TPP_enzyme_C,TPP_enzyme_M,TPP_enzyme_N
LYD3_k127_4243537_5	1235457.C404_07590	1.258e-16	84.0	COG4654@1|root,COG4654@2|Bacteria,1N6UN@1224|Proteobacteria,2VW1Y@28216|Betaproteobacteria,1K9KZ@119060|Burkholderiaceae	28216|Betaproteobacteria	C	PFAM cytochrome c, class I	cyt	-	-	ko:K08738	ko00920,ko01100,ko01120,ko01524,ko02020,ko04115,ko04210,ko04214,ko04215,ko04932,ko05010,ko05012,ko05014,ko05016,ko05134,ko05145,ko05152,ko05161,ko05164,ko05167,ko05168,ko05200,ko05210,ko05222,ko05416,map00920,map01100,map01120,map01524,map02020,map04115,map04210,map04214,map04215,map04932,map05010,map05012,map05014,map05016,map05134,map05145,map05152,map05161,map05164,map05167,map05168,map05200,map05210,map05222,map05416	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	3.D.4.6	-	-	Cytochrom_C,Cytochrome_CBB3
LYD3_k127_4243537_0	713586.KB900536_gene819	6.244e-224	702.0	COG1690@1|root,COG1690@2|Bacteria,1MUHA@1224|Proteobacteria,1RMXH@1236|Gammaproteobacteria,1WW29@135613|Chromatiales	135613|Chromatiales	S	PFAM Uncharacterised protein family UPF0027	rtcB	-	6.5.1.3	ko:K14415	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	RtcB
LYD3_k127_4243537_1	1499502.EV12_0046	1.577e-165	540.0	COG0436@1|root,COG0436@2|Bacteria	2|Bacteria	E	Aminotransferase	asdA	-	4.1.1.12	ko:K09758	ko00250,ko00270,ko01100,ko01230,map00250,map00270,map01100,map01230	-	R00397,R00863	RC00282,RC00399,RC00400	ko00000,ko00001,ko01000	-	-	-	Aminotran_1_2
LYD3_k127_4243537_6	1158762.KB898039_gene1604	2.182e-05	49.0	COG1067@1|root,COG1067@2|Bacteria,1MWGB@1224|Proteobacteria,1RMPC@1236|Gammaproteobacteria,1WXPW@135613|Chromatiales	135613|Chromatiales	O	Belongs to the peptidase S16 family	-	-	-	-	-	-	-	-	-	-	-	-	AAA_32,Lon_C
LYD3_k127_4243537_4	1123368.AUIS01000038_gene37	7.719e-74	254.0	COG1073@1|root,COG1073@2|Bacteria,1RDAY@1224|Proteobacteria,1S4YT@1236|Gammaproteobacteria,2ND78@225057|Acidithiobacillales	225057|Acidithiobacillales	S	Dienelactone hydrolase family	-	-	-	-	-	-	-	-	-	-	-	-	DLH
LYD3_k127_4243537_3	1123393.KB891326_gene72	7.134e-97	333.0	COG2187@1|root,COG2187@2|Bacteria,1R98V@1224|Proteobacteria,2VM22@28216|Betaproteobacteria,1KSS9@119069|Hydrogenophilales	119069|Hydrogenophilales	S	AAA domain	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4243537_2	1123393.KB891326_gene73	5.058e-127	414.0	COG0462@1|root,COG0462@2|Bacteria,1QHJ7@1224|Proteobacteria,2VJW9@28216|Betaproteobacteria,1KSMN@119069|Hydrogenophilales	119069|Hydrogenophilales	EF	Phosphoribosyl synthetase-associated domain	-	-	2.7.6.1	ko:K00948	ko00030,ko00230,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00030,map00230,map01100,map01110,map01120,map01130,map01200,map01230	M00005	R01049	RC00002,RC00078	ko00000,ko00001,ko00002,ko01000	-	-	-	Pribosyl_synth,Pribosyltran_N
LYD3_k127_4255932_1	257310.BB0832	1.679e-54	198.0	COG4772@1|root,COG4772@2|Bacteria,1MUIH@1224|Proteobacteria,2VKC9@28216|Betaproteobacteria,3T1KS@506|Alcaligenaceae	28216|Betaproteobacteria	P	TonB-dependent receptor	yncD	-	-	ko:K02014	-	-	-	-	ko00000,ko02000	1.B.14	-	-	Plug,TonB_dep_Rec
LYD3_k127_4255932_0	1504672.669786378	3.452e-112	371.0	COG3391@1|root,COG3391@2|Bacteria,1PGDF@1224|Proteobacteria,2W9VT@28216|Betaproteobacteria,4AICM@80864|Comamonadaceae	28216|Betaproteobacteria	S	Lactonase, 7-bladed beta-propeller	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4255932_4	1387312.BAUS01000002_gene1002	0.0001924	49.0	COG4772@1|root,COG4772@2|Bacteria,1MXJU@1224|Proteobacteria,2VN9X@28216|Betaproteobacteria,2KKMQ@206350|Nitrosomonadales	206350|Nitrosomonadales	P	TonB dependent receptor	-	-	-	-	-	-	-	-	-	-	-	-	Plug,TonB_dep_Rec
LYD3_k127_4255932_2	1218084.BBJK01000072_gene5076	1.218e-27	122.0	COG4772@1|root,COG4772@2|Bacteria,1MXJU@1224|Proteobacteria,2VN9X@28216|Betaproteobacteria,1K2NQ@119060|Burkholderiaceae	28216|Betaproteobacteria	P	TonB-dependent receptor	-	-	-	ko:K02014	-	-	-	-	ko00000,ko02000	1.B.14	-	-	Plug,TonB_dep_Rec
LYD3_k127_4255932_3	1165096.ARWF01000001_gene1661	1.076e-10	70.0	COG4772@1|root,COG4772@2|Bacteria,1MXJU@1224|Proteobacteria,2VN9X@28216|Betaproteobacteria,2KKMQ@206350|Nitrosomonadales	206350|Nitrosomonadales	P	TonB dependent receptor	-	-	-	-	-	-	-	-	-	-	-	-	Plug,TonB_dep_Rec
LYD3_k127_4274604_2	1234364.AMSF01000010_gene479	4.458e-27	113.0	COG3428@1|root,COG3428@2|Bacteria,1NHMM@1224|Proteobacteria,1T998@1236|Gammaproteobacteria,1XBUQ@135614|Xanthomonadales	135614|Xanthomonadales	S	Bacterial PH domain	-	-	-	-	-	-	-	-	-	-	-	-	bPH_2
LYD3_k127_4274604_0	1437824.BN940_16151	4.514e-206	652.0	COG1012@1|root,COG1012@2|Bacteria,1MW72@1224|Proteobacteria,2VIBR@28216|Betaproteobacteria,3T3DW@506|Alcaligenaceae	28216|Betaproteobacteria	C	belongs to the aldehyde dehydrogenase family	-	-	1.2.1.3	ko:K00128	ko00010,ko00053,ko00071,ko00280,ko00310,ko00330,ko00340,ko00380,ko00410,ko00561,ko00620,ko00625,ko00903,ko00981,ko01100,ko01110,ko01120,ko01130,map00010,map00053,map00071,map00280,map00310,map00330,map00340,map00380,map00410,map00561,map00620,map00625,map00903,map00981,map01100,map01110,map01120,map01130	M00135	R00264,R00631,R00710,R00904,R01752,R01986,R02549,R02678,R02940,R02957,R03283,R03869,R04065,R04506,R04903,R05050,R05237,R05238,R05286,R06366,R08146	RC00047,RC00071,RC00080,RC00186,RC00218,RC00242,RC00816,RC01500	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_4274604_1	1005048.CFU_3201	1.664e-39	148.0	COG1748@1|root,COG1748@2|Bacteria,1MY1G@1224|Proteobacteria,2VMNG@28216|Betaproteobacteria,475ZH@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Saccharopine dehydrogenase C-terminal domain	-	-	1.5.1.7	ko:K00290	ko00300,ko00310,ko01100,ko01110,ko01130,ko01230,map00300,map00310,map01100,map01110,map01130,map01230	M00030,M00032	R00715	RC00217,RC01532	ko00000,ko00001,ko00002,ko01000	-	-	-	Sacchrp_dh_C,Sacchrp_dh_NADP
LYD3_k127_4298919_2	323848.Nmul_A0820	1.188e-91	313.0	COG0040@1|root,COG0040@2|Bacteria,1MUCY@1224|Proteobacteria,2VIF9@28216|Betaproteobacteria,371MT@32003|Nitrosomonadales	28216|Betaproteobacteria	F	Catalyzes the condensation of ATP and 5-phosphoribose 1- diphosphate to form N'-(5'-phosphoribosyl)-ATP (PR-ATP). Has a crucial role in the pathway because the rate of histidine biosynthesis seems to be controlled primarily by regulation of HisG enzymatic activity	hisG	-	2.4.2.17	ko:K00765	ko00340,ko01100,ko01110,ko01230,map00340,map01100,map01110,map01230	M00026	R01071	RC02819,RC03200	ko00000,ko00001,ko00002,ko01000	-	-	-	HisG
LYD3_k127_4298919_0	272568.GDI3167	5.276e-147	482.0	COG0402@1|root,COG0402@2|Bacteria,1MUPT@1224|Proteobacteria,2TU1V@28211|Alphaproteobacteria,2JV05@204441|Rhodospirillales	204441|Rhodospirillales	F	Amidohydrolase family	-	-	3.5.4.3	ko:K01487	ko00230,ko01100,map00230,map01100	-	R01676	RC00204	ko00000,ko00001,ko01000	-	-	-	Amidohydro_1
LYD3_k127_4298919_3	257313.BP2084	6.745e-90	304.0	COG0780@1|root,COG2904@1|root,COG0780@2|Bacteria,COG2904@2|Bacteria,1MW0M@1224|Proteobacteria,2VINU@28216|Betaproteobacteria,3T2VP@506|Alcaligenaceae	28216|Betaproteobacteria	S	Catalyzes the NADPH-dependent reduction of 7-cyano-7- deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1)	queF	-	1.7.1.13	ko:K06879,ko:K09457	ko00790,ko01100,map00790,map01100	-	R07605	RC01875	ko00000,ko00001,ko01000,ko03016	-	-	-	QueF,QueF_N
LYD3_k127_4298919_1	395494.Galf_0541	2.076e-96	320.0	COG0766@1|root,COG0766@2|Bacteria,1MUH7@1224|Proteobacteria,2VHZN@28216|Betaproteobacteria,44VFJ@713636|Nitrosomonadales	28216|Betaproteobacteria	M	Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine	murA	-	2.5.1.7	ko:K00790	ko00520,ko00550,ko01100,map00520,map00550,map01100	-	R00660	RC00350	ko00000,ko00001,ko01000,ko01011	-	-	-	EPSP_synthase
LYD3_k127_430111_5	1123368.AUIS01000008_gene2247	1.094e-43	173.0	COG0309@1|root,COG0309@2|Bacteria,1MVCC@1224|Proteobacteria,1RQBE@1236|Gammaproteobacteria,2NC8X@225057|Acidithiobacillales	225057|Acidithiobacillales	O	hydrogenase expression formation protein HypE	-	-	-	ko:K04655	-	-	-	-	ko00000	-	-	-	AIRS,AIRS_C
LYD3_k127_430111_1	266264.Rmet_1539	2.017e-202	636.0	COG0409@1|root,COG0409@2|Bacteria,1MU1F@1224|Proteobacteria,2VHKM@28216|Betaproteobacteria,1K3JF@119060|Burkholderiaceae	28216|Betaproteobacteria	O	Belongs to the HypD family	hypD	-	-	ko:K04654	-	-	-	-	ko00000	-	-	-	HypD
LYD3_k127_430111_8	1121035.AUCH01000003_gene1272	2.872e-23	109.0	COG0298@1|root,COG0298@2|Bacteria,1N76Y@1224|Proteobacteria,2VVZH@28216|Betaproteobacteria,2KX70@206389|Rhodocyclales	206389|Rhodocyclales	O	Hydrogenase assembly chaperone hypC hupF	hypC	-	-	ko:K04653	-	-	-	-	ko00000	-	-	-	HupF_HypC
LYD3_k127_430111_0	266264.Rmet_1537	0.0	1012.0	COG0068@1|root,COG0068@2|Bacteria,1MVP8@1224|Proteobacteria,2VHS4@28216|Betaproteobacteria,1K2HP@119060|Burkholderiaceae	28216|Betaproteobacteria	O	Along with HypE, it catalyzes the synthesis of the CN ligands of the active site iron of NiFe -hydrogenases using carbamoylphosphate as a substrate. It functions as a carbamoyl transferase using carbamoylphosphate as a substrate and transferring the carboxamido moiety in an ATP-dependent reaction to the thiolate of the C-terminal cysteine of HypE yielding a protein-S-carboxamide	hypF2	-	-	ko:K04656	-	-	-	-	ko00000	-	-	-	Acylphosphatase,Carbam_trans_N,Sua5_yciO_yrdC,zf-HYPF
LYD3_k127_430111_2	266264.Rmet_1536	8.571e-125	409.0	COG0378@1|root,COG0378@2|Bacteria,1MVBD@1224|Proteobacteria,2VJKH@28216|Betaproteobacteria,1K4AY@119060|Burkholderiaceae	28216|Betaproteobacteria	KO	Hydrogenase	hypB	-	-	ko:K04652	-	-	-	-	ko00000,ko03110	-	-	-	cobW
LYD3_k127_430111_6	288000.BBta_2006	9.637e-31	130.0	COG0375@1|root,COG0375@2|Bacteria,1MZJH@1224|Proteobacteria,2UBR0@28211|Alphaproteobacteria,3JZHY@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Probably plays a role in a hydrogenase nickel cofactor insertion step	hypA	-	-	ko:K04651	-	-	-	-	ko00000,ko03110	-	-	-	HypA
LYD3_k127_430111_4	1163617.SCD_n00767	5.175e-57	218.0	COG0374@1|root,COG0374@2|Bacteria,1R6ND@1224|Proteobacteria,2VQXM@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Ni,Fe-hydrogenase I large subunit	hoxV	-	-	-	-	-	-	-	-	-	-	-	NiFeSe_Hases
LYD3_k127_430111_7	762966.HMPREF9439_00200	2.267e-25	115.0	COG1773@1|root,COG1773@2|Bacteria,1N813@1224|Proteobacteria,2VVKP@28216|Betaproteobacteria,4PR5Y@995019|Sutterellaceae	28216|Betaproteobacteria	C	[NiFe]-hydrogenase assembly, chaperone, HybE	-	-	-	-	-	-	-	-	-	-	-	-	NiFe-hyd_HybE
LYD3_k127_430111_9	1458427.BAWN01000033_gene1894	4.026e-22	109.0	COG1773@1|root,COG1773@2|Bacteria,1N6TQ@1224|Proteobacteria,2VWD0@28216|Betaproteobacteria,4AID5@80864|Comamonadaceae	28216|Betaproteobacteria	C	Rubredoxin	hoxR	-	-	-	-	-	-	-	-	-	-	-	Rubredoxin
LYD3_k127_430111_3	62928.azo3795	4.51e-66	236.0	COG1773@1|root,COG1773@2|Bacteria,1MV2U@1224|Proteobacteria,2VKNQ@28216|Betaproteobacteria,2KWD5@206389|Rhodocyclales	206389|Rhodocyclales	C	HupH hydrogenase expression protein, C-terminal conserved region	-	-	-	ko:K03618	-	-	-	-	ko00000	-	-	-	HupH_C
LYD3_k127_4302282_0	360910.BAV2953	1.405e-225	708.0	COG2719@1|root,COG2719@2|Bacteria,1MW6U@1224|Proteobacteria,2VHJ7@28216|Betaproteobacteria,3T6RN@506|Alcaligenaceae	28216|Betaproteobacteria	S	SpoVR family	spoVR2	-	-	ko:K06415	-	-	-	-	ko00000	-	-	-	SpoVR
LYD3_k127_4302282_1	543728.Vapar_3245	1.862e-87	292.0	COG2818@1|root,COG2818@2|Bacteria,1R9X5@1224|Proteobacteria,2VQC5@28216|Betaproteobacteria,4ACVJ@80864|Comamonadaceae	28216|Betaproteobacteria	L	PFAM Methyladenine glycosylase	tag	-	3.2.2.20	ko:K01246	ko03410,map03410	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	Adenine_glyco
LYD3_k127_4302282_3	1000565.METUNv1_00458	3.142e-35	139.0	COG0589@1|root,COG0589@2|Bacteria,1NDDA@1224|Proteobacteria,2VUKE@28216|Betaproteobacteria	28216|Betaproteobacteria	T	Universal stress protein family	-	-	-	-	-	-	-	-	-	-	-	-	Usp
LYD3_k127_4302282_2	748247.AZKH_p0485	2.221e-71	246.0	COG0589@1|root,COG0589@2|Bacteria,1QD8E@1224|Proteobacteria,2VTUB@28216|Betaproteobacteria	28216|Betaproteobacteria	T	Belongs to the universal stress protein A family	-	-	-	-	-	-	-	-	-	-	-	-	Usp
LYD3_k127_4317562_1	1304883.KI912532_gene1396	5.165e-84	282.0	COG0521@1|root,COG0521@2|Bacteria,1R9W2@1224|Proteobacteria,2VH28@28216|Betaproteobacteria,2KUQ0@206389|Rhodocyclales	206389|Rhodocyclales	H	Molybdenum cofactor biosynthesis protein	mogA	-	2.7.7.75	ko:K03831	ko00790,ko01100,ko04122,map00790,map01100,map04122	-	R09726	RC00002	ko00000,ko00001,ko01000	-	-	-	MoCF_biosynth
LYD3_k127_4317562_2	153948.NAL212_3079	2.037e-34	138.0	COG3028@1|root,COG3028@2|Bacteria,1MZ4R@1224|Proteobacteria,2VSGZ@28216|Betaproteobacteria,3737V@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Belongs to the UPF0307 family	yjgA	-	-	ko:K09889	-	-	-	-	ko00000,ko03009	-	-	-	DUF615
LYD3_k127_4317562_0	292415.Tbd_2148	2.332e-176	565.0	COG0312@1|root,COG0312@2|Bacteria,1MUVW@1224|Proteobacteria,2VHJ4@28216|Betaproteobacteria,1KRIB@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Putative modulator of DNA gyrase	-	-	-	ko:K03592	-	-	-	-	ko00000,ko01002	-	-	-	PmbA_TldD
LYD3_k127_4317562_3	243365.CV_1364	2.095e-15	90.0	2DBUQ@1|root,2ZB76@2|Bacteria,1R4DM@1224|Proteobacteria,2VS5V@28216|Betaproteobacteria,2KR1T@206351|Neisseriales	206351|Neisseriales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4317562_4	1430440.MGMSRv2_1090	7.971e-06	50.0	COG4663@1|root,COG4663@2|Bacteria,1MVMD@1224|Proteobacteria,2TS4J@28211|Alphaproteobacteria,2JPP5@204441|Rhodospirillales	204441|Rhodospirillales	Q	Part of the tripartite ATP-independent periplasmic (TRAP) transport system	-	-	-	-	-	-	-	-	-	-	-	-	DctP
LYD3_k127_4340924_1	1121004.ATVC01000032_gene2210	2.757e-87	289.0	COG0508@1|root,COG0508@2|Bacteria,1MUJD@1224|Proteobacteria,2VIEM@28216|Betaproteobacteria,2KPJ7@206351|Neisseriales	206351|Neisseriales	C	The 2-oxoglutarate dehydrogenase complex catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and CO(2)	sucB	-	2.3.1.61	ko:K00658	ko00020,ko00310,ko01100,ko01110,ko01120,ko01130,ko01200,map00020,map00310,map01100,map01110,map01120,map01130,map01200	M00009,M00011,M00032	R02570,R02571,R08549	RC00004,RC02727,RC02833	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	2-oxoacid_dh,Biotin_lipoyl,E3_binding
LYD3_k127_4340924_0	1005048.CFU_1754	9.61e-230	718.0	COG1249@1|root,COG1249@2|Bacteria,1MU2U@1224|Proteobacteria,2VI6G@28216|Betaproteobacteria,4734P@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain	odhL	GO:0003674,GO:0003824,GO:0004148,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0005654,GO:0005737,GO:0005739,GO:0005759,GO:0006082,GO:0006084,GO:0006085,GO:0006086,GO:0006090,GO:0006139,GO:0006163,GO:0006164,GO:0006464,GO:0006637,GO:0006725,GO:0006732,GO:0006733,GO:0006753,GO:0006790,GO:0006793,GO:0006796,GO:0006807,GO:0008150,GO:0008152,GO:0009058,GO:0009108,GO:0009117,GO:0009150,GO:0009152,GO:0009165,GO:0009259,GO:0009260,GO:0009987,GO:0016491,GO:0016651,GO:0016667,GO:0016668,GO:0018130,GO:0018335,GO:0019362,GO:0019438,GO:0019538,GO:0019637,GO:0019693,GO:0019752,GO:0031974,GO:0031981,GO:0032787,GO:0032991,GO:0033865,GO:0033866,GO:0033875,GO:0034030,GO:0034032,GO:0034033,GO:0034641,GO:0034654,GO:0035383,GO:0035384,GO:0036211,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043233,GO:0043412,GO:0043436,GO:0043543,GO:0043603,GO:0043604,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044267,GO:0044271,GO:0044272,GO:0044281,GO:0044422,GO:0044424,GO:0044428,GO:0044429,GO:0044444,GO:0044446,GO:0044464,GO:0045239,GO:0045240,GO:0045252,GO:0045254,GO:0046390,GO:0046483,GO:0046496,GO:0051186,GO:0051188,GO:0055086,GO:0055114,GO:0061732,GO:0070013,GO:0071616,GO:0071704,GO:0072521,GO:0072522,GO:0072524,GO:0090407,GO:0106077,GO:1901135,GO:1901137,GO:1901293,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1902494,GO:1990204,GO:1990234	1.8.1.4	ko:K00382	ko00010,ko00020,ko00260,ko00280,ko00620,ko00630,ko00640,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00020,map00260,map00280,map00620,map00630,map00640,map01100,map01110,map01120,map01130,map01200	M00009,M00011,M00036,M00307,M00532	R00209,R01221,R01698,R03815,R07618,R08549	RC00004,RC00022,RC00583,RC02742,RC02833,RC02834	br01601,ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Pyr_redox_2,Pyr_redox_dim
LYD3_k127_4340924_2	1454004.AW11_00262	7.162e-15	78.0	COG1485@1|root,COG1485@2|Bacteria,1MUUW@1224|Proteobacteria,2VHQX@28216|Betaproteobacteria,1KPXE@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	AFG1-like ATPase	yhcM	-	-	ko:K06916	-	-	-	-	ko00000,ko03036	-	-	-	AFG1_ATPase
LYD3_k127_4355732_0	1125863.JAFN01000001_gene3166	2.999e-164	530.0	COG0641@1|root,COG0641@2|Bacteria,1MX3M@1224|Proteobacteria,42PP9@68525|delta/epsilon subdivisions,2WMFX@28221|Deltaproteobacteria	28221|Deltaproteobacteria	C	Radical SAM superfamily	-	-	-	ko:K06871	-	-	-	-	ko00000	-	-	-	Fer4_12,Radical_SAM,SPASM
LYD3_k127_4355732_1	1121918.ARWE01000001_gene172	0.0002933	53.0	2BBG1@1|root,324ZB@2|Bacteria,1RHTK@1224|Proteobacteria,42URH@68525|delta/epsilon subdivisions,2WQKH@28221|Deltaproteobacteria,43V4Q@69541|Desulfuromonadales	28221|Deltaproteobacteria	S	Quinohemoprotein amine dehydrogenase, gamma subunit	-	-	-	-	-	-	-	-	-	-	-	-	QH-AmDH_gamma
LYD3_k127_4373760_3	1163617.SCD_n00918	1.19e-73	255.0	COG0505@1|root,COG0505@2|Bacteria,1MUB9@1224|Proteobacteria,2VH9Q@28216|Betaproteobacteria	28216|Betaproteobacteria	F	Belongs to the CarA family	carA	-	6.3.5.5	ko:K01956	ko00240,ko00250,ko01100,map00240,map00250,map01100	M00051	R00256,R00575,R01395,R10948,R10949	RC00002,RC00010,RC00043,RC02750,RC02798,RC03314	ko00000,ko00001,ko00002,ko01000	-	-	-	CPSase_sm_chain,GATase
LYD3_k127_4373760_2	1411123.JQNH01000001_gene929	2.796e-82	284.0	COG1028@1|root,COG1028@2|Bacteria,1MWB6@1224|Proteobacteria,2TTVF@28211|Alphaproteobacteria	28211|Alphaproteobacteria	IQ	COG1028 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases)	-	-	1.1.1.69	ko:K00046	-	-	-	-	ko00000,ko01000	-	-	-	adh_short_C2
LYD3_k127_4373760_1	1123504.JQKD01000003_gene557	2.935e-89	313.0	COG0289@1|root,COG0289@2|Bacteria,1MUCT@1224|Proteobacteria,2VJC3@28216|Betaproteobacteria,4AAJX@80864|Comamonadaceae	28216|Betaproteobacteria	E	Catalyzes the conversion of 4-hydroxy- tetrahydrodipicolinate (HTPA) to tetrahydrodipicolinate	dapB	GO:0003674,GO:0003824,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006082,GO:0006520,GO:0006807,GO:0008150,GO:0008152,GO:0008652,GO:0008839,GO:0009058,GO:0009987,GO:0016053,GO:0016491,GO:0016627,GO:0016628,GO:0019752,GO:0019877,GO:0043436,GO:0043648,GO:0043650,GO:0044237,GO:0044238,GO:0044249,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0046394,GO:0046451,GO:0055114,GO:0071704,GO:1901564,GO:1901566,GO:1901576	1.17.1.8	ko:K00215	ko00261,ko00300,ko01100,ko01110,ko01120,ko01130,ko01230,map00261,map00300,map01100,map01110,map01120,map01130,map01230	M00016,M00525,M00526,M00527	R04198,R04199	RC00478	ko00000,ko00001,ko00002,ko01000	-	-	-	DapB_C,DapB_N
LYD3_k127_4373760_5	377629.TERTU_3301	2.396e-24	109.0	COG2913@1|root,COG2913@2|Bacteria,1N6YW@1224|Proteobacteria,1SCTT@1236|Gammaproteobacteria,2PNXB@256005|Alteromonadales genera incertae sedis	1236|Gammaproteobacteria	M	SmpA / OmlA family	bamE	GO:0003674,GO:0005488,GO:0005515,GO:0005575,GO:0005623,GO:0008104,GO:0008150,GO:0009279,GO:0009987,GO:0016020,GO:0016021,GO:0016043,GO:0019867,GO:0022607,GO:0030312,GO:0030313,GO:0030674,GO:0031224,GO:0031230,GO:0031241,GO:0031246,GO:0031975,GO:0032991,GO:0033036,GO:0034613,GO:0042221,GO:0042802,GO:0043163,GO:0043165,GO:0044085,GO:0044091,GO:0044425,GO:0044462,GO:0044464,GO:0045184,GO:0045203,GO:0045229,GO:0046677,GO:0050896,GO:0051179,GO:0051205,GO:0051234,GO:0051641,GO:0060090,GO:0061024,GO:0070727,GO:0071709,GO:0071840,GO:0071944,GO:0072657,GO:0090150,GO:0098552,GO:0098796,GO:1990063	-	ko:K06186	-	-	-	-	ko00000,ko02000	1.B.33.1	-	-	SmpA_OmlA
LYD3_k127_4373760_4	1288494.EBAPG3_4330	2.752e-67	236.0	COG0735@1|root,COG0735@2|Bacteria,1RDWJ@1224|Proteobacteria,2VR52@28216|Betaproteobacteria,37316@32003|Nitrosomonadales	28216|Betaproteobacteria	K	Belongs to the Fur family	fur	-	-	ko:K03711	-	-	-	-	ko00000,ko03000	-	-	-	FUR
LYD3_k127_4373760_0	1163617.SCD_n02133	1.612e-148	481.0	COG0728@1|root,COG0728@2|Bacteria,1MUH0@1224|Proteobacteria,2VHTQ@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Involved in peptidoglycan biosynthesis. Transports lipid-linked peptidoglycan precursors from the inner to the outer leaflet of the cytoplasmic membrane	murJ	-	-	ko:K03980	-	-	-	-	ko00000,ko01011,ko02000	2.A.66.4	-	-	MVIN
LYD3_k127_4386079_0	545693.BMQ_0953	4.716e-226	707.0	COG0028@1|root,COG0028@2|Bacteria,1TQE8@1239|Firmicutes,4HAV1@91061|Bacilli,1ZEGW@1386|Bacillus	91061|Bacilli	EH	Thiamine pyrophosphate enzyme, central domain	-	-	2.2.1.6	ko:K01652	ko00290,ko00650,ko00660,ko00770,ko01100,ko01110,ko01130,ko01210,ko01230,map00290,map00650,map00660,map00770,map01100,map01110,map01130,map01210,map01230	M00019,M00570	R00006,R00014,R00226,R03050,R04672,R04673,R08648	RC00027,RC00106,RC01192,RC02744,RC02893	ko00000,ko00001,ko00002,ko01000	-	-	-	TPP_enzyme_C,TPP_enzyme_M,TPP_enzyme_N
LYD3_k127_4386079_7	1196029.ALIM01000004_gene4284	2.387e-120	407.0	COG1082@1|root,COG1082@2|Bacteria,1UZZY@1239|Firmicutes,4HCGS@91061|Bacilli,1ZFCY@1386|Bacillus	91061|Bacilli	G	Xylose isomerase-like TIM barrel	-	-	-	-	-	-	-	-	-	-	-	-	AP_endonuc_2
LYD3_k127_4386079_14	748247.AZKH_p0475	2.902e-59	212.0	COG3090@1|root,COG3090@2|Bacteria,1PJMZ@1224|Proteobacteria,2WA3Y@28216|Betaproteobacteria,2KYXE@206389|Rhodocyclales	2|Bacteria	G	Tripartite ATP-independent periplasmic transporters, DctQ component	-	-	-	ko:K11689,ko:K21394	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.56.1	-	-	DctQ
LYD3_k127_4386079_1	319003.Bra1253DRAFT_03409	6.04e-190	602.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2TQW5@28211|Alphaproteobacteria,3JXP6@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	G	Tripartite ATP-independent periplasmic transporter, DctM component	-	-	-	ko:K21393	-	-	-	-	ko00000,ko02000	2.A.56.1	-	-	DctM
LYD3_k127_4386079_6	543728.Vapar_5721	6.822e-122	400.0	COG1638@1|root,COG1638@2|Bacteria,1MVHC@1224|Proteobacteria,2VHPJ@28216|Betaproteobacteria,4A9T2@80864|Comamonadaceae	28216|Betaproteobacteria	G	TIGRFAM TRAP dicarboxylate transporter, DctP subunit	-	-	-	ko:K21395	-	-	-	-	ko00000,ko02000	2.A.56.1	-	-	DctP
LYD3_k127_4386079_3	1218084.BBJK01000037_gene3546	2.308e-143	462.0	COG0673@1|root,COG0673@2|Bacteria,1MUP0@1224|Proteobacteria,2VMEP@28216|Betaproteobacteria,1K5PW@119060|Burkholderiaceae	28216|Betaproteobacteria	S	PFAM oxidoreductase domain protein	-	-	1.1.1.292	ko:K19181	-	-	-	-	ko00000,ko01000	-	-	-	GFO_IDH_MocA,GFO_IDH_MocA_C
LYD3_k127_4386079_4	543728.Vapar_3325	9.417e-130	419.0	COG0169@1|root,COG0169@2|Bacteria,1MVW5@1224|Proteobacteria,2VJU3@28216|Betaproteobacteria,4A9XV@80864|Comamonadaceae	28216|Betaproteobacteria	E	Shikimate dehydrogenase substrate binding domain protein	-	-	1.1.1.25	ko:K00014	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00022	R02413	RC00206	ko00000,ko00001,ko00002,ko01000	-	-	-	Shikimate_dh_N,ThiF
LYD3_k127_4386079_11	318996.AXAZ01000001_gene4615	3.251e-104	357.0	COG0169@1|root,COG0169@2|Bacteria,1MVH4@1224|Proteobacteria,2U15D@28211|Alphaproteobacteria,3JXAD@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	E	Involved in the biosynthesis of the chorismate, which leads to the biosynthesis of aromatic amino acids. Catalyzes the reversible NADPH linked reduction of 3-dehydroshikimate (DHSA) to yield shikimate (SA)	-	-	1.1.1.25	ko:K00014	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00022	R02413	RC00206	ko00000,ko00001,ko00002,ko01000	-	-	-	Shikimate_DH,Shikimate_dh_N
LYD3_k127_4386079_8	365044.Pnap_1651	1.207e-117	388.0	COG0559@1|root,COG0559@2|Bacteria,1MU25@1224|Proteobacteria,2VIDW@28216|Betaproteobacteria,4ABK5@80864|Comamonadaceae	28216|Betaproteobacteria	E	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01997	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_4386079_9	1458275.AZ34_08395	7.404e-113	372.0	COG4177@1|root,COG4177@2|Bacteria,1MV66@1224|Proteobacteria,2VJN3@28216|Betaproteobacteria,4AC7N@80864|Comamonadaceae	28216|Betaproteobacteria	P	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_4386079_10	395495.Lcho_3689	1.201e-105	356.0	COG0411@1|root,COG0411@2|Bacteria,1MUTY@1224|Proteobacteria,2VMEE@28216|Betaproteobacteria	28216|Betaproteobacteria	E	ABC-type branched-chain amino acid transport systems ATPase component	-	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_4386079_12	887062.HGR_01237	4.305e-93	311.0	COG0410@1|root,COG0410@2|Bacteria,1MVVC@1224|Proteobacteria,2VMTW@28216|Betaproteobacteria,4AD7V@80864|Comamonadaceae	28216|Betaproteobacteria	E	amino acid	-	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran
LYD3_k127_4386079_13	338969.Rfer_2381	1.984e-85	291.0	COG0710@1|root,COG0710@2|Bacteria,1NG0G@1224|Proteobacteria,2VP6P@28216|Betaproteobacteria,4AE0Q@80864|Comamonadaceae	28216|Betaproteobacteria	E	Involved in the third step of the chorismate pathway, which leads to the biosynthesis of aromatic amino acids. Catalyzes the cis-dehydration of 3-dehydroquinate (DHQ) and introduces the first double bond of the aromatic ring to yield 3- dehydroshikimate	aroD	-	4.2.1.10	ko:K03785	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00022	R03084	RC00848	ko00000,ko00001,ko00002,ko01000	-	-	-	DHquinase_I
LYD3_k127_4386079_5	936455.KI421499_gene4673	7.215e-126	416.0	COG0654@1|root,COG0654@2|Bacteria,1N6PD@1224|Proteobacteria,2U19F@28211|Alphaproteobacteria,3JVN9@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	CH	FAD dependent oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	FAD_oxidored
LYD3_k127_4386079_2	395495.Lcho_3686	2.778e-148	480.0	COG0683@1|root,COG0683@2|Bacteria,1MX94@1224|Proteobacteria,2VHQ4@28216|Betaproteobacteria	28216|Betaproteobacteria	E	COG0683 ABC-type branched-chain amino acid transport systems, periplasmic component	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_4386079_15	1380394.JADL01000003_gene5229	4.522e-22	98.0	COG0673@1|root,COG0673@2|Bacteria,1MUZI@1224|Proteobacteria,2U21V@28211|Alphaproteobacteria,2JXPB@204441|Rhodospirillales	204441|Rhodospirillales	S	Oxidoreductase family, NAD-binding Rossmann fold	-	-	1.1.1.292	ko:K19181	-	-	-	-	ko00000,ko01000	-	-	-	GFO_IDH_MocA,GFO_IDH_MocA_C
LYD3_k127_4398273_3	1163617.SCD_n01482	2.947e-60	224.0	COG1187@1|root,COG1187@2|Bacteria,1MUCE@1224|Proteobacteria,2VITB@28216|Betaproteobacteria	28216|Betaproteobacteria	J	Belongs to the pseudouridine synthase RsuA family	rluB	-	5.4.99.22	ko:K06178	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	PseudoU_synth_2,S4
LYD3_k127_4398273_1	1232410.KI421412_gene177	4.393e-111	366.0	COG1028@1|root,COG1028@2|Bacteria,1MUSQ@1224|Proteobacteria,42YTV@68525|delta/epsilon subdivisions,2WTY1@28221|Deltaproteobacteria,43TGH@69541|Desulfuromonadales	28221|Deltaproteobacteria	IQ	Enoyl-(Acyl carrier protein) reductase	-	-	-	ko:K13775	ko00281,map00281	-	R08087,R08096,R10125,R10126	RC00080,RC00087	ko00000,ko00001	-	-	-	adh_short
LYD3_k127_4398273_2	1380394.JADL01000003_gene5068	4.215e-69	256.0	COG1024@1|root,COG1024@2|Bacteria,1NQM5@1224|Proteobacteria,2TSP1@28211|Alphaproteobacteria,2JS3B@204441|Rhodospirillales	204441|Rhodospirillales	I	Enoyl-CoA hydratase/isomerase	-	-	5.3.3.18	ko:K15866	ko00360,ko01120,map00360,map01120	-	R09837,R09839	RC00004,RC00326,RC02689,RC03003	ko00000,ko00001,ko01000	-	-	-	ECH_1
LYD3_k127_4398273_0	1392838.AWNM01000025_gene4222	2.638e-122	401.0	COG3146@1|root,COG3146@2|Bacteria,1MU35@1224|Proteobacteria,2VH0Z@28216|Betaproteobacteria,3T2JI@506|Alcaligenaceae	28216|Betaproteobacteria	S	Peptidogalycan biosysnthesis/recognition	-	-	-	ko:K09919	-	-	-	-	ko00000	-	-	-	FemAB_like
LYD3_k127_4398780_2	76114.c1A18	1.98e-60	215.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,2VKIW@28216|Betaproteobacteria,2KV4W@206389|Rhodocyclales	206389|Rhodocyclales	I	AcyL-CoA dehydrogenase	fadE	-	-	ko:K06445	ko00071,ko01100,ko01212,map00071,map01100,map01212	M00087	R01175,R01279,R03777,R03857,R03990,R04751,R04754	RC00052,RC00076	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_N,DUF1974
LYD3_k127_4398780_1	748247.AZKH_4267	2.043e-218	683.0	COG0183@1|root,COG0183@2|Bacteria,1MU5G@1224|Proteobacteria,2VMHS@28216|Betaproteobacteria,2KUQ2@206389|Rhodocyclales	206389|Rhodocyclales	I	Belongs to the thiolase family	fadA	-	2.3.1.9	ko:K00626	ko00071,ko00072,ko00280,ko00310,ko00362,ko00380,ko00620,ko00630,ko00640,ko00650,ko00720,ko00900,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,ko02020,map00071,map00072,map00280,map00310,map00362,map00380,map00620,map00630,map00640,map00650,map00720,map00900,map01100,map01110,map01120,map01130,map01200,map01212,map02020	M00088,M00095,M00373,M00374,M00375	R00238,R01177	RC00004,RC00326	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Thiolase_C,Thiolase_N
LYD3_k127_4398780_0	748247.AZKH_4266	4.772e-250	794.0	COG1024@1|root,COG1250@1|root,COG1024@2|Bacteria,COG1250@2|Bacteria,1MU9P@1224|Proteobacteria,2VH0Y@28216|Betaproteobacteria,2KU6T@206389|Rhodocyclales	206389|Rhodocyclales	I	3-hydroxyacyl-CoA dehydrogenase	-	-	1.1.1.35,4.2.1.17,5.1.2.3	ko:K01782	ko00071,ko00280,ko00281,ko00310,ko00362,ko00380,ko00410,ko00640,ko00650,ko00903,ko00930,ko01040,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,map00071,map00280,map00281,map00310,map00362,map00380,map00410,map00640,map00650,map00903,map00930,map01040,map01100,map01110,map01120,map01130,map01200,map01212	M00032,M00087	R01975,R03026,R03045,R03276,R04137,R04170,R04203,R04204,R04224,R04737,R04738,R04739,R04740,R04741,R04744,R04745,R04746,R04748,R04749,R05066,R05305,R06411,R06412,R06941,R06942,R07935,R07951,R08093,R08094	RC00029,RC00099,RC00117,RC00241,RC00525,RC00831,RC00834,RC00896,RC01086,RC01095,RC01098,RC01103,RC01217,RC02115	ko00000,ko00001,ko00002,ko01000	-	-	-	3HCDH,3HCDH_N,ECH_1
LYD3_k127_4398780_3	339670.Bamb_0451	3.071e-42	157.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2VI0I@28216|Betaproteobacteria,1K4G7@119060|Burkholderiaceae	28216|Betaproteobacteria	IQ	PFAM AMP-dependent synthetase and ligase	fadD	-	6.2.1.3	ko:K01897	ko00061,ko00071,ko01100,ko01212,ko02024,ko03320,ko04146,ko04216,ko04714,ko04920,map00061,map00071,map01100,map01212,map02024,map03320,map04146,map04216,map04714,map04920	M00086	R01280	RC00004,RC00014	ko00000,ko00001,ko00002,ko01000,ko01004,ko04147	4.C.1.1	-	-	AMP-binding,AMP-binding_C
LYD3_k127_4403568_5	1163617.SCD_n02919	5.1e-49	180.0	COG2518@1|root,COG2518@2|Bacteria,1RD6S@1224|Proteobacteria,2VJX3@28216|Betaproteobacteria	28216|Betaproteobacteria	O	protein-L-isoaspartate(D-aspartate) O-methyltransferase	pcm	-	2.1.1.77	ko:K00573	-	-	-	-	ko00000,ko01000	-	-	-	PCMT
LYD3_k127_4403568_2	1163617.SCD_n02918	5.872e-105	357.0	COG1538@1|root,COG1538@2|Bacteria,1MWCJ@1224|Proteobacteria,2VHG1@28216|Betaproteobacteria	28216|Betaproteobacteria	MU	type I secretion outer membrane protein, TolC	-	-	-	ko:K12340	ko01501,ko01503,ko02020,ko03070,ko04626,ko05133,map01501,map01503,map02020,map03070,map04626,map05133	M00325,M00326,M00339,M00571,M00575,M00646,M00647,M00696,M00697,M00709,M00720,M00821	-	-	ko00000,ko00001,ko00002,ko01504,ko02000,ko02044	1.B.17,2.A.6.2	-	-	OEP
LYD3_k127_4403568_1	1163617.SCD_n02917	1.243e-127	422.0	COG1519@1|root,COG1519@2|Bacteria,1MU9F@1224|Proteobacteria,2VI67@28216|Betaproteobacteria	28216|Betaproteobacteria	M	transferase	kdtA	-	2.4.99.12,2.4.99.13,2.4.99.14,2.4.99.15	ko:K02527	ko00540,ko01100,map00540,map01100	M00060,M00080	R04658,R05074,R09763	RC00009,RC00077,RC00247	ko00000,ko00001,ko00002,ko01000,ko01003,ko01005	-	GT30	-	Glycos_transf_1,Glycos_transf_N
LYD3_k127_4403568_4	1123354.AUDR01000013_gene530	1.546e-77	271.0	COG0859@1|root,COG0859@2|Bacteria,1MYZA@1224|Proteobacteria,2VPK7@28216|Betaproteobacteria	28216|Betaproteobacteria	M	lipopolysaccharide heptosyltransferase I	rfaC	-	-	ko:K02841	ko00540,ko01100,map00540,map01100	M00080	-	-	ko00000,ko00001,ko00002,ko01000,ko01003,ko01005	-	GT9	-	Glyco_transf_9
LYD3_k127_4403568_3	159087.Daro_3929	1.623e-94	317.0	COG1216@1|root,COG1216@2|Bacteria,1QU2Q@1224|Proteobacteria,2WGZN@28216|Betaproteobacteria,2KUGZ@206389|Rhodocyclales	206389|Rhodocyclales	S	Glycosyl transferase family 2	-	-	-	-	-	-	-	-	-	-	-	-	Glycos_transf_2
LYD3_k127_4403568_0	290397.Adeh_0221	1.01e-127	421.0	COG0451@1|root,COG0451@2|Bacteria,1MU7J@1224|Proteobacteria,42MWH@68525|delta/epsilon subdivisions,2WJMZ@28221|Deltaproteobacteria,2Z0DM@29|Myxococcales	28221|Deltaproteobacteria	M	RmlD substrate binding domain	uge	-	5.1.3.6	ko:K08679	ko00520,ko01100,map00520,map01100	-	R01385	RC00289	ko00000,ko00001,ko01000	-	-	-	Epimerase,GDP_Man_Dehyd
LYD3_k127_4403568_6	1218074.BAXZ01000020_gene3941	0.000307	45.0	COG1088@1|root,COG1088@2|Bacteria,1MU5E@1224|Proteobacteria,2VJAD@28216|Betaproteobacteria,1K19M@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Belongs to the NAD(P)-dependent epimerase dehydratase family. dTDP-glucose dehydratase subfamily	rfbB	-	4.2.1.46	ko:K01710	ko00521,ko00523,ko00525,ko01055,ko01130,map00521,map00523,map00525,map01055,map01130	M00793	R06513	RC00402	ko00000,ko00001,ko00002,ko01000	-	-	-	GDP_Man_Dehyd
LYD3_k127_4414101_2	595537.Varpa_4925	1.694e-07	56.0	COG4122@1|root,COG4122@2|Bacteria,1QWCT@1224|Proteobacteria,2VJBK@28216|Betaproteobacteria,4ACMD@80864|Comamonadaceae	28216|Betaproteobacteria	S	O-methyltransferase activity	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4414101_0	1207063.P24_06471	9.402e-86	297.0	COG0265@1|root,COG0265@2|Bacteria,1MURF@1224|Proteobacteria,2TUVW@28211|Alphaproteobacteria,2JRVV@204441|Rhodospirillales	204441|Rhodospirillales	O	Domain present in PSD-95, Dlg, and ZO-1/2.	-	-	-	-	-	-	-	-	-	-	-	-	PDZ_2,Trypsin_2
LYD3_k127_4414101_1	477184.KYC_07515	2.693e-53	191.0	COG0129@1|root,COG0129@2|Bacteria,1MV4I@1224|Proteobacteria,2VKKY@28216|Betaproteobacteria,3T5BW@506|Alcaligenaceae	28216|Betaproteobacteria	EG	Belongs to the IlvD Edd family	-	-	4.2.1.82,4.2.1.9	ko:K01687,ko:K22186	ko00040,ko00290,ko00770,ko01100,ko01110,ko01130,ko01210,ko01230,map00040,map00290,map00770,map01100,map01110,map01130,map01210,map01230	M00019,M00570	R01209,R02429,R04441,R05070	RC00468,RC00543,RC01714	ko00000,ko00001,ko00002,ko01000	-	-	-	ILVD_EDD
LYD3_k127_4421687_5	1000565.METUNv1_00353	8.703e-37	150.0	COG0457@1|root,COG0457@2|Bacteria,1Q84V@1224|Proteobacteria,2VJAQ@28216|Betaproteobacteria,2KUGG@206389|Rhodocyclales	206389|Rhodocyclales	S	Domain of unknown function (DUF4440)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4440,TPR_11,TPR_16,TPR_17
LYD3_k127_4421687_2	748247.AZKH_2167	1.447e-74	269.0	COG2816@1|root,COG2816@2|Bacteria,1QGCX@1224|Proteobacteria,2VQIR@28216|Betaproteobacteria,2KW28@206389|Rhodocyclales	206389|Rhodocyclales	L	NADH pyrophosphatase-like rudimentary NUDIX domain	-	-	3.6.1.22	ko:K03426	ko00760,ko01100,ko04146,map00760,map01100,map04146	-	R00103,R03004,R11104	RC00002	ko00000,ko00001,ko01000	-	-	-	NUDIX,NUDIX-like,zf-NADH-PPase
LYD3_k127_4421687_1	204773.HEAR0905	2.974e-118	392.0	COG0477@1|root,COG2814@2|Bacteria,1PE5A@1224|Proteobacteria,2VHTJ@28216|Betaproteobacteria,473JI@75682|Oxalobacteraceae	28216|Betaproteobacteria	EGP	Uncharacterised MFS-type transporter YbfB	emrB_1	-	-	-	-	-	-	-	-	-	-	-	MFS_1,Sugar_tr
LYD3_k127_4421687_0	748247.AZKH_3902	2.377e-298	941.0	COG1529@1|root,COG1529@2|Bacteria,1QTTJ@1224|Proteobacteria,2VHB9@28216|Betaproteobacteria,2KVA6@206389|Rhodocyclales	206389|Rhodocyclales	C	Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain	-	-	1.3.99.16	ko:K07303	-	-	-	-	ko00000,ko01000	-	-	-	Ald_Xan_dh_C2
LYD3_k127_4421687_4	1283300.ATXB01000002_gene2884	2.544e-58	208.0	COG2080@1|root,COG2080@2|Bacteria,1RD8C@1224|Proteobacteria,1S3RP@1236|Gammaproteobacteria,1XFAS@135618|Methylococcales	135618|Methylococcales	C	PFAM 2Fe-2S -binding	-	-	-	-	-	-	-	-	-	-	-	-	Fer2,Fer2_2
LYD3_k127_4421687_3	1454004.AW11_00267	2.315e-61	216.0	COG1186@1|root,COG1186@2|Bacteria,1MUAW@1224|Proteobacteria,2VJ6C@28216|Betaproteobacteria,1KPV3@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	J	Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA	prfB	-	-	ko:K02836	-	-	-	-	ko00000,ko03012	-	-	-	PCRF,RF-1
LYD3_k127_4425670_2	265072.Mfla_2529	8.333e-91	309.0	COG1187@1|root,COG3170@1|root,COG1187@2|Bacteria,COG3170@2|Bacteria,1MXQE@1224|Proteobacteria,2VI7P@28216|Betaproteobacteria,2KMFQ@206350|Nitrosomonadales	206350|Nitrosomonadales	J	Belongs to the pseudouridine synthase RsuA family	-	-	5.4.99.21	ko:K06182	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	PseudoU_synth_2,S4
LYD3_k127_4425670_0	1266925.JHVX01000012_gene1724	0.0	1083.0	COG0422@1|root,COG0422@2|Bacteria,1MUVV@1224|Proteobacteria,2VHS3@28216|Betaproteobacteria,371QW@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Catalyzes the synthesis of the hydroxymethylpyrimidine phosphate (HMP-P) moiety of thiamine from aminoimidazole ribotide (AIR) in a radical S-adenosyl-L-methionine (SAM)-dependent reaction	thiC	-	4.1.99.17	ko:K03147	ko00730,ko01100,map00730,map01100	M00127	R03472	RC03251,RC03252	ko00000,ko00001,ko00002,ko01000	-	-	-	ThiC-associated,ThiC_Rad_SAM
LYD3_k127_4425670_3	365046.Rta_09480	1.941e-85	291.0	COG3181@1|root,COG3181@2|Bacteria,1QVZV@1224|Proteobacteria,2VMXW@28216|Betaproteobacteria,4AAEP@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_4425670_7	1366050.N234_31190	8.742e-12	67.0	COG3181@1|root,COG3181@2|Bacteria,1NQN0@1224|Proteobacteria,2VZCC@28216|Betaproteobacteria,1KCXI@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_4425670_5	1267534.KB906754_gene2559	6.971e-67	230.0	COG3391@1|root,COG3391@2|Bacteria	2|Bacteria	CO	amine dehydrogenase activity	-	-	-	-	-	-	-	-	-	-	-	-	NHL
LYD3_k127_4425670_1	29581.BW37_00617	3.782e-113	373.0	COG2126@1|root,COG2126@2|Bacteria,1MXCS@1224|Proteobacteria,2VI48@28216|Betaproteobacteria,472P6@75682|Oxalobacteraceae	28216|Betaproteobacteria	J	Ion channel	kch	-	-	ko:K10716	-	-	-	-	ko00000,ko02000	1.A.1.1,1.A.1.13,1.A.1.17,1.A.1.24,1.A.1.25,1.A.1.6	-	-	Ion_trans
LYD3_k127_4425670_4	472759.Nhal_0303	4.346e-79	269.0	COG0346@1|root,COG0346@2|Bacteria,1MWCV@1224|Proteobacteria,1S1HV@1236|Gammaproteobacteria	1236|Gammaproteobacteria	E	PFAM Glyoxalase bleomycin resistance protein dioxygenase	-	-	-	-	-	-	-	-	-	-	-	-	Glyoxalase
LYD3_k127_4425670_6	279714.FuraDRAFT_1484	1.629e-29	119.0	COG0625@1|root,COG0625@2|Bacteria,1RK1K@1224|Proteobacteria,2WEV9@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Glutathione S-transferase, C-terminal domain	-	-	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	GST_C,GST_N_3
LYD3_k127_4445232_2	99598.Cal7507_5336	1.31e-12	71.0	COG3914@1|root,COG3914@2|Bacteria,1G0K6@1117|Cyanobacteria,1HJEK@1161|Nostocales	1117|Cyanobacteria	O	O-linked N-acetylglucosamine transferase SPINDLY family	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,TPR_11
LYD3_k127_4445232_0	1163617.SCD_n00216	3.062e-205	646.0	COG0773@1|root,COG0773@2|Bacteria,1MUC5@1224|Proteobacteria,2VIX5@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Reutilizes the intact tripeptide L-alanyl-gamma-D- glutamyl-meso-diaminopimelate by linking it to UDP-N- acetylmuramate	mpl	-	6.3.2.45	ko:K02558	-	-	-	-	ko00000,ko01000	-	-	-	Mur_ligase,Mur_ligase_C,Mur_ligase_M
LYD3_k127_4445232_1	1175306.GWL_45540	4.906e-45	171.0	COG3150@1|root,COG3150@2|Bacteria,1MVJF@1224|Proteobacteria,2VRCD@28216|Betaproteobacteria,473QG@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Uncharacterised protein family (UPF0227)	yqiA	-	-	ko:K07000	-	-	-	-	ko00000	-	-	-	UPF0227
LYD3_k127_4456959_0	265072.Mfla_0150	1.351e-235	748.0	COG0339@1|root,COG0339@2|Bacteria,1MU1K@1224|Proteobacteria,2VHPQ@28216|Betaproteobacteria,2KMAM@206350|Nitrosomonadales	206350|Nitrosomonadales	E	PFAM peptidase M3A and M3B thimet oligopeptidase F	-	-	3.4.24.70	ko:K01414	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_M3
LYD3_k127_4456959_4	1071679.BG57_23925	6.704e-78	269.0	COG1208@1|root,COG1208@2|Bacteria,1R9ZD@1224|Proteobacteria,2VJUN@28216|Betaproteobacteria,1JZRV@119060|Burkholderiaceae	28216|Betaproteobacteria	JM	Nucleotidyl transferase	rmlA	-	2.7.7.99	ko:K00992	ko00520,ko01100,map00520,map01100	-	R11025	RC00002	ko00000,ko00001,ko01000	-	-	-	NTP_transferase
LYD3_k127_4456959_3	292415.Tbd_2336	1.183e-129	432.0	COG3178@1|root,COG3178@2|Bacteria,1MXCH@1224|Proteobacteria,2VHBC@28216|Betaproteobacteria,1KRX6@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Phosphotransferase enzyme family	-	-	2.7.1.221	ko:K07102	ko00520,ko01100,map00520,map01100	-	R08968,R11024	RC00002,RC00078	ko00000,ko00001,ko01000	-	-	-	APH
LYD3_k127_4456959_1	1123393.KB891316_gene1660	6.106e-182	597.0	COG1452@1|root,COG1452@2|Bacteria,1MUJC@1224|Proteobacteria,2VIJ7@28216|Betaproteobacteria,1KRHD@119069|Hydrogenophilales	119069|Hydrogenophilales	M	Organic solvent tolerance protein	-	-	-	ko:K04744	-	-	-	-	ko00000,ko02000	1.B.42.1	-	-	OstA_C
LYD3_k127_4456959_2	1163617.SCD_n02560	8.03e-142	467.0	COG0760@1|root,COG0760@2|Bacteria,1MVB3@1224|Proteobacteria,2VHHS@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Chaperone involved in the correct folding and assembly of outer membrane proteins. Recognizes specific patterns of aromatic residues and the orientation of their side chains, which are found more frequently in integral outer membrane proteins. May act in both early periplasmic and late outer membrane-associated steps of protein maturation	surA	-	5.2.1.8	ko:K03771	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	Rotamase,Rotamase_3,SurA_N
LYD3_k127_4456959_5	535289.Dtpsy_0494	7.071e-24	112.0	COG0265@1|root,COG0265@2|Bacteria,1QXJ8@1224|Proteobacteria,2WEPQ@28216|Betaproteobacteria,4AJNJ@80864|Comamonadaceae	28216|Betaproteobacteria	O	Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain	-	-	3.4.21.50	ko:K01337	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	-
LYD3_k127_4465249_2	1168065.DOK_04457	1.004e-58	214.0	COG1347@1|root,COG1347@2|Bacteria,1MUZR@1224|Proteobacteria,1RNFE@1236|Gammaproteobacteria,1J4TB@118884|unclassified Gammaproteobacteria	1236|Gammaproteobacteria	C	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol	nqrD	GO:0003674,GO:0003824,GO:0003954,GO:0005575,GO:0005623,GO:0005886,GO:0006091,GO:0006119,GO:0006120,GO:0006139,GO:0006163,GO:0006725,GO:0006753,GO:0006793,GO:0006796,GO:0006807,GO:0006810,GO:0006811,GO:0006812,GO:0006814,GO:0008137,GO:0008150,GO:0008152,GO:0009117,GO:0009123,GO:0009126,GO:0009141,GO:0009144,GO:0009150,GO:0009161,GO:0009167,GO:0009199,GO:0009205,GO:0009259,GO:0009987,GO:0015672,GO:0015980,GO:0016020,GO:0016310,GO:0016491,GO:0016651,GO:0016655,GO:0017144,GO:0019637,GO:0019693,GO:0022900,GO:0022904,GO:0030001,GO:0030964,GO:0032991,GO:0034641,GO:0042773,GO:0042775,GO:0044237,GO:0044238,GO:0044281,GO:0044425,GO:0044464,GO:0045333,GO:0046034,GO:0046483,GO:0050136,GO:0051179,GO:0051234,GO:0055086,GO:0055114,GO:0071704,GO:0071944,GO:0072521,GO:0098796,GO:1901135,GO:1901360,GO:1901564,GO:1902494	1.6.5.8	ko:K00349	-	-	-	-	ko00000,ko01000	-	-	-	Rnf-Nqr
LYD3_k127_4465249_1	595460.RRSWK_05582	8.102e-60	216.0	COG2869@1|root,COG2869@2|Bacteria,2J1II@203682|Planctomycetes	203682|Planctomycetes	C	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol	nqrC	-	1.6.5.8	ko:K00348	-	-	-	-	ko00000,ko01000	-	-	-	FMN_bind
LYD3_k127_4465249_0	1095749.HMPREF1052_1072	6.488e-93	310.0	COG1805@1|root,COG1805@2|Bacteria,1QTUU@1224|Proteobacteria,1RMGH@1236|Gammaproteobacteria,1Y7Q8@135625|Pasteurellales	135625|Pasteurellales	C	NQR complex catalyzes the reduction of ubiquinone-1 to ubiquinol by two successive reactions, coupled with the transport of Na( ) ions from the cytoplasm to the periplasm. NqrA to NqrE are probably involved in the second step, the conversion of ubisemiquinone to ubiquinol	nqrB	GO:0005575,GO:0005623,GO:0005886,GO:0016020,GO:0044464,GO:0071944	1.6.5.8	ko:K00347	-	-	-	-	ko00000,ko01000	-	-	-	NQR2_RnfD_RnfE
LYD3_k127_4484359_2	485913.Krac_2434	3.42e-45	172.0	COG1529@1|root,COG1529@2|Bacteria,2G5NF@200795|Chloroflexi	2|Bacteria	C	COGs COG1529 Aerobic-type carbon monoxide dehydrogenase large subunit CoxL CutL homologs	hcrA	-	1.3.7.9	ko:K04108	ko00362,ko00627,ko01100,ko01120,ko01220,map00362,map00627,map01100,map01120,map01220	-	R05316	RC00490	ko00000,ko00001,ko01000	-	-	-	Ald_Xan_dh_C,Ald_Xan_dh_C2
LYD3_k127_4484359_0	1382306.JNIM01000001_gene1022	3.782e-60	214.0	COG2080@1|root,COG2080@2|Bacteria,2G6NT@200795|Chloroflexi	200795|Chloroflexi	C	2Fe-2S -binding domain protein	-	-	1.2.5.3	ko:K03518	-	-	R11168	RC02800	ko00000,ko01000	-	-	-	Fer2,Fer2_2
LYD3_k127_4484359_1	748247.AZKH_2910	9.611e-50	186.0	COG1846@1|root,COG1846@2|Bacteria,1N7PQ@1224|Proteobacteria,2VV8Y@28216|Betaproteobacteria,2KWY8@206389|Rhodocyclales	206389|Rhodocyclales	K	helix_turn_helix multiple antibiotic resistance protein	-	-	-	-	-	-	-	-	-	-	-	-	MarR
LYD3_k127_4484359_4	1121935.AQXX01000092_gene3378	4.432e-35	148.0	COG1426@1|root,COG1426@2|Bacteria,1RIIX@1224|Proteobacteria,1S62E@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Protein conserved in bacteria	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4484359_3	999541.bgla_1g31630	4.221e-38	147.0	COG2138@1|root,COG2138@2|Bacteria,1N00J@1224|Proteobacteria,2VTXE@28216|Betaproteobacteria,1K8IB@119060|Burkholderiaceae	28216|Betaproteobacteria	S	PFAM cobalamin (vitamin B12) biosynthesis CbiX protein	cbiX	-	4.99.1.3	ko:K03795	ko00860,ko01100,ko01120,map00860,map01100,map01120	-	R05807	RC01012	ko00000,ko00001,ko01000	-	-	-	CbiX
LYD3_k127_448929_2	1144342.PMI40_00458	1.467e-48	176.0	COG0355@1|root,COG0355@2|Bacteria,1RHE4@1224|Proteobacteria,2VR2R@28216|Betaproteobacteria,474C5@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Produces ATP from ADP in the presence of a proton gradient across the membrane	atpC	-	-	ko:K02114	ko00190,ko00195,ko01100,map00190,map00195,map01100	M00157	-	-	ko00000,ko00001,ko00002,ko00194	3.A.2.1	-	-	ATP-synt_DE,ATP-synt_DE_N
LYD3_k127_448929_0	1538295.JY96_07450	4.767e-162	523.0	COG0280@1|root,COG2030@1|root,COG0280@2|Bacteria,COG2030@2|Bacteria,1MWPK@1224|Proteobacteria,2WGKC@28216|Betaproteobacteria,1KJ9Z@119065|unclassified Burkholderiales	28216|Betaproteobacteria	CI	Bifunctional enoyl-CoA hydratase phosphate acetyltransferase	pta	-	2.3.1.19,2.3.1.8	ko:K00625,ko:K00634	ko00430,ko00620,ko00640,ko00650,ko00680,ko00720,ko01100,ko01120,ko01200,map00430,map00620,map00640,map00650,map00680,map00720,map01100,map01120,map01200	M00357,M00579	R00230,R00921,R01174	RC00004,RC02746,RC02816	ko00000,ko00001,ko00002,ko01000	-	-	-	MaoC_dehydratas,PTA_PTB
LYD3_k127_448929_1	1121033.AUCF01000006_gene4207	2.014e-160	518.0	COG1473@1|root,COG1473@2|Bacteria,1MUIV@1224|Proteobacteria,2TR5B@28211|Alphaproteobacteria,2JPY3@204441|Rhodospirillales	204441|Rhodospirillales	S	Psort location Cytoplasmic, score 7.50	-	-	-	-	-	-	-	-	-	-	-	-	M20_dimer,Peptidase_M20
LYD3_k127_448929_3	595536.ADVE02000001_gene2531	4.432e-44	162.0	COG0578@1|root,COG0578@2|Bacteria,1MUMY@1224|Proteobacteria,2TU11@28211|Alphaproteobacteria,36X6U@31993|Methylocystaceae	28211|Alphaproteobacteria	C	C-terminal domain of alpha-glycerophosphate oxidase	glpD	-	1.1.5.3	ko:K00111	ko00564,ko01110,map00564,map01110	-	R00848	RC00029	ko00000,ko00001,ko01000	-	-	-	DAO,DAO_C
LYD3_k127_4505658_0	204773.HEAR0734	9.45e-273	849.0	COG0129@1|root,COG0129@2|Bacteria,1MUTQ@1224|Proteobacteria,2VH5Q@28216|Betaproteobacteria,472T8@75682|Oxalobacteraceae	28216|Betaproteobacteria	EG	Belongs to the IlvD Edd family	ilvD	-	4.2.1.9	ko:K01687	ko00290,ko00770,ko01100,ko01110,ko01130,ko01210,ko01230,map00290,map00770,map01100,map01110,map01130,map01210,map01230	M00019,M00570	R01209,R04441,R05070	RC00468,RC01714	ko00000,ko00001,ko00002,ko01000	-	-	-	ILVD_EDD
LYD3_k127_4505658_2	565653.EGBG_00608	6.25e-08	63.0	COG2207@1|root,COG2207@2|Bacteria,1TQKE@1239|Firmicutes,4ITRV@91061|Bacilli,4B5Y4@81852|Enterococcaceae	91061|Bacilli	K	helix_turn_helix, arabinose operon control protein	-	-	-	-	-	-	-	-	-	-	-	-	HTH_18
LYD3_k127_4505658_1	1288494.EBAPG3_11640	1.718e-64	222.0	COG0685@1|root,COG0685@2|Bacteria,1MUC9@1224|Proteobacteria,2VHHI@28216|Betaproteobacteria,3728C@32003|Nitrosomonadales	28216|Betaproteobacteria	E	Methylenetetrahydrofolate reductase	metF	GO:0000166,GO:0003674,GO:0003824,GO:0004489,GO:0005488,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006082,GO:0006575,GO:0006725,GO:0006730,GO:0006732,GO:0006760,GO:0006807,GO:0008150,GO:0008152,GO:0009058,GO:0009108,GO:0009396,GO:0009987,GO:0016043,GO:0016053,GO:0016491,GO:0016645,GO:0016646,GO:0018130,GO:0019438,GO:0019752,GO:0022607,GO:0034641,GO:0036094,GO:0042398,GO:0042558,GO:0042559,GO:0043167,GO:0043168,GO:0043436,GO:0043603,GO:0043604,GO:0043933,GO:0044085,GO:0044237,GO:0044249,GO:0044271,GO:0044281,GO:0044283,GO:0044424,GO:0044444,GO:0044464,GO:0046394,GO:0046483,GO:0046653,GO:0046654,GO:0048037,GO:0050660,GO:0050662,GO:0051186,GO:0051188,GO:0051259,GO:0051260,GO:0051262,GO:0051289,GO:0055114,GO:0065003,GO:0071704,GO:0071840,GO:0071949,GO:0097159,GO:1901265,GO:1901360,GO:1901362,GO:1901363,GO:1901564,GO:1901566,GO:1901576	1.5.1.20	ko:K00297	ko00670,ko00720,ko01100,ko01120,ko01200,ko01523,map00670,map00720,map01100,map01120,map01200,map01523	M00377	R01224,R07168	RC00081	ko00000,ko00001,ko00002,ko01000	-	-	-	MTHFR
LYD3_k127_4525897_3	497321.C664_06138	2.647e-60	212.0	COG1974@1|root,COG1974@2|Bacteria,1MW80@1224|Proteobacteria,2VHTZ@28216|Betaproteobacteria,2KVHA@206389|Rhodocyclales	206389|Rhodocyclales	K	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair	lexA	-	3.4.21.88	ko:K01356	-	M00729	-	-	ko00000,ko00002,ko01000,ko01002,ko03400	-	-	-	LexA_DNA_bind,Peptidase_S24
LYD3_k127_4525897_0	1380394.JADL01000003_gene5149	3.636e-105	351.0	COG1052@1|root,COG1052@2|Bacteria,1MVSS@1224|Proteobacteria,2TR35@28211|Alphaproteobacteria,2JW2W@204441|Rhodospirillales	204441|Rhodospirillales	CH	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain	-	-	-	-	-	-	-	-	-	-	-	-	2-Hacid_dh,2-Hacid_dh_C
LYD3_k127_4525897_1	1123229.AUBC01000012_gene2696	1.958e-82	282.0	COG3836@1|root,COG3836@2|Bacteria,1QY50@1224|Proteobacteria,2U2PU@28211|Alphaproteobacteria,3K41P@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	G	HpcH/HpaI aldolase/citrate lyase family	-	-	4.1.2.20	ko:K01630	ko00053,map00053	-	R02754,R03277	RC00307,RC00435	ko00000,ko00001,ko01000	-	-	-	HpcH_HpaI
LYD3_k127_4525897_2	859657.RPSI07_1540	1.062e-73	267.0	COG1064@1|root,COG1064@2|Bacteria,1MUTT@1224|Proteobacteria,2VHZ4@28216|Betaproteobacteria,1K1RM@119060|Burkholderiaceae	28216|Betaproteobacteria	S	alcohol dehydrogenase	-	-	1.1.1.1	ko:K13953	ko00010,ko00071,ko00350,ko00625,ko00626,ko00830,ko00980,ko00982,ko01100,ko01110,ko01120,ko01130,ko01220,map00010,map00071,map00350,map00625,map00626,map00830,map00980,map00982,map01100,map01110,map01120,map01130,map01220	-	R00623,R00754,R02124,R04880,R05233,R05234,R06917,R06927,R07105,R08281,R08306,R08310	RC00050,RC00087,RC00088,RC00099,RC00116,RC00649,RC01734,RC02273	ko00000,ko00001,ko01000	-	-	-	ADH_N
LYD3_k127_4547341_1	1123392.AQWL01000003_gene301	1.383e-122	409.0	COG1570@1|root,COG1570@2|Bacteria,1MUA4@1224|Proteobacteria,2VJIC@28216|Betaproteobacteria,1KRD3@119069|Hydrogenophilales	119069|Hydrogenophilales	L	Exonuclease VII, large subunit	-	-	3.1.11.6	ko:K03601	ko03430,map03430	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	Exonuc_VII_L,tRNA_anti_2
LYD3_k127_4547341_0	748247.AZKH_0645	1.56e-267	837.0	COG0008@1|root,COG0008@2|Bacteria,1MUC8@1224|Proteobacteria,2VHZX@28216|Betaproteobacteria,2KVV7@206389|Rhodocyclales	206389|Rhodocyclales	J	glutaminyl-tRNA	glnS	-	6.1.1.18	ko:K01886	ko00970,ko01100,map00970,map01100	M00359,M00360	R03652	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	tRNA-synt_1c,tRNA-synt_1c_C
LYD3_k127_4547341_4	1144342.PMI40_00663	6.081e-119	389.0	COG0501@1|root,COG0501@2|Bacteria,1MUV4@1224|Proteobacteria,2VIVB@28216|Betaproteobacteria,472CI@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	Belongs to the peptidase M48B family	htpX	-	-	ko:K03799	-	M00743	-	-	ko00000,ko00002,ko01000,ko01002	-	-	-	Peptidase_M48
LYD3_k127_4547341_5	1430440.MGMSRv2_2525	8.576e-30	126.0	COG0625@1|root,COG0625@2|Bacteria,1MUN3@1224|Proteobacteria,2TTVR@28211|Alphaproteobacteria,2JPS1@204441|Rhodospirillales	204441|Rhodospirillales	O	Belongs to the GST superfamily	-	-	-	ko:K11209	-	-	-	-	ko00000,ko01000	-	-	-	GST_C,GST_N,GST_N_3
LYD3_k127_4547341_7	269796.Rru_A0332	3.182e-07	60.0	COG0625@1|root,COG0625@2|Bacteria,1MUN3@1224|Proteobacteria,2TTVR@28211|Alphaproteobacteria,2JPS1@204441|Rhodospirillales	204441|Rhodospirillales	O	Belongs to the GST superfamily	-	-	-	ko:K11209	-	-	-	-	ko00000,ko01000	-	-	-	GST_C,GST_N
LYD3_k127_4547341_3	1148.1652840	2.273e-120	404.0	COG1807@1|root,COG1807@2|Bacteria,1G8J7@1117|Cyanobacteria,1H64N@1142|Synechocystis	1117|Cyanobacteria	M	Dolichyl-phosphate-mannose-protein mannosyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	PMT,PMT_2
LYD3_k127_4547341_2	631362.Thi970DRAFT_03191	7.889e-121	398.0	COG0463@1|root,COG0463@2|Bacteria,1MWE5@1224|Proteobacteria,1RPCE@1236|Gammaproteobacteria,1WXRF@135613|Chromatiales	135613|Chromatiales	M	PFAM Glycosyl transferase family 2	-	-	2.4.2.53	ko:K10012,ko:K20534	ko00520,ko01503,map00520,map01503	M00721,M00761	R07661	RC00005,RC02954	ko00000,ko00001,ko00002,ko01000,ko01005,ko02000	4.D.2.1.8,4.D.2.1.9	GT2	-	Glycos_transf_2
LYD3_k127_4547341_6	379066.GAU_3070	1.708e-15	76.0	COG5531@1|root,COG5531@2|Bacteria,1ZTZP@142182|Gemmatimonadetes	142182|Gemmatimonadetes	B	SWI complex, BAF60b domains	-	-	-	-	-	-	-	-	-	-	-	-	SWIB
LYD3_k127_4563154_6	595537.Varpa_1073	4.665e-50	180.0	COG0687@1|root,COG0687@2|Bacteria,1MU0I@1224|Proteobacteria,2VICQ@28216|Betaproteobacteria,4AAM0@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM extracellular solute-binding protein family 1	-	-	-	ko:K02055	ko02024,map02024	M00193	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.11	-	-	SBP_bac_8
LYD3_k127_4563154_2	269796.Rru_A2046	6.823e-138	451.0	COG1176@1|root,COG1176@2|Bacteria,1MU1Y@1224|Proteobacteria,2TTJ6@28211|Alphaproteobacteria,2JQGS@204441|Rhodospirillales	204441|Rhodospirillales	E	Binding-protein-dependent transport system inner membrane component	-	-	-	ko:K02054	ko02024,map02024	M00193	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.11	-	-	BPD_transp_1
LYD3_k127_4563154_4	1121861.KB899914_gene2053	3.171e-102	339.0	COG1177@1|root,COG1177@2|Bacteria,1MUQD@1224|Proteobacteria,2TS3C@28211|Alphaproteobacteria,2JQRG@204441|Rhodospirillales	204441|Rhodospirillales	E	Binding-protein-dependent transport system inner membrane component	-	-	-	ko:K02053	ko02024,map02024	M00193	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.11	-	-	BPD_transp_1
LYD3_k127_4563154_5	1120999.JONM01000021_gene101	9.543e-55	205.0	COG2059@1|root,COG2059@2|Bacteria,1RAZW@1224|Proteobacteria,2WFNV@28216|Betaproteobacteria,2KRJH@206351|Neisseriales	206351|Neisseriales	P	Chromate transporter	-	-	-	ko:K07240	-	-	-	-	ko00000,ko02000	2.A.51.1	-	-	Chromate_transp
LYD3_k127_4563154_7	748280.NH8B_3403	1.561e-42	164.0	COG2059@1|root,COG2059@2|Bacteria,1MZHQ@1224|Proteobacteria,2VQS5@28216|Betaproteobacteria,2KRCT@206351|Neisseriales	206351|Neisseriales	P	Chromate transporter	-	-	-	ko:K07240	-	-	-	-	ko00000,ko02000	2.A.51.1	-	-	Chromate_transp
LYD3_k127_4563154_9	1268622.AVS7_01986	4.369e-15	81.0	COG0517@1|root,COG0517@2|Bacteria,1N0H3@1224|Proteobacteria,2VRN8@28216|Betaproteobacteria,4AF7V@80864|Comamonadaceae	28216|Betaproteobacteria	S	Domain in cystathionine beta-synthase and other proteins.	-	-	-	-	-	-	-	-	-	-	-	-	CBS
LYD3_k127_4563154_0	1502851.FG93_00182	1.961e-260	850.0	COG0642@1|root,COG2203@1|root,COG5002@1|root,COG2203@2|Bacteria,COG2205@2|Bacteria,COG5002@2|Bacteria,1NRP8@1224|Proteobacteria,2TX3Q@28211|Alphaproteobacteria	28211|Alphaproteobacteria	T	Histidine kinase-like ATPases	-	-	-	-	-	-	-	-	-	-	-	-	GAF,GAF_2,HAMP,HATPase_c,HisKA,Hpt,Response_reg,dCache_1
LYD3_k127_4563154_8	395495.Lcho_0046	3.603e-35	141.0	COG0745@1|root,COG0745@2|Bacteria,1RD7E@1224|Proteobacteria,2VVWD@28216|Betaproteobacteria,1KPCJ@119065|unclassified Burkholderiales	28216|Betaproteobacteria	T	PFAM response regulator receiver	-	-	-	ko:K11443	ko02020,ko04112,map02020,map04112	M00511	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	Response_reg
LYD3_k127_4563154_3	395495.Lcho_0045	7.623e-135	439.0	COG2114@1|root,COG3437@1|root,COG2114@2|Bacteria,COG3437@2|Bacteria,1QY14@1224|Proteobacteria,2WH9F@28216|Betaproteobacteria	28216|Betaproteobacteria	T	Belongs to the adenylyl cyclase class-4 guanylyl cyclase family	-	-	4.6.1.1	ko:K01768	ko00230,ko02025,ko04113,ko04213,map00230,map02025,map04113,map04213	M00695	R00089,R00434	RC00295	ko00000,ko00001,ko00002,ko01000	-	-	-	Guanylate_cyc,Response_reg
LYD3_k127_4563154_1	1123377.AUIV01000014_gene526	6.9e-195	620.0	COG0624@1|root,COG0624@2|Bacteria,1MW20@1224|Proteobacteria,1RPN7@1236|Gammaproteobacteria,1X4BQ@135614|Xanthomonadales	135614|Xanthomonadales	E	peptidase M20	-	-	-	-	-	-	-	-	-	-	-	-	M20_dimer,Peptidase_M20
LYD3_k127_456478_5	107636.JQNK01000004_gene880	9.346e-12	68.0	COG4584@1|root,COG4584@2|Bacteria,1MWIV@1224|Proteobacteria,2TQKF@28211|Alphaproteobacteria	28211|Alphaproteobacteria	L	COG4584 Transposase and inactivated derivatives	-	-	-	-	-	-	-	-	-	-	-	-	rve
LYD3_k127_456478_4	420662.Mpe_A2251	2.592e-42	162.0	2ATZM@1|root,31JJE@2|Bacteria,1RIFX@1224|Proteobacteria,2VSS3@28216|Betaproteobacteria,1KM95@119065|unclassified Burkholderiales	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_456478_2	296591.Bpro_0189	5.535e-88	295.0	COG3791@1|root,COG3791@2|Bacteria,1RFBP@1224|Proteobacteria,2VQN8@28216|Betaproteobacteria,4AE1T@80864|Comamonadaceae	28216|Betaproteobacteria	S	Glutathione-dependent formaldehyde-activating enzyme	-	-	-	-	-	-	-	-	-	-	-	-	GFA
LYD3_k127_456478_3	1267533.KB906736_gene956	7.472e-75	259.0	COG3338@1|root,COG3338@2|Bacteria	2|Bacteria	P	carbonate dehydratase activity	ecaA	-	4.2.1.1	ko:K01674	ko00910,map00910	-	R00132,R10092	RC02807	ko00000,ko00001,ko01000	-	-	-	Carb_anhydrase
LYD3_k127_456478_1	438753.AZC_2269	7.201e-100	332.0	COG1028@1|root,COG1028@2|Bacteria,1MU2T@1224|Proteobacteria,2TSDG@28211|Alphaproteobacteria,3EZ4J@335928|Xanthobacteraceae	28211|Alphaproteobacteria	IQ	KR domain	-	-	1.1.1.401	ko:K21883	ko00051,ko01120,map00051,map01120	-	R11339	RC00089	ko00000,ko00001,ko01000	-	-	-	adh_short,adh_short_C2
LYD3_k127_456478_0	1333856.L686_08185	4.82e-122	398.0	COG0604@1|root,COG0604@2|Bacteria,1MX8A@1224|Proteobacteria,1RPRD@1236|Gammaproteobacteria,1Z063@136846|Pseudomonas stutzeri group	1236|Gammaproteobacteria	C	COG0604 NADPH quinone reductase and related Zn-dependent oxidoreductases	ppsC	-	1.6.5.5	ko:K00344	-	-	-	-	ko00000,ko01000	-	-	-	ADH_N,ADH_zinc_N,ADH_zinc_N_2
LYD3_k127_4573466_1	1165096.ARWF01000001_gene187	1.799e-137	458.0	COG1209@1|root,COG1209@2|Bacteria,1MU0X@1224|Proteobacteria,2VHA6@28216|Betaproteobacteria,2KM7G@206350|Nitrosomonadales	206350|Nitrosomonadales	M	Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis	-	-	2.7.7.24	ko:K00973	ko00521,ko00523,ko00525,ko01130,map00521,map00523,map00525,map01130	M00793	R02328	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	NTP_transferase
LYD3_k127_4573466_0	1265502.KB905946_gene1136	2.875e-150	480.0	COG1088@1|root,COG1088@2|Bacteria,1MU5E@1224|Proteobacteria,2VJAD@28216|Betaproteobacteria,4ABTQ@80864|Comamonadaceae	28216|Betaproteobacteria	M	Belongs to the NAD(P)-dependent epimerase dehydratase family. dTDP-glucose dehydratase subfamily	rfbB	-	4.2.1.46	ko:K01710	ko00521,ko00523,ko00525,ko01055,ko01130,map00521,map00523,map00525,map01055,map01130	M00793	R06513	RC00402	ko00000,ko00001,ko00002,ko01000	-	-	-	GDP_Man_Dehyd
LYD3_k127_4604182_5	760117.JN27_14825	1.435e-09	59.0	COG2010@1|root,COG2010@2|Bacteria,1N0EF@1224|Proteobacteria,2VT6G@28216|Betaproteobacteria,4778E@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Cytochrome c mono- and diheme variants	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrom_C
LYD3_k127_4604182_4	1082933.MEA186_29532	1.262e-27	116.0	COG5470@1|root,COG5470@2|Bacteria,1PJHZ@1224|Proteobacteria,2UDNK@28211|Alphaproteobacteria,43QKC@69277|Phyllobacteriaceae	28211|Alphaproteobacteria	S	Domain of unknown function (DUF1330)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1330
LYD3_k127_4604182_1	93220.LV28_14250	1.596e-60	221.0	COG0583@1|root,COG0583@2|Bacteria,1MV0E@1224|Proteobacteria,2VM44@28216|Betaproteobacteria,1K2UV@119060|Burkholderiaceae	28216|Betaproteobacteria	K	transcriptional Regulator, LysR family	-	-	-	-	-	-	-	-	-	-	-	-	HTH_1,LysR_substrate
LYD3_k127_4604182_0	1437824.BN940_16086	1.286e-107	355.0	COG2513@1|root,COG2513@2|Bacteria,1R3SD@1224|Proteobacteria,2VK7I@28216|Betaproteobacteria,3T3TM@506|Alcaligenaceae	28216|Betaproteobacteria	G	Phosphoenolpyruvate phosphomutase	-	-	-	-	-	-	-	-	-	-	-	-	PEP_mutase
LYD3_k127_4604182_3	1121861.KB899915_gene1803	2.072e-31	136.0	COG3055@1|root,COG3055@2|Bacteria,1QSB4@1224|Proteobacteria,2U0J2@28211|Alphaproteobacteria,2JY2F@204441|Rhodospirillales	204441|Rhodospirillales	S	Galactose oxidase, central domain	-	-	-	-	-	-	-	-	-	-	-	-	Kelch_1,Kelch_6
LYD3_k127_4604182_2	366649.XFF4834R_chr00180	5.812e-56	200.0	COG1533@1|root,COG1533@2|Bacteria,1MW0H@1224|Proteobacteria,1RQNF@1236|Gammaproteobacteria,1X3K1@135614|Xanthomonadales	135614|Xanthomonadales	L	DNA repair photolyase	-	-	-	-	-	-	-	-	-	-	-	-	Radical_SAM
LYD3_k127_4605503_0	1123392.AQWL01000006_gene548	2.252e-220	700.0	COG1331@1|root,COG1331@2|Bacteria,1MUUT@1224|Proteobacteria,2VKKI@28216|Betaproteobacteria,1KS50@119069|Hydrogenophilales	119069|Hydrogenophilales	O	Protein of unknown function, DUF255	-	-	-	-	-	-	-	-	-	-	-	-	Thioredox_DsbH
LYD3_k127_4605503_1	748280.NH8B_4001	1.38e-26	122.0	COG4654@1|root,COG4654@2|Bacteria,1N6UN@1224|Proteobacteria,2VW1Y@28216|Betaproteobacteria,2KRVU@206351|Neisseriales	206351|Neisseriales	C	Cytochrome c	-	-	-	ko:K08738	ko00920,ko01100,ko01120,ko01524,ko02020,ko04115,ko04210,ko04214,ko04215,ko04932,ko05010,ko05012,ko05014,ko05016,ko05134,ko05145,ko05152,ko05161,ko05164,ko05167,ko05168,ko05200,ko05210,ko05222,ko05416,map00920,map01100,map01120,map01524,map02020,map04115,map04210,map04214,map04215,map04932,map05010,map05012,map05014,map05016,map05134,map05145,map05152,map05161,map05164,map05167,map05168,map05200,map05210,map05222,map05416	M00595	R10151	RC03151,RC03152	ko00000,ko00001,ko00002	3.D.4.6	-	-	Cytochrom_C,Cytochrome_CBB3
LYD3_k127_461842_1	640081.Dsui_3059	1.275e-60	212.0	COG0465@1|root,COG0465@2|Bacteria,1MU6J@1224|Proteobacteria,2VHEV@28216|Betaproteobacteria,2KU76@206389|Rhodocyclales	206389|Rhodocyclales	O	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins	ftsH	-	-	ko:K03798	-	M00742	-	-	ko00000,ko00002,ko01000,ko01002,ko03110	-	-	-	AAA,FtsH_ext,Peptidase_M41
LYD3_k127_461842_0	265072.Mfla_0782	6.797e-71	246.0	COG0293@1|root,COG0293@2|Bacteria,1MW1C@1224|Proteobacteria,2VIU9@28216|Betaproteobacteria,2KKEA@206350|Nitrosomonadales	206350|Nitrosomonadales	J	Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit	ftsJ	-	2.1.1.166	ko:K02427	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	FtsJ
LYD3_k127_461842_2	1538295.JY96_01365	9.539e-29	119.0	COG1534@1|root,COG1534@2|Bacteria,1N8K5@1224|Proteobacteria,2VVP0@28216|Betaproteobacteria,1KKW4@119065|unclassified Burkholderiales	28216|Betaproteobacteria	J	CRS1_YhbY	yhbY	-	-	ko:K07574	-	-	-	-	ko00000,ko03009	-	-	-	CRS1_YhbY
LYD3_k127_4651473_0	75379.Tint_0148	6.605e-144	463.0	COG0495@1|root,COG0495@2|Bacteria,1MV47@1224|Proteobacteria,2VH2J@28216|Betaproteobacteria,1KK29@119065|unclassified Burkholderiales	28216|Betaproteobacteria	J	Belongs to the class-I aminoacyl-tRNA synthetase family	leuS	-	6.1.1.4	ko:K01869	ko00970,map00970	M00359,M00360	R03657	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016,ko03029	-	-	-	Anticodon_1,tRNA-synt_1,tRNA-synt_1_2
LYD3_k127_4651473_2	1288494.EBAPG3_5100	9.965e-35	140.0	COG2980@1|root,COG2980@2|Bacteria,1N13K@1224|Proteobacteria,2VU54@28216|Betaproteobacteria,3738A@32003|Nitrosomonadales	28216|Betaproteobacteria	M	Together with LptD, is involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane. Required for the proper assembly of LptD. Binds LPS and may serve as the LPS recognition site at the outer membrane	lptE	-	-	ko:K03643	-	-	-	-	ko00000,ko02000	1.B.42.1	-	-	LptE
LYD3_k127_4651473_1	204773.HEAR2663	2.713e-80	286.0	COG1466@1|root,COG1466@2|Bacteria,1MWYT@1224|Proteobacteria,2VIKX@28216|Betaproteobacteria,472XE@75682|Oxalobacteraceae	28216|Betaproteobacteria	L	DNA polymerase III (Delta subunit)	holA	-	2.7.7.7	ko:K02340	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	DNA_pol3_delt_C,DNA_pol3_delta
LYD3_k127_4670460_4	316067.Geob_0264	1.347e-38	149.0	COG2202@1|root,COG2208@1|root,COG2202@2|Bacteria,COG2208@2|Bacteria,1RCHY@1224|Proteobacteria,42R1G@68525|delta/epsilon subdivisions,2WMR7@28221|Deltaproteobacteria	28221|Deltaproteobacteria	KT	SMART protein phosphatase 2C domain protein	-	-	-	-	-	-	-	-	-	-	-	-	PAS_9,SpoIIE
LYD3_k127_4670460_2	257310.BB2375	2.108e-159	514.0	COG0665@1|root,COG0665@2|Bacteria,1MXD1@1224|Proteobacteria,2VKJ5@28216|Betaproteobacteria,3T6BZ@506|Alcaligenaceae	28216|Betaproteobacteria	E	FAD dependent oxidoreductase	-	-	1.4.99.6	ko:K19746	ko00472,ko01100,map00472,map01100	-	R11018	RC00006	ko00000,ko00001,ko01000	-	-	-	DAO
LYD3_k127_4670460_3	1380394.JADL01000014_gene109	4.08e-83	281.0	COG0684@1|root,COG0684@2|Bacteria,1MW9P@1224|Proteobacteria,2TTGT@28211|Alphaproteobacteria,2JSAA@204441|Rhodospirillales	204441|Rhodospirillales	H	Aldolase/RraA	-	-	-	-	-	-	-	-	-	-	-	-	RraA-like
LYD3_k127_4670460_6	1123504.JQKD01000043_gene2178	2.002e-12	70.0	COG0119@1|root,COG0119@2|Bacteria,1MUMX@1224|Proteobacteria,2VK33@28216|Betaproteobacteria,4ABQ4@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM Pyruvate carboxyltransferase	-	-	4.1.3.4	ko:K01640	ko00072,ko00280,ko00281,ko00650,ko01100,ko04146,map00072,map00280,map00281,map00650,map01100,map04146	M00036,M00088	R01360,R08090	RC00502,RC00503,RC01118,RC01946	ko00000,ko00001,ko00002,ko01000	-	-	-	HMGL-like
LYD3_k127_4670460_0	1038867.AXAY01000039_gene4529	0.0	1167.0	COG2609@1|root,COG2609@2|Bacteria,1MV21@1224|Proteobacteria,2TSZ9@28211|Alphaproteobacteria,3JRMJ@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	C	Component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)	aceE	-	1.2.4.1	ko:K00163	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map01200	M00307	R00014,R00209,R01699,R03270	RC00004,RC00027,RC00627,RC02742,RC02744,RC02882	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Transketolase_N
LYD3_k127_4670460_1	1095769.CAHF01000013_gene3393	1.014e-224	719.0	COG0457@1|root,COG3914@1|root,COG0457@2|Bacteria,COG3914@2|Bacteria,1MVMG@1224|Proteobacteria,2VH3M@28216|Betaproteobacteria,475M3@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	Glycosyl transferase family 41	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,TPR_1,TPR_11,TPR_16,TPR_19,TPR_2,TPR_8
LYD3_k127_4670460_5	1123072.AUDH01000002_gene2548	6.194e-22	97.0	COG0457@1|root,COG0457@2|Bacteria,1N01S@1224|Proteobacteria,2TSR4@28211|Alphaproteobacteria,2JQKI@204441|Rhodospirillales	204441|Rhodospirillales	S	COG0457 FOG TPR repeat	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4682264_0	1122951.ATUE01000009_gene418	1.348e-266	832.0	COG4147@1|root,COG4147@2|Bacteria,1MVJ8@1224|Proteobacteria,1RN0R@1236|Gammaproteobacteria,3NJC9@468|Moraxellaceae	1236|Gammaproteobacteria	S	Belongs to the sodium solute symporter (SSF) (TC 2.A.21) family	actP	-	-	ko:K14393	-	-	-	-	ko00000,ko02000	2.A.21.7	-	-	SSF
LYD3_k127_4682264_6	1123399.AQVE01000001_gene754	4.047e-41	156.0	COG3162@1|root,COG3162@2|Bacteria,1N9T2@1224|Proteobacteria,1SSS2@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Protein of unknown function, DUF485	-	-	-	-	-	-	-	-	-	-	-	-	DUF485
LYD3_k127_4682264_4	324602.Caur_1346	1.252e-91	308.0	COG1024@1|root,COG1024@2|Bacteria,2G6BP@200795|Chloroflexi,376M6@32061|Chloroflexia	32061|Chloroflexia	I	PFAM Enoyl-CoA hydratase isomerase	-	-	-	-	-	-	-	-	-	-	-	-	ECH_1
LYD3_k127_4682264_1	279714.FuraDRAFT_2225	1.204e-263	823.0	COG0318@1|root,COG0318@2|Bacteria,1MUMC@1224|Proteobacteria,2VIJ8@28216|Betaproteobacteria,2KQG8@206351|Neisseriales	206351|Neisseriales	IQ	AMP-binding enzyme C-terminal domain	-	-	-	ko:K00666	-	-	-	-	ko00000,ko01000,ko01004	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_4682264_5	243160.BMA2416	9.811e-69	245.0	COG2096@1|root,COG2096@2|Bacteria,1RDUF@1224|Proteobacteria,2VQ7P@28216|Betaproteobacteria,1K1TA@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Adenosyltransferase	yvqK	GO:0000166,GO:0001882,GO:0001883,GO:0003674,GO:0003824,GO:0005488,GO:0005524,GO:0005525,GO:0006725,GO:0006766,GO:0006767,GO:0006807,GO:0008144,GO:0008150,GO:0008152,GO:0009058,GO:0009110,GO:0009235,GO:0009236,GO:0009987,GO:0016043,GO:0016740,GO:0016765,GO:0017076,GO:0017144,GO:0018130,GO:0019001,GO:0019003,GO:0019438,GO:0019538,GO:0022607,GO:0030091,GO:0030554,GO:0032549,GO:0032550,GO:0032553,GO:0032555,GO:0032559,GO:0032561,GO:0033013,GO:0033014,GO:0034641,GO:0035639,GO:0036094,GO:0042364,GO:0043167,GO:0043168,GO:0043170,GO:0043933,GO:0044085,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044267,GO:0044271,GO:0044281,GO:0044283,GO:0046483,GO:0051186,GO:0051188,GO:0051259,GO:0051260,GO:0065003,GO:0070206,GO:0070207,GO:0071704,GO:0071840,GO:0097159,GO:0097367,GO:1901265,GO:1901360,GO:1901362,GO:1901363,GO:1901564,GO:1901566,GO:1901576	2.5.1.17	ko:K00798	ko00860,ko01100,map00860,map01100	M00122	R01492,R05220,R07268	RC00533	ko00000,ko00001,ko00002,ko01000	-	-	-	Cob_adeno_trans
LYD3_k127_4682264_3	748247.AZKH_4360	8.807e-146	469.0	COG0179@1|root,COG0179@2|Bacteria,1MV0V@1224|Proteobacteria,2VGZX@28216|Betaproteobacteria,2KXU8@206389|Rhodocyclales	206389|Rhodocyclales	Q	Fumarylacetoacetate (FAA) hydrolase family	-	-	3.7.1.2	ko:K16171	ko00350,ko00643,ko01100,ko01120,map00350,map00643,map01100,map01120	M00044	R01364	RC00326,RC00446	ko00000,ko00001,ko00002,ko01000	-	-	-	FAA_hydrolase
LYD3_k127_4682264_2	1500897.JQNA01000002_gene3424	4.378e-202	638.0	COG0215@1|root,COG0215@2|Bacteria,1MV8H@1224|Proteobacteria,2VZEK@28216|Betaproteobacteria,1K56M@119060|Burkholderiaceae	28216|Betaproteobacteria	J	tRNA synthetases class I (C) catalytic domain	-	-	6.1.1.16	ko:K01883	ko00970,map00970	M00359,M00360	R03650	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	tRNA-synt_1e
LYD3_k127_4682264_7	1223521.BBJX01000001_gene929	1.53e-34	145.0	COG1216@1|root,COG2120@1|root,COG1216@2|Bacteria,COG2120@2|Bacteria,1N72Z@1224|Proteobacteria,2WGSK@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Glycosyltransferase, group 2 family protein	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_4,Glycos_transf_1,Glycos_transf_2
LYD3_k127_4688880_0	1283300.ATXB01000001_gene2143	6.414e-140	467.0	COG0457@1|root,COG0457@2|Bacteria,1N0A9@1224|Proteobacteria,1RZSZ@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	COG0457 FOG TPR repeat	-	-	-	-	-	-	-	-	-	-	-	-	TPR_16,TPR_2,TPR_7
LYD3_k127_4688880_1	452637.Oter_1463	1.999e-47	177.0	COG2391@1|root,COG2391@2|Bacteria	2|Bacteria	-	-	-	-	-	ko:K07112	-	-	-	-	ko00000	-	-	-	Sulf_transp
LYD3_k127_4688880_2	452637.Oter_1462	6.04e-40	163.0	COG0607@1|root,COG2391@1|root,COG0607@2|Bacteria,COG2391@2|Bacteria	2|Bacteria	P	Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS	-	-	2.8.1.1,2.8.1.2	ko:K00406,ko:K01011,ko:K07112	ko00190,ko00270,ko00920,ko01100,ko01120,ko02020,ko04122,map00190,map00270,map00920,map01100,map01120,map02020,map04122	M00156	R01931,R03105,R03106	RC00214	ko00000,ko00001,ko00002,ko01000	3.D.4.3	-	-	PALP,Rhodanese,Sulf_transp
LYD3_k127_4689712_9	545264.KB898758_gene2709	4.144e-13	71.0	COG0313@1|root,COG0313@2|Bacteria,1MU0E@1224|Proteobacteria,1RM7U@1236|Gammaproteobacteria,1WWCD@135613|Chromatiales	135613|Chromatiales	H	Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA	rsmI	-	2.1.1.198	ko:K07056	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	TP_methylase
LYD3_k127_4689712_3	1000565.METUNv1_03492	2.821e-82	282.0	COG0829@1|root,COG0829@2|Bacteria,1RABD@1224|Proteobacteria,2VHXH@28216|Betaproteobacteria,2KVE9@206389|Rhodocyclales	206389|Rhodocyclales	J	Required for maturation of urease via the functional incorporation of the urease nickel metallocenter	ureD	-	-	ko:K03190	-	-	-	-	ko00000	-	-	-	UreD
LYD3_k127_4689712_7	1387312.BAUS01000002_gene481	1.115e-47	175.0	COG0831@1|root,COG0831@2|Bacteria,1RGXE@1224|Proteobacteria,2VSES@28216|Betaproteobacteria,2KMXX@206350|Nitrosomonadales	206350|Nitrosomonadales	E	Belongs to the urease gamma subunit family	ureA	-	3.5.1.5	ko:K01430	ko00220,ko00230,ko00791,ko01100,ko01120,map00220,map00230,map00791,map01100,map01120	-	R00131	RC02798,RC02806	ko00000,ko00001,ko01000	-	-	-	Urease_gamma
LYD3_k127_4689712_8	1123367.C666_17720	2.764e-46	175.0	COG0832@1|root,COG0832@2|Bacteria,1RGW0@1224|Proteobacteria,2VSGJ@28216|Betaproteobacteria,2KWUI@206389|Rhodocyclales	206389|Rhodocyclales	E	Belongs to the urease beta subunit family	ureB	-	3.5.1.5	ko:K01429	ko00220,ko00230,ko00791,ko01100,ko01120,map00220,map00230,map00791,map01100,map01120	-	R00131	RC02798,RC02806	ko00000,ko00001,ko01000	-	-	-	Urease_beta
LYD3_k127_4689712_0	748247.AZKH_4585	1.865e-308	957.0	COG0804@1|root,COG0804@2|Bacteria,1MU5P@1224|Proteobacteria,2VJYX@28216|Betaproteobacteria,2KUE8@206389|Rhodocyclales	206389|Rhodocyclales	E	Belongs to the metallo-dependent hydrolases superfamily. Urease alpha subunit family	ureC	-	3.5.1.5	ko:K01428	ko00220,ko00230,ko00791,ko01100,ko01120,ko05120,map00220,map00230,map00791,map01100,map01120,map05120	-	R00131	RC02798,RC02806	ko00000,ko00001,ko01000	-	-	-	Amidohydro_1,Urease_alpha
LYD3_k127_4689712_4	338969.Rfer_1221	2.554e-79	275.0	COG0583@1|root,COG0583@2|Bacteria,1MU7H@1224|Proteobacteria,2VJ5P@28216|Betaproteobacteria,4AA0I@80864|Comamonadaceae	28216|Betaproteobacteria	K	Transcriptional regulator, LysR family	-	-	-	-	-	-	-	-	-	-	-	-	HTH_1,LysR_substrate
LYD3_k127_4689712_6	62928.azo3503	2.916e-49	181.0	COG2371@1|root,COG2371@2|Bacteria,1MZQZ@1224|Proteobacteria,2VMRF@28216|Betaproteobacteria,2KWN7@206389|Rhodocyclales	206389|Rhodocyclales	O	Involved in urease metallocenter assembly. Binds nickel. Probably functions as a nickel donor during metallocenter assembly	ureE	-	-	ko:K03187	-	-	-	-	ko00000	-	-	-	UreE_C,UreE_N
LYD3_k127_4689712_5	748247.AZKH_4583	1.912e-59	215.0	COG0830@1|root,COG0830@2|Bacteria,1MW8Q@1224|Proteobacteria,2VRF6@28216|Betaproteobacteria,2KV9Q@206389|Rhodocyclales	206389|Rhodocyclales	O	Required for maturation of urease via the functional incorporation of the urease nickel metallocenter	ureF	-	-	ko:K03188	-	-	-	-	ko00000	-	-	-	UreF
LYD3_k127_4689712_2	322710.Avin_09380	3.25e-103	351.0	COG0378@1|root,COG0378@2|Bacteria,1MVBD@1224|Proteobacteria,1RP5R@1236|Gammaproteobacteria	1236|Gammaproteobacteria	KO	Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG	ureG	-	-	ko:K03189	-	-	-	-	ko00000	-	-	-	cobW
LYD3_k127_4689712_1	1123504.JQKD01000010_gene2610	2.113e-236	737.0	COG0683@1|root,COG0683@2|Bacteria,1MU8V@1224|Proteobacteria,2VI6J@28216|Betaproteobacteria,4A9XB@80864|Comamonadaceae	28216|Betaproteobacteria	E	amino acid	urtA	-	-	ko:K11959	ko02010,map02010	M00323	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4.4,3.A.1.4.5	-	-	Peripla_BP_5
LYD3_k127_4689712_10	864051.BurJ1DRAFT_1384	2.11e-07	60.0	COG0559@1|root,COG0559@2|Bacteria,1MVND@1224|Proteobacteria,2VJ7X@28216|Betaproteobacteria,1KJBC@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	Belongs to the binding-protein-dependent transport system permease family	urtB	-	-	ko:K11960	ko02010,map02010	M00323	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4.4,3.A.1.4.5	-	-	BPD_transp_2
LYD3_k127_4690461_2	1408473.JHXO01000001_gene2299	8.641e-165	556.0	COG1266@1|root,COG1266@2|Bacteria	2|Bacteria	V	CAAX protease self-immunity	-	-	-	ko:K07052	-	-	-	-	ko00000	-	-	-	Abi
LYD3_k127_4690461_1	1031711.RSPO_c02571	1.757e-175	558.0	COG1804@1|root,COG1804@2|Bacteria,1MU2K@1224|Proteobacteria,2VHFW@28216|Betaproteobacteria,1K0E9@119060|Burkholderiaceae	28216|Betaproteobacteria	C	L-carnitine dehydratase bile acid-inducible protein F	-	-	2.8.3.16	ko:K07749	-	-	-	-	ko00000,ko01000	-	-	-	CoA_transf_3
LYD3_k127_4690461_0	1288494.EBAPG3_22020	5.659e-212	672.0	COG1282@1|root,COG1282@2|Bacteria,1MUP4@1224|Proteobacteria,2VIDR@28216|Betaproteobacteria,372C8@32003|Nitrosomonadales	28216|Betaproteobacteria	C	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane	pntB	-	1.6.1.2	ko:K00325	ko00760,ko01100,map00760,map01100	-	R00112	RC00001	ko00000,ko00001,ko01000	-	-	-	PNTB
LYD3_k127_4690461_5	261292.Nit79A3_3378	4.974e-41	153.0	COG3288@1|root,COG3288@2|Bacteria,1MZ3E@1224|Proteobacteria,2VSM2@28216|Betaproteobacteria,373AX@32003|Nitrosomonadales	28216|Betaproteobacteria	C	4TM region of pyridine nucleotide transhydrogenase, mitoch	pntAb	-	1.6.1.1,1.6.1.2	ko:K00322,ko:K00324	ko00760,ko01100,map00760,map01100	-	R00112	RC00001	ko00000,ko00001,ko01000	-	-	-	PNTB_4TM
LYD3_k127_4690461_3	742159.HMPREF0004_2334	1.35e-147	480.0	COG3288@1|root,COG3288@2|Bacteria,1MVXU@1224|Proteobacteria,2VJZN@28216|Betaproteobacteria,3T1Y4@506|Alcaligenaceae	28216|Betaproteobacteria	C	The transhydrogenation between NADH and NADP is coupled to respiration and ATP hydrolysis and functions as a proton pump across the membrane	pntAA	-	1.6.1.2	ko:K00324	ko00760,ko01100,map00760,map01100	-	R00112	RC00001	ko00000,ko00001,ko01000	-	-	-	AlaDh_PNT_C,AlaDh_PNT_N
LYD3_k127_4690461_4	1238182.C882_0345	2.068e-70	240.0	COG0473@1|root,COG0473@2|Bacteria,1MUH4@1224|Proteobacteria,2TSBB@28211|Alphaproteobacteria,2JR85@204441|Rhodospirillales	204441|Rhodospirillales	CE	Isocitrate/isopropylmalate dehydrogenase	-	-	1.1.1.83,1.1.1.93,4.1.1.73	ko:K07246	ko00630,ko00650,map00630,map00650	-	R00215,R01751,R02545,R06180	RC00084,RC00105,RC00594	ko00000,ko00001,ko01000	-	-	-	Iso_dh
LYD3_k127_4691095_0	204773.HEAR1684	3.877e-45	168.0	COG0664@1|root,COG0664@2|Bacteria,1R5P7@1224|Proteobacteria,2VIQI@28216|Betaproteobacteria,4747S@75682|Oxalobacteraceae	28216|Betaproteobacteria	K	Cyclic nucleotide-monophosphate binding domain	dnrD	-	-	ko:K21563	-	-	-	-	ko00000,ko03000	-	-	-	HTH_Crp_2,cNMP_binding
LYD3_k127_4691095_1	1472716.KBK24_0128710	5.463e-34	141.0	COG3012@1|root,COG3318@1|root,COG3012@2|Bacteria,COG3318@2|Bacteria,1R4KR@1224|Proteobacteria,2VSZR@28216|Betaproteobacteria,1K6MX@119060|Burkholderiaceae	28216|Betaproteobacteria	U	TIGRFAM yecA family protein	-	-	-	ko:K07039	-	-	-	-	ko00000	-	-	-	SEC-C,UPF0149
LYD3_k127_4691095_2	1120999.JONM01000001_gene1060	3.746e-14	86.0	2DBUQ@1|root,2ZB76@2|Bacteria,1R4DM@1224|Proteobacteria,2VS5V@28216|Betaproteobacteria,2KR1T@206351|Neisseriales	206351|Neisseriales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4691953_2	1500894.JQNN01000001_gene667	8.529e-47	172.0	COG4301@1|root,COG4301@2|Bacteria,1MUCG@1224|Proteobacteria,2VJHK@28216|Betaproteobacteria,473AH@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Histidine-specific methyltransferase, SAM-dependent	egtD	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_33
LYD3_k127_4691953_1	257310.BB1966	6.473e-170	543.0	COG1262@1|root,COG1262@2|Bacteria,1MUNC@1224|Proteobacteria,2VH4V@28216|Betaproteobacteria,3T3DF@506|Alcaligenaceae	28216|Betaproteobacteria	NT	DinB superfamily	egtB	-	-	-	-	-	-	-	-	-	-	-	DinB_2,FGE-sulfatase
LYD3_k127_4691953_0	94624.Bpet0618	4.546e-174	549.0	COG2766@1|root,COG2766@2|Bacteria,1MVW7@1224|Proteobacteria,2VI2M@28216|Betaproteobacteria,3T5UC@506|Alcaligenaceae	28216|Betaproteobacteria	T	PrkA AAA domain	prkA	-	-	ko:K07180	-	-	-	-	ko00000	-	-	-	AAA_PrkA,PrkA
LYD3_k127_4695204_8	1235457.C404_19045	2.937e-26	111.0	COG4324@1|root,COG4324@2|Bacteria,1N0FE@1224|Proteobacteria,2VH73@28216|Betaproteobacteria,1K6J1@119060|Burkholderiaceae	28216|Betaproteobacteria	S	zinc protease protein	-	-	-	-	-	-	-	-	-	-	-	-	Aminopep
LYD3_k127_4695204_4	1000565.METUNv1_00770	8.822e-57	201.0	COG0360@1|root,COG0360@2|Bacteria,1RH82@1224|Proteobacteria,2VR79@28216|Betaproteobacteria,2KWGN@206389|Rhodocyclales	206389|Rhodocyclales	J	Binds together with S18 to 16S ribosomal RNA	rpsF	-	-	ko:K02990	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011,ko03029	-	-	-	Ribosomal_S6
LYD3_k127_4695204_10	266264.Rmet_1978	4.48e-16	84.0	COG2965@1|root,COG2965@2|Bacteria,1N98W@1224|Proteobacteria,2VVZ4@28216|Betaproteobacteria,1K8MD@119060|Burkholderiaceae	28216|Betaproteobacteria	L	Binds single-stranded DNA at the primosome assembly site (PAS)	priB	-	-	ko:K02686	ko03440,map03440	-	-	-	ko00000,ko00001,ko03400	-	-	-	SSB
LYD3_k127_4695204_7	292415.Tbd_2103	7.754e-36	138.0	COG0238@1|root,COG0238@2|Bacteria,1MZ8U@1224|Proteobacteria,2VTWT@28216|Betaproteobacteria,1KRUP@119069|Hydrogenophilales	119069|Hydrogenophilales	J	Ribosomal protein S18	-	-	-	ko:K02963	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_S18
LYD3_k127_4695204_3	882378.RBRH_03692	7.759e-59	207.0	COG0359@1|root,COG0359@2|Bacteria,1RD0R@1224|Proteobacteria,2VR40@28216|Betaproteobacteria,1K721@119060|Burkholderiaceae	28216|Betaproteobacteria	J	binds to the 23S rRNA	rplI	-	-	ko:K02939	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L9_C,Ribosomal_L9_N
LYD3_k127_4695204_2	351348.Maqu_0457	5.149e-60	215.0	COG2193@1|root,COG2193@2|Bacteria,1RCW7@1224|Proteobacteria,1S45S@1236|Gammaproteobacteria,466EC@72275|Alteromonadaceae	1236|Gammaproteobacteria	P	Iron-storage protein, whose ferroxidase center binds Fe(2 ) ions, oxidizes them by dioxygen to Fe(3 ), and participates in the subsequent Fe(3 ) oxide mineral core formation within the central cavity of the protein complex	bfr	-	1.16.3.1	ko:K03594	ko00860,map00860	-	R00078	RC02758	ko00000,ko00001,ko01000	-	-	-	Ferritin
LYD3_k127_4695204_11	377629.TERTU_1568	9.978e-08	63.0	COG2906@1|root,COG2906@2|Bacteria	2|Bacteria	P	2 iron, 2 sulfur cluster binding	bfd	-	-	ko:K02192	-	-	-	-	ko00000	-	-	-	Fer2_BFD
LYD3_k127_4695204_6	1235457.C404_03620	5.2e-42	168.0	COG5662@1|root,COG5662@2|Bacteria,1MV95@1224|Proteobacteria,2VSSM@28216|Betaproteobacteria,1K2HQ@119060|Burkholderiaceae	28216|Betaproteobacteria	K	Putative zinc-finger	-	-	-	-	-	-	-	-	-	-	-	-	zf-HC2
LYD3_k127_4695204_5	1380394.JADL01000002_gene1385	3.299e-46	173.0	COG1595@1|root,COG1595@2|Bacteria,1NRNT@1224|Proteobacteria,2TT5K@28211|Alphaproteobacteria,2JX2Z@204441|Rhodospirillales	204441|Rhodospirillales	K	Sigma-70, region 4	-	-	-	-	-	-	-	-	-	-	-	-	Sigma70_r2,Sigma70_r4_2
LYD3_k127_4695204_9	859657.RPSI07_mp1766	8.266e-19	88.0	COG1622@1|root,COG1622@2|Bacteria,1NEC9@1224|Proteobacteria,2VWA0@28216|Betaproteobacteria,1KGBZ@119060|Burkholderiaceae	28216|Betaproteobacteria	C	cytochrome c oxidase subunit II	-	-	1.9.3.1	ko:K02275	ko00190,ko01100,map00190,map01100	M00155	R00081	RC00016	ko00000,ko00001,ko00002,ko01000	3.D.4.2,3.D.4.4,3.D.4.6	-	-	Cupredoxin_1
LYD3_k127_4695204_0	75379.Tint_0587	3.845e-149	481.0	COG1638@1|root,COG1638@2|Bacteria,1MVHC@1224|Proteobacteria,2VHPJ@28216|Betaproteobacteria,1KM4J@119065|unclassified Burkholderiales	28216|Betaproteobacteria	G	Transporter	-	-	-	ko:K11688,ko:K21395	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.56.1	-	-	DctP
LYD3_k127_4695204_1	1218075.BAYA01000005_gene2067	2.894e-129	418.0	COG1960@1|root,COG1960@2|Bacteria,1MVAH@1224|Proteobacteria,2VKD1@28216|Betaproteobacteria,1JZRA@119060|Burkholderiaceae	28216|Betaproteobacteria	C	acyl-CoA dehydrogenase	acd12	-	1.3.8.7	ko:K00249	ko00071,ko00280,ko00410,ko00640,ko01100,ko01110,ko01130,ko01200,ko01212,ko03320,map00071,map00280,map00410,map00640,map01100,map01110,map01130,map01200,map01212,map03320	M00013,M00036,M00087	R00924,R01175,R01279,R02661,R03172,R03777,R03857,R03990,R04095,R04432,R04751,R04754	RC00052,RC00068,RC00076,RC00095,RC00148,RC00246	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_4699733_0	1163617.SCD_n00511	1.381e-144	468.0	COG0317@1|root,COG0317@2|Bacteria,1MU44@1224|Proteobacteria,2VIA1@28216|Betaproteobacteria	28216|Betaproteobacteria	KT	In eubacteria ppGpp (guanosine 3'-diphosphate 5-' diphosphate) is a mediator of the stringent response that coordinates a variety of cellular activities in response to changes in nutritional abundance	spoT	-	2.7.6.5,3.1.7.2	ko:K01139	ko00230,map00230	-	R00336,R00429	RC00002,RC00078	ko00000,ko00001,ko01000,ko03009	-	-	-	ACT_4,HD_4,RelA_SpoT,TGS
LYD3_k127_4699733_1	1485544.JQKP01000004_gene505	2.394e-59	207.0	COG0004@1|root,COG0004@2|Bacteria,1NR9F@1224|Proteobacteria,2VI9I@28216|Betaproteobacteria,44V4J@713636|Nitrosomonadales	28216|Betaproteobacteria	P	Ammonium Transporter Family	-	-	-	ko:K03320,ko:K06580	-	-	-	-	ko00000,ko02000,ko04090	1.A.11,1.A.11.4	-	-	Ammonium_transp
LYD3_k127_4709672_3	1049564.TevJSym_ag00760	1.714e-24	104.0	COG2920@1|root,COG2920@2|Bacteria,1MWK9@1224|Proteobacteria,1RYE1@1236|Gammaproteobacteria	1236|Gammaproteobacteria	P	TIGRFAM sulfur relay protein, TusE DsrC DsvC family	-	-	-	ko:K11179	ko04122,map04122	-	-	-	ko00000,ko00001,ko01000,ko03016	-	-	-	DsrC
LYD3_k127_4709672_0	1163617.SCD_n02706	1.215e-184	608.0	COG1797@1|root,COG1797@2|Bacteria,1MV7Z@1224|Proteobacteria,2VI93@28216|Betaproteobacteria	28216|Betaproteobacteria	H	Catalyzes the ATP-dependent amidation of the two carboxylate groups at positions a and c of cobyrinate, using either L-glutamine or ammonia as the nitrogen source	cbiA	-	6.3.5.11,6.3.5.9	ko:K02224	ko00860,ko01100,ko01120,map00860,map01100,map01120	-	R05224,R05815	RC00010,RC01301	ko00000,ko00001,ko01000	-	-	-	AAA_26,CbiA,GATase_3
LYD3_k127_4709672_1	580332.Slit_1675	1.663e-160	514.0	COG5557@1|root,COG5557@2|Bacteria,1MXP7@1224|Proteobacteria,2VK76@28216|Betaproteobacteria,44WAJ@713636|Nitrosomonadales	28216|Betaproteobacteria	C	Polysulphide reductase, NrfD	-	-	-	ko:K00185	-	-	-	-	ko00000	5.A.3	-	-	NrfD
LYD3_k127_4709672_2	1485544.JQKP01000005_gene322	7.233e-103	340.0	COG0437@1|root,COG0437@2|Bacteria,1MU1B@1224|Proteobacteria,2VKVM@28216|Betaproteobacteria,44W6H@713636|Nitrosomonadales	28216|Betaproteobacteria	C	4Fe-4S dicluster domain	-	-	-	ko:K00184	-	-	-	-	ko00000	5.A.3	-	-	Fer4_11
LYD3_k127_4711219_2	104623.Ser39006_01807	1.022e-44	164.0	COG0798@1|root,COG0798@2|Bacteria,1MUXY@1224|Proteobacteria,1RP2I@1236|Gammaproteobacteria	1236|Gammaproteobacteria	P	COG0798 Arsenite efflux pump ACR3 and related permeases	arsB	-	-	ko:K03325	-	-	-	-	ko00000,ko02000	2.A.59	-	-	SBF
LYD3_k127_4711219_1	1122223.KB890688_gene1648	1.443e-89	300.0	COG0288@1|root,COG0288@2|Bacteria,1WKSX@1297|Deinococcus-Thermus	1297|Deinococcus-Thermus	P	Reversible hydration of carbon dioxide	-	-	4.2.1.1	ko:K01673	ko00910,map00910	-	R00132,R10092	RC02807	ko00000,ko00001,ko01000	-	-	-	Pro_CA
LYD3_k127_4711219_5	204773.HEAR3303	1.506e-32	135.0	COG0640@1|root,COG0640@2|Bacteria,1MZAU@1224|Proteobacteria,2VTXZ@28216|Betaproteobacteria,474S9@75682|Oxalobacteraceae	28216|Betaproteobacteria	K	helix_turn_helix, Arsenical Resistance Operon Repressor	arsR	-	-	ko:K03892	-	-	-	-	ko00000,ko03000	-	-	-	HTH_20
LYD3_k127_4711219_3	553218.CAMRE0001_1806	9.944e-38	156.0	COG2755@1|root,COG2755@2|Bacteria,1RHDZ@1224|Proteobacteria,42SMX@68525|delta/epsilon subdivisions,2YPZI@29547|Epsilonproteobacteria	29547|Epsilonproteobacteria	E	GDSL-like Lipase/Acylhydrolase family	-	-	-	-	-	-	-	-	-	-	-	-	Lipase_GDSL_2
LYD3_k127_4711219_0	1123368.AUIS01000028_gene1327	1.944e-118	385.0	COG1136@1|root,COG1136@2|Bacteria,1MU45@1224|Proteobacteria,1RR3R@1236|Gammaproteobacteria	1236|Gammaproteobacteria	V	(ABC) transporter	-	-	-	ko:K02003	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC_tran
LYD3_k127_4711219_4	1123368.AUIS01000028_gene1326	2.579e-34	138.0	COG0577@1|root,COG0577@2|Bacteria,1MW6D@1224|Proteobacteria,1RN49@1236|Gammaproteobacteria	1236|Gammaproteobacteria	V	COG0577 ABC-type antimicrobial peptide transport system permease component	-	-	-	ko:K02004	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	FtsX,MacB_PCD
LYD3_k127_4719132_1	1223521.BBJX01000008_gene1294	2.747e-162	514.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2VHJP@28216|Betaproteobacteria,4A9UW@80864|Comamonadaceae	28216|Betaproteobacteria	G	TRAP C4-dicarboxylate transport system permease DctM subunit	dctM	-	-	ko:K11690	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.56.1	-	-	DctM
LYD3_k127_4719132_2	1203554.HMPREF1476_01908	7.521e-73	246.0	COG0105@1|root,COG0105@2|Bacteria,1R9ZA@1224|Proteobacteria,2VQ2J@28216|Betaproteobacteria,4PQZN@995019|Sutterellaceae	28216|Betaproteobacteria	F	Major role in the synthesis of nucleoside triphosphates other than ATP. The ATP gamma phosphate is transferred to the NDP beta phosphate via a ping-pong mechanism, using a phosphorylated active-site intermediate	ndk	-	2.7.4.6	ko:K00940	ko00230,ko00240,ko00983,ko01100,ko01110,ko01130,ko04016,map00230,map00240,map00983,map01100,map01110,map01130,map04016	M00049,M00050,M00052,M00053	R00124,R00139,R00156,R00330,R00570,R00722,R01137,R01857,R02093,R02326,R02331,R03530,R11894,R11895	RC00002	ko00000,ko00001,ko00002,ko01000,ko04131	-	-	-	NDK
LYD3_k127_4719132_0	497321.C664_18337	9.907e-166	529.0	COG0820@1|root,COG0820@2|Bacteria,1MUYK@1224|Proteobacteria,2VIBN@28216|Betaproteobacteria,2KVXU@206389|Rhodocyclales	206389|Rhodocyclales	J	Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs	rlmN	-	2.1.1.192	ko:K06941	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	Radical_SAM
LYD3_k127_4719132_3	582744.Msip34_1718	3.723e-47	190.0	COG3063@1|root,COG3063@2|Bacteria,1MXPC@1224|Proteobacteria,2VNC8@28216|Betaproteobacteria,2KMND@206350|Nitrosomonadales	206350|Nitrosomonadales	NU	TIGRFAM type IV pilus biogenesis stability protein PilW	-	-	-	ko:K02656	-	-	-	-	ko00000,ko02035,ko02044	-	-	-	TPR_16,TPR_17,TPR_2,TPR_8
LYD3_k127_4722052_1	1163617.SCD_n00560	3.627e-34	138.0	COG3117@1|root,COG3117@2|Bacteria,1R5UK@1224|Proteobacteria,2VU37@28216|Betaproteobacteria	28216|Betaproteobacteria	S	protein conserved in bacteria	lptC	-	-	ko:K11719	-	-	-	-	ko00000,ko02000	1.B.42.1	-	-	LptC
LYD3_k127_4722052_2	323848.Nmul_A0086	3.428e-33	141.0	COG1934@1|root,COG1934@2|Bacteria,1N776@1224|Proteobacteria,2VSI4@28216|Betaproteobacteria,3727R@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Involved in the assembly of lipopolysaccharide (LPS). Required for the translocation of LPS from the inner membrane to the outer membrane	lptA	-	-	ko:K09774	-	-	-	-	ko00000,ko02000	1.B.42.1	-	-	OstA
LYD3_k127_4722052_0	1123367.C666_16175	1.05e-115	378.0	COG1137@1|root,COG1137@2|Bacteria,1MU8M@1224|Proteobacteria,2VH29@28216|Betaproteobacteria,2KUNS@206389|Rhodocyclales	206389|Rhodocyclales	S	ABC-type (Unclassified) transport system, ATPase component	-	-	-	ko:K06861	ko02010,map02010	M00320	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	1.B.42.1	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_4722052_3	292415.Tbd_0533	6.087e-26	113.0	COG1508@1|root,COG1508@2|Bacteria,1MW4V@1224|Proteobacteria,2VIEV@28216|Betaproteobacteria,1KRAY@119069|Hydrogenophilales	119069|Hydrogenophilales	K	Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released	-	-	-	ko:K03092	ko02020,ko05111,map02020,map05111	-	-	-	ko00000,ko00001,ko03021	-	-	-	Sigma54_AID,Sigma54_CBD,Sigma54_DBD
LYD3_k127_4725609_4	1348657.M622_09065	2.189e-47	174.0	COG0477@1|root,COG2814@2|Bacteria,1QTWR@1224|Proteobacteria,2VIC5@28216|Betaproteobacteria,2KU64@206389|Rhodocyclales	206389|Rhodocyclales	EGP	Major Facilitator	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_4725609_3	288000.BBta_6687	1.666e-50	187.0	COG3762@1|root,COG3762@2|Bacteria,1R61N@1224|Proteobacteria,2U5XG@28211|Alphaproteobacteria,3JUPW@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	TPM domain	-	-	-	ko:K08988	-	-	-	-	ko00000	-	-	-	TPM_phosphatase
LYD3_k127_4725609_2	666684.AfiDRAFT_0637	1.365e-64	234.0	COG1512@1|root,COG1512@2|Bacteria,1PB41@1224|Proteobacteria,2TUVD@28211|Alphaproteobacteria,3JSS7@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	TPM domain	-	-	-	ko:K06872	-	-	-	-	ko00000	-	-	-	TPM_phosphatase
LYD3_k127_4725609_0	1122603.ATVI01000001_gene1896	3.692e-84	285.0	COG1704@1|root,COG1704@2|Bacteria,1MVH0@1224|Proteobacteria,1RS3E@1236|Gammaproteobacteria,1X5AU@135614|Xanthomonadales	135614|Xanthomonadales	S	LemA family	-	-	-	ko:K03744	-	-	-	-	ko00000	-	-	-	LemA
LYD3_k127_4725609_1	62928.azo1713	4.702e-78	270.0	COG1573@1|root,COG1573@2|Bacteria,1MWX1@1224|Proteobacteria,2VPZQ@28216|Betaproteobacteria,2KUYX@206389|Rhodocyclales	206389|Rhodocyclales	L	uracil-DNA glycosylase	-	-	3.2.2.27	ko:K21929	ko03410,map03410	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	UDG
LYD3_k127_4725609_5	85643.Tmz1t_2256	1.636e-10	63.0	COG0454@1|root,COG0456@2|Bacteria,1RIE6@1224|Proteobacteria,2VUIW@28216|Betaproteobacteria,2KWTR@206389|Rhodocyclales	206389|Rhodocyclales	K	This enzyme acetylates the N-terminal alanine of ribosomal protein S18	-	-	2.3.1.128	ko:K03789	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	Acetyltransf_1
LYD3_k127_4729160_0	1218084.BBJK01000080_gene5531	9.285e-165	526.0	COG0491@1|root,COG0607@1|root,COG0491@2|Bacteria,COG0607@2|Bacteria,1MURA@1224|Proteobacteria,2VJYK@28216|Betaproteobacteria,1K220@119060|Burkholderiaceae	28216|Betaproteobacteria	P	PFAM beta-lactamase domain protein	-	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B,Rhodanese
LYD3_k127_4729160_2	1380394.JADL01000008_gene3590	5.851e-138	443.0	COG1173@1|root,COG1173@2|Bacteria,1MUG0@1224|Proteobacteria,2VETJ@28211|Alphaproteobacteria,2JV54@204441|Rhodospirillales	204441|Rhodospirillales	EP	N-terminal TM domain of oligopeptide transport permease C	-	-	-	ko:K02034	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	BPD_transp_1,OppC_N
LYD3_k127_4729160_1	1380394.JADL01000008_gene3591	4.525e-156	497.0	COG0601@1|root,COG0601@2|Bacteria,1MU8Z@1224|Proteobacteria,2TR0N@28211|Alphaproteobacteria,2JZH9@204441|Rhodospirillales	204441|Rhodospirillales	EP	Binding-protein-dependent transport system inner membrane component	-	-	-	-	-	-	-	-	-	-	-	-	BPD_transp_1
LYD3_k127_4729160_3	426117.M446_2847	3.172e-79	269.0	COG0747@1|root,COG0747@2|Bacteria,1MUZH@1224|Proteobacteria,2TR1D@28211|Alphaproteobacteria,1JTN6@119045|Methylobacteriaceae	28211|Alphaproteobacteria	E	Bacterial extracellular solute-binding proteins, family 5 Middle	-	-	-	ko:K02035	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	SBP_bac_5
LYD3_k127_4736246_7	864073.HFRIS_001325	5.501e-18	96.0	COG1274@1|root,COG1274@2|Bacteria,1MX3C@1224|Proteobacteria,2VINZ@28216|Betaproteobacteria,472VX@75682|Oxalobacteraceae	28216|Betaproteobacteria	H	Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP), the rate-limiting step in the metabolic pathway that produces glucose from lactate and other precursors derived from the citric acid cycle	pckG	GO:0000003,GO:0001655,GO:0001822,GO:0001889,GO:0003006,GO:0003674,GO:0003676,GO:0003723,GO:0003729,GO:0003824,GO:0004457,GO:0004611,GO:0004613,GO:0005488,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005739,GO:0005759,GO:0005975,GO:0005996,GO:0006006,GO:0006007,GO:0006066,GO:0006071,GO:0006082,GO:0006089,GO:0006090,GO:0006091,GO:0006094,GO:0006109,GO:0006111,GO:0006113,GO:0006139,GO:0006163,GO:0006464,GO:0006629,GO:0006631,GO:0006725,GO:0006732,GO:0006733,GO:0006734,GO:0006735,GO:0006753,GO:0006793,GO:0006796,GO:0006807,GO:0006950,GO:0007028,GO:0007275,GO:0007276,GO:0007281,GO:0007292,GO:0007296,GO:0007610,GO:0008150,GO:0008152,GO:0008906,GO:0009056,GO:0009058,GO:0009062,GO:0009117,GO:0009123,GO:0009126,GO:0009132,GO:0009135,GO:0009141,GO:0009144,GO:0009150,GO:0009161,GO:0009166,GO:0009167,GO:0009179,GO:0009185,GO:0009199,GO:0009205,GO:0009259,GO:0009410,GO:0009605,GO:0009636,GO:0009653,GO:0009719,GO:0009725,GO:0009790,GO:0009792,GO:0009887,GO:0009888,GO:0009889,GO:0009966,GO:0009967,GO:0009987,GO:0009991,GO:0010033,GO:0010243,GO:0010646,GO:0010647,GO:0010675,GO:0010906,GO:0014070,GO:0014074,GO:0015036,GO:0015980,GO:0016042,GO:0016043,GO:0016051,GO:0016052,GO:0016053,GO:0016054,GO:0016301,GO:0016310,GO:0016491,GO:0016614,GO:0016651,GO:0016667,GO:0016668,GO:0016740,GO:0016772,GO:0016773,GO:0016829,GO:0016830,GO:0016831,GO:0016999,GO:0017001,GO:0017144,GO:0018130,GO:0018991,GO:0019098,GO:0019222,GO:0019249,GO:0019318,GO:0019319,GO:0019320,GO:0019362,GO:0019400,GO:0019405,GO:0019438,GO:0019439,GO:0019516,GO:0019538,GO:0019541,GO:0019543,GO:0019563,GO:0019626,GO:0019637,GO:0019659,GO:0019660,GO:0019661,GO:0019666,GO:0019674,GO:0019693,GO:0019751,GO:0019752,GO:0019953,GO:0022412,GO:0022414,GO:0023051,GO:0023056,GO:0030145,GO:0030154,GO:0030703,GO:0030855,GO:0031323,GO:0031667,GO:0031960,GO:0031974,GO:0032501,GO:0032502,GO:0032504,GO:0032787,GO:0032868,GO:0032869,GO:0032870,GO:0033993,GO:0034404,GO:0034641,GO:0034654,GO:0034655,GO:0035690,GO:0036211,GO:0042221,GO:0042493,GO:0042594,GO:0042737,GO:0043167,GO:0043169,GO:0043170,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0043233,GO:0043255,GO:0043412,GO:0043434,GO:0043436,GO:0043687,GO:0043900,GO:0043903,GO:0043949,GO:0043950,GO:0044237,GO:0044238,GO:0044242,GO:0044248,GO:0044249,GO:0044255,GO:0044260,GO:0044262,GO:0044267,GO:0044270,GO:0044271,GO:0044275,GO:0044281,GO:0044282,GO:0044283,GO:0044422,GO:0044424,GO:0044429,GO:0044444,GO:0044446,GO:0044464,GO:0044703,GO:0045471,GO:0046031,GO:0046034,GO:0046164,GO:0046174,GO:0046364,GO:0046365,GO:0046394,GO:0046395,GO:0046434,GO:0046459,GO:0046483,GO:0046496,GO:0046677,GO:0046683,GO:0046700,GO:0046872,GO:0046914,GO:0047134,GO:0048468,GO:0048477,GO:0048513,GO:0048518,GO:0048522,GO:0048545,GO:0048562,GO:0048568,GO:0048583,GO:0048584,GO:0048598,GO:0048609,GO:0048646,GO:0048731,GO:0048732,GO:0048856,GO:0048869,GO:0050789,GO:0050792,GO:0050794,GO:0050896,GO:0051186,GO:0051384,GO:0051591,GO:0051704,GO:0051716,GO:0055086,GO:0055114,GO:0060429,GO:0061005,GO:0061008,GO:0062012,GO:0065007,GO:0070013,GO:0070365,GO:0070887,GO:0071236,GO:0071310,GO:0071361,GO:0071375,GO:0071383,GO:0071384,GO:0071385,GO:0071396,GO:0071407,GO:0071417,GO:0071466,GO:0071495,GO:0071548,GO:0071549,GO:0071704,GO:0071840,GO:0072001,GO:0072071,GO:0072329,GO:0072330,GO:0072521,GO:0072524,GO:0080090,GO:0097159,GO:0097237,GO:0097305,GO:0097306,GO:0097327,GO:1901135,GO:1901292,GO:1901360,GO:1901361,GO:1901362,GO:1901363,GO:1901564,GO:1901575,GO:1901576,GO:1901615,GO:1901616,GO:1901617,GO:1901652,GO:1901653,GO:1901654,GO:1901655,GO:1901698,GO:1901699,GO:1901700,GO:1901701,GO:1902531,GO:1902533	4.1.1.32	ko:K01596	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko03320,ko04068,ko04151,ko04152,ko04910,ko04920,ko04922,ko04931,ko04964,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map03320,map04068,map04151,map04152,map04910,map04920,map04922,map04931,map04964	M00003	R00431,R00726	RC00002,RC02741	ko00000,ko00001,ko00002,ko01000	-	-	-	PEPCK_C,PEPCK_N
LYD3_k127_4736246_5	1095769.CAHF01000018_gene815	1.232e-86	305.0	COG3180@1|root,COG3180@2|Bacteria,1MUFS@1224|Proteobacteria,2VM18@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Ammonia monooxygenase	-	-	-	ko:K07120	-	-	-	-	ko00000	-	-	-	AbrB
LYD3_k127_4736246_2	1348657.M622_18290	1.368e-151	494.0	COG0486@1|root,COG0486@2|Bacteria,1MUCQ@1224|Proteobacteria,2VHCJ@28216|Betaproteobacteria,2KVKC@206389|Rhodocyclales	206389|Rhodocyclales	J	Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34	mnmE	-	-	ko:K03650	-	-	R08701	RC00053,RC00209,RC00870	ko00000,ko01000,ko03016	-	-	-	MMR_HSR1,MnmE_helical,TrmE_N
LYD3_k127_4736246_1	1266925.JHVX01000008_gene368	5.805e-174	563.0	COG0706@1|root,COG0706@2|Bacteria,1MV5M@1224|Proteobacteria,2VHIA@28216|Betaproteobacteria,371S5@32003|Nitrosomonadales	28216|Betaproteobacteria	U	Required for the insertion and or proper folding and or complex formation of integral membrane proteins into the membrane. Involved in integration of membrane proteins that insert both dependently and independently of the Sec translocase complex, as well as at least some lipoproteins. Aids folding of multispanning membrane proteins	yidC	-	-	ko:K03217	ko02024,ko03060,ko03070,map02024,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko02044,ko03029	2.A.9	-	-	60KD_IMP,YidC_periplas
LYD3_k127_4736246_6	62928.azo3990	5.428e-31	123.0	COG0759@1|root,COG0759@2|Bacteria,1N6U4@1224|Proteobacteria,2VVTR@28216|Betaproteobacteria,2KX78@206389|Rhodocyclales	206389|Rhodocyclales	S	Could be involved in insertion of integral membrane proteins into the membrane	-	-	-	ko:K08998	-	-	-	-	ko00000	-	-	-	Haemolytic
LYD3_k127_4736246_9	159087.Daro_4203	7.869e-05	51.0	COG0594@1|root,COG0594@2|Bacteria,1PVTI@1224|Proteobacteria,2VW57@28216|Betaproteobacteria,2KX1K@206389|Rhodocyclales	206389|Rhodocyclales	J	RNaseP catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. The protein component plays an auxiliary but essential role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme	rnpA	-	3.1.26.5	ko:K03536	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	Ribonuclease_P
LYD3_k127_4736246_8	754477.Q7C_1851	1.964e-13	74.0	COG0230@1|root,COG0230@2|Bacteria,1NGGS@1224|Proteobacteria,1SGDJ@1236|Gammaproteobacteria,461EJ@72273|Thiotrichales	72273|Thiotrichales	J	Belongs to the bacterial ribosomal protein bL34 family	rpmH	-	-	ko:K02914	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L34
LYD3_k127_4736246_0	1163617.SCD_n00001	7.096e-183	586.0	COG0593@1|root,COG0593@2|Bacteria,1MU5H@1224|Proteobacteria,2VHH0@28216|Betaproteobacteria	28216|Betaproteobacteria	L	it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box) 5'-TTATC CA A CA A-3'. DnaA binds to ATP and to acidic phospholipids	dnaA	-	-	ko:K02313	ko02020,ko04112,map02020,map04112	-	-	-	ko00000,ko00001,ko03032,ko03036	-	-	-	Bac_DnaA,Bac_DnaA_C,DnaA_N
LYD3_k127_4736246_3	323848.Nmul_A0002	1.633e-134	437.0	COG0592@1|root,COG0592@2|Bacteria,1MVD9@1224|Proteobacteria,2VH9B@28216|Betaproteobacteria,371UF@32003|Nitrosomonadales	28216|Betaproteobacteria	L	Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP-independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria	dnaN	-	2.7.7.7	ko:K02338	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	DNA_pol3_beta,DNA_pol3_beta_2,DNA_pol3_beta_3
LYD3_k127_4736246_4	583345.Mmol_0003	3.362e-119	387.0	COG0187@1|root,COG0187@2|Bacteria,1MVKT@1224|Proteobacteria,2VI8N@28216|Betaproteobacteria,2KKEJ@206350|Nitrosomonadales	206350|Nitrosomonadales	L	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner	gyrB	-	5.99.1.3	ko:K02470	-	-	-	-	ko00000,ko01000,ko03032,ko03400	-	-	-	DNA_gyraseB,DNA_gyraseB_C,HATPase_c,Toprim
LYD3_k127_4737166_0	204773.HEAR0663	1.261e-268	838.0	COG0587@1|root,COG0587@2|Bacteria,1MUE4@1224|Proteobacteria,2VHCS@28216|Betaproteobacteria,47372@75682|Oxalobacteraceae	28216|Betaproteobacteria	L	DNA polymerase involved in damage-induced mutagenesis and translesion synthesis (TLS). It is not the major replicative DNA polymerase	dnaE2	-	2.7.7.7	ko:K14162	-	-	-	-	ko00000,ko01000,ko03400	-	-	-	DNA_pol3_alpha,HHH_6,PHP,tRNA_anti-codon
LYD3_k127_4737391_2	448385.sce6835	2.28e-34	138.0	COG3837@1|root,COG3837@2|Bacteria,1R9WZ@1224|Proteobacteria,432KZ@68525|delta/epsilon subdivisions,2WYH1@28221|Deltaproteobacteria,2Z12K@29|Myxococcales	28221|Deltaproteobacteria	S	Cupin domain	-	-	-	-	-	-	-	-	-	-	-	-	Cupin_2
LYD3_k127_4737391_3	272560.BPSL2749	7.014e-22	101.0	COG4575@1|root,COG4575@2|Bacteria,1N3P5@1224|Proteobacteria,2VU7A@28216|Betaproteobacteria,1K8EH@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Bacterial protein of unknown function (DUF883)	elaB	-	-	-	-	-	-	-	-	-	-	-	DUF883
LYD3_k127_4737391_4	267608.RSc0752	6.424e-14	77.0	COG5393@1|root,COG5393@2|Bacteria,1N5Q0@1224|Proteobacteria,2VV9G@28216|Betaproteobacteria,1K7WT@119060|Burkholderiaceae	28216|Betaproteobacteria	S	membrane	-	-	-	-	-	-	-	-	-	-	-	-	Phage_holin_3_6
LYD3_k127_4737391_0	640081.Dsui_0302	3.429e-257	805.0	COG0043@1|root,COG0043@2|Bacteria,1MU62@1224|Proteobacteria,2VH09@28216|Betaproteobacteria,2KVEB@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the decarboxylation of 3-octaprenyl-4-hydroxy benzoate to 2-octaprenylphenol, an intermediate step in ubiquinone biosynthesis	ubiD	-	4.1.1.98	ko:K03182	ko00130,ko01100,ko01110,map00130,map01100,map01110	M00117	R04985,R04986	RC00391	ko00000,ko00001,ko00002,ko01000	-	-	-	UbiD
LYD3_k127_4737391_1	1000565.METUNv1_04018	3.702e-120	409.0	COG2271@1|root,COG2271@2|Bacteria,1PND6@1224|Proteobacteria,2WGS2@28216|Betaproteobacteria,2KZZK@206389|Rhodocyclales	206389|Rhodocyclales	G	Major Facilitator Superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_4737391_5	661478.OP10G_2386	3.68e-05	49.0	COG3832@1|root,COG3832@2|Bacteria	2|Bacteria	J	glyoxalase III activity	-	-	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	Polyketide_cyc2
LYD3_k127_4745609_1	1183438.GKIL_2349	3.951e-103	342.0	COG0656@1|root,COG0656@2|Bacteria,1G4UQ@1117|Cyanobacteria	1117|Cyanobacteria	S	aldo keto reductase	-	-	-	-	-	-	-	-	-	-	-	-	Aldo_ket_red
LYD3_k127_4745609_0	1198452.Jab_2c33740	1.955e-275	867.0	COG0243@1|root,COG0243@2|Bacteria,1NR6J@1224|Proteobacteria,2VHHZ@28216|Betaproteobacteria,473Z4@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Belongs to the prokaryotic molybdopterin-containing oxidoreductase family	-	-	-	-	-	-	-	-	-	-	-	-	Molybdop_Fe4S4,Molybdopterin,Molydop_binding
LYD3_k127_4745826_3	1504672.669784094	0.0002532	48.0	COG0653@1|root,COG0653@2|Bacteria,1MUJZ@1224|Proteobacteria,2VHDH@28216|Betaproteobacteria,4A9XE@80864|Comamonadaceae	28216|Betaproteobacteria	U	Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. Has a central role in coupling the hydrolysis of ATP to the transfer of proteins into and across the cell membrane, serving both as a receptor for the preprotein-SecB complex and as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane	secA	-	-	ko:K03070	ko02024,ko03060,ko03070,map02024,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko02044	3.A.5.1,3.A.5.10,3.A.5.2,3.A.5.4	-	-	SEC-C,SecA_DEAD,SecA_PP_bind,SecA_SW
LYD3_k127_4745826_1	1288494.EBAPG3_28070	2.365e-91	316.0	COG0739@1|root,COG0739@2|Bacteria,1MVTF@1224|Proteobacteria,2VKR8@28216|Betaproteobacteria,371UP@32003|Nitrosomonadales	28216|Betaproteobacteria	M	Peptidase family M23	-	-	3.4.24.75	ko:K08259	-	-	-	-	ko00000,ko01000,ko01002,ko01011	-	-	-	Peptidase_M23
LYD3_k127_4745826_2	395494.Galf_0343	5.887e-05	53.0	COG4701@1|root,COG4701@2|Bacteria,1N8HR@1224|Proteobacteria,2VW5Y@28216|Betaproteobacteria,44W40@713636|Nitrosomonadales	28216|Betaproteobacteria	S	Protein of unknown function (DUF721)	-	-	-	-	-	-	-	-	-	-	-	-	DUF721
LYD3_k127_4745826_0	292415.Tbd_0126	1.935e-128	418.0	COG0774@1|root,COG0774@2|Bacteria,1MV6T@1224|Proteobacteria,2VHI8@28216|Betaproteobacteria,1KSQK@119069|Hydrogenophilales	119069|Hydrogenophilales	M	Catalyzes the hydrolysis of UDP-3-O-myristoyl-N- acetylglucosamine to form UDP-3-O-myristoylglucosamine and acetate, the committed step in lipid A biosynthesis	lpxC	-	3.5.1.108	ko:K02535	ko00540,ko01100,map00540,map01100	M00060	R04587	RC00166,RC00300	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	LpxC
LYD3_k127_4761943_1	1040987.AZUY01000046_gene4435	4.649e-23	103.0	COG2801@1|root,COG2801@2|Bacteria	2|Bacteria	L	transposition	-	-	-	ko:K07483,ko:K07497	-	-	-	-	ko00000	-	-	-	HTH_21,Tn7_Tnp_TnsA_N
LYD3_k127_4761943_0	1005048.CFU_3178	5.182e-148	487.0	COG4166@1|root,COG4166@2|Bacteria,1R87R@1224|Proteobacteria,2VKFJ@28216|Betaproteobacteria,476HH@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Bacterial extracellular solute-binding proteins, family 5 Middle	-	-	-	-	-	-	-	-	-	-	-	-	SBP_bac_5
LYD3_k127_4763957_0	261292.Nit79A3_0256	1.443e-227	714.0	COG0568@1|root,COG0568@2|Bacteria,1MVNJ@1224|Proteobacteria,2VH74@28216|Betaproteobacteria,371SD@32003|Nitrosomonadales	28216|Betaproteobacteria	K	Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth	rpoD	-	-	ko:K03086	-	-	-	-	ko00000,ko03021	-	-	-	Sigma70_ner,Sigma70_r1_1,Sigma70_r1_2,Sigma70_r2,Sigma70_r3,Sigma70_r4
LYD3_k127_4763957_3	1095769.CAHF01000022_gene139	9.38e-29	121.0	COG0589@1|root,COG0589@2|Bacteria,1N8EJ@1224|Proteobacteria,2VUAF@28216|Betaproteobacteria,477CD@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	Universal stress protein family	-	-	-	-	-	-	-	-	-	-	-	-	Usp
LYD3_k127_4763957_1	748247.AZKH_2212	3.556e-212	694.0	COG0045@1|root,COG0454@1|root,COG1042@1|root,COG0045@2|Bacteria,COG0454@2|Bacteria,COG1042@2|Bacteria,1MW98@1224|Proteobacteria,2VI9R@28216|Betaproteobacteria,2KUDI@206389|Rhodocyclales	206389|Rhodocyclales	CM	Acyl-CoA synthetase (NDP forming)	yfiQ	-	-	ko:K09181	-	-	-	-	ko00000	-	-	-	ATP-grasp_5,Acetyltransf_1,Acetyltransf_3,CoA_binding_2,Succ_CoA_lig
LYD3_k127_4763957_2	338969.Rfer_1964	1.277e-36	140.0	COG5322@1|root,COG5322@2|Bacteria,1R60X@1224|Proteobacteria,2W0QF@28216|Betaproteobacteria	28216|Betaproteobacteria	S	oxidoreductase activity	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4764205_1	1158292.JPOE01000005_gene216	9.676e-85	286.0	COG0277@1|root,COG0277@2|Bacteria,1N4UQ@1224|Proteobacteria,2W1U4@28216|Betaproteobacteria	28216|Betaproteobacteria	C	FAD binding domain	-	-	-	-	-	-	-	-	-	-	-	-	FAD_binding_4
LYD3_k127_4764205_2	1223521.BBJX01000001_gene1015	4.275e-79	271.0	COG1926@1|root,COG1926@2|Bacteria,1RAG8@1224|Proteobacteria,2VPNZ@28216|Betaproteobacteria,4ABBY@80864|Comamonadaceae	28216|Betaproteobacteria	S	Phosphoribosyl transferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Pribosyltran
LYD3_k127_4764205_4	522306.CAP2UW1_1896	2.515e-63	222.0	COG1652@1|root,COG1652@2|Bacteria,1RD8K@1224|Proteobacteria,2VR7C@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Peptidoglycan-binding LysM	ygaU	-	-	-	-	-	-	-	-	-	-	-	BON,LysM
LYD3_k127_4764205_3	987059.RBXJA2T_09392	7.558e-77	273.0	COG1575@1|root,COG1575@2|Bacteria,1MXQQ@1224|Proteobacteria,2VJX1@28216|Betaproteobacteria,1KMPW@119065|unclassified Burkholderiales	28216|Betaproteobacteria	H	Belongs to the MenA family. Type 1 subfamily	menA	-	2.5.1.74	ko:K02548	ko00130,ko01100,ko01110,map00130,map01100,map01110	M00116	R05617,R06858,R10757	RC02935,RC02936,RC03264	ko00000,ko00001,ko00002,ko01000,ko01006	-	-	-	UbiA
LYD3_k127_4764205_0	572477.Alvin_0006	2.151e-124	408.0	COG5621@1|root,COG5621@2|Bacteria,1MUVF@1224|Proteobacteria,1RZ65@1236|Gammaproteobacteria,1WWIJ@135613|Chromatiales	135613|Chromatiales	S	Lipocalin-like domain	-	-	-	-	-	-	-	-	-	-	-	-	CrtC,Lipocalin_9
LYD3_k127_4764205_5	381666.H16_B1609	1.969e-54	195.0	COG0577@1|root,COG0577@2|Bacteria,1MVCT@1224|Proteobacteria,2VJAI@28216|Betaproteobacteria,1K2BP@119060|Burkholderiaceae	28216|Betaproteobacteria	MV	FtsX-like permease family	-	-	-	ko:K02004	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	FtsX,MacB_PCD
LYD3_k127_4775772_0	1304883.KI912532_gene2979	4.84e-322	994.0	COG0188@1|root,COG0188@2|Bacteria,1MUGG@1224|Proteobacteria,2VJ5Q@28216|Betaproteobacteria,2KV41@206389|Rhodocyclales	206389|Rhodocyclales	L	A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner	gyrA	-	5.99.1.3	ko:K02469	-	-	-	-	ko00000,ko01000,ko03032,ko03400	-	-	-	DNA_gyraseA_C,DNA_topoisoIV
LYD3_k127_4775772_8	748247.AZKH_3561	6.63e-52	194.0	COG2885@1|root,COG2885@2|Bacteria,1N6EM@1224|Proteobacteria,2VM27@28216|Betaproteobacteria,2KYX2@206389|Rhodocyclales	206389|Rhodocyclales	M	OmpA family	-	-	-	ko:K03286	-	-	-	-	ko00000,ko02000	1.B.6	-	-	OmpA
LYD3_k127_4775772_1	1304883.KI912532_gene2980	6.812e-156	504.0	COG0402@1|root,COG0402@2|Bacteria,1MVPA@1224|Proteobacteria,2VJ4R@28216|Betaproteobacteria,2KV5W@206389|Rhodocyclales	206389|Rhodocyclales	F	Catalyzes the deamination of 5-methylthioadenosine and S-adenosyl-L-homocysteine into 5-methylthioinosine and S-inosyl-L- homocysteine, respectively. Is also able to deaminate adenosine	mtaD	-	3.5.4.28,3.5.4.31	ko:K12960	ko00270,ko01100,map00270,map01100	-	R09660	RC00477	ko00000,ko00001,ko01000	-	-	-	Amidohydro_1
LYD3_k127_4775772_4	292415.Tbd_0946	1.047e-97	325.0	COG2227@1|root,COG2227@2|Bacteria,1MU89@1224|Proteobacteria,2VHGP@28216|Betaproteobacteria,1KS08@119069|Hydrogenophilales	119069|Hydrogenophilales	H	O-methyltransferase that catalyzes the 2 O-methylation steps in the ubiquinone biosynthetic pathway	ubiG	-	2.1.1.222,2.1.1.64	ko:K00568	ko00130,ko01100,ko01110,map00130,map01100,map01110	M00117	R04988,R05614,R08769,R08781	RC00003,RC00392,RC01895	ko00000,ko00001,ko00002,ko01000	-	-	-	Methyltransf_23
LYD3_k127_4775772_5	765910.MARPU_05005	6.175e-76	262.0	COG0546@1|root,COG0546@2|Bacteria,1RCXJ@1224|Proteobacteria,1S3VU@1236|Gammaproteobacteria,1WXXM@135613|Chromatiales	135613|Chromatiales	S	HAD-superfamily hydrolase, subfamily IA, variant 1	-	-	3.1.3.105	ko:K22292	ko00520,map00520	-	R11785	RC00017	ko00000,ko00001,ko01000	-	-	-	HAD_2
LYD3_k127_4775772_2	1005048.CFU_1290	6.221e-152	493.0	COG0436@1|root,COG0436@2|Bacteria,1MWS8@1224|Proteobacteria,2VIEP@28216|Betaproteobacteria,473JY@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Aminotransferase class I and II	dapC	-	2.6.1.17	ko:K14267	ko00300,ko01100,ko01120,ko01230,map00300,map01100,map01120,map01230	M00016	R04475	RC00006	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_4775772_7	1031711.RSPO_c02004	2.575e-57	214.0	COG2972@1|root,COG2972@2|Bacteria,1MXVQ@1224|Proteobacteria,2VRIK@28216|Betaproteobacteria,1K6SQ@119060|Burkholderiaceae	28216|Betaproteobacteria	T	Histidine kinase	-	-	-	-	-	-	-	-	-	-	-	-	HATPase_c,His_kinase
LYD3_k127_4775772_6	1005048.CFU_3018	9.682e-71	257.0	COG3279@1|root,COG3279@2|Bacteria,1R9Q4@1224|Proteobacteria,2WEES@28216|Betaproteobacteria,473Y1@75682|Oxalobacteraceae	28216|Betaproteobacteria	KT	LytTr DNA-binding domain	-	-	-	-	-	-	-	-	-	-	-	-	LytTR,Response_reg
LYD3_k127_4775772_3	1538295.JY96_01560	3.015e-130	422.0	COG2171@1|root,COG2171@2|Bacteria,1MU0Y@1224|Proteobacteria,2VHUX@28216|Betaproteobacteria,1KJWR@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	Belongs to the transferase hexapeptide repeat family	dapD	-	2.3.1.117	ko:K00674	ko00300,ko01100,ko01120,ko01230,map00300,map01100,map01120,map01230	M00016	R04365	RC00004,RC01136	ko00000,ko00001,ko00002,ko01000	-	-	-	Hexapep,Hexapep_2,THDPS_N_2
LYD3_k127_4775772_9	76114.ebA5984	8.096e-44	175.0	COG0024@1|root,COG0024@2|Bacteria,1MU99@1224|Proteobacteria,2VH2K@28216|Betaproteobacteria,2KUH5@206389|Rhodocyclales	206389|Rhodocyclales	J	Methionine aminopeptidase	map	-	3.4.11.18	ko:K01265	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_M24
LYD3_k127_4781920_1	292415.Tbd_0703	4.174e-81	278.0	COG1573@1|root,COG1573@2|Bacteria,1MW91@1224|Proteobacteria,2VQ3T@28216|Betaproteobacteria	28216|Betaproteobacteria	L	uracil-DNA glycosylase	-	-	3.2.2.27	ko:K21929	ko03410,map03410	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	UDG
LYD3_k127_4781920_0	265072.Mfla_1804	1.859e-224	722.0	COG0322@1|root,COG0322@2|Bacteria,1MV38@1224|Proteobacteria,2VIM4@28216|Betaproteobacteria,2KMD9@206350|Nitrosomonadales	206350|Nitrosomonadales	L	The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision	uvrC	-	-	ko:K03703	ko03420,map03420	-	-	-	ko00000,ko00001,ko03400	-	-	-	GIY-YIG,HHH_2,HHH_5,UVR,UvrC_HhH_N
LYD3_k127_4783630_5	710686.Mycsm_06441	2.494e-12	76.0	COG5207@1|root,COG5207@2|Bacteria,2IKW9@201174|Actinobacteria,23F96@1762|Mycobacteriaceae	201174|Actinobacteria	O	PFAM Zn-finger in ubiquitin-hydrolases and other protein	-	-	-	-	-	-	-	-	-	-	-	-	zf-UBP
LYD3_k127_4783630_4	1095769.CAHF01000022_gene357	6.464e-44	166.0	COG0526@1|root,COG0526@2|Bacteria,1MZ6D@1224|Proteobacteria,2VU4B@28216|Betaproteobacteria,474TA@75682|Oxalobacteraceae	28216|Betaproteobacteria	CO	Thioredoxin	-	-	-	ko:K03671	ko04621,ko05418,map04621,map05418	-	-	-	ko00000,ko00001,ko03110	-	-	-	Thioredoxin
LYD3_k127_4783630_3	1124983.PFLCHA0_c34540	9.183e-59	211.0	COG0454@1|root,COG0456@2|Bacteria,1PIGU@1224|Proteobacteria,1RVER@1236|Gammaproteobacteria,1YTWG@136843|Pseudomonas fluorescens group	1236|Gammaproteobacteria	K	Acetyltransferase (GNAT) family	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_4783630_2	189753.AXAS01000041_gene2534	6.894e-82	291.0	COG2984@1|root,COG2984@2|Bacteria,1MW5D@1224|Proteobacteria,2TSG1@28211|Alphaproteobacteria,3JSYZ@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	ABC transporter substrate binding protein	-	-	-	ko:K01989	-	M00247	-	-	ko00000,ko00002,ko02000	-	-	-	ABC_sub_bind
LYD3_k127_4783630_1	999541.bgla_1g26720	9.814e-112	366.0	COG1028@1|root,COG1028@2|Bacteria,1MWB6@1224|Proteobacteria,2VQQ5@28216|Betaproteobacteria,1K19Z@119060|Burkholderiaceae	28216|Betaproteobacteria	IQ	2-deoxy-D-gluconate 3-dehydrogenase	kduD	-	1.1.1.127	ko:K00065	ko00040,map00040	-	R01542	RC00089	ko00000,ko00001,ko01000	-	-	-	adh_short_C2
LYD3_k127_4783630_0	1286631.X805_34870	9.997e-144	462.0	COG3717@1|root,COG3717@2|Bacteria,1MU9D@1224|Proteobacteria,2VMXK@28216|Betaproteobacteria,1KMXC@119065|unclassified Burkholderiales	28216|Betaproteobacteria	G	Catalyzes the isomerization of 5-dehydro-4-deoxy-D- glucuronate to 3-deoxy-D-glycero-2,5-hexodiulosonate	kduI	-	5.3.1.17	ko:K01815	ko00040,map00040	-	R04383	RC00541	ko00000,ko00001,ko01000	-	-	-	KduI
LYD3_k127_4789307_1	1123392.AQWL01000002_gene2036	1.125e-135	440.0	COG1131@1|root,COG1131@2|Bacteria,1MUX3@1224|Proteobacteria,2VI3G@28216|Betaproteobacteria,1KRFG@119069|Hydrogenophilales	119069|Hydrogenophilales	V	AAA domain, putative AbiEii toxin, Type IV TA system	-	-	-	ko:K09695	ko02010,map02010	M00252	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.102	-	-	ABC_tran
LYD3_k127_4789307_3	388051.AUFE01000089_gene5591	5.989e-95	336.0	COG3181@1|root,COG3181@2|Bacteria,1R43T@1224|Proteobacteria,2VHTA@28216|Betaproteobacteria	28216|Betaproteobacteria	S	protein conserved in bacteria	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_4789307_2	762376.AXYL_05754	9.183e-100	333.0	COG0235@1|root,COG0235@2|Bacteria,1MWP9@1224|Proteobacteria,2VNWD@28216|Betaproteobacteria,3T5QG@506|Alcaligenaceae	28216|Betaproteobacteria	G	Class II Aldolase and Adducin N-terminal domain	-	-	-	-	-	-	-	-	-	-	-	-	Aldolase_II
LYD3_k127_4789307_4	93220.LV28_16605	5.634e-64	229.0	COG2945@1|root,COG2945@2|Bacteria,1MUDY@1224|Proteobacteria,2VJ8M@28216|Betaproteobacteria,1K1NE@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Alpha beta	-	-	-	ko:K07018	-	-	-	-	ko00000	-	-	-	Hydrolase_4,Peptidase_S15
LYD3_k127_4789307_5	76114.ebB118	4.861e-46	171.0	COG3411@1|root,COG3411@2|Bacteria,1MZR4@1224|Proteobacteria,2VTY1@28216|Betaproteobacteria,2KWNM@206389|Rhodocyclales	206389|Rhodocyclales	C	ferredoxin	-	-	-	-	-	-	-	-	-	-	-	-	2Fe-2S_thioredx
LYD3_k127_4789307_0	1163617.SCD_n02863	1.3e-157	516.0	COG1132@1|root,COG1132@2|Bacteria,1MUBM@1224|Proteobacteria,2VHAN@28216|Betaproteobacteria	28216|Betaproteobacteria	V	Involved in lipid A export and possibly also in glycerophospholipid export and for biogenesis of the outer membrane. Transmembrane domains (TMD) form a pore in the inner membrane and the ATP-binding domain (NBD) is responsible for energy generation	msbA	-	-	ko:K02021,ko:K11085	ko02010,map02010	-	-	-	ko00000,ko00001,ko01000,ko02000	3.A.1.106,3.A.1.110,3.A.1.112,3.A.1.113,3.A.1.117,3.A.1.21	-	-	ABC_membrane,ABC_tran
LYD3_k127_4790606_2	1304875.JAFZ01000001_gene1432	3.278e-70	244.0	COG2414@1|root,COG2414@2|Bacteria,3TAIF@508458|Synergistetes	508458|Synergistetes	C	PFAM Aldehyde ferredoxin oxidoreductase	-	-	1.2.7.5	ko:K03738	ko00030,ko01100,ko01120,ko01200,map00030,map01100,map01120,map01200	M00309	R08571	RC00242	ko00000,ko00001,ko00002,ko01000	-	-	-	AFOR_C,AFOR_N
LYD3_k127_4790606_1	187272.Mlg_1296	3.997e-89	314.0	COG0446@1|root,COG0446@2|Bacteria,1NR3M@1224|Proteobacteria,1RN6P@1236|Gammaproteobacteria,1X2DA@135613|Chromatiales	135613|Chromatiales	S	Pyridine nucleotide-disulphide oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	Pyr_redox_2
LYD3_k127_4790606_3	305700.B447_01746	9.252e-06	51.0	COG2104@1|root,COG2104@2|Bacteria,1N9VX@1224|Proteobacteria,2VVYE@28216|Betaproteobacteria,2KZAT@206389|Rhodocyclales	206389|Rhodocyclales	H	Mut7-C ubiquitin	-	-	-	-	-	-	-	-	-	-	-	-	ThiS
LYD3_k127_4790606_0	365046.Rta_06070	5.094e-111	366.0	COG0397@1|root,COG0397@2|Bacteria,1MVK3@1224|Proteobacteria,2VH7S@28216|Betaproteobacteria,4AB0E@80864|Comamonadaceae	28216|Betaproteobacteria	S	Belongs to the UPF0061 (SELO) family	-	-	-	-	-	-	-	-	-	-	-	-	UPF0061
LYD3_k127_4809660_2	76114.ebA843	3.942e-120	424.0	COG0536@1|root,COG0536@2|Bacteria,1MUGZ@1224|Proteobacteria,2VIM2@28216|Betaproteobacteria,2KUQC@206389|Rhodocyclales	206389|Rhodocyclales	S	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control	obg	-	-	ko:K03979	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	GTP1_OBG,MMR_HSR1
LYD3_k127_4809660_1	395494.Galf_0529	6.545e-124	417.0	COG1807@1|root,COG1807@2|Bacteria,1PUE3@1224|Proteobacteria,2VHPU@28216|Betaproteobacteria,44VIR@713636|Nitrosomonadales	28216|Betaproteobacteria	M	Dolichyl-phosphate-mannose-protein mannosyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	PMT_2
LYD3_k127_4809660_3	1288494.EBAPG3_23510	3.651e-31	124.0	COG0254@1|root,COG0254@2|Bacteria,1MZ69@1224|Proteobacteria,2VW5V@28216|Betaproteobacteria,373G1@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Binds the 23S rRNA	rpmE	-	-	ko:K02909	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L31
LYD3_k127_4809660_0	1163617.SCD_n00735	2.446e-228	709.0	COG1158@1|root,COG1158@2|Bacteria,1MUCF@1224|Proteobacteria,2VJ2E@28216|Betaproteobacteria	28216|Betaproteobacteria	K	Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA-dependent ATPase activity, and release of the mRNA from the DNA template	rho	-	-	ko:K03628	ko03018,map03018	-	-	-	ko00000,ko00001,ko03019,ko03021	-	-	-	ATP-synt_ab,Rho_N,Rho_RNA_bind
LYD3_k127_4813970_0	1163617.SCD_n01500	1.592e-249	777.0	COG0567@1|root,COG0567@2|Bacteria,1MVBF@1224|Proteobacteria,2VJ0G@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Dehydrogenase E1 component	sucA	-	1.2.4.2	ko:K00164	ko00020,ko00310,ko00380,ko01100,ko01110,ko01120,ko01130,ko01200,map00020,map00310,map00380,map01100,map01110,map01120,map01130,map01200	M00009,M00011,M00032	R00621,R01933,R01940,R03316,R08549	RC00004,RC00027,RC00627,RC02743,RC02833,RC02883	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	2-oxogl_dehyd_N,E1_dh,OxoGdeHyase_C,Transket_pyr
LYD3_k127_4828028_0	85643.Tmz1t_2790	1.751e-120	394.0	COG0525@1|root,COG0525@2|Bacteria,1MV7B@1224|Proteobacteria,2VH5Z@28216|Betaproteobacteria,2KVPX@206389|Rhodocyclales	206389|Rhodocyclales	J	amino acids such as threonine, to avoid such errors, it has a posttransfer editing activity that hydrolyzes mischarged Thr-tRNA(Val) in a tRNA-dependent manner	valS	-	6.1.1.9	ko:K01873	ko00970,map00970	M00359,M00360	R03665	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	Anticodon_1,Val_tRNA-synt_C,tRNA-synt_1
LYD3_k127_4828028_1	215803.DB30_2841	3.418e-110	379.0	COG0477@1|root,COG2814@2|Bacteria,1QTX0@1224|Proteobacteria,42PT2@68525|delta/epsilon subdivisions,2WJ6Q@28221|Deltaproteobacteria,2YWF8@29|Myxococcales	28221|Deltaproteobacteria	EGP	Transmembrane secretion effector	-	-	-	-	-	-	-	-	-	-	-	-	MFS_3
LYD3_k127_4828028_2	748247.AZKH_p0450	6.7e-90	301.0	COG0705@1|root,COG0705@2|Bacteria,1RJYI@1224|Proteobacteria,2W1AJ@28216|Betaproteobacteria,2KXTX@206389|Rhodocyclales	206389|Rhodocyclales	S	Rhomboid family	-	-	-	-	-	-	-	-	-	-	-	-	Rhomboid
LYD3_k127_4828028_3	243233.MCA0908	1.449e-25	108.0	COG0464@1|root,COG0464@2|Bacteria,1MW4T@1224|Proteobacteria,1RPUI@1236|Gammaproteobacteria	1236|Gammaproteobacteria	O	COG0464 ATPases of the AAA class	-	-	-	-	-	-	-	-	-	-	-	-	AAA
LYD3_k127_4831304_0	640511.BC1002_4998	4.749e-232	726.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VHFI@28216|Betaproteobacteria,1K4D2@119060|Burkholderiaceae	28216|Betaproteobacteria	V	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family	-	-	-	ko:K18138	ko01501,ko01503,map01501,map01503	M00647,M00699,M00718	-	-	ko00000,ko00001,ko00002,ko01504,ko02000	2.A.6.2	-	-	ACR_tran
LYD3_k127_4831304_1	365044.Pnap_3685	6.633e-150	484.0	COG0119@1|root,COG1804@1|root,COG0119@2|Bacteria,COG1804@2|Bacteria,1MU5U@1224|Proteobacteria,2VJB6@28216|Betaproteobacteria,4AAJC@80864|Comamonadaceae	28216|Betaproteobacteria	C	L-carnitine dehydratase bile acid-inducible protein F	-	-	2.8.3.16	ko:K07749	-	-	-	-	ko00000,ko01000	-	-	-	CoA_transf_3,HMGL-like
LYD3_k127_4831304_2	378806.STAUR_3596	1.273e-23	103.0	COG1021@1|root,COG1021@2|Bacteria,1NSN8@1224|Proteobacteria,42NP6@68525|delta/epsilon subdivisions,2WIZK@28221|Deltaproteobacteria,2YTV7@29|Myxococcales	28221|Deltaproteobacteria	Q	AMP-binding enzyme C-terminal domain	-	-	2.7.7.58,6.3.2.14	ko:K02363	ko01053,ko01110,ko01130,map01053,map01110,map01130	-	R07644	RC00162,RC03046	ko00000,ko00001,ko01000,ko01008	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_4834618_2	1123261.AXDW01000013_gene3515	4.135e-72	254.0	COG2199@1|root,COG3706@2|Bacteria,1MZV7@1224|Proteobacteria,1RPR0@1236|Gammaproteobacteria,1X4VF@135614|Xanthomonadales	135614|Xanthomonadales	T	MASE2 domain	-	-	2.7.7.65	ko:K18968	ko02026,map02026	-	-	-	ko00000,ko00001,ko01000,ko02000	9.B.34.1.2	-	-	GGDEF,MASE2
LYD3_k127_4834618_5	794903.OPIT5_04255	2.617e-06	53.0	COG1409@1|root,COG5563@1|root,COG1409@2|Bacteria,COG5563@2|Bacteria,46TBR@74201|Verrucomicrobia	74201|Verrucomicrobia	S	Hydrolyzes cAMP to 5'-AMP. Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4834618_3	1120953.AUBH01000002_gene1524	1.332e-59	227.0	COG1020@1|root,COG1020@2|Bacteria,1N7HY@1224|Proteobacteria,1RQJX@1236|Gammaproteobacteria,464B6@72275|Alteromonadaceae	1236|Gammaproteobacteria	Q	COG1020 Non-ribosomal peptide synthetase modules and related proteins	-	-	-	-	-	-	-	-	-	-	-	-	DUF1298,WES_acyltransf
LYD3_k127_4834618_4	378806.STAUR_0249	2.143e-22	108.0	COG2885@1|root,COG2885@2|Bacteria,1R4CA@1224|Proteobacteria,42RIU@68525|delta/epsilon subdivisions,2WNC0@28221|Deltaproteobacteria	28221|Deltaproteobacteria	M	Belongs to the ompA family	-	-	-	-	-	-	-	-	-	-	-	-	DUF4892,OmpA
LYD3_k127_4834618_0	519989.ECTPHS_02359	5.414e-235	748.0	COG3605@1|root,COG3605@2|Bacteria,1QTTV@1224|Proteobacteria,1T1H2@1236|Gammaproteobacteria,1WWDE@135613|Chromatiales	135613|Chromatiales	T	Belongs to the PEP-utilizing enzyme family	-	-	2.7.3.9	ko:K08484	ko02060,map02060	-	-	-	ko00000,ko00001,ko01000,ko02000	-	-	-	GAF,GAF_2,PEP-utilisers_N,PEP-utilizers,PEP-utilizers_C
LYD3_k127_4834618_1	1122604.JONR01000034_gene399	2.608e-83	299.0	COG1633@1|root,COG3369@1|root,COG3592@1|root,COG1633@2|Bacteria,COG3369@2|Bacteria,COG3592@2|Bacteria,1RCN9@1224|Proteobacteria,1SZZ4@1236|Gammaproteobacteria,1X90I@135614|Xanthomonadales	135614|Xanthomonadales	S	Divergent 4Fe-4S mono-cluster	-	-	-	-	-	-	-	-	-	-	-	-	Fer4_19,zf-CDGSH
LYD3_k127_4847982_1	1120792.JAFV01000001_gene808	7.736e-114	394.0	COG0624@1|root,COG0624@2|Bacteria,1MVBR@1224|Proteobacteria,2TUHU@28211|Alphaproteobacteria,36Z8X@31993|Methylocystaceae	28211|Alphaproteobacteria	E	Peptidase dimerisation domain	-	-	-	-	-	-	-	-	-	-	-	-	M20_dimer,Peptidase_M20
LYD3_k127_4847982_0	1038862.KB893843_gene417	1.295e-149	488.0	COG0624@1|root,COG0624@2|Bacteria,1MVUX@1224|Proteobacteria,2TR5X@28211|Alphaproteobacteria,3JRW7@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	E	Peptidase family M28	MA20_34775	-	3.5.3.9	ko:K02083	ko00230,ko01120,map00230,map01120	-	R02423	RC00064	ko00000,ko00001,ko01000,ko01002	-	-	-	M20_dimer,Peptidase_M20,Peptidase_M28
LYD3_k127_4847982_3	1073999.BN137_525	2.183e-70	248.0	COG1414@1|root,COG1414@2|Bacteria,1MUNW@1224|Proteobacteria,1RY9N@1236|Gammaproteobacteria	1236|Gammaproteobacteria	K	transcriptional regulator	iclR	GO:0003674,GO:0003676,GO:0003677,GO:0003700,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006355,GO:0008150,GO:0009889,GO:0009890,GO:0009892,GO:0010468,GO:0010556,GO:0010558,GO:0010605,GO:0010629,GO:0019219,GO:0019222,GO:0031323,GO:0031324,GO:0031326,GO:0031327,GO:0042802,GO:0044424,GO:0044444,GO:0044464,GO:0045892,GO:0045934,GO:0048519,GO:0048523,GO:0050789,GO:0050794,GO:0051171,GO:0051172,GO:0051252,GO:0051253,GO:0060255,GO:0065007,GO:0080090,GO:0097159,GO:0140110,GO:1901363,GO:1902679,GO:1903506,GO:1903507,GO:2000112,GO:2000113,GO:2001141	-	ko:K13641	-	-	-	-	ko00000,ko03000	-	-	-	HTH_IclR,IclR
LYD3_k127_4847982_4	883126.HMPREF9710_05134	2.09e-12	78.0	COG3187@1|root,COG3187@2|Bacteria	2|Bacteria	O	response to heat	-	-	-	ko:K03668,ko:K09914	-	-	-	-	ko00000	-	-	-	META
LYD3_k127_4847982_2	1449065.JMLL01000010_gene767	9.909e-103	340.0	COG1024@1|root,COG1024@2|Bacteria,1MWZC@1224|Proteobacteria,2TRYS@28211|Alphaproteobacteria,43IN0@69277|Phyllobacteriaceae	28211|Alphaproteobacteria	I	Belongs to the enoyl-CoA hydratase isomerase family	MA20_15895	-	4.2.1.17	ko:K01692	ko00071,ko00280,ko00281,ko00310,ko00360,ko00362,ko00380,ko00410,ko00627,ko00640,ko00650,ko00903,ko00930,ko01100,ko01110,ko01120,ko01130,ko01212,map00071,map00280,map00281,map00310,map00360,map00362,map00380,map00410,map00627,map00640,map00650,map00903,map00930,map01100,map01110,map01120,map01130,map01212	M00032,M00087	R03026,R03045,R04137,R04170,R04204,R04224,R04738,R04740,R04744,R04746,R04749,R05595,R06411,R06412,R06942,R08093	RC00831,RC00834,RC01086,RC01095,RC01098,RC01103,RC01217,RC02115	ko00000,ko00001,ko00002,ko01000	-	-	-	ECH_1
LYD3_k127_4853848_2	292415.Tbd_2158	1.008e-49	178.0	COG1656@1|root,COG1656@2|Bacteria,1R442@1224|Proteobacteria,2VN8Q@28216|Betaproteobacteria,1KS9T@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Mut7-C ubiquitin	-	-	-	ko:K09122	-	-	-	-	ko00000	-	-	-	Mut7-C,Ub-Mut7C
LYD3_k127_4853848_0	1095769.CAHF01000022_gene48	9.863e-114	374.0	COG1295@1|root,COG1295@2|Bacteria,1NH82@1224|Proteobacteria,2VJW7@28216|Betaproteobacteria,472BA@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Virulence factor BrkB	-	-	-	-	-	-	-	-	-	-	-	-	Virul_fac_BrkB
LYD3_k127_4853848_1	859657.RPSI07_1664	2.163e-96	322.0	COG0317@1|root,COG0317@2|Bacteria,1MU44@1224|Proteobacteria,2VHSK@28216|Betaproteobacteria,1K1HX@119060|Burkholderiaceae	28216|Betaproteobacteria	KT	In eubacteria ppGpp (guanosine 3'-diphosphate 5-' diphosphate) is a mediator of the stringent response that coordinates a variety of cellular activities in response to changes in nutritional abundance	relA	-	2.7.6.5	ko:K00951	ko00230,map00230	-	R00429	RC00002,RC00078	ko00000,ko00001,ko01000	-	-	-	ACT_4,HD_4,RelA_SpoT,TGS
LYD3_k127_4857048_5	1266925.JHVX01000004_gene1270	7.112e-22	97.0	COG0617@1|root,COG0617@2|Bacteria,1MVCS@1224|Proteobacteria,2VHY5@28216|Betaproteobacteria,372U2@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Adds poly(A) tail to the 3' end of many RNAs, which usually targets these RNAs for decay. Plays a significant role in the global control of gene expression, through influencing the rate of transcript degradation, and in the general RNA quality control	pcnB	-	2.7.7.19	ko:K00970	ko03018,map03018	-	-	-	ko00000,ko00001,ko01000,ko03019	-	-	-	PolyA_pol,PolyA_pol_RNAbd,PolyA_pol_arg_C
LYD3_k127_4857048_3	1437824.BN940_15146	9.272e-39	150.0	COG0801@1|root,COG0801@2|Bacteria,1MZH8@1224|Proteobacteria,2VSE2@28216|Betaproteobacteria,3T430@506|Alcaligenaceae	28216|Betaproteobacteria	H	7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK)	folK	-	2.7.6.3	ko:K00950	ko00790,ko01100,map00790,map01100	M00126,M00841	R03503	RC00002,RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	HPPK
LYD3_k127_4857048_2	1266925.JHVX01000004_gene1272	4.935e-84	283.0	COG1428@1|root,COG1428@2|Bacteria,1RC50@1224|Proteobacteria,2VQ8U@28216|Betaproteobacteria,372TN@32003|Nitrosomonadales	28216|Betaproteobacteria	F	Deoxynucleoside kinase	dgk	-	-	-	-	-	-	-	-	-	-	-	dNK
LYD3_k127_4857048_0	1349767.GJA_497	1.34e-94	321.0	COG0413@1|root,COG0413@2|Bacteria,1MU3B@1224|Proteobacteria,2VHZ0@28216|Betaproteobacteria,4731T@75682|Oxalobacteraceae	28216|Betaproteobacteria	H	Catalyzes the reversible reaction in which hydroxymethyl group from 5,10-methylenetetrahydrofolate is transferred onto alpha-ketoisovalerate to form ketopantoate	panB	-	2.1.2.11	ko:K00606	ko00770,ko01100,ko01110,map00770,map01100,map01110	M00119	R01226	RC00022,RC00200	ko00000,ko00001,ko00002,ko01000	-	-	-	Pantoate_transf
LYD3_k127_4857048_1	1304883.KI912532_gene3166	8.135e-90	318.0	COG0414@1|root,COG0414@2|Bacteria,1MV1S@1224|Proteobacteria,2VHF1@28216|Betaproteobacteria,2KV4C@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the condensation of pantoate with beta-alanine in an ATP-dependent reaction via a pantoyl-adenylate intermediate	panC	-	6.3.2.1	ko:K01918	ko00410,ko00770,ko01100,ko01110,map00410,map00770,map01100,map01110	M00119	R02473	RC00096,RC00141	ko00000,ko00001,ko00002,ko01000	-	-	-	Pantoate_ligase
LYD3_k127_4857048_4	296591.Bpro_1427	3.686e-31	128.0	COG3181@1|root,COG3181@2|Bacteria,1R454@1224|Proteobacteria,2VMAQ@28216|Betaproteobacteria,4ADD7@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_4875121_3	296591.Bpro_2897	3.043e-70	246.0	COG1741@1|root,COG1741@2|Bacteria,1MWIP@1224|Proteobacteria,2VHUJ@28216|Betaproteobacteria,4ACJ5@80864|Comamonadaceae	28216|Betaproteobacteria	S	Belongs to the pirin family	-	-	-	ko:K06911	-	-	-	-	ko00000	-	-	-	Pirin,Pirin_C
LYD3_k127_4875121_0	1218084.BBJK01000066_gene4940	5.654e-169	555.0	COG0148@1|root,COG0148@2|Bacteria,1PIEJ@1224|Proteobacteria,2W0R9@28216|Betaproteobacteria,1K309@119060|Burkholderiaceae	28216|Betaproteobacteria	G	Catalyzes the reversible conversion of 2- phosphoglycerate into phosphoenolpyruvate. It is essential for the degradation of carbohydrates via glycolysis	-	-	-	-	-	-	-	-	-	-	-	-	Enolase_C,Enolase_N
LYD3_k127_4875121_1	1122132.AQYH01000004_gene1605	9.041e-110	365.0	COG4857@1|root,COG4857@2|Bacteria,1MXBW@1224|Proteobacteria,2TR0Z@28211|Alphaproteobacteria,4BD98@82115|Rhizobiaceae	28211|Alphaproteobacteria	S	Phosphotransferase enzyme family	-	-	-	-	-	-	-	-	-	-	-	-	APH
LYD3_k127_4875121_5	580332.Slit_1429	2.281e-06	53.0	2DGZJ@1|root,2ZXVD@2|Bacteria,1PA8Z@1224|Proteobacteria,2W5F6@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4875121_2	375286.mma_0064	3.157e-76	263.0	COG1192@1|root,COG1192@2|Bacteria,1N3GB@1224|Proteobacteria,2VSGK@28216|Betaproteobacteria,473WT@75682|Oxalobacteraceae	28216|Betaproteobacteria	D	ATPase MipZ	-	-	-	ko:K03496	-	-	-	-	ko00000,ko03036,ko04812	-	-	-	AAA_31
LYD3_k127_4875121_4	522306.CAP2UW1_4176	2.872e-58	211.0	COG1207@1|root,COG1207@2|Bacteria,1MUPH@1224|Proteobacteria,2VH54@28216|Betaproteobacteria,1KPU6@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	M	Catalyzes the last two sequential reactions in the de novo biosynthetic pathway for UDP-N-acetylglucosamine (UDP- GlcNAc). The C-terminal domain catalyzes the transfer of acetyl group from acetyl coenzyme A to glucosamine-1-phosphate (GlcN-1-P) to produce N-acetylglucosamine-1-phosphate (GlcNAc-1-P), which is converted into UDP-GlcNAc by the transfer of uridine 5- monophosphate (from uridine 5-triphosphate), a reaction catalyzed by the N-terminal domain	glmU	-	2.3.1.157,2.7.7.23	ko:K04042	ko00520,ko01100,ko01130,map00520,map01100,map01130	M00362	R00416,R05332	RC00002,RC00004,RC00166	ko00000,ko00001,ko00002,ko01000	-	-	-	Hexapep,Hexapep_2,NTP_transf_3
LYD3_k127_4881083_1	228410.NE2374	6.907e-72	247.0	COG0567@1|root,COG0567@2|Bacteria,1MVBF@1224|Proteobacteria,2VJ0G@28216|Betaproteobacteria,371W3@32003|Nitrosomonadales	28216|Betaproteobacteria	C	dehydrogenase, E1 component	sucA	-	1.2.4.2	ko:K00164	ko00020,ko00310,ko00380,ko01100,ko01110,ko01120,ko01130,ko01200,map00020,map00310,map00380,map01100,map01110,map01120,map01130,map01200	M00009,M00011,M00032	R00621,R01933,R01940,R03316,R08549	RC00004,RC00027,RC00627,RC02743,RC02833,RC02883	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	2-oxogl_dehyd_N,E1_dh,OxoGdeHyase_C,Transket_pyr
LYD3_k127_4881083_0	977880.RALTA_A1869	1.567e-107	357.0	COG0508@1|root,COG0508@2|Bacteria,1MUJD@1224|Proteobacteria,2VIEM@28216|Betaproteobacteria,1K1V0@119060|Burkholderiaceae	28216|Betaproteobacteria	C	The 2-oxoglutarate dehydrogenase complex catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and CO(2)	sucB	-	2.3.1.61	ko:K00658	ko00020,ko00310,ko01100,ko01110,ko01120,ko01130,ko01200,map00020,map00310,map01100,map01110,map01120,map01130,map01200	M00009,M00011,M00032	R02570,R02571,R08549	RC00004,RC02727,RC02833	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	2-oxoacid_dh,Biotin_lipoyl,E3_binding
LYD3_k127_4894205_1	1265502.KB905937_gene2548	1.939e-79	276.0	COG1893@1|root,COG1893@2|Bacteria,1P0AW@1224|Proteobacteria,2VKYM@28216|Betaproteobacteria,4AA9N@80864|Comamonadaceae	28216|Betaproteobacteria	H	Catalyzes the NADPH-dependent reduction of ketopantoate into pantoic acid	apbA	-	1.1.1.169	ko:K00077	ko00770,ko01100,ko01110,map00770,map01100,map01110	M00119	R02472	RC00726	ko00000,ko00001,ko00002,ko01000	-	-	-	ApbA,ApbA_C
LYD3_k127_4894205_0	1000565.METUNv1_00215	2.796e-201	629.0	COG0208@1|root,COG0208@2|Bacteria,1MWUS@1224|Proteobacteria,2VI7U@28216|Betaproteobacteria,2KUGC@206389|Rhodocyclales	206389|Rhodocyclales	F	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides	-	-	1.17.4.1	ko:K00526	ko00230,ko00240,ko01100,map00230,map00240,map01100	M00053	R02017,R02018,R02019,R02024	RC00613	ko00000,ko00001,ko00002,ko01000,ko03400	-	-	-	Ribonuc_red_sm
LYD3_k127_4923771_0	395019.Bmul_0141	0.0	1073.0	COG0403@1|root,COG1003@1|root,COG0403@2|Bacteria,COG1003@2|Bacteria,1MUDP@1224|Proteobacteria,2VHQ6@28216|Betaproteobacteria,1K105@119060|Burkholderiaceae	28216|Betaproteobacteria	E	The glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor	gcvP	-	1.4.4.2	ko:K00281	ko00260,ko00630,ko01100,ko01110,ko01130,ko01200,map00260,map00630,map01100,map01110,map01130,map01200	M00532	R01221,R03425	RC00022,RC00929,RC02834,RC02880	ko00000,ko00001,ko00002,ko01000	-	-	-	GDC-P
LYD3_k127_4926626_2	977880.RALTA_B0793	1.404e-94	321.0	COG0600@1|root,COG0600@2|Bacteria,1MWDJ@1224|Proteobacteria,2VJM9@28216|Betaproteobacteria,1K0NT@119060|Burkholderiaceae	28216|Betaproteobacteria	P	binding-protein-dependent transport systems inner membrane component	tauC	-	-	ko:K02050,ko:K15552	ko00920,ko02010,map00920,map02010	M00188,M00435	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.16,3.A.1.17,3.A.1.17.1,3.A.1.17.4	-	-	BPD_transp_1
LYD3_k127_4926626_1	543728.Vapar_3845	3.697e-111	381.0	COG4525@1|root,COG4525@2|Bacteria,1QTUA@1224|Proteobacteria,2VIKA@28216|Betaproteobacteria,4AA0C@80864|Comamonadaceae	28216|Betaproteobacteria	P	ABC transporter	tauB	-	3.6.3.36	ko:K10831	ko00920,ko02010,map00920,map02010	M00435	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.17.1,3.A.1.17.4	-	-	ABC_tran
LYD3_k127_4926626_0	795666.MW7_1217	4.892e-120	395.0	COG4521@1|root,COG4521@2|Bacteria,1MVH2@1224|Proteobacteria,2VINJ@28216|Betaproteobacteria,1JZVK@119060|Burkholderiaceae	28216|Betaproteobacteria	P	taurine ABC transporter	tauA1	-	-	ko:K15551	ko00920,ko02010,map00920,map02010	M00435	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.17.1,3.A.1.17.4	-	-	NMT1
LYD3_k127_4926626_3	1120983.KB894572_gene2862	9.079e-64	222.0	COG0161@1|root,COG0161@2|Bacteria,1MU2N@1224|Proteobacteria,2TQND@28211|Alphaproteobacteria,1JN20@119043|Rhodobiaceae	28211|Alphaproteobacteria	E	Aminotransferase class-III	bioA	-	2.6.1.18	ko:K00822	ko00280,ko00410,ko00640,ko01100,map00280,map00410,map00640,map01100	-	R00907,R04187	RC00008,RC00062,RC00160	ko00000,ko00001,ko01000,ko01007	-	-	-	Aminotran_3
LYD3_k127_4931164_2	688245.CtCNB1_2865	1.256e-16	80.0	COG0436@1|root,COG0436@2|Bacteria,1MW0Z@1224|Proteobacteria,2VJD8@28216|Betaproteobacteria,4ABBG@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM aminotransferase, class I and II	ybdL	-	2.6.1.88	ko:K14287	-	-	R08618	RC00006,RC00025	ko00000,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_4931164_0	1485544.JQKP01000003_gene282	4.766e-184	586.0	COG1055@1|root,COG1055@2|Bacteria,1MUX4@1224|Proteobacteria,2WFEH@28216|Betaproteobacteria	28216|Betaproteobacteria	P	Arsenical pump membrane protein	-	-	-	-	-	-	-	-	-	-	-	-	CitMHS
LYD3_k127_4931164_3	864069.MicloDRAFT_00010570	0.0003026	49.0	COG0517@1|root,COG0517@2|Bacteria,1NY5H@1224|Proteobacteria,2U1GG@28211|Alphaproteobacteria,1JVJ7@119045|Methylobacteriaceae	28211|Alphaproteobacteria	S	PFAM CBS domain containing protein	-	-	-	-	-	-	-	-	-	-	-	-	BON,CBS
LYD3_k127_4931164_1	1003200.AXXA_25235	3.941e-69	243.0	COG3836@1|root,COG3836@2|Bacteria,1MUSG@1224|Proteobacteria	1224|Proteobacteria	G	Belongs to the HpcH HpaI aldolase family	-	-	4.1.2.52,4.1.2.53	ko:K02510,ko:K12660	ko00051,ko00350,ko01120,map00051,map00350,map01120	-	R01645,R01647,R02261	RC00307,RC00435,RC00572,RC00574,RC03057	ko00000,ko00001,ko01000	-	-	-	HpcH_HpaI
LYD3_k127_4935968_0	713586.KB900536_gene2492	9.574e-154	511.0	COG0711@1|root,COG1216@1|root,COG0711@2|Bacteria,COG1216@2|Bacteria,1QP7Y@1224|Proteobacteria,1RR12@1236|Gammaproteobacteria,1WXJ8@135613|Chromatiales	135613|Chromatiales	M	glycosyl transferase family 2	-	-	-	ko:K20444	-	-	-	-	ko00000,ko01000,ko01005,ko02000	4.D.1.3	GT2,GT4	-	Glyco_trans_1_4,Glycos_transf_2
LYD3_k127_4935968_3	1123073.KB899241_gene3172	3.638e-61	226.0	COG2227@1|root,COG2227@2|Bacteria,1N6SE@1224|Proteobacteria,1SCC1@1236|Gammaproteobacteria,1X6AF@135614|Xanthomonadales	135614|Xanthomonadales	H	Methyltransferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_11
LYD3_k127_4935968_2	497321.C664_10657	3.812e-76	264.0	COG3568@1|root,COG3568@2|Bacteria,1R99W@1224|Proteobacteria,2VPVB@28216|Betaproteobacteria,2KUNI@206389|Rhodocyclales	206389|Rhodocyclales	L	Endonuclease Exonuclease phosphatase	-	-	-	-	-	-	-	-	-	-	-	-	Exo_endo_phos
LYD3_k127_4935968_1	762376.AXYL_00131	8.454e-118	381.0	COG0395@1|root,COG0395@2|Bacteria,1MUWS@1224|Proteobacteria,2VMF7@28216|Betaproteobacteria,3T1XR@506|Alcaligenaceae	28216|Betaproteobacteria	G	ABC-type sugar transport system, permease component	ycjP_1	-	-	ko:K02026,ko:K05815	ko02010,map02010	M00198,M00207	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.1,3.A.1.1.3	-	-	BPD_transp_1
LYD3_k127_4954298_9	768671.ThimaDRAFT_1507	1.343e-06	59.0	2E2CQ@1|root,32XHP@2|Bacteria,1N13G@1224|Proteobacteria,1S9SS@1236|Gammaproteobacteria,1WYUI@135613|Chromatiales	135613|Chromatiales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4954298_3	269084.syc2069_c	1.153e-122	408.0	COG2148@1|root,COG2148@2|Bacteria,1G67M@1117|Cyanobacteria,1H45N@1129|Synechococcus	1117|Cyanobacteria	M	Bacterial sugar transferase	-	-	-	ko:K03606	ko05111,map05111	-	-	-	ko00000,ko00001	-	-	-	Bac_transf,CoA_binding_3
LYD3_k127_4954298_2	1286631.X805_13900	8.307e-123	405.0	COG0438@1|root,COG0489@1|root,COG0438@2|Bacteria,COG0489@2|Bacteria,1MVI9@1224|Proteobacteria,2VN0C@28216|Betaproteobacteria,1KJ2W@119065|unclassified Burkholderiales	28216|Betaproteobacteria	D	CobQ/CobB/MinD/ParA nucleotide binding domain	ywqD	-	2.7.10.1	ko:K08252,ko:K16692	-	-	-	-	ko00000,ko01000,ko01001	-	-	-	AAA_31,CbiA,GNVR,Wzz
LYD3_k127_4954298_7	330214.NIDE2988	4.456e-52	199.0	COG0438@1|root,COG0438@2|Bacteria,3J19R@40117|Nitrospirae	40117|Nitrospirae	M	Evidence 3 Function proposed based on presence of conserved amino acid motif, structural feature or limited homology	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_4,Glycos_transf_1
LYD3_k127_4954298_5	637390.AFOH01000006_gene978	2.453e-66	235.0	COG0438@1|root,COG1092@1|root,COG0438@2|Bacteria,COG1092@2|Bacteria	2|Bacteria	J	Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA	rlmD	-	2.1.1.190,2.1.1.191	ko:K03215,ko:K06969,ko:K14292	ko03013,map03013	-	-	-	ko00000,ko00001,ko01000,ko03009	-	-	-	Glycos_transf_1,Methyltransf_11,Methyltransf_21,Methyltransf_9,tRNA_U5-meth_tr
LYD3_k127_4954298_4	485916.Dtox_4137	7.326e-77	276.0	COG1682@1|root,COG1682@2|Bacteria,1V1J2@1239|Firmicutes,25B57@186801|Clostridia,26743@186807|Peptococcaceae	186801|Clostridia	GM	PFAM ABC-2 type transporter	pyrL	-	-	ko:K01992,ko:K09690	ko02010,map02010	M00250,M00254	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1,3.A.1.103	-	-	ABC2_membrane
LYD3_k127_4954298_0	1205753.A989_03721	9.044e-149	512.0	COG1216@1|root,COG1216@2|Bacteria,1MX5Z@1224|Proteobacteria,1RMDY@1236|Gammaproteobacteria,1X3ND@135614|Xanthomonadales	135614|Xanthomonadales	M	Glycosyltransferases involved in cell wall biogenesis	-	-	-	ko:K20444	-	-	-	-	ko00000,ko01000,ko01005,ko02000	4.D.1.3	GT2,GT4	-	Glycos_transf_2
LYD3_k127_4954298_1	1212548.B381_06606	1.99e-126	426.0	COG1134@1|root,COG1134@2|Bacteria,1MWWC@1224|Proteobacteria,1RN2T@1236|Gammaproteobacteria,1Z32E@136846|Pseudomonas stutzeri group	1236|Gammaproteobacteria	GM	COG1134 ABC-type polysaccharide polyol phosphate transport system, ATPase component	-	-	-	ko:K09691	ko02010,map02010	M00250	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.103	-	-	ABC_tran,Wzt_C
LYD3_k127_4954298_8	1212548.B381_06601	7.395e-48	186.0	COG0438@1|root,COG1216@1|root,COG3551@1|root,COG0438@2|Bacteria,COG1216@2|Bacteria,COG3551@2|Bacteria,1N72Z@1224|Proteobacteria,1RRQJ@1236|Gammaproteobacteria,1Z2MQ@136846|Pseudomonas stutzeri group	1236|Gammaproteobacteria	M	COG0463 Glycosyltransferases involved in cell wall biogenesis	yibD	GO:0003674,GO:0003824,GO:0005575,GO:0006950,GO:0007154,GO:0008150,GO:0008194,GO:0009267,GO:0009605,GO:0009987,GO:0009991,GO:0015020,GO:0016020,GO:0016036,GO:0016740,GO:0016757,GO:0016758,GO:0031667,GO:0031668,GO:0031669,GO:0033554,GO:0042594,GO:0050896,GO:0051716,GO:0071496	-	ko:K19354	-	-	-	-	ko00000,ko01000,ko01003,ko01005	-	GT2	-	Glycos_transf_2
LYD3_k127_4954298_6	478741.JAFS01000002_gene1025	3.85e-62	225.0	COG2831@1|root,COG2831@2|Bacteria,46ZH4@74201|Verrucomicrobia,37H2W@326457|unclassified Verrucomicrobia	74201|Verrucomicrobia	U	hemolysin activation secretion protein	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_4959651_3	381666.H16_A3250	4.824e-55	195.0	COG0536@1|root,COG0536@2|Bacteria,1MUGZ@1224|Proteobacteria,2VIM2@28216|Betaproteobacteria,1K3UZ@119060|Burkholderiaceae	28216|Betaproteobacteria	S	An essential GTPase which binds GTP, GDP and possibly (p)ppGpp with moderate affinity, with high nucleotide exchange rates and a fairly low GTP hydrolysis rate. Plays a role in control of the cell cycle, stress response, ribosome biogenesis and in those bacteria that undergo differentiation, in morphogenesis control	obg	-	-	ko:K03979	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	GTP1_OBG,MMR_HSR1
LYD3_k127_4959651_1	1163617.SCD_n02109	3.631e-161	517.0	COG0263@1|root,COG0263@2|Bacteria,1MUBG@1224|Proteobacteria,2VISR@28216|Betaproteobacteria	28216|Betaproteobacteria	F	Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate	proB	-	2.7.2.11	ko:K00931	ko00330,ko00332,ko01100,ko01130,ko01230,map00330,map00332,map01100,map01130,map01230	M00015	R00239	RC00002,RC00043	ko00000,ko00001,ko00002,ko01000	-	-	-	AA_kinase,PUA
LYD3_k127_4959651_2	1485544.JQKP01000003_gene125	1.812e-89	299.0	COG0494@1|root,COG0494@2|Bacteria,1RDGJ@1224|Proteobacteria,2VIDX@28216|Betaproteobacteria,44VS0@713636|Nitrosomonadales	28216|Betaproteobacteria	L	Accelerates the degradation of transcripts by removing pyrophosphate from the 5'-end of triphosphorylated RNA, leading to a more labile monophosphorylated state that can stimulate subsequent ribonuclease cleavage	nudH	-	-	ko:K08311	ko03018,map03018	-	R10816	RC00002	ko00000,ko00001,ko01000,ko03019	-	-	-	NUDIX
LYD3_k127_4959651_0	622637.KE124774_gene3894	1.206e-268	861.0	COG3243@1|root,COG3243@2|Bacteria,1MU68@1224|Proteobacteria,2TR7S@28211|Alphaproteobacteria,36XN8@31993|Methylocystaceae	28211|Alphaproteobacteria	I	Poly-beta-hydroxybutyrate polymerase N terminal	-	-	-	ko:K03821	ko00650,map00650	-	R04254	RC00004	ko00000,ko00001,ko01000	-	-	-	PHBC_N,PhaC_N
LYD3_k127_4959651_4	1449350.OCH239_11270	2.535e-08	55.0	COG0514@1|root,COG0514@2|Bacteria,1MVGG@1224|Proteobacteria,2TS8B@28211|Alphaproteobacteria,4KK6F@93682|Roseivivax	28211|Alphaproteobacteria	L	DNA helicase	recQ	-	3.6.4.12	ko:K03654	ko03018,map03018	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	DEAD,HRDC,Helicase_C,RQC,RecQ_Zn_bind
LYD3_k127_4987015_0	522306.CAP2UW1_3015	8.684e-234	728.0	COG2704@1|root,COG2704@2|Bacteria,1MVHH@1224|Proteobacteria,2VI3D@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane	-	-	-	ko:K07791,ko:K07792	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.13.1	-	-	DcuA_DcuB
LYD3_k127_4987015_1	224911.27353343	1.903e-44	174.0	COG3203@1|root,COG3203@2|Bacteria,1Q96Q@1224|Proteobacteria,2U9II@28211|Alphaproteobacteria,3K2DE@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	M	outer membrane porin, OprD family	-	-	-	-	-	-	-	-	-	-	-	-	OprD
LYD3_k127_4998668_1	292415.Tbd_0257	1.141e-72	253.0	COG0064@1|root,COG0064@2|Bacteria,1MUKG@1224|Proteobacteria,2VI3A@28216|Betaproteobacteria,1KRG5@119069|Hydrogenophilales	119069|Hydrogenophilales	J	Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp- tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln)	gatB	-	6.3.5.6,6.3.5.7	ko:K02434	ko00970,ko01100,map00970,map01100	-	R03905,R04212	RC00010	ko00000,ko00001,ko01000,ko03029	-	-	-	GatB_N,GatB_Yqey
LYD3_k127_4998668_0	762966.HMPREF9439_01863	2.288e-286	894.0	COG0488@1|root,COG0488@2|Bacteria,1MU37@1224|Proteobacteria,2VHES@28216|Betaproteobacteria,4PQKW@995019|Sutterellaceae	28216|Betaproteobacteria	S	ABC transporter	yjjK	-	3.6.3.25	ko:K06020	-	-	-	-	ko00000,ko01000	-	-	-	ABC_tran,ABC_tran_Xtn
LYD3_k127_4999048_1	1122604.JONR01000061_gene2112	5.719e-50	181.0	2C1VH@1|root,2Z7Z3@2|Bacteria,1MY5B@1224|Proteobacteria,1RRVD@1236|Gammaproteobacteria,1X6GP@135614|Xanthomonadales	135614|Xanthomonadales	S	3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase	-	-	-	-	-	-	-	-	-	-	-	-	Kdo_hydroxy
LYD3_k127_4999048_0	279714.FuraDRAFT_2824	5.621e-138	448.0	COG0407@1|root,COG0407@2|Bacteria,1MUG1@1224|Proteobacteria,2VHC2@28216|Betaproteobacteria,2KPF4@206351|Neisseriales	206351|Neisseriales	H	Catalyzes the decarboxylation of four acetate groups of uroporphyrinogen-III to yield coproporphyrinogen-III	hemE	-	4.1.1.37	ko:K01599	ko00860,ko01100,ko01110,map00860,map01100,map01110	M00121	R03197,R04972	RC00872	ko00000,ko00001,ko00002,ko01000	-	-	-	URO-D
LYD3_k127_4999048_2	765912.Thimo_2397	1.146e-39	158.0	COG1198@1|root,COG1198@2|Bacteria,1MUUZ@1224|Proteobacteria,1RPZ7@1236|Gammaproteobacteria,1WX60@135613|Chromatiales	135613|Chromatiales	L	Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA	priA	-	-	ko:K04066	ko03440,map03440	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	DEAD,Helicase_C,ResIII
LYD3_k127_5012593_0	296591.Bpro_1676	5.974e-102	346.0	COG0500@1|root,COG2226@2|Bacteria,1R79J@1224|Proteobacteria	1224|Proteobacteria	Q	Methyltransferase domain	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_11,Methyltransf_25
LYD3_k127_5012593_1	1205680.CAKO01000002_gene3078	1.683e-50	182.0	COG0491@1|root,COG0607@1|root,COG0491@2|Bacteria,COG0607@2|Bacteria,1MURA@1224|Proteobacteria,2TR1F@28211|Alphaproteobacteria,2JPND@204441|Rhodospirillales	204441|Rhodospirillales	P	Metallo-beta-lactamase superfamily	-	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B
LYD3_k127_5021619_1	1266925.JHVX01000009_gene53	1.361e-187	595.0	COG0247@1|root,COG0247@2|Bacteria,1MWTK@1224|Proteobacteria,2VJ6T@28216|Betaproteobacteria,372WA@32003|Nitrosomonadales	28216|Betaproteobacteria	C	Cysteine-rich domain	-	-	-	-	-	-	-	-	-	-	-	-	CCG,DUF3501
LYD3_k127_5021619_2	395495.Lcho_2674	3.539e-73	250.0	COG1592@1|root,COG1592@2|Bacteria,1R9WG@1224|Proteobacteria,2VQ31@28216|Betaproteobacteria,1KKQS@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	Rubrerythrin	-	-	-	-	-	-	-	-	-	-	-	-	Rubrerythrin
LYD3_k127_5021619_3	497321.C664_03465	3.785e-59	212.0	COG2197@1|root,COG2197@2|Bacteria,1MWGM@1224|Proteobacteria,2WEW6@28216|Betaproteobacteria,2KZVC@206389|Rhodocyclales	206389|Rhodocyclales	K	COG2197 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain	-	-	-	-	-	-	-	-	-	-	-	-	GerE,Response_reg
LYD3_k127_5021619_0	472759.Nhal_1891	9.158e-226	740.0	COG0784@1|root,COG1352@1|root,COG2201@1|root,COG2433@1|root,COG5002@1|root,COG0784@2|Bacteria,COG1352@2|Bacteria,COG2201@2|Bacteria,COG2433@2|Bacteria,COG5002@2|Bacteria,1NC9X@1224|Proteobacteria,1SVEC@1236|Gammaproteobacteria	1236|Gammaproteobacteria	T	Histidine kinase	-	-	2.1.1.80,3.1.1.61	ko:K13924	ko02020,ko02030,map02020,map02030	M00506	-	-	ko00000,ko00001,ko00002,ko01000,ko02022,ko02035	-	-	-	CheB_methylest,CheR,CheR_N,HATPase_c,HisKA,PAS_10,PAS_4,Response_reg
LYD3_k127_5021619_4	765420.OSCT_1623	3.242e-36	138.0	COG2225@1|root,COG2225@2|Bacteria,2G63R@200795|Chloroflexi,374XP@32061|Chloroflexia	32061|Chloroflexia	H	TIGRFAM malate synthase A	-	-	2.3.3.9	ko:K01638	ko00620,ko00630,ko01100,ko01110,ko01120,ko01200,map00620,map00630,map01100,map01110,map01120,map01200	M00012	R00472	RC00004,RC00308,RC02747	ko00000,ko00001,ko00002,ko01000	-	-	-	Malate_synthase
LYD3_k127_5050216_0	62928.azo3211	1.404e-159	511.0	COG0280@1|root,COG0281@1|root,COG0280@2|Bacteria,COG0281@2|Bacteria,1MU0A@1224|Proteobacteria,2VIYB@28216|Betaproteobacteria,2KV7P@206389|Rhodocyclales	206389|Rhodocyclales	C	Malic enzyme	-	-	1.1.1.40	ko:K00029	ko00620,ko00710,ko01100,ko01120,ko01200,map00620,map00710,map01100,map01120,map01200	M00169,M00172	R00216	RC00105	ko00000,ko00001,ko00002,ko01000	-	-	-	Malic_M,PTA_PTB,malic
LYD3_k127_5058567_1	1100721.ALKO01000017_gene1688	3.09e-81	274.0	COG0446@1|root,COG0446@2|Bacteria,1N5MC@1224|Proteobacteria,2VK35@28216|Betaproteobacteria,4AA1P@80864|Comamonadaceae	28216|Betaproteobacteria	S	Flavocytochrome c sulphide dehydrogenase, flavin-binding	soxF	-	1.8.2.1,1.8.5.4	ko:K05301,ko:K17218	ko00920,ko01100,ko01120,map00920,map01100,map01120	-	R00528,R10152	RC00168,RC03155	ko00000,ko00001,ko01000	-	-	-	FCSD-flav_bind,Pyr_redox_2,TAT_signal
LYD3_k127_5058567_0	1266925.JHVX01000012_gene1687	0.0	1179.0	COG0542@1|root,COG0542@2|Bacteria,1MV8B@1224|Proteobacteria,2VH1K@28216|Betaproteobacteria,372BV@32003|Nitrosomonadales	28216|Betaproteobacteria	O	Belongs to the ClpA ClpB family	clpA	-	-	ko:K03694	-	-	-	-	ko00000,ko03110	-	-	-	AAA,AAA_2,ClpB_D2-small,Clp_N
LYD3_k127_5058567_2	62928.azo1133	1.658e-42	157.0	COG2127@1|root,COG2127@2|Bacteria,1MZU8@1224|Proteobacteria,2VSCU@28216|Betaproteobacteria,2KWPQ@206389|Rhodocyclales	206389|Rhodocyclales	S	Involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation	clpS	-	-	ko:K06891	-	-	-	-	ko00000	-	-	-	ClpS
LYD3_k127_5076231_0	84531.JMTZ01000002_gene778	3.082e-120	396.0	COG1075@1|root,COG1075@2|Bacteria,1R88U@1224|Proteobacteria,1S0MF@1236|Gammaproteobacteria,1X6S0@135614|Xanthomonadales	135614|Xanthomonadales	S	PGAP1-like protein	-	-	-	-	-	-	-	-	-	-	-	-	PGAP1
LYD3_k127_5076231_1	420662.Mpe_A3416	2.826e-23	99.0	COG0203@1|root,COG0203@2|Bacteria,1RCWN@1224|Proteobacteria,2VR6I@28216|Betaproteobacteria,1KKYA@119065|unclassified Burkholderiales	28216|Betaproteobacteria	J	Ribosomal protein L17	rplQ	-	-	ko:K02879	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L17
LYD3_k127_5108923_1	1157708.KB907454_gene2877	1.296e-94	319.0	COG1014@1|root,COG1014@2|Bacteria,1MV7Q@1224|Proteobacteria,2VMSN@28216|Betaproteobacteria,4ABYN@80864|Comamonadaceae	28216|Betaproteobacteria	C	Pyruvate ferredoxin/flavodoxin oxidoreductase	-	-	1.2.7.8	ko:K00180	-	-	-	-	br01601,ko00000,ko01000	-	-	-	POR
LYD3_k127_5108923_2	391038.Bphy_5277	3.267e-87	314.0	COG2055@1|root,COG2055@2|Bacteria,1MWQY@1224|Proteobacteria,2VKG2@28216|Betaproteobacteria,1K3IK@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Belongs to the LDH2 MDH2 oxidoreductase family	ybiC	-	-	ko:K13574	-	-	-	-	ko00000,ko01000	-	-	-	Ldh_2
LYD3_k127_5108923_3	316067.Geob_0197	7.315e-59	225.0	COG3090@1|root,COG3090@2|Bacteria,1PJHP@1224|Proteobacteria,437CU@68525|delta/epsilon subdivisions,2X2IG@28221|Deltaproteobacteria,43VTG@69541|Desulfuromonadales	28221|Deltaproteobacteria	G	Tripartite ATP-independent periplasmic transporters, DctQ component	-	-	-	-	-	-	-	-	-	-	-	-	DctQ
LYD3_k127_5108923_0	316067.Geob_0196	4.223e-217	683.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,42M9N@68525|delta/epsilon subdivisions,2WIZR@28221|Deltaproteobacteria,43TDT@69541|Desulfuromonadales	28221|Deltaproteobacteria	G	Tripartite ATP-independent periplasmic transporter, DctM component	-	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_5108923_4	76114.ebA5362	4.341e-49	178.0	COG1638@1|root,COG1638@2|Bacteria,1MVHI@1224|Proteobacteria,2VHPP@28216|Betaproteobacteria,2KVZ4@206389|Rhodocyclales	206389|Rhodocyclales	G	Bacterial extracellular solute-binding protein, family 7	-	-	-	-	-	-	-	-	-	-	-	-	DctP
LYD3_k127_5112544_3	640081.Dsui_3455	4.356e-40	158.0	COG2206@1|root,COG2206@2|Bacteria,1MV37@1224|Proteobacteria,2VJ21@28216|Betaproteobacteria,2KVJ8@206389|Rhodocyclales	206389|Rhodocyclales	T	Domain present in phytochromes and cGMP-specific phosphodiesterases.	-	-	3.1.4.17	ko:K01120	ko00230,map00230	-	R00191,R01234	RC00296	ko00000,ko00001,ko01000	-	-	-	FHA,GAF,HD,HD_5
LYD3_k127_5112544_2	1238182.C882_2632	5.482e-51	188.0	COG3651@1|root,COG3651@2|Bacteria,1RH68@1224|Proteobacteria,2U9D3@28211|Alphaproteobacteria,2JTF9@204441|Rhodospirillales	204441|Rhodospirillales	S	Uncharacterized protein conserved in bacteria (DUF2237)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2237
LYD3_k127_5112544_1	522306.CAP2UW1_0167	3.607e-164	534.0	COG0845@1|root,COG0845@2|Bacteria,1MU78@1224|Proteobacteria,2VINC@28216|Betaproteobacteria,1KQRX@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	M	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family	acrA	-	-	ko:K03585	ko01501,ko01503,map01501,map01503	M00646,M00647,M00699,M00718	-	-	ko00000,ko00001,ko00002,ko01504,ko02000,ko03036	2.A.6.2,8.A.1.6	-	-	HlyD_D23
LYD3_k127_5112544_0	909663.KI867150_gene2885	2.496e-230	720.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,42MF6@68525|delta/epsilon subdivisions,2WJVV@28221|Deltaproteobacteria,2MQUP@213462|Syntrophobacterales	28221|Deltaproteobacteria	U	Hydrophobe amphiphile Efflux-1 (HAE1) family	-	-	-	ko:K03296,ko:K18138	ko01501,ko01503,map01501,map01503	M00647,M00699,M00718	-	-	ko00000,ko00001,ko00002,ko01504,ko02000	2.A.6.2	-	-	ACR_tran
LYD3_k127_5149042_1	292415.Tbd_2547	3.147e-45	167.0	2CB8R@1|root,2Z90U@2|Bacteria,1R4DV@1224|Proteobacteria,2VZZT@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5149042_3	1163617.SCD_n02320	3.478e-12	74.0	2DRY7@1|root,33DN9@2|Bacteria,1NJPX@1224|Proteobacteria,2VYHU@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5149042_2	1123392.AQWL01000003_gene304	5.739e-31	130.0	COG1974@1|root,COG1974@2|Bacteria,1QUQ8@1224|Proteobacteria,2VWS0@28216|Betaproteobacteria,1KT1X@119069|Hydrogenophilales	119069|Hydrogenophilales	KT	Peptidase S24-like	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_S24
LYD3_k127_5149042_0	864051.BurJ1DRAFT_3342	8.555e-100	332.0	COG1018@1|root,COG1018@2|Bacteria,1REP4@1224|Proteobacteria,2VPWB@28216|Betaproteobacteria	28216|Betaproteobacteria	C	2Fe-2S iron-sulfur cluster binding domain	-	-	1.17.1.1	ko:K00523	ko00520,map00520	-	R03391,R03392	RC00230	ko00000,ko00001,ko01000	-	-	-	FAD_binding_6,Fer2
LYD3_k127_5167797_0	338969.Rfer_0985	5.107e-139	445.0	COG0747@1|root,COG0747@2|Bacteria,1MWBH@1224|Proteobacteria,2VHY1@28216|Betaproteobacteria,4AC8X@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM extracellular solute-binding protein, family 5	-	-	-	ko:K02035	ko02024,map02024	M00239	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5	-	-	SBP_bac_5
LYD3_k127_5167797_1	338969.Rfer_0986	1.277e-108	353.0	COG1012@1|root,COG1012@2|Bacteria,1MU1V@1224|Proteobacteria,2VHNV@28216|Betaproteobacteria,4AB55@80864|Comamonadaceae	28216|Betaproteobacteria	C	belongs to the aldehyde dehydrogenase family	-	-	1.2.1.8	ko:K00130	ko00260,ko01100,map00260,map01100	M00555	R02565,R02566	RC00080	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_5181062_2	1500894.JQNN01000001_gene1126	7.49e-40	158.0	COG1562@1|root,COG1562@2|Bacteria,1MX4W@1224|Proteobacteria,2VJ13@28216|Betaproteobacteria,473N2@75682|Oxalobacteraceae	28216|Betaproteobacteria	I	Squalene/phytoene synthase	hpnD	-	2.5.1.32,2.5.1.99	ko:K02291	ko00906,ko01062,ko01100,ko01110,map00906,map01062,map01100,map01110	M00097	R02065,R04218,R07270,R10177	RC00362,RC01101,RC02869	ko00000,ko00001,ko00002,ko01000,ko01006	-	-	-	SQS_PSY
LYD3_k127_5181062_1	243365.CV_2979	2.306e-90	306.0	COG1562@1|root,COG1562@2|Bacteria,1N6J2@1224|Proteobacteria,2VIZC@28216|Betaproteobacteria,2KQEW@206351|Neisseriales	206351|Neisseriales	I	squalene synthase HpnC	hpnC	-	-	-	-	-	-	-	-	-	-	-	SQS_PSY
LYD3_k127_5181062_0	292415.Tbd_1678	1.825e-131	432.0	COG0544@1|root,COG0544@2|Bacteria,1MUJP@1224|Proteobacteria,2VING@28216|Betaproteobacteria,1KS9D@119069|Hydrogenophilales	119069|Hydrogenophilales	O	Bacterial trigger factor protein (TF)	-	GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0044424,GO:0044464	-	ko:K03545	-	-	-	-	ko00000	-	-	-	FKBP_C,Trigger_C,Trigger_N
LYD3_k127_5181062_3	292415.Tbd_1677	9.663e-16	79.0	COG0740@1|root,COG0740@2|Bacteria,1MV46@1224|Proteobacteria,2VHAZ@28216|Betaproteobacteria,1KRDV@119069|Hydrogenophilales	119069|Hydrogenophilales	OU	Cleaves peptides in various proteins in a process that requires ATP hydrolysis. Has a chymotrypsin-like activity. Plays a major role in the degradation of misfolded proteins	clpP	-	3.4.21.92	ko:K01358	ko04112,ko04212,map04112,map04212	-	-	-	ko00000,ko00001,ko01000,ko01002	-	-	-	CLP_protease
LYD3_k127_5181129_3	864051.BurJ1DRAFT_2100	1.337e-68	243.0	COG0122@1|root,COG0122@2|Bacteria,1MX9C@1224|Proteobacteria,2VHMQ@28216|Betaproteobacteria,1KJ78@119065|unclassified Burkholderiales	28216|Betaproteobacteria	L	endonuclease III	alkA	-	3.2.2.21	ko:K01247	ko03410,map03410	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	HhH-GPD
LYD3_k127_5181129_0	204773.HEAR0880	8.172e-168	536.0	COG2334@1|root,COG2334@2|Bacteria,1MU2Q@1224|Proteobacteria,2VI9A@28216|Betaproteobacteria,4730X@75682|Oxalobacteraceae	28216|Betaproteobacteria	F	A protein kinase that phosphorylates Ser and Thr residues. Probably acts to suppress the effects of stress linked to accumulation of reactive oxygen species. Probably involved in the extracytoplasmic stress response	srkA	-	-	-	-	-	-	-	-	-	-	-	APH
LYD3_k127_5181129_2	323848.Nmul_A2508	3.082e-93	312.0	COG1136@1|root,COG1136@2|Bacteria,1MVSQ@1224|Proteobacteria,2VHAQ@28216|Betaproteobacteria,372YT@32003|Nitrosomonadales	28216|Betaproteobacteria	V	Part of the ABC transporter complex LolCDE involved in the translocation of mature outer membrane-directed lipoproteins, from the inner membrane to the periplasmic chaperone, LolA. Responsible for the formation of the LolA-lipoprotein complex in an ATP-dependent manner	lolD	-	-	ko:K09810	ko02010,map02010	M00255	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.125	-	-	ABC_tran
LYD3_k127_5181129_1	757424.Hsero_2778	1.056e-146	477.0	COG4591@1|root,COG4591@2|Bacteria,1MVV7@1224|Proteobacteria,2VH7C@28216|Betaproteobacteria,473AI@75682|Oxalobacteraceae	28216|Betaproteobacteria	M	MacB-like periplasmic core domain	lolC	-	-	ko:K09808	ko02010,map02010	M00255	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.125	-	-	FtsX,MacB_PCD
LYD3_k127_5213443_1	1266925.JHVX01000004_gene1166	1.244e-33	134.0	COG2969@1|root,COG2969@2|Bacteria,1MZ2Q@1224|Proteobacteria,2VSGG@28216|Betaproteobacteria,373ID@32003|Nitrosomonadales	28216|Betaproteobacteria	S	stringent starvation protein B	sspB	-	-	ko:K03600	-	-	-	-	ko00000,ko03021	-	-	-	SspB
LYD3_k127_5213443_0	1163617.SCD_n00604	1.838e-101	336.0	COG0625@1|root,COG0625@2|Bacteria,1MXJD@1224|Proteobacteria,2VIAW@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Glutathione S-transferase	sspA	-	-	ko:K03599	-	-	-	-	ko00000,ko02000,ko03021	1.A.12.3.1	-	-	GST_C,GST_C_2,GST_N,GST_N_3
LYD3_k127_5213443_2	1163617.SCD_n00603	1.435e-19	88.0	COG2857@1|root,COG2857@2|Bacteria,1QFU2@1224|Proteobacteria,2VIR6@28216|Betaproteobacteria	28216|Betaproteobacteria	P	Cytochrome C1	petC	-	-	ko:K00413	ko00190,ko01100,ko02020,ko04260,ko04714,ko04932,ko05010,ko05012,ko05016,map00190,map01100,map02020,map04260,map04714,map04932,map05010,map05012,map05016	M00151,M00152	-	-	ko00000,ko00001,ko00002	-	-	-	Cytochrom_C1
LYD3_k127_5280216_1	1120999.JONM01000009_gene357	1.135e-245	786.0	COG1530@1|root,COG1530@2|Bacteria,1MV65@1224|Proteobacteria,2VIE5@28216|Betaproteobacteria,2KQ1G@206351|Neisseriales	206351|Neisseriales	J	Endoribonuclease that plays a central role in RNA processing and decay. Required for the maturation of 5S and 16S rRNAs and the majority of tRNAs. Also involved in the degradation of most mRNAs	rne	-	3.1.26.12	ko:K08300	ko03018,map03018	M00394	-	-	ko00000,ko00001,ko00002,ko01000,ko03009,ko03019	-	-	-	RNase_E_G,S1
LYD3_k127_5280216_7	748247.AZKH_2757	1.817e-38	156.0	COG0426@1|root,COG0426@2|Bacteria,1N4CQ@1224|Proteobacteria	1224|Proteobacteria	C	NADPH-dependent FMN reductase	-	-	-	-	-	-	-	-	-	-	-	-	FMN_red
LYD3_k127_5280216_5	1134474.O59_001296	3.701e-49	183.0	COG0394@1|root,COG0394@2|Bacteria,1RH90@1224|Proteobacteria,1S5X6@1236|Gammaproteobacteria,1FH7X@10|Cellvibrio	1236|Gammaproteobacteria	T	Low molecular weight phosphatase family	ptpA	-	3.1.3.48	ko:K01104	-	-	-	-	ko00000,ko01000	-	-	-	LMWPc
LYD3_k127_5280216_0	640081.Dsui_2434	0.0	1048.0	COG0556@1|root,COG0556@2|Bacteria,1MUFK@1224|Proteobacteria,2VHFQ@28216|Betaproteobacteria,2KVUA@206389|Rhodocyclales	206389|Rhodocyclales	L	damaged site, the DNA wraps around one UvrB monomer. DNA wrap is dependent on ATP binding by UvrB and probably causes local melting of the DNA helix, facilitating insertion of UvrB beta-hairpin between the DNA strands. Then UvrB probes one DNA strand for the presence of a lesion. If a lesion is found the UvrA subunits dissociate and the UvrB-DNA preincision complex is formed. This complex is subsequently bound by UvrC and the second UvrB is released. If no lesion is found, the DNA wraps around the other UvrB subunit that will check the other stand for damage	uvrB	-	-	ko:K03702	ko03420,map03420	-	-	-	ko00000,ko00001,ko03400	-	-	-	Helicase_C,ResIII,UVR,UvrB
LYD3_k127_5280216_2	1121033.AUCF01000001_gene2306	2.868e-226	716.0	COG1132@1|root,COG1132@2|Bacteria,1MUBM@1224|Proteobacteria,2TQMR@28211|Alphaproteobacteria,2JQAX@204441|Rhodospirillales	204441|Rhodospirillales	V	ABC-type multidrug transport system, ATPase and permease	-	-	-	ko:K06147	-	-	-	-	ko00000,ko02000	3.A.1.106,3.A.1.109,3.A.1.21	-	-	ABC_membrane,ABC_tran
LYD3_k127_5280216_6	1173029.JH980292_gene2278	7.724e-41	156.0	COG3788@1|root,COG3788@2|Bacteria,1G73Q@1117|Cyanobacteria,1HB5A@1150|Oscillatoriales	1117|Cyanobacteria	S	PFAM MAPEG family	-	GO:0003674,GO:0003824,GO:0004364,GO:0004601,GO:0004602,GO:0008150,GO:0008152,GO:0009636,GO:0009987,GO:0016209,GO:0016491,GO:0016684,GO:0016740,GO:0016765,GO:0042221,GO:0050896,GO:0051716,GO:0055114,GO:0070887,GO:0097237,GO:0098754,GO:0098869,GO:1990748	2.5.1.18	ko:K00799	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	MAPEG
LYD3_k127_5280216_3	204773.HEAR2244	9.321e-188	593.0	COG1448@1|root,COG1448@2|Bacteria,1MUT0@1224|Proteobacteria,2VHNH@28216|Betaproteobacteria,472KW@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Aminotransferase class I and II	tyrB	-	2.6.1.57	ko:K00832	ko00270,ko00350,ko00360,ko00400,ko00401,ko00950,ko00960,ko01100,ko01110,ko01130,ko01230,map00270,map00350,map00360,map00400,map00401,map00950,map00960,map01100,map01110,map01130,map01230	M00024,M00025,M00034,M00040	R00694,R00734,R01731,R07396,R10845	RC00006,RC00036	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_5280216_4	62928.azo1863	9.822e-70	249.0	COG0582@1|root,COG0582@2|Bacteria,1NWGS@1224|Proteobacteria,2VKWM@28216|Betaproteobacteria,2KV9M@206389|Rhodocyclales	206389|Rhodocyclales	L	Belongs to the 'phage' integrase family	-	-	-	-	-	-	-	-	-	-	-	-	Phage_integrase
LYD3_k127_528156_2	1144342.PMI40_02935	1.989e-51	189.0	292MF@1|root,2ZQ5C@2|Bacteria,1RCYR@1224|Proteobacteria,2VRDD@28216|Betaproteobacteria,472PX@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF3047)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3047
LYD3_k127_528156_1	1095769.CAHF01000013_gene3393	2.06e-96	324.0	COG0457@1|root,COG3914@1|root,COG0457@2|Bacteria,COG3914@2|Bacteria,1MVMG@1224|Proteobacteria,2VH3M@28216|Betaproteobacteria,475M3@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	Glycosyl transferase family 41	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,TPR_1,TPR_11,TPR_16,TPR_19,TPR_2,TPR_8
LYD3_k127_528156_0	709797.CSIRO_4158	1.087e-97	329.0	COG0457@1|root,COG3914@1|root,COG0457@2|Bacteria,COG3914@2|Bacteria,1MVMG@1224|Proteobacteria,2TRVB@28211|Alphaproteobacteria,3JR8N@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	O	Function proposed based on presence of conserved amino acid motif, structural feature or limited homology	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,Methyltransf_23,TPR_1,TPR_11,TPR_16,TPR_2,TPR_8
LYD3_k127_52839_0	469610.HMPREF0189_01885	6.683e-131	426.0	COG4775@1|root,COG4775@2|Bacteria,1MU0D@1224|Proteobacteria,2VHTX@28216|Betaproteobacteria,1KJ34@119065|unclassified Burkholderiales	28216|Betaproteobacteria	M	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane	bamA	-	-	ko:K07277	-	-	-	-	ko00000,ko02000,ko03029	1.B.33	-	-	Bac_surface_Ag,POTRA
LYD3_k127_52839_2	1265502.KB905935_gene3039	9.493e-56	199.0	COG2825@1|root,COG2825@2|Bacteria,1RD8X@1224|Proteobacteria,2VRZI@28216|Betaproteobacteria,4AE7E@80864|Comamonadaceae	28216|Betaproteobacteria	M	Belongs to the skp family	ompH	-	-	ko:K06142	-	-	-	-	ko00000	-	-	-	OmpH
LYD3_k127_52839_1	1005048.CFU_1341	1.326e-69	246.0	COG1044@1|root,COG1044@2|Bacteria,1MUX6@1224|Proteobacteria,2VHJR@28216|Betaproteobacteria,473BV@75682|Oxalobacteraceae	28216|Betaproteobacteria	M	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell	lpxD	-	2.3.1.191	ko:K02536	ko00540,ko01100,map00540,map01100	M00060	R04550	RC00039,RC00166	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Hexapep,Hexapep_2,LpxD
LYD3_k127_5294627_3	179408.Osc7112_6026	2.716e-12	66.0	COG2318@1|root,COG2318@2|Bacteria,1G5EJ@1117|Cyanobacteria,1HAJ9@1150|Oscillatoriales	1117|Cyanobacteria	S	PFAM DinB family	-	-	-	-	-	-	-	-	-	-	-	-	DinB
LYD3_k127_5294627_1	1163617.SCD_n00313	1.528e-99	334.0	COG4973@1|root,COG4973@2|Bacteria,1MUJJ@1224|Proteobacteria,2VJ5V@28216|Betaproteobacteria	28216|Betaproteobacteria	D	Belongs to the 'phage' integrase family. XerC subfamily	xerC	-	-	ko:K03733	-	-	-	-	ko00000,ko03036	-	-	-	Phage_int_SAM_1,Phage_integrase
LYD3_k127_5294627_2	1163617.SCD_n00312	2.953e-59	214.0	COG3159@1|root,COG3159@2|Bacteria,1R4BP@1224|Proteobacteria,2VPN6@28216|Betaproteobacteria	28216|Betaproteobacteria	S	protein conserved in bacteria	-	-	-	ko:K09921	-	-	-	-	ko00000	-	-	-	DUF484
LYD3_k127_5294627_0	1121035.AUCH01000012_gene2966	1.674e-120	398.0	COG0253@1|root,COG0253@2|Bacteria,1MWDH@1224|Proteobacteria,2VI0C@28216|Betaproteobacteria,2KV20@206389|Rhodocyclales	206389|Rhodocyclales	E	Catalyzes the stereoinversion of LL-2,6- diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso- DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan	dapF	-	5.1.1.7	ko:K01778	ko00300,ko01100,ko01110,ko01120,ko01130,ko01230,map00300,map01100,map01110,map01120,map01130,map01230	M00016,M00525,M00527	R02735	RC00302	ko00000,ko00001,ko00002,ko01000	-	-	-	DAP_epimerase
LYD3_k127_5305207_1	1458275.AZ34_11045	1.471e-163	518.0	COG3333@1|root,COG3333@2|Bacteria,1MUKR@1224|Proteobacteria,2VHKU@28216|Betaproteobacteria,4AAW5@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter TctA family	-	-	-	ko:K07793	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.80.1	-	-	TctA
LYD3_k127_5305207_0	296591.Bpro_2800	1.534e-231	724.0	COG0028@1|root,COG0028@2|Bacteria,1MXDW@1224|Proteobacteria,2VHRD@28216|Betaproteobacteria,4ABWV@80864|Comamonadaceae	28216|Betaproteobacteria	EH	Belongs to the TPP enzyme family	oxc	-	4.1.1.8	ko:K01577	ko00630,ko01100,map00630,map01100	-	R01908	RC00620	ko00000,ko00001,ko01000	-	-	-	TPP_enzyme_C,TPP_enzyme_M,TPP_enzyme_N
LYD3_k127_5325638_0	267608.RSc3106	2.942e-65	229.0	COG2165@1|root,COG2165@2|Bacteria,1RDX2@1224|Proteobacteria,2VR7N@28216|Betaproteobacteria,1KH6M@119060|Burkholderiaceae	28216|Betaproteobacteria	U	general secretion pathway protein G	gspG	-	-	ko:K02456	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	N_methyl,T2SSG
LYD3_k127_5325638_4	1439940.BAY1663_00162	3.268e-06	56.0	COG2165@1|root,COG2165@2|Bacteria,1N8AD@1224|Proteobacteria	1224|Proteobacteria	U	General secretion pathway protein	gspH	-	-	ko:K02457	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	GspH,N_methyl
LYD3_k127_5325638_3	76114.ebA4908	5.688e-20	102.0	COG2165@1|root,COG2165@2|Bacteria,1N0C2@1224|Proteobacteria,2VVJ8@28216|Betaproteobacteria,2KZP4@206389|Rhodocyclales	206389|Rhodocyclales	NU	Type II secretion system (T2SS), protein I	-	-	-	ko:K02458	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	N_methyl,T2SSI
LYD3_k127_5325638_1	1163408.UU9_12153	9.447e-34	144.0	COG4795@1|root,COG4795@2|Bacteria,1RJAE@1224|Proteobacteria,1S5ZZ@1236|Gammaproteobacteria,1X777@135614|Xanthomonadales	135614|Xanthomonadales	U	Type II secretion system (T2SS), protein J	-	-	-	-	-	-	-	-	-	-	-	-	N_methyl,T2SSJ
LYD3_k127_5325638_2	1163617.SCD_n01322	3.627e-22	109.0	COG3156@1|root,COG3156@2|Bacteria,1RBNV@1224|Proteobacteria,2VS9P@28216|Betaproteobacteria	28216|Betaproteobacteria	U	general secretion pathway protein K	gspK	-	-	ko:K02460	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	T2SSK
LYD3_k127_5356934_2	1123393.KB891329_gene936	6.14e-13	72.0	COG0516@1|root,COG0517@1|root,COG0516@2|Bacteria,COG0517@2|Bacteria,1MUJM@1224|Proteobacteria,2VH9X@28216|Betaproteobacteria,1KSJ1@119069|Hydrogenophilales	119069|Hydrogenophilales	F	Catalyzes the conversion of inosine 5'-phosphate (IMP) to xanthosine 5'-phosphate (XMP), the first committed and rate- limiting step in the de novo synthesis of guanine nucleotides, and therefore plays an important role in the regulation of cell growth	guaB	-	1.1.1.205	ko:K00088	ko00230,ko00983,ko01100,ko01110,map00230,map00983,map01100,map01110	M00050	R01130,R08240	RC00143,RC02207	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	CBS,IMPDH
LYD3_k127_5356934_0	1304883.KI912532_gene2392	1.619e-150	498.0	COG0760@1|root,COG0760@2|Bacteria,1MWV0@1224|Proteobacteria,2VJCZ@28216|Betaproteobacteria,2KUWP@206389|Rhodocyclales	206389|Rhodocyclales	O	peptidylprolyl isomerase	ppiD	-	5.2.1.8	ko:K03770	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	Rotamase_2,Rotamase_3,SurA_N_3
LYD3_k127_5356934_3	106648.BBLJ01000011_gene1070	2.791e-12	74.0	2DR59@1|root,33A7S@2|Bacteria,1NMH2@1224|Proteobacteria,1SIVW@1236|Gammaproteobacteria,3NS87@468|Moraxellaceae	1236|Gammaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5356934_1	640081.Dsui_2199	2.804e-36	139.0	COG0776@1|root,COG0776@2|Bacteria,1MZ5B@1224|Proteobacteria,2VU4V@28216|Betaproteobacteria,2KX2Q@206389|Rhodocyclales	206389|Rhodocyclales	L	Histone-like DNA-binding protein which is capable of wrapping DNA to stabilize it, and thus to prevent its denaturation under extreme environmental conditions	-	-	-	ko:K03530	-	-	-	-	ko00000,ko03032,ko03036,ko03400	-	-	-	Bac_DNA_binding
LYD3_k127_5356934_4	1144319.PMI16_01328	6.804e-08	55.0	COG0466@1|root,COG0466@2|Bacteria,1MUV2@1224|Proteobacteria,2VIAU@28216|Betaproteobacteria,473C8@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner	lon	-	3.4.21.53	ko:K01338	ko04112,map04112	-	-	-	ko00000,ko00001,ko01000,ko01002	-	-	-	AAA,LON_substr_bdg,Lon_C
LYD3_k127_5360201_0	365044.Pnap_3987	1.333e-194	621.0	2BXCB@1|root,2Z8QU@2|Bacteria,1MZ0I@1224|Proteobacteria,2VJPY@28216|Betaproteobacteria,4ACGR@80864|Comamonadaceae	28216|Betaproteobacteria	M	Participates in the degradation of poly-3- hydroxybutyrate (PHB). It works downstream of poly(3- hydroxybutyrate) depolymerase, hydrolyzing D(-)-3-hydroxybutyrate oligomers of various length (3HB-oligomers) into 3HB-monomers	phaZ2	-	3.1.1.22	ko:K07518	ko00650,map00650	-	R00048	RC00037,RC00094	ko00000,ko00001,ko01000	-	-	-	3HBOH
LYD3_k127_5362597_0	582744.Msip34_0542	1.819e-220	690.0	COG0542@1|root,COG0542@2|Bacteria,1MURH@1224|Proteobacteria,2VHYF@28216|Betaproteobacteria,2KM7M@206350|Nitrosomonadales	206350|Nitrosomonadales	O	Part of a stress-induced multi-chaperone system, it is involved in the recovery of the cell from heat-induced damage, in cooperation with DnaK, DnaJ and GrpE	clpB	-	-	ko:K03695	ko04213,map04213	-	-	-	ko00000,ko00001,ko03110	-	-	-	AAA,AAA_2,ClpB_D2-small,Clp_N
LYD3_k127_5362597_1	748280.NH8B_0017	1.989e-148	481.0	COG2041@1|root,COG2041@2|Bacteria,1MX9E@1224|Proteobacteria,2VK72@28216|Betaproteobacteria,2KSEM@206351|Neisseriales	206351|Neisseriales	C	Mo-co oxidoreductase dimerisation domain	sorA	-	-	-	-	-	-	-	-	-	-	-	Mo-co_dimer,Oxidored_molyb
LYD3_k127_5362597_5	279714.FuraDRAFT_3796	6.868e-15	86.0	COG2010@1|root,COG2010@2|Bacteria,1NJ3U@1224|Proteobacteria,2VYBQ@28216|Betaproteobacteria	28216|Betaproteobacteria	C	cytochrome C oxidoreductase subunit B	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5362597_3	1123257.AUFV01000003_gene1003	2.423e-89	305.0	COG0583@1|root,COG0583@2|Bacteria,1MWY0@1224|Proteobacteria,1RZ74@1236|Gammaproteobacteria,1X6N8@135614|Xanthomonadales	135614|Xanthomonadales	K	LysR substrate binding domain	-	-	-	-	-	-	-	-	-	-	-	-	HTH_1,LysR_substrate
LYD3_k127_5362597_4	626418.bglu_1g24400	2.271e-52	198.0	COG2227@1|root,COG2227@2|Bacteria,1RE7I@1224|Proteobacteria,2VR4M@28216|Betaproteobacteria,1K2UH@119060|Burkholderiaceae	28216|Betaproteobacteria	H	Methyltransferase type 11	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_11,Methyltransf_25,TehB
LYD3_k127_5362597_2	522306.CAP2UW1_1372	1.191e-110	375.0	COG0329@1|root,COG0329@2|Bacteria,1MUCM@1224|Proteobacteria,2VIQ4@28216|Betaproteobacteria,1KPQ5@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	E	Catalyzes the condensation of (S)-aspartate-beta- semialdehyde (S)-ASA and pyruvate to 4-hydroxy- tetrahydrodipicolinate (HTPA)	dapA	-	4.3.3.7	ko:K01714	ko00261,ko00300,ko01100,ko01110,ko01120,ko01130,ko01230,map00261,map00300,map01100,map01110,map01120,map01130,map01230	M00016,M00525,M00526,M00527	R10147	RC03062,RC03063	ko00000,ko00001,ko00002,ko01000	-	-	-	DHDPS
LYD3_k127_5379688_0	196367.JNFG01000029_gene8672	2.021e-172	546.0	COG1012@1|root,COG1012@2|Bacteria,1MU1V@1224|Proteobacteria,2VHNV@28216|Betaproteobacteria,1K2BC@119060|Burkholderiaceae	28216|Betaproteobacteria	C	belongs to the aldehyde dehydrogenase family	-	-	1.2.1.3	ko:K00128	ko00010,ko00053,ko00071,ko00280,ko00310,ko00330,ko00340,ko00380,ko00410,ko00561,ko00620,ko00625,ko00903,ko00981,ko01100,ko01110,ko01120,ko01130,map00010,map00053,map00071,map00280,map00310,map00330,map00340,map00380,map00410,map00561,map00620,map00625,map00903,map00981,map01100,map01110,map01120,map01130	M00135	R00264,R00631,R00710,R00904,R01752,R01986,R02549,R02678,R02940,R02957,R03283,R03869,R04065,R04506,R04903,R05050,R05237,R05238,R05286,R06366,R08146	RC00047,RC00071,RC00080,RC00186,RC00218,RC00242,RC00816,RC01500	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_5379688_3	1227349.C170_19437	9.334e-52	188.0	COG0454@1|root,COG0456@2|Bacteria,1VCET@1239|Firmicutes,4HDB3@91061|Bacilli,26VZ3@186822|Paenibacillaceae	91061|Bacilli	K	Acetyltransferase (GNAT) family	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1
LYD3_k127_5379688_2	1265502.KB905945_gene654	1.591e-115	386.0	COG1028@1|root,COG1028@2|Bacteria,1MUFX@1224|Proteobacteria,2VMB3@28216|Betaproteobacteria,4ACE3@80864|Comamonadaceae	28216|Betaproteobacteria	IQ	PFAM Short-chain dehydrogenase reductase SDR	tsaC	GO:0003674,GO:0003824,GO:0006725,GO:0008150,GO:0008152,GO:0009987,GO:0010130,GO:0016043,GO:0016491,GO:0016614,GO:0016616,GO:0018913,GO:0018915,GO:0022607,GO:0042537,GO:0043933,GO:0044085,GO:0044237,GO:0051259,GO:0051260,GO:0051262,GO:0051289,GO:0055114,GO:0065003,GO:0071704,GO:0071840,GO:1901360	1.1.1.100	ko:K00059	ko00061,ko00333,ko00780,ko01040,ko01100,ko01130,ko01212,map00061,map00333,map00780,map01040,map01100,map01130,map01212	M00083,M00572	R04533,R04534,R04536,R04543,R04566,R04953,R04964,R07759,R07763,R10116,R10120,R11671	RC00029,RC00117	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	adh_short_C2
LYD3_k127_5379688_4	296591.Bpro_4881	6.691e-44	165.0	COG3090@1|root,COG3090@2|Bacteria,1RAZ5@1224|Proteobacteria,2VQ8J@28216|Betaproteobacteria,4ADJZ@80864|Comamonadaceae	28216|Betaproteobacteria	G	Tripartite ATP-independent periplasmic transporter, DctQ	-	-	-	-	-	-	-	-	-	-	-	-	DctQ
LYD3_k127_5379688_1	296591.Bpro_4880	5.256e-141	470.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2VHJP@28216|Betaproteobacteria,4ACPD@80864|Comamonadaceae	28216|Betaproteobacteria	G	Trap dicarboxylate transporter, dctm subunit	-	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_5391632_3	1408473.JHXO01000004_gene77	1.489e-43	166.0	COG1014@1|root,COG1014@2|Bacteria,4NGN3@976|Bacteroidetes,2FP78@200643|Bacteroidia	976|Bacteroidetes	C	COG1014 Pyruvate ferredoxin oxidoreductase and related 2-oxoacid ferredoxin	iorB	-	1.2.7.8	ko:K00180	-	-	-	-	br01601,ko00000,ko01000	-	-	-	POR
LYD3_k127_5391632_0	1047013.AQSP01000098_gene2570	4.902e-153	506.0	COG4231@1|root,COG4231@2|Bacteria,2NP25@2323|unclassified Bacteria	2|Bacteria	C	Catalyzes the ferredoxin-dependent oxidative decarboxylation of arylpyruvates	iorA	-	1.2.7.8	ko:K00179,ko:K08941	-	M00598	-	-	br01601,ko00000,ko00002,ko00194,ko01000	-	-	-	POR_N,TPP_enzyme_C
LYD3_k127_5391632_4	1502770.JQMG01000001_gene1887	3.944e-38	151.0	COG1525@1|root,COG1525@2|Bacteria,1N145@1224|Proteobacteria,2VUA6@28216|Betaproteobacteria,2KN3G@206350|Nitrosomonadales	206350|Nitrosomonadales	L	Staphylococcal nuclease homologues	-	-	-	-	-	-	-	-	-	-	-	-	SNase
LYD3_k127_5391632_1	1156919.QWC_01125	2.721e-122	398.0	COG2301@1|root,COG2301@2|Bacteria,1MW0A@1224|Proteobacteria,2VQR0@28216|Betaproteobacteria,3T466@506|Alcaligenaceae	28216|Betaproteobacteria	H	Belongs to the HpcH HpaI aldolase family	-	-	4.1.3.34	ko:K01644	ko02020,map02020	-	R00362	RC00067,RC01118	ko00000,ko00001,ko01000	-	-	-	HpcH_HpaI
LYD3_k127_5391632_2	118168.MC7420_5234	6.45e-52	198.0	COG5563@1|root,COG5563@2|Bacteria,1GIA8@1117|Cyanobacteria,1HFHC@1150|Oscillatoriales	1117|Cyanobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5391632_6	1122605.KB893643_gene585	1.796e-14	81.0	2EIK5@1|root,33CBF@2|Bacteria,4NV2P@976|Bacteroidetes,1IU6J@117747|Sphingobacteriia	976|Bacteroidetes	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5391632_5	1123504.JQKD01000022_gene75	5.563e-19	96.0	COG0628@1|root,COG0628@2|Bacteria,1MXXU@1224|Proteobacteria,2VHC0@28216|Betaproteobacteria,4AC17@80864|Comamonadaceae	28216|Betaproteobacteria	T	Gaf domain protein	yhhT	-	-	-	-	-	-	-	-	-	-	-	AI-2E_transport,GAF_2
LYD3_k127_5406232_2	1286631.X805_35840	1.096e-54	196.0	COG2032@1|root,COG2032@2|Bacteria,1N26J@1224|Proteobacteria,2VT83@28216|Betaproteobacteria,1KMRI@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	Destroys radicals which are normally produced within the cells and which are toxic to biological systems	sodC	-	1.15.1.1	ko:K04565	ko04146,ko04213,ko05014,ko05016,ko05020,map04146,map04213,map05014,map05016,map05020	-	-	-	ko00000,ko00001,ko01000	-	-	-	Sod_Cu
LYD3_k127_5406232_3	1385515.N791_13335	2.33e-06	58.0	COG2032@1|root,COG2032@2|Bacteria,1N26J@1224|Proteobacteria,1S8WE@1236|Gammaproteobacteria,1X7BA@135614|Xanthomonadales	135614|Xanthomonadales	P	Destroys radicals which are normally produced within the cells and which are toxic to biological systems	-	-	-	-	-	-	-	-	-	-	-	-	Sod_Cu
LYD3_k127_5406232_1	1216976.AX27061_0726	3.731e-110	362.0	COG0623@1|root,COG0623@2|Bacteria,1MV05@1224|Proteobacteria,2VIHE@28216|Betaproteobacteria,3T1RP@506|Alcaligenaceae	28216|Betaproteobacteria	I	Enoyl- acyl-carrier-protein reductase NADH	fabI	-	1.3.1.10,1.3.1.9	ko:K00208	ko00061,ko00333,ko00780,ko01100,ko01130,ko01212,map00061,map00333,map00780,map01100,map01130,map01212	M00083,M00572	R01404,R04429,R04430,R04724,R04725,R04955,R04956,R04958,R04959,R04961,R04962,R04966,R04967,R04969,R04970,R07765,R10118,R10122,R11671	RC00052,RC00076,RC00120	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	adh_short_C2
LYD3_k127_5406232_0	1331060.RLDS_02650	1.396e-207	660.0	COG1233@1|root,COG1233@2|Bacteria,1MV2R@1224|Proteobacteria,2TSR0@28211|Alphaproteobacteria,2JZXX@204457|Sphingomonadales	204457|Sphingomonadales	Q	Oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	Amino_oxidase,NAD_binding_8
LYD3_k127_540862_1	76114.ebA2079	3.558e-96	327.0	COG3213@1|root,COG3213@2|Bacteria,1MUJK@1224|Proteobacteria,2VJ75@28216|Betaproteobacteria,2KU72@206389|Rhodocyclales	206389|Rhodocyclales	P	protein involved in response to NO	-	-	-	ko:K07234	-	-	-	-	ko00000	-	-	-	NnrS
LYD3_k127_540862_0	76114.ebA2038	1.472e-301	938.0	COG1024@1|root,COG1250@1|root,COG1024@2|Bacteria,COG1250@2|Bacteria,1MU9P@1224|Proteobacteria,2VGZU@28216|Betaproteobacteria,2KY7I@206389|Rhodocyclales	1224|Proteobacteria	I	3-hydroxyacyl-CoA dehydrogenase, NAD binding domain	-	-	1.1.1.157	ko:K00074	ko00360,ko00362,ko00650,ko01100,ko01120,map00360,map00362,map00650,map01100,map01120	-	R01976,R05576,R06941	RC00029,RC00117	ko00000,ko00001,ko01000	-	-	-	3HCDH,3HCDH_N,ECH_1
LYD3_k127_540862_2	1125863.JAFN01000001_gene3173	5.205e-67	236.0	COG1404@1|root,COG1404@2|Bacteria,1PHH2@1224|Proteobacteria,42RQN@68525|delta/epsilon subdivisions,2WNZ5@28221|Deltaproteobacteria	28221|Deltaproteobacteria	O	Subtilase family	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_S8
LYD3_k127_5409981_5	1123073.KB899241_gene1978	7.18e-30	125.0	COG0454@1|root,COG0456@2|Bacteria,1NCMN@1224|Proteobacteria,1SFS0@1236|Gammaproteobacteria,1X7VK@135614|Xanthomonadales	135614|Xanthomonadales	K	Acetyltransferase (GNAT) domain	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_10
LYD3_k127_5409981_0	56780.SYN_03643	8.987e-297	926.0	COG0465@1|root,COG0465@2|Bacteria,1MU6J@1224|Proteobacteria,42M4Z@68525|delta/epsilon subdivisions,2WJ0D@28221|Deltaproteobacteria,2MQTC@213462|Syntrophobacterales	28221|Deltaproteobacteria	O	Acts as a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. Plays a role in the quality control of integral membrane proteins	-	-	-	ko:K03798	-	M00742	-	-	ko00000,ko00002,ko01000,ko01002,ko03110	-	-	-	AAA,Peptidase_M41
LYD3_k127_5409981_4	666681.M301_1589	2.249e-50	184.0	COG4969@1|root,COG4969@2|Bacteria,1N4MN@1224|Proteobacteria,2VVHM@28216|Betaproteobacteria,2KNTC@206350|Nitrosomonadales	206350|Nitrosomonadales	NU	Pilin (bacterial filament)	-	-	-	ko:K02650	ko02020,map02020	-	-	-	ko00000,ko00001,ko02035,ko02044	3.A.15.2	-	-	N_methyl,Pilin
LYD3_k127_5409981_1	1192124.LIG30_1791	2.776e-174	557.0	COG0604@1|root,COG0604@2|Bacteria,1R8NX@1224|Proteobacteria,2W0KY@28216|Betaproteobacteria,1K4PK@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Alcohol dehydrogenase GroES-like domain	-	-	1.6.5.5	ko:K00344	-	-	-	-	ko00000,ko01000	-	-	-	ADH_N,ADH_zinc_N_2
LYD3_k127_5409981_2	189753.AXAS01000041_gene2534	5.05e-90	307.0	COG2984@1|root,COG2984@2|Bacteria,1MW5D@1224|Proteobacteria,2TSG1@28211|Alphaproteobacteria,3JSYZ@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	ABC transporter substrate binding protein	-	-	-	ko:K01989	-	M00247	-	-	ko00000,ko00002,ko02000	-	-	-	ABC_sub_bind
LYD3_k127_5411415_6	1003200.AXXA_18016	4.706e-19	97.0	COG3146@1|root,COG3146@2|Bacteria,1MU35@1224|Proteobacteria,2VH0Z@28216|Betaproteobacteria,3T2JI@506|Alcaligenaceae	28216|Betaproteobacteria	S	Peptidogalycan biosysnthesis/recognition	-	-	-	ko:K09919	-	-	-	-	ko00000	-	-	-	FemAB_like
LYD3_k127_5411415_1	1485544.JQKP01000001_gene1143	7.593e-202	643.0	COG0171@1|root,COG0388@1|root,COG0171@2|Bacteria,COG0388@2|Bacteria,1MU9U@1224|Proteobacteria,2VJ8C@28216|Betaproteobacteria,44V57@713636|Nitrosomonadales	28216|Betaproteobacteria	H	Catalyzes the ATP-dependent amidation of deamido-NAD to form NAD. Uses L-glutamine as a nitrogen source	nadE	-	6.3.1.5,6.3.5.1	ko:K01916,ko:K01950	ko00760,ko01100,map00760,map01100	M00115	R00189,R00257	RC00010,RC00100	ko00000,ko00001,ko00002,ko01000	-	-	-	CN_hydrolase,NAD_synthase
LYD3_k127_5411415_5	426114.THI_2206	2.123e-57	201.0	COG0347@1|root,COG0347@2|Bacteria,1RGWK@1224|Proteobacteria,2VSEZ@28216|Betaproteobacteria,1KKXH@119065|unclassified Burkholderiales	28216|Betaproteobacteria	K	Belongs to the P(II) protein family	glnB	-	-	ko:K04751,ko:K04752	ko02020,map02020	-	-	-	ko00000,ko00001	-	-	-	P-II
LYD3_k127_5411415_4	338969.Rfer_2428	4.986e-66	231.0	COG1970@1|root,COG1970@2|Bacteria,1RHG8@1224|Proteobacteria,2VT9K@28216|Betaproteobacteria,4ADW1@80864|Comamonadaceae	28216|Betaproteobacteria	M	Channel that opens in response to stretch forces in the membrane lipid bilayer. May participate in the regulation of osmotic pressure changes within the cell	mscL	-	-	ko:K03282	-	-	-	-	ko00000,ko02000	1.A.22.1	-	-	MscL
LYD3_k127_5411415_2	76114.ebA3556	7.564e-161	519.0	COG0683@1|root,COG0683@2|Bacteria,1MXR4@1224|Proteobacteria,2VHP9@28216|Betaproteobacteria,2KVKD@206389|Rhodocyclales	206389|Rhodocyclales	E	amino acid	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_5411415_3	159087.Daro_4098	2.328e-128	420.0	COG0411@1|root,COG0559@1|root,COG4177@1|root,COG0411@2|Bacteria,COG0559@2|Bacteria,COG4177@2|Bacteria,1MUTY@1224|Proteobacteria,2VH2P@28216|Betaproteobacteria,2KUY7@206389|Rhodocyclales	206389|Rhodocyclales	P	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01995,ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C,BPD_transp_2
LYD3_k127_5411415_0	159087.Daro_4098	5.487e-238	750.0	COG0411@1|root,COG0559@1|root,COG4177@1|root,COG0411@2|Bacteria,COG0559@2|Bacteria,COG4177@2|Bacteria,1MUTY@1224|Proteobacteria,2VH2P@28216|Betaproteobacteria,2KUY7@206389|Rhodocyclales	206389|Rhodocyclales	P	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01995,ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C,BPD_transp_2
LYD3_k127_5430373_0	1121918.ARWE01000001_gene3595	1.846e-123	400.0	COG1064@1|root,COG1064@2|Bacteria,1QVIH@1224|Proteobacteria,42NMX@68525|delta/epsilon subdivisions,2WJGB@28221|Deltaproteobacteria	28221|Deltaproteobacteria	C	Alcohol dehydrogenase GroES-like domain	bamQ	-	1.1.1.368	ko:K07538	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	M00541	R05581	RC00850	ko00000,ko00001,ko00002,ko01000	-	-	-	ADH_N,ADH_zinc_N
LYD3_k127_5430373_1	1187851.A33M_3194	1.538e-117	396.0	COG1024@1|root,COG1024@2|Bacteria,1QY95@1224|Proteobacteria,2U4PY@28211|Alphaproteobacteria	28211|Alphaproteobacteria	I	Enoyl-CoA hydratase/isomerase	-	-	3.7.1.21	ko:K07539	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	M00541	R05593,R05594,R10696	RC01430,RC01431,RC03237	ko00000,ko00001,ko00002,ko01000	-	-	-	ECH_1
LYD3_k127_5449962_0	987059.RBXJA2T_11583	3.76e-158	508.0	COG1459@1|root,COG1459@2|Bacteria,1MV4U@1224|Proteobacteria,2VHPE@28216|Betaproteobacteria,1KJSN@119065|unclassified Burkholderiales	28216|Betaproteobacteria	NU	Type II secretion system	pilC	-	-	ko:K02653	-	-	-	-	ko00000,ko02035,ko02044	3.A.15.2	-	-	T2SSF
LYD3_k127_5449962_1	76114.ebA4343	7.267e-103	354.0	COG1989@1|root,COG1989@2|Bacteria,1MUZF@1224|Proteobacteria,2VI08@28216|Betaproteobacteria,2KVU7@206389|Rhodocyclales	206389|Rhodocyclales	NOU	Cleaves type-4 fimbrial leader sequence and methylates the N-terminal (generally Phe) residue	pilD	-	3.4.23.43	ko:K02654	-	M00331	-	-	ko00000,ko00002,ko01000,ko01002,ko02035,ko02044	3.A.15.2	-	-	DiS_P_DiS,Peptidase_A24
LYD3_k127_5449962_2	1000565.METUNv1_00088	3.375e-28	117.0	COG0237@1|root,COG0237@2|Bacteria,1RCXT@1224|Proteobacteria,2VR8K@28216|Betaproteobacteria,2KW4Z@206389|Rhodocyclales	206389|Rhodocyclales	F	Catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A	coaE	-	2.7.1.24	ko:K00859	ko00770,ko01100,map00770,map01100	M00120	R00130	RC00002,RC00078	ko00000,ko00001,ko00002,ko01000	-	-	-	CoaE
LYD3_k127_5450691_1	279714.FuraDRAFT_2518	2.778e-64	226.0	COG0142@1|root,COG0142@2|Bacteria,1MWNG@1224|Proteobacteria,2VHQV@28216|Betaproteobacteria,2KQ21@206351|Neisseriales	206351|Neisseriales	H	Belongs to the FPP GGPP synthase family	ispA	-	2.5.1.1,2.5.1.10	ko:K00795	ko00900,ko01100,ko01110,ko01130,map00900,map01100,map01110,map01130	M00364	R01658,R02003	RC00279	ko00000,ko00001,ko00002,ko01000,ko01006	-	-	-	polyprenyl_synt
LYD3_k127_5450691_2	1454004.AW11_00765	1.844e-20	94.0	COG1722@1|root,COG1722@2|Bacteria,1PTYP@1224|Proteobacteria,2VVQV@28216|Betaproteobacteria,1KQ52@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	L	Bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides	xseB	-	3.1.11.6	ko:K03602	ko03430,map03430	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	Exonuc_VII_S
LYD3_k127_5450691_0	1000565.METUNv1_02498	2.325e-183	580.0	COG4638@1|root,COG4638@2|Bacteria,1MWXW@1224|Proteobacteria,2VH18@28216|Betaproteobacteria,2KUAN@206389|Rhodocyclales	206389|Rhodocyclales	P	COG4638 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit	-	-	-	-	-	-	-	-	-	-	-	-	Rieske,Ring_hydroxyl_A
LYD3_k127_5456868_3	1144342.PMI40_03415	2.796e-32	139.0	COG0514@1|root,COG0514@2|Bacteria,1MVGG@1224|Proteobacteria,2VH8W@28216|Betaproteobacteria,472BR@75682|Oxalobacteraceae	28216|Betaproteobacteria	L	RQC	recQ	-	3.6.4.12	ko:K03654	ko03018,map03018	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	DEAD,HRDC,Helicase_C,RQC,RecQ_Zn_bind
LYD3_k127_5456868_2	1500897.JQNA01000002_gene4151	9.982e-92	316.0	COG5486@1|root,COG5486@2|Bacteria,1R6FN@1224|Proteobacteria,2VMCU@28216|Betaproteobacteria,1K22S@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Predicted metal-binding integral membrane protein (DUF2182)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2182
LYD3_k127_5456868_1	196367.JNFG01000065_gene940	1.389e-97	326.0	COG5588@1|root,COG5588@2|Bacteria,1MWK3@1224|Proteobacteria,2VMAI@28216|Betaproteobacteria,1JZMB@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF1326)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1326
LYD3_k127_5456868_0	1122135.KB893169_gene2572	6.368e-120	392.0	COG2223@1|root,COG2223@2|Bacteria,1QVKP@1224|Proteobacteria,2TRVV@28211|Alphaproteobacteria	28211|Alphaproteobacteria	P	Major facilitator superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_5467284_2	292415.Tbd_2675	3.022e-149	483.0	COG0582@1|root,COG0582@2|Bacteria,1MU23@1224|Proteobacteria,2VPJ0@28216|Betaproteobacteria	28216|Betaproteobacteria	L	Belongs to the 'phage' integrase family	-	-	-	-	-	-	-	-	-	-	-	-	Arm-DNA-bind_3,Phage_integrase
LYD3_k127_5467284_3	62928.azo0635	3e-70	240.0	COG2947@1|root,COG2947@2|Bacteria,1RHRU@1224|Proteobacteria,2VRIB@28216|Betaproteobacteria,2KWHF@206389|Rhodocyclales	206389|Rhodocyclales	S	EVE domain	-	-	-	-	-	-	-	-	-	-	-	-	EVE
LYD3_k127_5467284_7	159087.Daro_2086	2.488e-14	74.0	2EGUY@1|root,33AM4@2|Bacteria,1NGGE@1224|Proteobacteria,2VY4M@28216|Betaproteobacteria,2KXIC@206389|Rhodocyclales	206389|Rhodocyclales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5467284_0	1163617.SCD_n00722	8.457e-157	503.0	COG0628@1|root,COG0628@2|Bacteria,1MXXU@1224|Proteobacteria,2VHC0@28216|Betaproteobacteria	28216|Betaproteobacteria	T	permease	yhhT	-	-	-	-	-	-	-	-	-	-	-	AI-2E_transport
LYD3_k127_5467284_6	640511.BC1002_0869	2.142e-14	74.0	2DR1A@1|root,339RT@2|Bacteria,1NGFB@1224|Proteobacteria,2VXU8@28216|Betaproteobacteria,1KB1T@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF3096)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3096
LYD3_k127_5467284_9	1217718.ALOU01000076_gene3964	6.928e-06	55.0	COG5510@1|root,COG5510@2|Bacteria,1PJKN@1224|Proteobacteria,2VXND@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Entericidin EcnA/B family	-	-	-	-	-	-	-	-	-	-	-	-	Entericidin
LYD3_k127_5467284_4	365044.Pnap_1098	3.922e-48	183.0	COG4291@1|root,COG4291@2|Bacteria,1RGUF@1224|Proteobacteria,2VQ2N@28216|Betaproteobacteria,4ADNG@80864|Comamonadaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF1345)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1345
LYD3_k127_5467284_1	395495.Lcho_2991	1.23e-151	503.0	2EFKN@1|root,339CX@2|Bacteria,1N8ST@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5467284_5	1123393.KB891326_gene42	1.001e-30	124.0	COG3459@1|root,COG3459@2|Bacteria,1MVNX@1224|Proteobacteria,2VKDG@28216|Betaproteobacteria,1KSRI@119069|Hydrogenophilales	119069|Hydrogenophilales	G	Glycosyl hydrolase 36 superfamily, catalytic domain	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_hydro_36,Glyco_transf_36,Glycoamylase
LYD3_k127_5494315_0	76114.ebA3743	6.293e-299	930.0	COG4770@1|root,COG4770@2|Bacteria,1P6RE@1224|Proteobacteria,2VH59@28216|Betaproteobacteria,2KVJZ@206389|Rhodocyclales	206389|Rhodocyclales	I	carboxylase	pccA	-	6.4.1.3	ko:K01965	ko00280,ko00630,ko00640,ko01100,ko01120,ko01130,ko01200,map00280,map00630,map00640,map01100,map01120,map01130,map01200	M00373,M00741	R01859	RC00097,RC00609	ko00000,ko00001,ko00002,ko01000	-	-	-	Biotin_carb_C,Biotin_carb_N,Biotin_lipoyl,CPSase_L_D2
LYD3_k127_5494315_4	1348657.M622_07465	3.416e-75	257.0	COG0346@1|root,COG0346@2|Bacteria,1RA9H@1224|Proteobacteria,2VQ0D@28216|Betaproteobacteria,2KVY3@206389|Rhodocyclales	206389|Rhodocyclales	E	Lactoylglutathione lyase	-	-	4.4.1.5	ko:K01759	ko00620,map00620	-	R02530	RC00004,RC00740	ko00000,ko00001,ko01000	-	-	-	Glyoxalase_4
LYD3_k127_5494315_2	1187851.A33M_1455	2.143e-113	370.0	COG1024@1|root,COG1024@2|Bacteria,1R3SQ@1224|Proteobacteria,2U0FC@28211|Alphaproteobacteria	28211|Alphaproteobacteria	I	Enoyl-CoA hydratase/isomerase	-	-	-	-	-	-	-	-	-	-	-	-	ECH_1
LYD3_k127_5494315_5	1123392.AQWL01000006_gene594	3.061e-50	189.0	COG1073@1|root,COG1073@2|Bacteria,1N1WH@1224|Proteobacteria,2W50B@28216|Betaproteobacteria,1KS36@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Protein of unknown function (DUF3530)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3530
LYD3_k127_5494315_3	497321.C664_18954	2.806e-102	343.0	COG0009@1|root,COG0009@2|Bacteria,1MVPM@1224|Proteobacteria,2VIFT@28216|Betaproteobacteria,2KUUI@206389|Rhodocyclales	206389|Rhodocyclales	J	Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine	sua5	-	2.7.7.87	ko:K07566	-	-	R10463	RC00745	ko00000,ko01000,ko03009,ko03016	-	-	-	SUA5,Sua5_yciO_yrdC
LYD3_k127_5494315_1	1235457.C404_22695	2.826e-164	522.0	COG0192@1|root,COG0192@2|Bacteria,1MUFQ@1224|Proteobacteria,2VH7U@28216|Betaproteobacteria,1K2M9@119060|Burkholderiaceae	28216|Betaproteobacteria	H	Catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP. The overall synthetic reaction is composed of two sequential steps, AdoMet formation and the subsequent tripolyphosphate hydrolysis which occurs prior to release of AdoMet from the enzyme	metK	-	2.5.1.6	ko:K00789	ko00270,ko01100,ko01110,ko01230,map00270,map01100,map01110,map01230	M00034,M00035,M00368,M00609	R00177,R04771	RC00021,RC01211	ko00000,ko00001,ko00002,ko01000	-	-	-	S-AdoMet_synt_C,S-AdoMet_synt_M,S-AdoMet_synt_N
LYD3_k127_5506109_0	748247.AZKH_p0307	2.442e-136	435.0	COG3185@1|root,COG3185@2|Bacteria,1MUVZ@1224|Proteobacteria,2VJCK@28216|Betaproteobacteria,2KZ15@206389|Rhodocyclales	206389|Rhodocyclales	C	Hydroxyphenylpyruvate dioxygenase, HPPD, N-terminal	-	-	1.13.11.27	ko:K00457	ko00130,ko00350,ko00360,ko01100,map00130,map00350,map00360,map01100	M00044	R01372,R02521	RC00505,RC00738	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Glyoxalase,Glyoxalase_5
LYD3_k127_5506109_1	267608.RSc1133	8.533e-70	241.0	COG0663@1|root,COG0663@2|Bacteria,1RD76@1224|Proteobacteria,2VQNI@28216|Betaproteobacteria,1JZMQ@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Transferase hexapeptide repeat containing protein	paaY	-	-	-	-	-	-	-	-	-	-	-	Hexapep
LYD3_k127_5506109_2	596154.Alide2_2130	2.055e-28	121.0	COG2885@1|root,COG2982@1|root,COG2885@2|Bacteria,COG2982@2|Bacteria,1MUME@1224|Proteobacteria,2VIKY@28216|Betaproteobacteria,4AA7C@80864|Comamonadaceae	28216|Betaproteobacteria	M	Domain of Unknown Function (DUF748)	-	-	-	-	-	-	-	-	-	-	-	-	DUF748
LYD3_k127_5511343_0	870187.Thini_4004	2.845e-138	457.0	COG0842@1|root,COG0842@2|Bacteria,1MW5R@1224|Proteobacteria,1RPB4@1236|Gammaproteobacteria,4607K@72273|Thiotrichales	72273|Thiotrichales	V	ABC-2 family transporter protein	-	-	-	ko:K01992	-	M00254	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC2_membrane_3
LYD3_k127_5511343_1	266264.Rmet_0349	3.232e-135	440.0	COG1131@1|root,COG1131@2|Bacteria,1MUX3@1224|Proteobacteria,2VHRB@28216|Betaproteobacteria,1K1JP@119060|Burkholderiaceae	28216|Betaproteobacteria	V	ABC transporter	-	-	-	ko:K01990	-	M00254	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC_tran
LYD3_k127_5511343_2	1163617.SCD_n00178	7.625e-26	108.0	COG1566@1|root,COG1566@2|Bacteria,1QUDS@1224|Proteobacteria,2WHE9@28216|Betaproteobacteria	28216|Betaproteobacteria	V	HlyD family	-	-	-	ko:K01993	-	-	-	-	ko00000	-	-	-	Biotin_lipoyl_2,HlyD_3
LYD3_k127_5512070_4	159087.Daro_1707	3.123e-43	177.0	2DBM1@1|root,2Z9WN@2|Bacteria,1RDCQ@1224|Proteobacteria,2VS26@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5512070_1	395495.Lcho_1773	1.382e-146	496.0	COG1404@1|root,COG1404@2|Bacteria,1MU3S@1224|Proteobacteria,2VIXC@28216|Betaproteobacteria,1KJ2I@119065|unclassified Burkholderiales	28216|Betaproteobacteria	O	Subtilase family	-	-	-	ko:K14645	ko02024,map02024	-	-	-	ko00000,ko00001,ko01000,ko01002,ko03110	-	-	-	Big_3_2,Big_3_3,Peptidase_S8
LYD3_k127_5512070_2	382464.ABSI01000010_gene3722	2.238e-104	347.0	COG1028@1|root,COG1028@2|Bacteria	382464.ABSI01000010_gene3722|-	IQ	oxidoreductase activity, acting on CH-OH group of donors	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_5512070_0	748247.AZKH_p0530	5.832e-176	561.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,2VN2C@28216|Betaproteobacteria	28216|Betaproteobacteria	C	PFAM acyl-CoA dehydrogenase domain protein	-	-	1.3.8.3,1.3.8.7	ko:K00249,ko:K07545	ko00071,ko00280,ko00410,ko00623,ko00640,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,ko01220,ko03320,map00071,map00280,map00410,map00623,map00640,map01100,map01110,map01120,map01130,map01200,map01212,map01220,map03320	M00013,M00036,M00087,M00418	R00924,R01175,R01279,R02661,R03172,R03777,R03857,R03990,R04095,R04432,R04751,R04754,R05584	RC00052,RC00068,RC00076,RC00095,RC00148,RC00246,RC02037	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_5512070_3	287.DR97_3193	2.241e-96	323.0	COG1414@1|root,COG1414@2|Bacteria,1MUNW@1224|Proteobacteria,1RRQD@1236|Gammaproteobacteria,1YDRW@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	K	helix_turn_helix isocitrate lyase regulation	-	-	-	-	-	-	-	-	-	-	-	-	HTH_IclR,IclR
LYD3_k127_5512070_5	1121035.AUCH01000006_gene763	0.0003054	47.0	COG0557@1|root,COG0557@2|Bacteria,1NGSQ@1224|Proteobacteria,2VHMM@28216|Betaproteobacteria,2KVMW@206389|Rhodocyclales	206389|Rhodocyclales	K	RNB	-	-	3.1.13.1	ko:K01147	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	RNB
LYD3_k127_5523424_1	1112274.KI911560_gene460	2.341e-136	443.0	COG0167@1|root,COG0167@2|Bacteria,1MU7C@1224|Proteobacteria,2VJ6H@28216|Betaproteobacteria,2KM0T@206350|Nitrosomonadales	206350|Nitrosomonadales	F	Catalyzes the conversion of dihydroorotate to orotate with quinone as electron acceptor	pyrD	-	1.3.5.2	ko:K00254	ko00240,ko01100,map00240,map01100	M00051	R01868	RC00051	ko00000,ko00001,ko00002,ko01000	-	-	-	DHO_dh
LYD3_k127_5523424_4	1492922.GY26_15820	1.471e-44	169.0	COG2030@1|root,COG2030@2|Bacteria,1PHPM@1224|Proteobacteria,1SNVF@1236|Gammaproteobacteria	1236|Gammaproteobacteria	I	MaoC like domain	-	-	-	-	-	-	-	-	-	-	-	-	MaoC_dehydratas
LYD3_k127_5523424_3	582744.Msip34_0386	3.874e-82	280.0	COG1058@1|root,COG1058@2|Bacteria,1MVG6@1224|Proteobacteria,2VHTD@28216|Betaproteobacteria,2KM94@206350|Nitrosomonadales	206350|Nitrosomonadales	S	molybdopterin binding domain	-	-	-	-	-	-	-	-	-	-	-	-	MoCF_biosynth
LYD3_k127_5523424_2	1163617.SCD_n00063	4.502e-108	382.0	COG3170@1|root,COG3170@2|Bacteria,1QV1N@1224|Proteobacteria,2WGRZ@28216|Betaproteobacteria	28216|Betaproteobacteria	NU	Protein of unknown function (DUF1631)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1631
LYD3_k127_5523424_0	582744.Msip34_1077	1.043e-145	476.0	COG1643@1|root,COG1643@2|Bacteria,1MUEQ@1224|Proteobacteria,2VI3R@28216|Betaproteobacteria,2KM5A@206350|Nitrosomonadales	206350|Nitrosomonadales	L	TIGRFAM ATP-dependent helicase HrpA	-	-	3.6.4.13	ko:K03578	-	-	-	-	ko00000,ko01000	-	-	-	DEAD,DUF3418,HA2,Helicase_C,OB_NTP_bind
LYD3_k127_5533614_1	76114.ebA5309	1.843e-111	367.0	COG0410@1|root,COG0410@2|Bacteria,1MVYI@1224|Proteobacteria,2VHGT@28216|Betaproteobacteria,2KZYM@206389|Rhodocyclales	206389|Rhodocyclales	E	ABC transporter	-	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran
LYD3_k127_5533614_2	76114.ebA5307	8.718e-104	343.0	COG0411@1|root,COG0411@2|Bacteria,1MXHT@1224|Proteobacteria,2VKUM@28216|Betaproteobacteria,2KY9I@206389|Rhodocyclales	206389|Rhodocyclales	E	ABC transporter	-	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran
LYD3_k127_5533614_0	76114.ebA5306	5.904e-118	388.0	COG4177@1|root,COG4177@2|Bacteria,1MUPI@1224|Proteobacteria,2VK9Y@28216|Betaproteobacteria,2KV1M@206389|Rhodocyclales	206389|Rhodocyclales	U	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_5533614_3	76114.ebA5304	4.389e-45	164.0	COG0559@1|root,COG0559@2|Bacteria,1MVND@1224|Proteobacteria,2VK6C@28216|Betaproteobacteria,2KXZ1@206389|Rhodocyclales	206389|Rhodocyclales	U	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01997	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_5543332_1	1121035.AUCH01000012_gene3005	2.891e-48	188.0	COG0617@1|root,COG0617@2|Bacteria,1MU2X@1224|Proteobacteria,2VIN5@28216|Betaproteobacteria,2KUCQ@206389|Rhodocyclales	206389|Rhodocyclales	J	Catalyzes the addition and repair of the essential 3'- terminal CCA sequence in tRNAs without using a nucleic acid template. Adds these three nucleotides in the order of C, C, and A to the tRNA nucleotide-73, using CTP and ATP as substrates and producing inorganic pyrophosphate. Also shows phosphatase, 2'- nucleotidase and 2',3'-cyclic phosphodiesterase activities. These phosphohydrolase activities are probably involved in the repair of the tRNA 3'-CCA terminus degraded by intracellular RNases	cca	-	2.7.7.72	ko:K00974	ko03013,map03013	-	R09382,R09383,R09384,R09386	RC00078	ko00000,ko00001,ko01000,ko03016	-	-	-	HD,PolyA_pol,PolyA_pol_RNAbd
LYD3_k127_5543332_0	1144319.PMI16_02224	1.136e-81	284.0	COG0702@1|root,COG0702@2|Bacteria,1MW54@1224|Proteobacteria,2VIBZ@28216|Betaproteobacteria,473Q6@75682|Oxalobacteraceae	28216|Betaproteobacteria	GM	NAD(P)H-binding	-	-	1.6.5.3,1.6.99.3	ko:K00329,ko:K00356	ko00190,map00190	-	R11945	RC00061	ko00000,ko00001,ko01000	-	-	-	Epimerase,NAD_binding_10
LYD3_k127_5544767_0	748247.AZKH_2003	0.0	1266.0	COG3459@1|root,COG3459@2|Bacteria,1MVNX@1224|Proteobacteria,2VKDG@28216|Betaproteobacteria,2KUR9@206389|Rhodocyclales	206389|Rhodocyclales	G	Glycosyl hydrolase 36 superfamily, catalytic domain	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_hydro_36,Glyco_transf_36,Glycoamylase
LYD3_k127_5550632_0	1183438.GKIL_1844	9.12e-305	949.0	COG1452@1|root,COG1452@2|Bacteria,1G0TW@1117|Cyanobacteria	1117|Cyanobacteria	M	PFAM Mannosyl oligosaccharide glucosidase	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_hydro_63
LYD3_k127_5550632_1	1210884.HG799475_gene15269	7.844e-10	62.0	COG0033@1|root,COG0033@2|Bacteria,2IYG0@203682|Planctomycetes	203682|Planctomycetes	G	Phosphoglucomutase/phosphomannomutase, C-terminal domain	-	-	5.4.2.2	ko:K01835	ko00010,ko00030,ko00052,ko00230,ko00500,ko00520,ko00521,ko01100,ko01110,ko01120,ko01130,map00010,map00030,map00052,map00230,map00500,map00520,map00521,map01100,map01110,map01120,map01130	M00549	R00959,R01057,R08639	RC00408	ko00000,ko00001,ko00002,ko01000	-	-	-	PGM_PMM_I,PGM_PMM_II,PGM_PMM_III,PGM_PMM_IV
LYD3_k127_5553593_1	640510.BC1001_3532	3.412e-49	177.0	COG0410@1|root,COG0410@2|Bacteria,1MVVC@1224|Proteobacteria,2VJNG@28216|Betaproteobacteria,1K20Y@119060|Burkholderiaceae	28216|Betaproteobacteria	E	abc transporter	-	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_5553593_0	1120999.JONM01000005_gene3839	1.017e-218	691.0	COG0312@1|root,COG0312@2|Bacteria,1MUSK@1224|Proteobacteria,2VHJ9@28216|Betaproteobacteria,2KPJ1@206351|Neisseriales	206351|Neisseriales	S	TldD PmbA family protein	tldD	-	-	ko:K03568	-	-	-	-	ko00000,ko01002	-	-	-	PmbA_TldD
LYD3_k127_5553593_4	1217718.ALOU01000033_gene2253	7.603e-09	59.0	COG3386@1|root,COG3386@2|Bacteria,1PIAT@1224|Proteobacteria,2W6Y9@28216|Betaproteobacteria,1KD83@119060|Burkholderiaceae	28216|Betaproteobacteria	G	SMP-30/Gluconolaconase/LRE-like region	-	-	-	-	-	-	-	-	-	-	-	-	SGL
LYD3_k127_5553593_2	305700.B447_07442	1.533e-29	123.0	COG4319@1|root,COG4319@2|Bacteria,1MZK9@1224|Proteobacteria,2VU96@28216|Betaproteobacteria,2KWYZ@206389|Rhodocyclales	206389|Rhodocyclales	S	SnoaL-like domain	-	-	-	-	-	-	-	-	-	-	-	-	SnoaL_3
LYD3_k127_5553593_3	545264.KB898746_gene786	1.222e-26	110.0	COG0859@1|root,COG0859@2|Bacteria,1MXA2@1224|Proteobacteria,1RMBF@1236|Gammaproteobacteria	1236|Gammaproteobacteria	M	heptosyltransferase	rfaF	GO:0000271,GO:0003674,GO:0003824,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0005975,GO:0005976,GO:0006629,GO:0008150,GO:0008152,GO:0008610,GO:0008653,GO:0008713,GO:0008920,GO:0009058,GO:0009059,GO:0009103,GO:0009244,GO:0009311,GO:0009312,GO:0009987,GO:0016051,GO:0016740,GO:0016757,GO:0033692,GO:0034637,GO:0034645,GO:0043170,GO:0044237,GO:0044238,GO:0044249,GO:0044255,GO:0044260,GO:0044262,GO:0044264,GO:0044424,GO:0044444,GO:0044464,GO:0046401,GO:0071704,GO:1901135,GO:1901137,GO:1901576,GO:1903509	-	ko:K02843	ko00540,ko01100,map00540,map01100	M00080	-	-	ko00000,ko00001,ko00002,ko01000,ko01003,ko01005	-	GT9	iECH74115_1262.ECH74115_4993,iECSP_1301.ECSP_4617,iECs_1301.ECs4498,iG2583_1286.G2583_4359,iZ_1308.Z5047	Glyco_transf_9
LYD3_k127_5594280_0	196490.AUEZ01000010_gene2129	9.387e-189	597.0	COG4663@1|root,COG4663@2|Bacteria,1MUXI@1224|Proteobacteria,2TQVW@28211|Alphaproteobacteria,3JWB9@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	Q	Part of the tripartite ATP-independent periplasmic (TRAP) transport system	-	-	-	-	-	-	-	-	-	-	-	-	DctP,TAT_signal
LYD3_k127_5594280_2	1163617.SCD_n01512	2.132e-85	298.0	COG0353@1|root,COG0353@2|Bacteria,1MV9Q@1224|Proteobacteria,2VJVJ@28216|Betaproteobacteria	28216|Betaproteobacteria	L	May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO	recR	-	-	ko:K06187	ko03440,map03440	-	-	-	ko00000,ko00001,ko03400	-	-	-	RecR,Toprim_4
LYD3_k127_5594280_3	1502852.FG94_04701	1.77e-49	179.0	COG0718@1|root,COG0718@2|Bacteria,1RGZD@1224|Proteobacteria,2VSJ2@28216|Betaproteobacteria,4748X@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection	ybaB	-	-	ko:K09747	-	-	-	-	ko00000	-	-	-	YbaB_DNA_bd
LYD3_k127_5594280_1	292415.Tbd_0515	6.831e-118	394.0	COG2812@1|root,COG2812@2|Bacteria,1MVCK@1224|Proteobacteria,2VIE0@28216|Betaproteobacteria,1KRBW@119069|Hydrogenophilales	119069|Hydrogenophilales	L	DNA polymerase III tau subunit V interacting with alpha	-	-	2.7.7.7	ko:K02343	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	DNA_pol3_delta2,DNA_pol3_gamma3,DNA_pol3_tau_5
LYD3_k127_5597924_1	1144342.PMI40_02373	3.495e-106	349.0	COG2021@1|root,COG2021@2|Bacteria,1MVJV@1224|Proteobacteria,2VHU9@28216|Betaproteobacteria,473B8@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Transfers a succinyl group from succinyl-CoA to L- homoserine, forming succinyl-L-homoserine	metXS	-	2.3.1.31	ko:K00641	ko00270,ko01100,ko01130,map00270,map01100,map01130	-	R01776	RC00004,RC00041	ko00000,ko00001,ko01000	-	-	-	Abhydrolase_1
LYD3_k127_5597924_0	1500894.JQNN01000001_gene4227	1.431e-114	377.0	COG1080@1|root,COG1080@2|Bacteria,1MUT8@1224|Proteobacteria,2VH9N@28216|Betaproteobacteria,4730Q@75682|Oxalobacteraceae	28216|Betaproteobacteria	G	General (non sugar-specific) component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (sugar PTS). This major carbohydrate active-transport system catalyzes the phosphorylation of incoming sugar substrates concomitantly with their translocation across the cell membrane. Enzyme I transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr)	ptsI	-	2.7.3.9	ko:K08483	ko02060,map02060	-	-	-	ko00000,ko00001,ko01000,ko02000	8.A.7	-	-	PEP-utilisers_N,PEP-utilizers,PEP-utilizers_C
LYD3_k127_5614041_2	684949.ATTJ01000001_gene2186	2.864e-70	240.0	COG1883@1|root,COG1883@2|Bacteria	2|Bacteria	C	oxaloacetate decarboxylase activity	oadB	-	4.1.1.3	ko:K01572	ko00620,ko01100,map00620,map01100	-	R00217	RC00040	ko00000,ko00001,ko01000,ko02000	3.B.1.1.1	-	-	OAD_beta
LYD3_k127_5614041_0	1175306.GWL_12510	3.299e-111	374.0	COG2220@1|root,COG2220@2|Bacteria,1MV20@1224|Proteobacteria,2VKI0@28216|Betaproteobacteria,4742I@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Beta-lactamase superfamily domain	-	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B_2
LYD3_k127_5614041_4	204773.HEAR1715	1.36e-55	200.0	COG1715@1|root,COG1715@2|Bacteria	2|Bacteria	V	Restriction endonuclease	-	-	-	ko:K07448,ko:K07452	-	-	-	-	ko00000,ko01000,ko02048	-	-	-	Abi_C,Mrr_N,Mrr_cat
LYD3_k127_5614041_1	292415.Tbd_0829	2.356e-85	303.0	COG0389@1|root,COG0389@2|Bacteria,1MU5X@1224|Proteobacteria,2VIKH@28216|Betaproteobacteria	28216|Betaproteobacteria	L	Nucleotidyltransferase DNA polymerase involved in DNA repair	imuB	-	-	ko:K14161	-	-	-	-	ko00000,ko03400	-	-	-	IMS
LYD3_k127_5614041_5	292415.Tbd_0830	4.867e-53	197.0	COG4544@1|root,COG4544@2|Bacteria,1MZQU@1224|Proteobacteria,2VUGI@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Component of the SOS system and an inhibitor of cell division. Accumulation of SulA causes rapid cessation of cell division and the appearance of long, non-septate filaments. In the presence of GTP, binds a polymerization-competent form of FtsZ in a 1 1 ratio, thus inhibiting FtsZ polymerization and therefore preventing it from participating in the assembly of the Z ring. This mechanism prevents the premature segregation of damaged DNA to daughter cells during cell division	-	-	-	ko:K13053,ko:K14160	-	-	-	-	ko00000,ko03036,ko03400	-	-	-	SulA
LYD3_k127_5614041_3	404589.Anae109_1654	4.029e-64	224.0	COG2764@1|root,COG2764@2|Bacteria,1RF5T@1224|Proteobacteria,42SN0@68525|delta/epsilon subdivisions,2WPY6@28221|Deltaproteobacteria,2Z0UJ@29|Myxococcales	28221|Deltaproteobacteria	S	Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	-	-	-	ko:K04750	-	-	-	-	ko00000	-	-	-	3-dmu-9_3-mt,Glyoxalase
LYD3_k127_5675299_2	987059.RBXJA2T_07423	2.522e-134	432.0	COG3005@1|root,COG3005@2|Bacteria,1R4UP@1224|Proteobacteria,2VM47@28216|Betaproteobacteria,1KMFA@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	Cytochrome c3	-	-	-	-	-	-	-	-	-	-	-	-	Paired_CXXCH_1
LYD3_k127_5675299_0	765913.ThidrDRAFT_0680	4.883e-221	721.0	COG3637@1|root,COG3637@2|Bacteria,1PA8J@1224|Proteobacteria,1S0HC@1236|Gammaproteobacteria,1WXUA@135613|Chromatiales	135613|Chromatiales	M	Putative outer membrane beta-barrel porin, MtrB/PioB	-	-	-	-	-	-	-	-	-	-	-	-	MtrB_PioB
LYD3_k127_5675299_4	987059.RBXJA2T_07413	1.807e-40	160.0	COG2863@1|root,COG2863@2|Bacteria,1PH1F@1224|Proteobacteria,2VSNV@28216|Betaproteobacteria,1KPHD@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	Cytochrome C oxidase, cbb3-type, subunit III	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrom_C
LYD3_k127_5675299_1	977880.RALTA_A2194	2.688e-146	471.0	COG0207@1|root,COG0207@2|Bacteria,1MUBD@1224|Proteobacteria,2VIIR@28216|Betaproteobacteria,1K0Y1@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor and reductant in the reaction, yielding dihydrofolate (DHF) as a by-product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis	thyA	-	2.1.1.45	ko:K00560	ko00240,ko00670,ko01100,ko01523,map00240,map00670,map01100,map01523	M00053	R02101	RC00219,RC00332	ko00000,ko00001,ko00002,ko01000	-	-	-	Thymidylat_synt
LYD3_k127_5675299_3	748247.AZKH_0280	5.458e-91	306.0	COG0204@1|root,COG0204@2|Bacteria,1MWDY@1224|Proteobacteria,2VJ4I@28216|Betaproteobacteria,2KV3W@206389|Rhodocyclales	206389|Rhodocyclales	I	Transmembrane secretion effector	-	-	-	-	-	-	-	-	-	-	-	-	Acyltransferase,MFS_1
LYD3_k127_5676739_1	1163617.SCD_n00389	2.149e-132	441.0	COG0248@1|root,COG0248@2|Bacteria,1MV35@1224|Proteobacteria,2VI1K@28216|Betaproteobacteria	28216|Betaproteobacteria	FP	PFAM Ppx GppA phosphatase	ppx	-	3.6.1.11,3.6.1.40	ko:K01524	ko00230,map00230	-	R03409	RC00002	ko00000,ko00001,ko01000	-	-	-	Ppx-GppA
LYD3_k127_5676739_5	1144342.PMI40_00082	2.014e-52	191.0	COG2062@1|root,COG2062@2|Bacteria,1RIVH@1224|Proteobacteria,2VSSQ@28216|Betaproteobacteria,4741H@75682|Oxalobacteraceae	28216|Betaproteobacteria	T	phosphohistidine phosphatase	sixA	-	-	ko:K08296	-	-	-	-	ko00000,ko01000	-	-	-	His_Phos_1
LYD3_k127_5676739_0	640081.Dsui_2814	1.032e-263	831.0	COG0855@1|root,COG0855@2|Bacteria,1MUM3@1224|Proteobacteria,2VHH8@28216|Betaproteobacteria,2KUJF@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the reversible transfer of the terminal phosphate of ATP to form a long-chain polyphosphate (polyP)	ppk	-	2.7.4.1	ko:K00937	ko00190,ko03018,map00190,map03018	-	-	-	ko00000,ko00001,ko01000,ko03019	-	-	-	PP_kinase,PP_kinase_C,PP_kinase_N
LYD3_k127_5676739_4	395019.Bmul_2036	1.362e-76	263.0	COG0847@1|root,COG0847@2|Bacteria,1MV8Z@1224|Proteobacteria,2VH1Z@28216|Betaproteobacteria,1K069@119060|Burkholderiaceae	28216|Betaproteobacteria	L	DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'-5' exonuclease	dnaQ	-	2.7.7.7	ko:K02342	ko00230,ko00240,ko01100,ko03030,ko03430,ko03440,map00230,map00240,map01100,map03030,map03430,map03440	M00260	R00375,R00376,R00377,R00378	RC02795	ko00000,ko00001,ko00002,ko01000,ko03032,ko03400	-	-	-	RNase_T
LYD3_k127_5676739_3	1163617.SCD_n00516	8.102e-97	334.0	COG0631@1|root,COG0631@2|Bacteria,1MVE7@1224|Proteobacteria,2VIAV@28216|Betaproteobacteria	28216|Betaproteobacteria	T	protein phosphatase 2C domain protein	pphA	-	3.1.3.16	ko:K20074	-	-	-	-	ko00000,ko01000,ko01009	-	-	-	PP2C,PP2C_2
LYD3_k127_5676739_2	1163617.SCD_n00515	1.147e-128	419.0	COG0515@1|root,COG0515@2|Bacteria,1PJRR@1224|Proteobacteria,2VHMW@28216|Betaproteobacteria	28216|Betaproteobacteria	KLT	serine threonine protein kinase	spkD	-	-	-	-	-	-	-	-	-	-	-	Pkinase
LYD3_k127_5679196_2	1144342.PMI40_00791	5.237e-20	97.0	COG4301@1|root,COG4301@2|Bacteria,1MUCG@1224|Proteobacteria,2VJHK@28216|Betaproteobacteria,473AH@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Histidine-specific methyltransferase, SAM-dependent	egtD	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_33
LYD3_k127_5679196_0	633131.TR2A62_1584	9.341e-72	251.0	COG0790@1|root,COG0790@2|Bacteria,1MWPA@1224|Proteobacteria,2TR2B@28211|Alphaproteobacteria	28211|Alphaproteobacteria	C	Sel1 domain protein repeat-containing protein	-	-	-	ko:K07126	-	-	-	-	ko00000	-	-	-	Sel1
LYD3_k127_5679196_1	748280.NH8B_4091	1.254e-64	225.0	COG0744@1|root,COG0744@2|Bacteria,1NRPB@1224|Proteobacteria,2VJ7F@28216|Betaproteobacteria,2KSIX@206351|Neisseriales	206351|Neisseriales	M	Transglycosylase	-	-	-	-	-	-	-	-	-	-	-	-	Transgly
LYD3_k127_5681406_0	1238182.C882_0426	4.792e-132	428.0	COG1940@1|root,COG1940@2|Bacteria,1MU94@1224|Proteobacteria,2TRRU@28211|Alphaproteobacteria,2JQ4F@204441|Rhodospirillales	204441|Rhodospirillales	GK	ROK family	-	-	2.7.1.4	ko:K00847	ko00051,ko00500,ko00520,ko01100,map00051,map00500,map00520,map01100	-	R00760,R00867,R03920	RC00002,RC00017	ko00000,ko00001,ko01000	-	-	-	ROK
LYD3_k127_5681406_1	1122137.AQXF01000003_gene2366	1.012e-69	239.0	COG0644@1|root,COG2440@1|root,COG0644@2|Bacteria,COG2440@2|Bacteria,1MVU6@1224|Proteobacteria,2TS0R@28211|Alphaproteobacteria	28211|Alphaproteobacteria	C	electron transfer flavoprotein-ubiquinone oxidoreductase	etf	-	1.5.5.1	ko:K00311	-	-	-	-	ko00000,ko01000	-	-	-	ETF_QO,FAD_binding_2,NAD_binding_8
LYD3_k127_5688032_7	1095769.CAHF01000015_gene2791	1.097e-07	53.0	COG2050@1|root,COG2050@2|Bacteria,1RGVP@1224|Proteobacteria,2VVH4@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	Thioesterase superfamily	-	-	-	-	-	-	-	-	-	-	-	-	4HBT
LYD3_k127_5688032_2	290397.Adeh_2908	8.774e-56	198.0	COG3189@1|root,COG3189@2|Bacteria,1RHYB@1224|Proteobacteria,42SR4@68525|delta/epsilon subdivisions,2WPV2@28221|Deltaproteobacteria	28221|Deltaproteobacteria	S	Protein of unknown function, DUF488	-	-	-	-	-	-	-	-	-	-	-	-	DUF488
LYD3_k127_5688032_6	1458275.AZ34_16170	4.405e-16	79.0	2CA5H@1|root,33A7N@2|Bacteria,1NI9X@1224|Proteobacteria,2VXS5@28216|Betaproteobacteria,4AFW0@80864|Comamonadaceae	28216|Betaproteobacteria	S	Cysteine-rich CWC	-	-	-	-	-	-	-	-	-	-	-	-	Cys_rich_CWC
LYD3_k127_5688032_3	296591.Bpro_0144	2.593e-53	205.0	COG0346@1|root,COG0346@2|Bacteria,1RHD4@1224|Proteobacteria,2VSJM@28216|Betaproteobacteria,4AEJT@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM Glyoxalase bleomycin resistance protein dioxygenase	-	-	-	ko:K08234	-	-	-	-	ko00000	-	-	-	Glyoxalase
LYD3_k127_5688032_4	1163617.SCD_n01289	8.835e-46	171.0	COG5533@1|root,COG5533@2|Bacteria,1ND27@1224|Proteobacteria,2W4R7@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Opioid growth factor receptor (OGFr) conserved region	-	-	-	-	-	-	-	-	-	-	-	-	OGFr_N
LYD3_k127_5688032_5	864051.BurJ1DRAFT_1894	5.559e-27	117.0	COG1670@1|root,COG1670@2|Bacteria	2|Bacteria	J	COG1670 acetyltransferases, including N-acetylases of ribosomal proteins	-	-	2.3.1.128	ko:K03790	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	Acetyltransf_3
LYD3_k127_5688032_1	1454004.AW11_02170	1.23e-72	250.0	COG1280@1|root,COG1280@2|Bacteria,1RA1G@1224|Proteobacteria,2VKHI@28216|Betaproteobacteria	28216|Betaproteobacteria	E	Lysine exporter protein (Lyse ygga)	-	-	-	-	-	-	-	-	-	-	-	-	LysE
LYD3_k127_5688032_0	983917.RGE_46790	2.827e-120	409.0	COG4166@1|root,COG4166@2|Bacteria,1R87R@1224|Proteobacteria,2VKFJ@28216|Betaproteobacteria,1KKIK@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	ABC-type dipeptide transport system, periplasmic component	-	-	-	-	-	-	-	-	-	-	-	-	SBP_bac_5
LYD3_k127_5693076_2	1218076.BAYB01000026_gene4425	4.82e-17	89.0	COG2199@1|root,COG3706@2|Bacteria,1MZV7@1224|Proteobacteria,2VK3R@28216|Betaproteobacteria,1K12Z@119060|Burkholderiaceae	28216|Betaproteobacteria	T	diguanylate cyclase	-	-	2.7.7.65	ko:K18968	ko02026,map02026	-	-	-	ko00000,ko00001,ko01000,ko02000	9.B.34.1.2	-	-	GGDEF,MASE2
LYD3_k127_5693076_0	983917.RGE_24600	4.39e-22	97.0	COG2331@1|root,COG2331@2|Bacteria,1PVEY@1224|Proteobacteria,2VYJG@28216|Betaproteobacteria,1KP71@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Putative regulatory protein	-	-	-	-	-	-	-	-	-	-	-	-	Zn-ribbon_8
LYD3_k127_5693076_4	698769.JFBD01000066_gene1711	0.0005787	45.0	COG3369@1|root,COG3369@2|Bacteria,1VFK3@1239|Firmicutes,4HNHY@91061|Bacilli	91061|Bacilli	S	SMART zinc finger CDGSH-type domain protein	-	-	-	-	-	-	-	-	-	-	-	-	zf-CDGSH
LYD3_k127_5693076_1	536019.Mesop_0762	2.249e-17	84.0	COG3369@1|root,COG3592@1|root,COG3369@2|Bacteria,COG3592@2|Bacteria,1RCN9@1224|Proteobacteria,2U878@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	CDGSH-type zinc finger. Function unknown.	-	-	-	-	-	-	-	-	-	-	-	-	Fer4_19,Ferritin-like,zf-CDGSH
LYD3_k127_5693076_3	631454.N177_4100	2.156e-16	85.0	COG0500@1|root,COG2226@2|Bacteria,1PPKI@1224|Proteobacteria,2TRIB@28211|Alphaproteobacteria	28211|Alphaproteobacteria	Q	Methyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	Methyltransf_25,Methyltransf_31
LYD3_k127_5696916_1	1163617.SCD_n01755	4.148e-92	307.0	COG0726@1|root,COG0726@2|Bacteria,1N8Q4@1224|Proteobacteria,2VKEP@28216|Betaproteobacteria	28216|Betaproteobacteria	G	polysaccharide deacetylase	arnD	-	-	-	-	-	-	-	-	-	-	-	Polysacc_deac_1
LYD3_k127_5696916_2	1038869.AXAN01000005_gene5315	5.506e-58	211.0	COG1225@1|root,COG1225@2|Bacteria,1RD4R@1224|Proteobacteria,2VR4P@28216|Betaproteobacteria,1K1Y3@119060|Burkholderiaceae	28216|Betaproteobacteria	O	PFAM alkyl hydroperoxide reductase Thiol specific antioxidant Mal allergen	bcp	GO:0003674,GO:0003824,GO:0004601,GO:0005575,GO:0005622,GO:0005623,GO:0005634,GO:0006950,GO:0006979,GO:0008150,GO:0008152,GO:0008379,GO:0009636,GO:0009987,GO:0016209,GO:0016491,GO:0016684,GO:0019725,GO:0033554,GO:0034599,GO:0042221,GO:0042592,GO:0043226,GO:0043227,GO:0043229,GO:0043231,GO:0044424,GO:0044464,GO:0045454,GO:0050789,GO:0050794,GO:0050896,GO:0051716,GO:0051920,GO:0055114,GO:0065007,GO:0065008,GO:0070887,GO:0097237,GO:0098754,GO:0098869,GO:1990748	1.11.1.15	ko:K03564	-	-	-	-	ko00000,ko01000	-	-	-	AhpC-TSA
LYD3_k127_5696916_0	324925.Ppha_0637	4.368e-137	454.0	COG0457@1|root,COG3914@1|root,COG0457@2|Bacteria,COG3914@2|Bacteria,1FDGV@1090|Chlorobi	2|Bacteria	H	SMART Tetratricopeptide domain protein	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,TPR_1,TPR_11,TPR_16,TPR_2,TPR_4,TPR_8
LYD3_k127_5824105_6	1123393.KB891316_gene1548	1.697e-17	82.0	COG2967@1|root,COG2967@2|Bacteria,1MZ2Z@1224|Proteobacteria,2VSPE@28216|Betaproteobacteria,1KT3H@119069|Hydrogenophilales	119069|Hydrogenophilales	P	ApaG domain	-	-	-	-	-	-	-	-	-	-	-	-	DUF525
LYD3_k127_5824105_1	1304883.KI912532_gene1267	1.542e-131	436.0	COG2821@1|root,COG2821@2|Bacteria,1MXD4@1224|Proteobacteria,2VHBF@28216|Betaproteobacteria,2KV14@206389|Rhodocyclales	206389|Rhodocyclales	M	Membrane-bound lytic murein transglycosylase	mltA	-	-	ko:K08304	-	-	-	-	ko00000,ko01000,ko01011	-	GH102	-	3D,MltA
LYD3_k127_5824105_0	94624.Bpet4803	4.351e-153	494.0	COG0320@1|root,COG0320@2|Bacteria,1MVRD@1224|Proteobacteria,2VIFE@28216|Betaproteobacteria,3T25N@506|Alcaligenaceae	28216|Betaproteobacteria	H	Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives	lipA	-	2.8.1.8	ko:K03644	ko00785,ko01100,map00785,map01100	-	R07767,R07768	RC01978	ko00000,ko00001,ko01000	-	-	-	LIAS_N,Radical_SAM
LYD3_k127_5824105_3	1121035.AUCH01000025_gene3303	2.036e-71	254.0	COG0321@1|root,COG0321@2|Bacteria,1MU6A@1224|Proteobacteria,2VQ1Y@28216|Betaproteobacteria,2KW5V@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the transfer of endogenously produced octanoic acid from octanoyl-acyl-carrier-protein onto the lipoyl domains of lipoate-dependent enzymes. Lipoyl-ACP can also act as a substrate although octanoyl-ACP is likely to be the physiological substrate	lipB	-	2.3.1.181	ko:K03801	ko00785,ko01100,map00785,map01100	-	R07766,R07769	RC00039,RC00992,RC02867	ko00000,ko00001,ko01000	-	-	-	BPL_LplA_LipB
LYD3_k127_5824105_5	1485544.JQKP01000002_gene1366	2.377e-27	127.0	COG2921@1|root,COG2921@2|Bacteria,1RGV5@1224|Proteobacteria,2VTY5@28216|Betaproteobacteria,44W1W@713636|Nitrosomonadales	28216|Betaproteobacteria	S	Protein of unknown function (DUF493)	ybeD	-	-	ko:K09158	-	-	-	-	ko00000	-	-	-	DUF493
LYD3_k127_5824105_2	292415.Tbd_1109	3.037e-130	428.0	COG2230@1|root,COG2230@2|Bacteria,1MX3U@1224|Proteobacteria,2VIPR@28216|Betaproteobacteria	28216|Betaproteobacteria	M	cyclopropane-fatty-acyl-phospholipid synthase	mmaA3	GO:0003674,GO:0003824,GO:0005575,GO:0005618,GO:0005623,GO:0005886,GO:0006082,GO:0006629,GO:0006631,GO:0006633,GO:0008150,GO:0008152,GO:0008168,GO:0008610,GO:0008757,GO:0009058,GO:0009059,GO:0009273,GO:0009987,GO:0016020,GO:0016053,GO:0016740,GO:0016741,GO:0019752,GO:0030312,GO:0032259,GO:0032787,GO:0034645,GO:0042546,GO:0043170,GO:0043436,GO:0044036,GO:0044038,GO:0044085,GO:0044237,GO:0044238,GO:0044249,GO:0044255,GO:0044260,GO:0044281,GO:0044283,GO:0044464,GO:0046394,GO:0070589,GO:0071554,GO:0071704,GO:0071766,GO:0071767,GO:0071768,GO:0071840,GO:0071944,GO:0072330,GO:1901576	2.1.1.79	ko:K00574	-	-	-	-	ko00000,ko01000	-	-	-	CMAS
LYD3_k127_5824105_4	204773.HEAR2604	4.291e-48	178.0	COG1853@1|root,COG1853@2|Bacteria,1RDM1@1224|Proteobacteria,2VRFI@28216|Betaproteobacteria,474R7@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Conserved protein of DIM6 NTAB family	-	-	-	-	-	-	-	-	-	-	-	-	Flavin_Reduct
LYD3_k127_589451_2	85643.Tmz1t_0743	6.864e-50	181.0	2DKA3@1|root,30905@2|Bacteria,1RGG6@1224|Proteobacteria	1224|Proteobacteria	S	SnoaL-like domain	-	-	-	-	-	-	-	-	-	-	-	-	SnoaL_2
LYD3_k127_589451_0	1123368.AUIS01000015_gene2638	1.298e-73	259.0	COG1136@1|root,COG1136@2|Bacteria,1NCFC@1224|Proteobacteria,1S2XY@1236|Gammaproteobacteria,2NC17@225057|Acidithiobacillales	225057|Acidithiobacillales	V	ABC transporter	-	-	-	ko:K02003	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC_tran
LYD3_k127_589451_1	1005048.CFU_2491	4.519e-50	183.0	COG0513@1|root,COG0513@2|Bacteria,1MU49@1224|Proteobacteria,2VH16@28216|Betaproteobacteria,472GS@75682|Oxalobacteraceae	28216|Betaproteobacteria	F	DEAD-box RNA helicase involved in ribosome assembly. Has RNA-dependent ATPase activity and unwinds double-stranded RNA	rhlE	GO:0003674,GO:0003724,GO:0003824,GO:0004004,GO:0004386,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0008026,GO:0008104,GO:0008150,GO:0008186,GO:0016462,GO:0016787,GO:0016817,GO:0016818,GO:0016887,GO:0017111,GO:0032991,GO:0033036,GO:0035770,GO:0036464,GO:0042623,GO:0043186,GO:0043226,GO:0043228,GO:0043229,GO:0043232,GO:0044424,GO:0044444,GO:0044464,GO:0045495,GO:0051179,GO:0060293,GO:0070035,GO:0140098,GO:1990904	3.6.4.13	ko:K11927	ko03018,map03018	-	-	-	ko00000,ko00001,ko01000,ko03019	-	-	-	DEAD,Helicase_C
LYD3_k127_595040_0	395495.Lcho_3014	9.224e-97	321.0	COG1932@1|root,COG1932@2|Bacteria,1MUB5@1224|Proteobacteria,2VH5M@28216|Betaproteobacteria,1KJ6I@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	Catalyzes the reversible conversion of 3- phosphohydroxypyruvate to phosphoserine and of 3-hydroxy-2-oxo-4- phosphonooxybutanoate to phosphohydroxythreonine	serC	-	2.6.1.52	ko:K00831	ko00260,ko00680,ko00750,ko01100,ko01120,ko01130,ko01200,ko01230,map00260,map00680,map00750,map01100,map01120,map01130,map01200,map01230	M00020,M00124	R04173,R05085	RC00006,RC00036	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_5
LYD3_k127_595040_1	522306.CAP2UW1_1620	3.597e-72	252.0	COG0604@1|root,COG0604@2|Bacteria,1MXUX@1224|Proteobacteria,2VJXC@28216|Betaproteobacteria,1KQNM@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	C	Zinc-binding dehydrogenase	-	-	-	-	-	-	-	-	-	-	-	-	ADH_N,ADH_zinc_N
LYD3_k127_6001533_1	450851.PHZ_c1121	3.514e-141	459.0	COG4257@1|root,COG4257@2|Bacteria,1QR8W@1224|Proteobacteria,2TRQ1@28211|Alphaproteobacteria	28211|Alphaproteobacteria	V	Inactivates the type B streptogramin antibiotics by linearizing the lactone ring at the ester linkage, generating a free phenylglycine carboxylate and converting the threonyl moiety into 2-amino-butenoic acid	-	-	-	ko:K18235	-	-	-	-	ko00000,ko01000,ko01504	-	-	-	-
LYD3_k127_6001533_3	1121015.N789_02305	1.89e-82	288.0	COG0225@1|root,COG0225@2|Bacteria,1MVUS@1224|Proteobacteria,1RNWU@1236|Gammaproteobacteria,1X6NC@135614|Xanthomonadales	135614|Xanthomonadales	O	Has an important function as a repair enzyme for proteins that have been inactivated by oxidation. Catalyzes the reversible oxidation-reduction of methionine sulfoxide in proteins to methionine	msrA	-	1.8.4.11	ko:K07304	-	-	-	-	ko00000,ko01000	-	-	-	PMSR
LYD3_k127_6001533_0	1366050.N234_28690	1.728e-202	638.0	COG2079@1|root,COG2079@2|Bacteria,1NECN@1224|Proteobacteria,2VN65@28216|Betaproteobacteria,1K3BE@119060|Burkholderiaceae	28216|Betaproteobacteria	S	MmgE/PrpD family	-	-	-	-	-	-	-	-	-	-	-	-	MmgE_PrpD
LYD3_k127_6001533_2	296591.Bpro_1270	1.429e-126	422.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VIGV@28216|Betaproteobacteria,4AB4M@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_6001533_4	1265502.KB905930_gene1414	7.578e-33	132.0	COG1285@1|root,COG1285@2|Bacteria,1MURJ@1224|Proteobacteria,2WA1J@28216|Betaproteobacteria,4AFHN@80864|Comamonadaceae	28216|Betaproteobacteria	S	MgtC family	-	-	-	ko:K07507	-	-	-	-	ko00000,ko02000	9.B.20	-	-	MgtC
LYD3_k127_6024989_2	1121918.ARWE01000001_gene385	9.796e-83	281.0	COG0161@1|root,COG0161@2|Bacteria,1MU2N@1224|Proteobacteria,42MFC@68525|delta/epsilon subdivisions,2WTRK@28221|Deltaproteobacteria	28221|Deltaproteobacteria	E	Aminotransferase class-III	-	-	-	-	-	-	-	-	-	-	-	-	Aminotran_3
LYD3_k127_6024989_0	234267.Acid_7658	9.303e-187	598.0	COG1953@1|root,COG1953@2|Bacteria,3Y2FU@57723|Acidobacteria	57723|Acidobacteria	FH	PFAM Permease for cytosine purines, uracil, thiamine, allantoin	-	-	-	ko:K03457	-	-	-	-	ko00000	2.A.39	-	-	Transp_cyt_pur
LYD3_k127_6024989_1	1120972.AUMH01000025_gene2507	4.516e-166	536.0	COG0044@1|root,COG0044@2|Bacteria,1TP8C@1239|Firmicutes,4H9N0@91061|Bacilli	91061|Bacilli	F	COG0044 Dihydroorotase and related cyclic amidohydrolases	hydA	-	3.5.2.2	ko:K01464	ko00240,ko00410,ko00770,ko00983,ko01100,map00240,map00410,map00770,map00983,map01100	M00046	R02269,R03055,R08227	RC00632,RC00680	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Amidohydro_1
LYD3_k127_6028123_1	469610.HMPREF0189_01400	2.685e-138	446.0	COG0480@1|root,COG0480@2|Bacteria,1MVVY@1224|Proteobacteria,2VKWB@28216|Betaproteobacteria,1KJI7@119065|unclassified Burkholderiales	28216|Betaproteobacteria	J	Elongation factor G, domain IV	-	-	-	ko:K02355	-	-	-	-	ko00000,ko03012,ko03029	-	-	-	EFG_C,EFG_II,EFG_IV,GTP_EFTU
LYD3_k127_6028123_0	748247.AZKH_3839	4.761e-169	565.0	COG0415@1|root,COG0415@2|Bacteria,1MV9Y@1224|Proteobacteria,2VITS@28216|Betaproteobacteria,2KUA4@206389|Rhodocyclales	206389|Rhodocyclales	L	Belongs to the DNA photolyase family	phrB	-	4.1.99.3	ko:K01669	-	-	-	-	ko00000,ko01000,ko03400	-	-	-	DNA_photolyase,FAD_binding_7
LYD3_k127_6028123_2	1089550.ATTH01000001_gene910	9.411e-96	342.0	COG3540@1|root,COG3540@2|Bacteria,4NDUS@976|Bacteroidetes,1FJNA@1100069|Bacteroidetes Order II. Incertae sedis	976|Bacteroidetes	P	COG3540 Phosphodiesterase alkaline phosphatase D	-	-	3.1.3.1	ko:K01113	ko00790,ko01100,ko02020,map00790,map01100,map02020	M00126	R04620	RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	PhoD
LYD3_k127_6028123_3	85643.Tmz1t_3695	4.882e-76	263.0	COG1678@1|root,COG1678@2|Bacteria,1RCXM@1224|Proteobacteria,2VJQA@28216|Betaproteobacteria,2KVN5@206389|Rhodocyclales	206389|Rhodocyclales	K	Belongs to the UPF0301 (AlgH) family	algH	-	-	ko:K07735	-	-	-	-	ko00000,ko03000	-	-	-	DUF179
LYD3_k127_6028123_6	748280.NH8B_0467	2.847e-37	145.0	COG0816@1|root,COG0816@2|Bacteria,1RDHZ@1224|Proteobacteria,2VUH0@28216|Betaproteobacteria,2KR8J@206351|Neisseriales	206351|Neisseriales	L	Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA	yqgF	-	-	ko:K07447	-	-	-	-	ko00000,ko01000	-	-	-	RuvX
LYD3_k127_6028123_5	375286.mma_2948	8.274e-50	183.0	COG2065@1|root,COG2065@2|Bacteria,1RI6U@1224|Proteobacteria,2VSNM@28216|Betaproteobacteria,4740S@75682|Oxalobacteraceae	28216|Betaproteobacteria	F	Pyrimidine operon attenuation protein uracil phosphoribosyltransferase	pyrR	-	2.4.2.9	ko:K02825	ko00240,ko01100,map00240,map01100	-	R00966	RC00063	ko00000,ko00001,ko01000,ko03000	-	-	-	Pribosyltran
LYD3_k127_6028123_4	1000565.METUNv1_03049	2.496e-54	198.0	COG0540@1|root,COG0540@2|Bacteria,1MWAB@1224|Proteobacteria,2VHG9@28216|Betaproteobacteria,2KUTM@206389|Rhodocyclales	206389|Rhodocyclales	F	Belongs to the ATCase OTCase family	pyrB	-	2.1.3.2	ko:K00609	ko00240,ko00250,ko01100,map00240,map00250,map01100	M00051	R01397	RC00064,RC02850	ko00000,ko00001,ko00002,ko01000	-	-	-	OTCace,OTCace_N
LYD3_k127_6028173_0	316057.RPD_4020	9.527e-125	412.0	COG2905@1|root,COG2905@2|Bacteria,1QUQR@1224|Proteobacteria,2TWQS@28211|Alphaproteobacteria,3JT9S@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	T	Ion transport protein	-	-	-	ko:K10716	-	-	-	-	ko00000,ko02000	1.A.1.1,1.A.1.13,1.A.1.17,1.A.1.24,1.A.1.25,1.A.1.6	-	-	Ion_trans,cNMP_binding
LYD3_k127_6028173_5	318996.AXAZ01000120_gene2539	2.586e-08	57.0	COG2984@1|root,COG2984@2|Bacteria,1MW5D@1224|Proteobacteria,2TSG1@28211|Alphaproteobacteria,3JSYZ@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	ABC transporter substrate binding protein	-	-	-	ko:K01989	-	M00247	-	-	ko00000,ko00002,ko02000	-	-	-	ABC_sub_bind
LYD3_k127_6028173_6	177439.DP2425	5.95e-07	63.0	COG0772@1|root,COG0772@2|Bacteria,1R537@1224|Proteobacteria	1224|Proteobacteria	D	Belongs to the SEDS family	-	-	-	-	-	-	-	-	-	-	-	-	FTSW_RODA_SPOVE
LYD3_k127_6028173_1	1122243.KB903771_gene1649	6.181e-38	165.0	2CKU6@1|root,33T7R@2|Bacteria,1NTGB@1224|Proteobacteria,1SKKC@1236|Gammaproteobacteria,3NR2Z@468|Moraxellaceae	1236|Gammaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6028173_4	641147.HMPREF9021_02064	1.267e-08	67.0	COG1716@1|root,COG1716@2|Bacteria,1PUHS@1224|Proteobacteria,2WAU3@28216|Betaproteobacteria,2KQST@206351|Neisseriales	206351|Neisseriales	T	Forkhead associated domain	-	-	-	-	-	-	-	-	-	-	-	-	FHA,Trypsin_2
LYD3_k127_6028173_3	1206737.BAGF01000152_gene6463	1.519e-12	79.0	COG0438@1|root,COG0631@1|root,COG2268@1|root,COG3653@1|root,COG4099@1|root,COG0438@2|Bacteria,COG0631@2|Bacteria,COG2268@2|Bacteria,COG3653@2|Bacteria,COG4099@2|Bacteria,2GKMK@201174|Actinobacteria,4FVHF@85025|Nocardiaceae	201174|Actinobacteria	Q	Amidohydrolase family	-	GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0044424,GO:0044444,GO:0044464	3.5.1.81,3.5.1.82	ko:K01461,ko:K06015	-	-	R02192	RC00064,RC00328	ko00000,ko01000	-	-	-	Amidohydro_3
LYD3_k127_6028173_7	10228.TriadP27610	0.0007618	53.0	COG0515@1|root,KOG0612@2759|Eukaryota,38BFH@33154|Opisthokonta,3BFTZ@33208|Metazoa	33208|Metazoa	T	mitotic cytokinesis	CIT	GO:0000003,GO:0000070,GO:0000086,GO:0000278,GO:0000280,GO:0000281,GO:0000819,GO:0000910,GO:0000912,GO:0000915,GO:0001726,GO:0003674,GO:0003824,GO:0004672,GO:0004674,GO:0005488,GO:0005515,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005773,GO:0005794,GO:0005795,GO:0005826,GO:0005829,GO:0005856,GO:0005886,GO:0005938,GO:0006325,GO:0006464,GO:0006468,GO:0006793,GO:0006796,GO:0006807,GO:0006915,GO:0006996,GO:0007010,GO:0007030,GO:0007049,GO:0007059,GO:0007088,GO:0007091,GO:0007112,GO:0007140,GO:0007275,GO:0007276,GO:0007283,GO:0007346,GO:0007399,GO:0008064,GO:0008150,GO:0008152,GO:0008219,GO:0009987,GO:0010256,GO:0010564,GO:0010721,GO:0010769,GO:0010771,GO:0010965,GO:0010975,GO:0010977,GO:0012501,GO:0012505,GO:0015629,GO:0016020,GO:0016043,GO:0016301,GO:0016310,GO:0016358,GO:0016740,GO:0016772,GO:0016773,GO:0017016,GO:0017048,GO:0019538,GO:0019899,GO:0019904,GO:0019953,GO:0022008,GO:0022402,GO:0022412,GO:0022414,GO:0022603,GO:0022604,GO:0022607,GO:0030029,GO:0030030,GO:0030036,GO:0030154,GO:0030165,GO:0030182,GO:0030496,GO:0030832,GO:0030863,GO:0030864,GO:0030865,GO:0030866,GO:0031032,GO:0031175,GO:0031252,GO:0031267,GO:0031344,GO:0031345,GO:0031984,GO:0031985,GO:0032153,GO:0032154,GO:0032155,GO:0032465,GO:0032467,GO:0032501,GO:0032502,GO:0032504,GO:0032506,GO:0032535,GO:0032954,GO:0032956,GO:0032970,GO:0033043,GO:0033044,GO:0033045,GO:0033047,GO:0033206,GO:0036211,GO:0036477,GO:0042995,GO:0043025,GO:0043170,GO:0043226,GO:0043227,GO:0043228,GO:0043229,GO:0043231,GO:0043232,GO:0043412,GO:0044085,GO:0044087,GO:0044237,GO:0044238,GO:0044260,GO:0044267,GO:0044297,GO:0044422,GO:0044424,GO:0044425,GO:0044430,GO:0044431,GO:0044444,GO:0044446,GO:0044448,GO:0044459,GO:0044464,GO:0044703,GO:0044770,GO:0044772,GO:0044784,GO:0044837,GO:0044839,GO:0045595,GO:0045596,GO:0045664,GO:0045665,GO:0045787,GO:0048232,GO:0048285,GO:0048468,GO:0048518,GO:0048519,GO:0048522,GO:0048523,GO:0048609,GO:0048666,GO:0048699,GO:0048731,GO:0048814,GO:0048856,GO:0048869,GO:0050767,GO:0050768,GO:0050773,GO:0050774,GO:0050789,GO:0050793,GO:0050794,GO:0051020,GO:0051093,GO:0051128,GO:0051129,GO:0051239,GO:0051241,GO:0051276,GO:0051301,GO:0051302,GO:0051321,GO:0051402,GO:0051493,GO:0051704,GO:0051726,GO:0051781,GO:0051783,GO:0051960,GO:0051961,GO:0051983,GO:0060284,GO:0061640,GO:0065007,GO:0065008,GO:0070938,GO:0070997,GO:0071704,GO:0071840,GO:0071944,GO:0090066,GO:0090068,GO:0097110,GO:0097458,GO:0098590,GO:0098791,GO:0098813,GO:0099568,GO:0110020,GO:0110053,GO:0120025,GO:0120035,GO:0120036,GO:0140013,GO:0140014,GO:0140096,GO:1901564,GO:1902903,GO:1903046,GO:1903047,GO:1905818,GO:2000026,GO:2000171,GO:2000431	2.7.11.1	ko:K16308	-	-	-	-	ko00000,ko01000,ko01001	-	-	-	CNH,PH,Pkinase
LYD3_k127_6028173_2	1123255.JHYS01000012_gene1365	4.685e-37	152.0	COG3134@1|root,COG3134@2|Bacteria,1MY27@1224|Proteobacteria,2VMUB@28216|Betaproteobacteria,4AD9C@80864|Comamonadaceae	28216|Betaproteobacteria	S	Beta/Gamma crystallin	-	-	-	-	-	-	-	-	-	-	-	-	Crystall,Rick_17kDa_Anti
LYD3_k127_6033404_1	667632.KB890164_gene1997	6.819e-24	101.0	COG3954@1|root,COG3954@2|Bacteria,1MWN9@1224|Proteobacteria,2VHZD@28216|Betaproteobacteria,1K4M9@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Phosphoribulokinase	cbbP	-	2.7.1.19	ko:K00855	ko00710,ko01100,ko01120,ko01200,map00710,map01100,map01120,map01200	M00165,M00166	R01523	RC00002,RC00017	ko00000,ko00001,ko00002,ko01000	-	-	-	PRK
LYD3_k127_6033404_0	748247.AZKH_0977	1.633e-259	809.0	COG0021@1|root,COG0021@2|Bacteria,1MUEY@1224|Proteobacteria,2VHNX@28216|Betaproteobacteria,2KV91@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the transfer of a two-carbon ketol group from a ketose donor to an aldose acceptor, via a covalent intermediate with the cofactor thiamine pyrophosphate	tkt	-	2.2.1.1	ko:K00615	ko00030,ko00710,ko01051,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00030,map00710,map01051,map01100,map01110,map01120,map01130,map01200,map01230	M00004,M00007,M00165,M00167	R01067,R01641,R01830,R06590	RC00032,RC00226,RC00571,RC01560	ko00000,ko00001,ko00002,ko01000	-	-	-	Transket_pyr,Transketolase_C,Transketolase_N
LYD3_k127_6036094_0	1205680.CAKO01000040_gene694	7.475e-78	265.0	COG2267@1|root,COG2267@2|Bacteria,1QU3E@1224|Proteobacteria,2TVXS@28211|Alphaproteobacteria,2JQNK@204441|Rhodospirillales	204441|Rhodospirillales	I	Belongs to the peptidase S33 family	pip	-	3.4.11.5	ko:K01259	ko00330,map00330	-	R00135	-	ko00000,ko00001,ko01000,ko01002	-	-	-	Abhydrolase_1,Abhydrolase_4
LYD3_k127_6036094_1	1123368.AUIS01000010_gene2363	1.917e-37	149.0	COG2353@1|root,COG2353@2|Bacteria,1R9XD@1224|Proteobacteria,1S24R@1236|Gammaproteobacteria,2NCSX@225057|Acidithiobacillales	225057|Acidithiobacillales	S	Belongs to the UPF0312 family	-	-	-	-	-	-	-	-	-	-	-	-	YceI
LYD3_k127_6036094_2	864051.BurJ1DRAFT_1533	1.418e-13	72.0	COG2353@1|root,COG2353@2|Bacteria,1RJFZ@1224|Proteobacteria,2VQHC@28216|Betaproteobacteria,1KKZG@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Belongs to the UPF0312 family	-	-	-	-	-	-	-	-	-	-	-	-	YceI
LYD3_k127_6040674_2	1265502.KB905954_gene427	9.085e-91	304.0	COG1032@1|root,COG1032@2|Bacteria,1MY2Y@1224|Proteobacteria,2VXAW@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Elongator protein 3, MiaB family, Radical SAM	-	-	-	-	-	-	-	-	-	-	-	-	B12-binding,Radical_SAM
LYD3_k127_6040674_3	1454004.AW11_03678	2.956e-90	302.0	COG0491@1|root,COG0491@2|Bacteria,1MUDN@1224|Proteobacteria,2VHMC@28216|Betaproteobacteria,1KQ6U@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	S	Metallo-beta-lactamase superfamily	ycbL	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B
LYD3_k127_6040674_0	32057.KB217478_gene7011	5.605e-214	684.0	COG0823@1|root,COG1506@1|root,COG0823@2|Bacteria,COG1506@2|Bacteria,1G1Q1@1117|Cyanobacteria,1HR77@1161|Nostocales	1117|Cyanobacteria	EU	Prolyl oligopeptidase	-	-	-	-	-	-	-	-	-	-	-	-	PD40,Peptidase_S9,Peptidase_S9_N
LYD3_k127_6040674_1	1454004.AW11_02632	1.254e-93	318.0	COG0628@1|root,COG0628@2|Bacteria,1MVX7@1224|Proteobacteria,2VMKT@28216|Betaproteobacteria	28216|Betaproteobacteria	S	AI-2E family transporter	-	-	-	-	-	-	-	-	-	-	-	-	AI-2E_transport
LYD3_k127_6043314_1	580332.Slit_1305	4.041e-56	198.0	COG1048@1|root,COG1048@2|Bacteria,1MU9T@1224|Proteobacteria,2VKDZ@28216|Betaproteobacteria,44VIM@713636|Nitrosomonadales	28216|Betaproteobacteria	C	Catalyzes the isomerization of citrate to isocitrate via cis-aconitate	acnA	-	4.2.1.3	ko:K01681	ko00020,ko00630,ko00720,ko01100,ko01110,ko01120,ko01130,ko01200,ko01210,ko01230,map00020,map00630,map00720,map01100,map01110,map01120,map01130,map01200,map01210,map01230	M00009,M00010,M00012,M00173,M00740	R01324,R01325,R01900	RC00497,RC00498,RC00618	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Aconitase,Aconitase_C
LYD3_k127_6043314_2	1157708.KB907463_gene792	6.282e-25	111.0	29V5H@1|root,30GJ5@2|Bacteria,1PHC8@1224|Proteobacteria,2VRT9@28216|Betaproteobacteria,4AIAH@80864|Comamonadaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF3617)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3617
LYD3_k127_6043314_0	1266925.JHVX01000004_gene1280	1.841e-92	307.0	COG2079@1|root,COG2079@2|Bacteria,1MUIG@1224|Proteobacteria,2VH7T@28216|Betaproteobacteria,372F8@32003|Nitrosomonadales	28216|Betaproteobacteria	S	MmgE/PrpD family	prpD	-	4.2.1.79	ko:K01720	ko00640,map00640	-	R04424	RC01152	ko00000,ko00001,ko01000	-	-	-	MmgE_PrpD
LYD3_k127_6061019_0	748247.AZKH_2012	1.124e-210	668.0	COG3712@1|root,COG3712@2|Bacteria,1N941@1224|Proteobacteria,2VIKR@28216|Betaproteobacteria,2KVI1@206389|Rhodocyclales	28216|Betaproteobacteria	PT	iron ion homeostasis	-	-	-	-	-	-	-	-	-	-	-	-	FecR
LYD3_k127_6065414_2	1173025.GEI7407_2260	1.803e-39	156.0	COG2318@1|root,COG2318@2|Bacteria,1G5EJ@1117|Cyanobacteria,1HAJ9@1150|Oscillatoriales	1117|Cyanobacteria	S	PFAM DinB family	-	-	-	-	-	-	-	-	-	-	-	-	DinB
LYD3_k127_6065414_0	391735.Veis_3313	1.271e-194	619.0	COG0004@1|root,COG0004@2|Bacteria,1NR9F@1224|Proteobacteria,2VJ8B@28216|Betaproteobacteria,4AB9B@80864|Comamonadaceae	28216|Betaproteobacteria	P	ammonium transporter	amtB	-	-	ko:K03320	-	-	-	-	ko00000,ko02000	1.A.11	-	-	Ammonium_transp
LYD3_k127_6065414_1	748247.AZKH_4422	1.6e-58	207.0	COG0347@1|root,COG0347@2|Bacteria,1RGWK@1224|Proteobacteria,2VSEZ@28216|Betaproteobacteria,2KWCQ@206389|Rhodocyclales	206389|Rhodocyclales	K	Belongs to the P(II) protein family	glnK	-	-	ko:K04752	-	-	-	-	ko00000	-	-	-	P-II
LYD3_k127_6065843_2	426117.M446_3165	8.684e-31	123.0	COG0410@1|root,COG0410@2|Bacteria,1MUR3@1224|Proteobacteria,2TSWQ@28211|Alphaproteobacteria,1JX1P@119045|Methylobacteriaceae	28211|Alphaproteobacteria	P	PFAM ABC transporter related	MA20_09945	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran
LYD3_k127_6065843_1	859657.RPSI07_1794	9.358e-106	348.0	COG0411@1|root,COG0411@2|Bacteria,1MX51@1224|Proteobacteria,2VIKW@28216|Betaproteobacteria,1JZVH@119060|Burkholderiaceae	28216|Betaproteobacteria	E	ABC transporter	-	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_6065843_0	426117.M446_3167	2.691e-124	413.0	COG4177@1|root,COG4177@2|Bacteria,1MY3V@1224|Proteobacteria,2U0TU@28211|Alphaproteobacteria,1JXQ1@119045|Methylobacteriaceae	28211|Alphaproteobacteria	E	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_6065843_3	1304878.AUGD01000028_gene1100	2.367e-28	117.0	COG0559@1|root,COG0559@2|Bacteria,1MVND@1224|Proteobacteria,2TSCF@28211|Alphaproteobacteria,3JW0E@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	E	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01997	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_6066409_2	1101195.Meth11DRAFT_0465	1.478e-50	187.0	COG0545@1|root,COG0545@2|Bacteria,1RDA1@1224|Proteobacteria,2VSIG@28216|Betaproteobacteria,2KMQT@206350|Nitrosomonadales	206350|Nitrosomonadales	O	peptidyl-prolyl cis-trans isomerase	-	-	5.2.1.8	ko:K03772	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	FKBP_C
LYD3_k127_6066409_0	1123368.AUIS01000009_gene2455	6.77e-322	1020.0	COG0308@1|root,COG0308@2|Bacteria,1MUCI@1224|Proteobacteria,1RMA7@1236|Gammaproteobacteria,2NC0P@225057|Acidithiobacillales	225057|Acidithiobacillales	E	Domain of unknown function (DUF3458_C) ARM repeats	pepN	-	3.4.11.2	ko:K01256	ko00480,ko01100,map00480,map01100	-	R00899,R04951	RC00096,RC00141	ko00000,ko00001,ko01000,ko01002	-	-	-	DUF3458,DUF3458_C,Peptidase_M1
LYD3_k127_6066409_1	396588.Tgr7_3067	7.275e-84	297.0	COG1018@1|root,COG1018@2|Bacteria,1MW37@1224|Proteobacteria,1RR95@1236|Gammaproteobacteria,1WVUK@135613|Chromatiales	135613|Chromatiales	C	PFAM oxidoreductase FAD NAD(P)-binding domain protein	-	-	1.18.1.2,1.19.1.1	ko:K00528	-	-	R10159	-	ko00000,ko01000	-	-	-	FAD_binding_6,NAD_binding_1
LYD3_k127_6066409_3	1122939.ATUD01000008_gene2520	8.262e-44	167.0	COG1670@1|root,COG1670@2|Bacteria,2IKZC@201174|Actinobacteria,4CQMP@84995|Rubrobacteria	84995|Rubrobacteria	J	Acetyltransferase (GNAT) domain	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_3
LYD3_k127_6066409_5	1499967.BAYZ01000076_gene831	2.109e-05	56.0	2ENKJ@1|root,33G80@2|Bacteria	2|Bacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6066409_4	1385511.N783_11940	1.043e-12	72.0	COG1028@1|root,COG1028@2|Bacteria,1V1Z9@1239|Firmicutes,4HCPI@91061|Bacilli,2Y9P1@289201|Pontibacillus	91061|Bacilli	IQ	Short-chain dehydrogenase	yueD	-	1.1.1.320	ko:K16216	-	-	-	-	ko00000,ko01000	-	-	-	adh_short
LYD3_k127_6074281_0	404589.Anae109_4128	4.681e-249	774.0	COG2609@1|root,COG2609@2|Bacteria,1MV21@1224|Proteobacteria,42PYN@68525|delta/epsilon subdivisions,2WS4X@28221|Deltaproteobacteria	28221|Deltaproteobacteria	C	Component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)	-	-	1.2.4.1	ko:K00163	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map01200	M00307	R00014,R00209,R01699,R03270	RC00004,RC00027,RC00627,RC02742,RC02744,RC02882	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Transketolase_N
LYD3_k127_6074281_8	338969.Rfer_4176	1.281e-87	313.0	COG2271@1|root,COG2271@2|Bacteria,1R8Q1@1224|Proteobacteria,2VKPK@28216|Betaproteobacteria,4ABJB@80864|Comamonadaceae	28216|Betaproteobacteria	G	Major Facilitator Superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_6074281_12	266117.Rxyl_1321	4.558e-31	142.0	COG0212@1|root,COG0212@2|Bacteria	2|Bacteria	H	Belongs to the 5-formyltetrahydrofolate cyclo-ligase family	ygfA	GO:0003674,GO:0003824,GO:0006082,GO:0006575,GO:0006725,GO:0006730,GO:0006732,GO:0006760,GO:0006807,GO:0008150,GO:0008152,GO:0009058,GO:0009108,GO:0009396,GO:0009987,GO:0016053,GO:0016874,GO:0016879,GO:0016882,GO:0018130,GO:0019438,GO:0019752,GO:0022611,GO:0030272,GO:0032502,GO:0034641,GO:0035999,GO:0042398,GO:0042558,GO:0042559,GO:0043436,GO:0043603,GO:0043604,GO:0044237,GO:0044249,GO:0044271,GO:0044281,GO:0044283,GO:0046394,GO:0046483,GO:0046653,GO:0051186,GO:0051188,GO:0071704,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576	6.3.3.2	ko:K01934	ko00670,ko01100,map00670,map01100	-	R02301	RC00183	ko00000,ko00001,ko01000	-	-	iECABU_c1320.ECABU_c31940,iECOK1_1307.ECOK1_3298,iECSF_1327.ECSF_2705,iUTI89_1310.UTI89_C3298	5-FTHF_cyc-lig
LYD3_k127_6074281_3	1000565.METUNv1_03858	1.846e-171	548.0	COG0006@1|root,COG0006@2|Bacteria,1MUZS@1224|Proteobacteria,2VHQI@28216|Betaproteobacteria,2KUHQ@206389|Rhodocyclales	206389|Rhodocyclales	E	aminopeptidase	pepP	-	3.4.11.9	ko:K01262	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	AMP_N,Peptidase_M24
LYD3_k127_6074281_7	292415.Tbd_2333	9.521e-92	315.0	COG0654@1|root,COG0654@2|Bacteria,1MU6I@1224|Proteobacteria,2VKV7@28216|Betaproteobacteria,1KSHU@119069|Hydrogenophilales	119069|Hydrogenophilales	CH	FAD binding domain	-	-	-	ko:K03185	ko00130,ko01100,ko01110,map00130,map01100,map01110	M00117	R04989,R08773	RC02670	ko00000,ko00001,ko00002,ko01000	-	-	-	FAD_binding_3
LYD3_k127_6074281_5	1266925.JHVX01000008_gene271	2.376e-137	453.0	COG0042@1|root,COG0042@2|Bacteria,1MV5V@1224|Proteobacteria,2VHBP@28216|Betaproteobacteria,371XV@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines	dusB	-	-	ko:K05540	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	Dus
LYD3_k127_6074281_13	748247.AZKH_0920	9.167e-21	95.0	COG2901@1|root,COG2901@2|Bacteria,1N7MJ@1224|Proteobacteria,2VVQK@28216|Betaproteobacteria,2KXF1@206389|Rhodocyclales	206389|Rhodocyclales	KL	Bacterial regulatory protein, Fis family	-	-	-	ko:K03557	ko05111,map05111	-	-	-	ko00000,ko00001,ko03000,ko03036,ko03400	-	-	-	HTH_8
LYD3_k127_6074281_1	76114.ebA1153	7.928e-230	722.0	COG0138@1|root,COG0138@2|Bacteria,1MUDQ@1224|Proteobacteria,2VJPX@28216|Betaproteobacteria,2KUUV@206389|Rhodocyclales	206389|Rhodocyclales	F	Bifunctional purine biosynthesis protein PurH	purH	-	2.1.2.3,3.5.4.10	ko:K00602	ko00230,ko00670,ko01100,ko01110,ko01130,ko01523,map00230,map00670,map01100,map01110,map01130,map01523	M00048	R01127,R04560	RC00026,RC00263,RC00456	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	AICARFT_IMPCHas,MGS
LYD3_k127_6074281_11	1120999.JONM01000026_gene1526	3.155e-38	151.0	2C256@1|root,2Z7SY@2|Bacteria,1Q75P@1224|Proteobacteria,2VUK3@28216|Betaproteobacteria,2KS1F@206351|Neisseriales	206351|Neisseriales	M	Transfers a palmitate residue from the sn-1 position of a phospholipid to the N-linked hydroxymyristate on the proximal unit of lipid A or its precursors	-	-	2.3.1.251	ko:K12973	ko01503,ko05133,map01503,map05133	M00724	R11223	RC00037,RC00041	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	PagP
LYD3_k127_6074281_2	497321.C664_14409	1.069e-191	607.0	COG0151@1|root,COG0151@2|Bacteria,1MUAH@1224|Proteobacteria,2VH9J@28216|Betaproteobacteria,2KUEI@206389|Rhodocyclales	206389|Rhodocyclales	F	Belongs to the GARS family	purD	-	6.3.4.13	ko:K01945	ko00230,ko01100,ko01110,ko01130,map00230,map01100,map01110,map01130	M00048	R04144	RC00090,RC00166	ko00000,ko00001,ko00002,ko01000	-	-	-	GARS_A,GARS_C,GARS_N
LYD3_k127_6074281_4	1156919.QWC_28558	1.681e-146	470.0	COG0408@1|root,COG0408@2|Bacteria,1MWMF@1224|Proteobacteria,2VIN4@28216|Betaproteobacteria,3T1EF@506|Alcaligenaceae	28216|Betaproteobacteria	H	Involved in the heme biosynthesis. Catalyzes the aerobic oxidative decarboxylation of propionate groups of rings A and B of coproporphyrinogen-III to yield the vinyl groups in protoporphyrinogen-IX	hemF	GO:0003674,GO:0005488,GO:0005515,GO:0042802,GO:0042803,GO:0046983	1.3.3.3	ko:K00228	ko00860,ko01100,ko01110,map00860,map01100,map01110	M00121	R03220	RC00884	ko00000,ko00001,ko00002,ko01000	-	-	-	Coprogen_oxidas
LYD3_k127_6074281_9	1120999.JONM01000009_gene324	8.851e-66	230.0	COG0494@1|root,COG0494@2|Bacteria,1RCX7@1224|Proteobacteria,2VRU5@28216|Betaproteobacteria,2KR33@206351|Neisseriales	206351|Neisseriales	L	Psort location Cytoplasmic, score 8.96	mutT	-	3.6.1.13	ko:K01515	ko00230,map00230	-	R01054	RC00002	ko00000,ko00001,ko01000	-	-	-	NUDIX
LYD3_k127_6074281_14	1121952.ATXT01000014_gene1395	1.231e-19	93.0	COG1254@1|root,COG1254@2|Bacteria,2HZJD@201174|Actinobacteria,4FQ1C@85023|Microbacteriaceae	201174|Actinobacteria	C	Acylphosphatase	-	-	3.6.1.7	ko:K01512	ko00620,ko00627,ko01120,map00620,map00627,map01120	-	R00317,R01421,R01515	RC00043	ko00000,ko00001,ko01000	-	-	-	Acylphosphatase
LYD3_k127_6074281_15	1123367.C666_04155	8.311e-10	70.0	COG5473@1|root,COG5473@2|Bacteria,1N9UJ@1224|Proteobacteria,2VRZ3@28216|Betaproteobacteria,2KX03@206389|Rhodocyclales	206389|Rhodocyclales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6074281_6	742159.HMPREF0004_4156	5.465e-100	337.0	COG0410@1|root,COG0410@2|Bacteria,1MVVC@1224|Proteobacteria,2VHYN@28216|Betaproteobacteria,3T3A0@506|Alcaligenaceae	28216|Betaproteobacteria	E	ABC-type branched-chain amino acid transport systems ATPase component	livF	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_6074281_10	1392838.AWNM01000042_gene1576	2.862e-49	178.0	COG0411@1|root,COG0411@2|Bacteria,1MUTY@1224|Proteobacteria,2VJM6@28216|Betaproteobacteria,3T22A@506|Alcaligenaceae	28216|Betaproteobacteria	E	ABC-type branched-chain amino acid transport systems ATPase component	livG	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_6074366_1	342113.DM82_2956	2.955e-94	316.0	COG0280@1|root,COG0281@1|root,COG0280@2|Bacteria,COG0281@2|Bacteria,1MU0A@1224|Proteobacteria,2VIYB@28216|Betaproteobacteria,1K2RI@119060|Burkholderiaceae	28216|Betaproteobacteria	C	Belongs to the malic enzymes family	maeB	-	1.1.1.40	ko:K00029	ko00620,ko00710,ko01100,ko01120,ko01200,map00620,map00710,map01100,map01120,map01200	M00169,M00172	R00216	RC00105	ko00000,ko00001,ko00002,ko01000	-	-	-	Malic_M,PTA_PTB,malic
LYD3_k127_6074366_0	391735.Veis_3378	3.722e-141	458.0	COG3616@1|root,COG3616@2|Bacteria,1MVQE@1224|Proteobacteria,2VIUU@28216|Betaproteobacteria,4ACPR@80864|Comamonadaceae	28216|Betaproteobacteria	E	PFAM alanine racemase domain protein	-	-	4.1.2.42	ko:K19967	-	-	-	-	ko00000,ko01000	-	-	-	Ala_racemase_N,D-ser_dehydrat
LYD3_k127_6074366_2	420662.Mpe_A2190	7.359e-44	164.0	COG2141@1|root,COG2141@2|Bacteria,1MVF0@1224|Proteobacteria,2VHXM@28216|Betaproteobacteria,1KJSV@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	Luciferase family	-	-	-	-	-	-	-	-	-	-	-	-	Bac_luciferase
LYD3_k127_6086480_0	338969.Rfer_3185	6.731e-154	494.0	COG0845@1|root,COG0845@2|Bacteria,1MU8D@1224|Proteobacteria,2VH9K@28216|Betaproteobacteria,4AB0C@80864|Comamonadaceae	28216|Betaproteobacteria	M	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family	-	-	-	ko:K02005,ko:K13888	-	M00709	-	-	ko00000,ko00002,ko02000	8.A.1	-	-	HlyD_D23
LYD3_k127_6086480_1	1123367.C666_16515	5.794e-106	366.0	COG1136@1|root,COG1136@2|Bacteria,1MU45@1224|Proteobacteria,2VKEW@28216|Betaproteobacteria,2KVSC@206389|Rhodocyclales	206389|Rhodocyclales	V	ATPases associated with a variety of cellular activities	-	-	-	ko:K02003	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC_tran
LYD3_k127_6086480_2	365044.Pnap_3550	2.886e-100	332.0	COG0577@1|root,COG0577@2|Bacteria,1PBKH@1224|Proteobacteria,2W3RM@28216|Betaproteobacteria,4AJVP@80864|Comamonadaceae	28216|Betaproteobacteria	V	MacB-like periplasmic core domain	-	-	-	ko:K02004	-	M00258	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	FtsX,MacB_PCD
LYD3_k127_6086709_4	1454004.AW11_02724	1.766e-19	91.0	2AYXV@1|root,31R3M@2|Bacteria,1RHPG@1224|Proteobacteria,2VS4A@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6086709_5	1149133.ppKF707_2005	1.793e-12	72.0	2EGJT@1|root,33ABY@2|Bacteria,1NGI4@1224|Proteobacteria,1SH79@1236|Gammaproteobacteria,1YGV8@136841|Pseudomonas aeruginosa group	1236|Gammaproteobacteria	S	Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn)	-	-	-	-	-	-	-	-	-	-	-	-	PHA_gran_rgn
LYD3_k127_6086709_1	1163617.SCD_n00075	3.906e-177	573.0	COG1022@1|root,COG1022@2|Bacteria,1MU4D@1224|Proteobacteria,2VI0U@28216|Betaproteobacteria	28216|Betaproteobacteria	I	Amp-dependent synthetase and ligase	-	-	6.2.1.3	ko:K01897	ko00061,ko00071,ko01100,ko01212,ko02024,ko03320,ko04146,ko04216,ko04714,ko04920,map00061,map00071,map01100,map01212,map02024,map03320,map04146,map04216,map04714,map04920	M00086	R01280	RC00004,RC00014	ko00000,ko00001,ko00002,ko01000,ko01004,ko04147	4.C.1.1	-	-	AMP-binding
LYD3_k127_6086709_3	404589.Anae109_0599	1.175e-67	251.0	COG0363@1|root,COG0363@2|Bacteria,1R5K6@1224|Proteobacteria	1224|Proteobacteria	G	6-phosphogluconolactonase	pgl	-	2.7.1.12,3.1.1.31	ko:K00851,ko:K01057	ko00030,ko01100,ko01110,ko01120,ko01130,ko01200,map00030,map01100,map01110,map01120,map01130,map01200	M00004,M00006,M00008	R01737,R02035	RC00002,RC00017,RC00537	ko00000,ko00001,ko00002,ko01000	-	-	-	Glucosamine_iso
LYD3_k127_6086709_0	1038860.AXAP01000029_gene681	2.577e-238	743.0	COG0364@1|root,COG0364@2|Bacteria,1MUN0@1224|Proteobacteria,2U0D0@28211|Alphaproteobacteria,3JURI@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	G	Glucose-6-phosphate dehydrogenase, NAD binding domain	-	-	1.1.1.363,1.1.1.49	ko:K00036	ko00030,ko00480,ko01100,ko01110,ko01120,ko01130,ko01200,ko05230,map00030,map00480,map01100,map01110,map01120,map01130,map01200,map05230	M00004,M00006,M00008	R00835,R02736,R10907	RC00001,RC00066	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	G6PD_C,G6PD_N
LYD3_k127_6086709_2	682795.AciX8_2885	1.031e-162	518.0	COG1023@1|root,COG1023@2|Bacteria,3Y2ZP@57723|Acidobacteria,2JJT6@204432|Acidobacteriia	204432|Acidobacteriia	G	6-phosphogluconate dehydrogenase, C-terminal domain	-	-	1.1.1.343,1.1.1.44	ko:K00033	ko00030,ko00480,ko01100,ko01110,ko01120,ko01130,ko01200,map00030,map00480,map01100,map01110,map01120,map01130,map01200	M00004,M00006	R01528,R10221	RC00001,RC00539	ko00000,ko00001,ko00002,ko01000	-	-	-	6PGD,NAD_binding_2
LYD3_k127_6087779_0	543728.Vapar_5334	1e-323	999.0	COG2609@1|root,COG2609@2|Bacteria,1MV21@1224|Proteobacteria,2VIAH@28216|Betaproteobacteria,4A9W9@80864|Comamonadaceae	28216|Betaproteobacteria	C	Component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)	aceE	-	1.2.4.1	ko:K00163	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map01200	M00307	R00014,R00209,R01699,R03270	RC00004,RC00027,RC00627,RC02742,RC02744,RC02882	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Transketolase_N
LYD3_k127_6093814_3	1121382.JQKG01000012_gene231	5.304e-103	345.0	COG0714@1|root,COG0714@2|Bacteria,1WJ11@1297|Deinococcus-Thermus	1297|Deinococcus-Thermus	S	PFAM ATPase family associated with various cellular activities (AAA)	-	-	-	ko:K03924	-	-	-	-	ko00000,ko01000	-	-	-	AAA_3
LYD3_k127_6093814_6	1348657.M622_08840	5.035e-55	206.0	COG1721@1|root,COG1721@2|Bacteria,1R3QD@1224|Proteobacteria,2VN9P@28216|Betaproteobacteria,2KW8Q@206389|Rhodocyclales	206389|Rhodocyclales	S	conserved protein (some members contain a von Willebrand factor type A (vWA) domain)	-	-	-	-	-	-	-	-	-	-	-	-	DUF58
LYD3_k127_6093814_0	1163617.SCD_n01285	2.362e-128	458.0	COG1305@1|root,COG1305@2|Bacteria,1MWCE@1224|Proteobacteria,2VHZP@28216|Betaproteobacteria	28216|Betaproteobacteria	E	PFAM transglutaminase domain protein	-	-	2.3.2.13	ko:K22452	-	-	-	-	ko00000,ko01000	-	-	-	DUF3488,DUF4129,Transglut_core
LYD3_k127_6093814_1	243365.CV_3682	6.462e-112	372.0	COG0568@1|root,COG0568@2|Bacteria,1MUDI@1224|Proteobacteria,2VIUT@28216|Betaproteobacteria,2KQAU@206351|Neisseriales	206351|Neisseriales	K	RNA polymerase sigma factor	rpoS	-	-	ko:K03087	ko02026,ko05111,map02026,map05111	-	-	-	ko00000,ko00001,ko03021	-	-	-	Sigma70_r1_2,Sigma70_r2,Sigma70_r3,Sigma70_r4
LYD3_k127_6093814_4	582744.Msip34_0985	1.498e-76	271.0	COG1388@1|root,COG4942@1|root,COG1388@2|Bacteria,COG4942@2|Bacteria,1RD24@1224|Proteobacteria,2VINR@28216|Betaproteobacteria,2KKPX@206350|Nitrosomonadales	206350|Nitrosomonadales	DM	Lysin motif	-	-	-	ko:K06194	-	-	-	-	ko00000	1.A.34.1.2	-	-	LysM,Peptidase_M23
LYD3_k127_6093814_5	59538.XP_005958444.1	1.196e-75	263.0	COG2518@1|root,KOG1661@2759|Eukaryota	2759|Eukaryota	O	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity	-	GO:0003674,GO:0003824,GO:0004719,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0006464,GO:0006479,GO:0006807,GO:0008150,GO:0008152,GO:0008168,GO:0008171,GO:0008213,GO:0008276,GO:0008757,GO:0009987,GO:0010340,GO:0016740,GO:0016741,GO:0019538,GO:0032259,GO:0036211,GO:0043170,GO:0043412,GO:0043414,GO:0044237,GO:0044238,GO:0044260,GO:0044267,GO:0044424,GO:0044464,GO:0051998,GO:0071704,GO:0140096,GO:1901564	2.1.1.77	ko:K00573	-	-	-	-	ko00000,ko01000	-	-	-	PCMT,Peptidase_M23
LYD3_k127_6093814_2	640081.Dsui_1968	2.255e-108	356.0	COG0496@1|root,COG0496@2|Bacteria,1MVHE@1224|Proteobacteria,2VIND@28216|Betaproteobacteria,2KU8F@206389|Rhodocyclales	206389|Rhodocyclales	S	Nucleotidase that shows phosphatase activity on nucleoside 5'-monophosphates	surE	-	3.1.3.5	ko:K03787	ko00230,ko00240,ko00760,ko01100,ko01110,map00230,map00240,map00760,map01100,map01110	-	R00183,R00511,R00963,R01126,R01227,R01569,R01664,R01968,R02088,R02102,R02323,R02719,R03346	RC00017	ko00000,ko00001,ko01000	-	-	-	SurE
LYD3_k127_6093814_7	640081.Dsui_1603	7.2e-13	68.0	COG2352@1|root,COG2352@2|Bacteria,1MUD5@1224|Proteobacteria,2VI9F@28216|Betaproteobacteria,2KUMU@206389|Rhodocyclales	206389|Rhodocyclales	H	Forms oxaloacetate, a four-carbon dicarboxylic acid source for the tricarboxylic acid cycle	ppc	-	4.1.1.31	ko:K01595	ko00620,ko00680,ko00710,ko00720,ko01100,ko01120,ko01200,map00620,map00680,map00710,map00720,map01100,map01120,map01200	M00168,M00170,M00171,M00172,M00173,M00346,M00374	R00345	RC02741	ko00000,ko00001,ko00002,ko01000	-	-	-	PEPcase
LYD3_k127_6095094_0	640081.Dsui_2686	1.394e-131	427.0	COG4775@1|root,COG4775@2|Bacteria,1MU0D@1224|Proteobacteria,2VHTX@28216|Betaproteobacteria,2KV13@206389|Rhodocyclales	206389|Rhodocyclales	M	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane	bamA	-	-	ko:K07277	-	-	-	-	ko00000,ko02000,ko03029	1.B.33	-	-	Bac_surface_Ag,POTRA
LYD3_k127_6095094_1	292415.Tbd_0792	2.131e-61	217.0	COG0750@1|root,COG0750@2|Bacteria,1MU91@1224|Proteobacteria,2VHBW@28216|Betaproteobacteria,1KREM@119069|Hydrogenophilales	119069|Hydrogenophilales	M	Peptidase family M50	-	-	-	ko:K11749	ko02024,ko04112,map02024,map04112	-	-	-	ko00000,ko00001,ko01000,ko01002	-	-	-	PDZ_2,Peptidase_M50
LYD3_k127_6100314_2	1051985.l11_07040	9.314e-48	188.0	COG0684@1|root,COG0684@2|Bacteria,1RH18@1224|Proteobacteria,2VR2C@28216|Betaproteobacteria,2KR48@206351|Neisseriales	206351|Neisseriales	H	Catalyzes the aldol cleavage of 4-hydroxy-4-methyl-2- oxoglutarate (HMG) into 2 molecules of pyruvate. Also contains a secondary oxaloacetate (OAA) decarboxylase activity due to the common pyruvate enolate transition state formed following C-C bond cleavage in the retro-aldol and decarboxylation reactions	menG	-	-	ko:K02553	-	-	-	-	ko00000,ko03019	-	-	-	RraA-like
LYD3_k127_6100314_1	748247.AZKH_0471	4.192e-163	519.0	COG3842@1|root,COG3842@2|Bacteria,1MU3I@1224|Proteobacteria,2VHEJ@28216|Betaproteobacteria,2KW0A@206389|Rhodocyclales	206389|Rhodocyclales	E	Part of the ABC transporter complex PotABCD involved in spermidine putrescine import. Responsible for energy coupling to the transport system	-	-	3.6.3.29,3.6.3.30	ko:K02010,ko:K02017,ko:K02052	ko02010,ko02024,map02010,map02024	M00189,M00190,M00193	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.10,3.A.1.11,3.A.1.8	-	-	ABC_tran
LYD3_k127_6100314_0	748247.AZKH_0470	3.832e-218	683.0	COG1178@1|root,COG1178@2|Bacteria,1MWEV@1224|Proteobacteria,2VP0Z@28216|Betaproteobacteria	28216|Betaproteobacteria	P	PFAM binding-protein-dependent transport systems inner membrane component	cysW_1	-	-	ko:K02011	ko02010,map02010	M00190	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.10	-	-	BPD_transp_1
LYD3_k127_6103173_5	395493.BegalDRAFT_1785	2.412e-51	189.0	COG3503@1|root,COG3503@2|Bacteria,1RA1Q@1224|Proteobacteria,1SAPP@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Protein of unknown function (DUF1624)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1624
LYD3_k127_6103173_4	1123504.JQKD01000012_gene1308	9.826e-73	253.0	COG4221@1|root,COG4221@2|Bacteria,1QXBX@1224|Proteobacteria,2WH93@28216|Betaproteobacteria,4AEPB@80864|Comamonadaceae	28216|Betaproteobacteria	S	PFAM Short-chain dehydrogenase reductase SDR	-	-	-	-	-	-	-	-	-	-	-	-	adh_short,adh_short_C2
LYD3_k127_6103173_0	522306.CAP2UW1_2415	0.0	1182.0	COG1330@1|root,COG1330@2|Bacteria,1MWTI@1224|Proteobacteria,2VHW7@28216|Betaproteobacteria	28216|Betaproteobacteria	L	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit recognizes the wild- type Chi sequence, and when added to isolated RecB increases its ATP-dependent helicase processivity	recC	-	3.1.11.5	ko:K03583	ko03440,map03440	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	Exonuc_V_gamma
LYD3_k127_6103173_1	76114.ebA2723	0.0	1158.0	COG1074@1|root,COG1074@2|Bacteria,1MUTF@1224|Proteobacteria,2VI92@28216|Betaproteobacteria,2KUW5@206389|Rhodocyclales	206389|Rhodocyclales	L	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit contributes ATPase, 3'-5' helicase, exonuclease activity and loads RecA onto ssDNA	recB	-	3.1.11.5,3.6.4.12	ko:K03582,ko:K16898	ko03440,map03440	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	PDDEXK_1,UvrD-helicase,UvrD_C
LYD3_k127_6103173_2	243233.MCA0692	1.172e-194	630.0	COG0507@1|root,COG0507@2|Bacteria,1MW43@1224|Proteobacteria,1RPA0@1236|Gammaproteobacteria,1XDV6@135618|Methylococcales	135618|Methylococcales	L	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD	recD	-	3.1.11.5	ko:K03581	ko03440,map03440	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	AAA_30,UvrD_C_2
LYD3_k127_6103173_8	1538295.JY96_14600	8.295e-45	167.0	2DM6D@1|root,31WQ8@2|Bacteria,1MZ7P@1224|Proteobacteria,2VUHB@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6103173_6	398767.Glov_2948	3.911e-50	194.0	COG2606@1|root,COG2606@2|Bacteria,1RGX5@1224|Proteobacteria,42SKP@68525|delta/epsilon subdivisions,2WNEV@28221|Deltaproteobacteria,43W2T@69541|Desulfuromonadales	28221|Deltaproteobacteria	H	Belongs to the prolyl-tRNA editing family. YbaK EbsC subfamily	-	-	-	ko:K03976	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	tRNA_edit
LYD3_k127_6103173_7	1047013.AQSP01000098_gene2569	3.915e-48	191.0	COG1014@1|root,COG1014@2|Bacteria,2NPBG@2323|unclassified Bacteria	2|Bacteria	C	Pyruvate ferredoxin/flavodoxin oxidoreductase	iorB	-	1.2.7.8	ko:K00179,ko:K00180	-	-	-	-	br01601,ko00000,ko01000	-	-	-	POR
LYD3_k127_6103173_3	1047013.AQSP01000098_gene2570	8.349e-73	255.0	COG4231@1|root,COG4231@2|Bacteria,2NP25@2323|unclassified Bacteria	2|Bacteria	C	Catalyzes the ferredoxin-dependent oxidative decarboxylation of arylpyruvates	iorA	-	1.2.7.8	ko:K00179,ko:K08941	-	M00598	-	-	br01601,ko00000,ko00002,ko00194,ko01000	-	-	-	POR_N,TPP_enzyme_C
LYD3_k127_6103361_2	748280.NH8B_2659	3.941e-15	78.0	COG0598@1|root,COG0598@2|Bacteria,1R7FC@1224|Proteobacteria,2VKBA@28216|Betaproteobacteria	28216|Betaproteobacteria	P	Magnesium transport protein CorA	-	-	-	-	-	-	-	-	-	-	-	-	CorA
LYD3_k127_6103361_0	1095769.CAHF01000010_gene1276	2.033e-128	422.0	COG3181@1|root,COG3181@2|Bacteria,1MW18@1224|Proteobacteria,2VHVS@28216|Betaproteobacteria,472N8@75682|Oxalobacteraceae	1224|Proteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_6103361_1	671143.DAMO_1046	3.161e-33	137.0	COG4747@1|root,COG4747@2|Bacteria,2NR4R@2323|unclassified Bacteria	2|Bacteria	S	ACT domain protein	hom	-	1.1.1.3,1.1.1.399,1.1.1.95,4.3.1.19	ko:K00003,ko:K00058,ko:K01754,ko:K04767	ko00260,ko00270,ko00290,ko00300,ko00680,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00260,map00270,map00290,map00300,map00680,map01100,map01110,map01120,map01130,map01200,map01230	M00017,M00018,M00020,M00570	R00220,R00996,R01513,R01773,R01775	RC00031,RC00087,RC00418,RC02600	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	2-Hacid_dh,2-Hacid_dh_C,ACT,CBS,Homoserine_dh,Lactamase_B,NAD_binding_3
LYD3_k127_6103361_3	522306.CAP2UW1_1893	8.558e-10	61.0	COG4670@1|root,COG4670@2|Bacteria,1MUJW@1224|Proteobacteria,2VH8B@28216|Betaproteobacteria,1KR3Z@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	I	Malonate decarboxylase, alpha subunit, transporter	-	-	2.8.3.1	ko:K01026	ko00620,ko00640,ko00643,ko01100,ko01120,map00620,map00640,map00643,map01100,map01120	-	R00928,R01449,R05508	RC00012,RC00014,RC00137	ko00000,ko00001,ko01000	-	-	-	CoA_trans
LYD3_k127_6112655_1	1288494.EBAPG3_6740	6.101e-108	358.0	COG0277@1|root,COG0277@2|Bacteria,1MVYV@1224|Proteobacteria,2VHUQ@28216|Betaproteobacteria,3726B@32003|Nitrosomonadales	28216|Betaproteobacteria	C	FAD linked oxidase	glcE	-	1.1.3.15	ko:K00104,ko:K11472	ko00630,ko01100,ko01110,ko01120,ko01130,map00630,map01100,map01110,map01120,map01130	-	R00475	RC00042	ko00000,ko00001,ko01000	-	-	-	FAD-oxidase_C,FAD_binding_4
LYD3_k127_6112655_0	748247.AZKH_1114	2.417e-167	535.0	COG0247@1|root,COG0247@2|Bacteria,1MWTK@1224|Proteobacteria,2VISA@28216|Betaproteobacteria,2KUHR@206389|Rhodocyclales	206389|Rhodocyclales	C	glycolate oxidase iron-sulfur subunit	glcF	-	-	ko:K11473	ko00630,ko01100,ko01110,ko01120,ko01130,map00630,map01100,map01110,map01120,map01130	-	R00475	RC00042	ko00000,ko00001	-	-	-	CCG,Fer4_7
LYD3_k127_6112655_6	292.DM42_287	6.869e-55	205.0	COG0824@1|root,COG0824@2|Bacteria,1RGZN@1224|Proteobacteria,2VREZ@28216|Betaproteobacteria,1K703@119060|Burkholderiaceae	28216|Betaproteobacteria	S	PFAM thioesterase superfamily protein	-	-	-	ko:K07107	-	-	-	-	ko00000,ko01000	-	-	-	4HBT,4HBT_2
LYD3_k127_6112655_7	1173020.Cha6605_2960	9.182e-37	151.0	COG0454@1|root,COG0456@2|Bacteria	2|Bacteria	K	acetyltransferase	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_1,Acetyltransf_10
LYD3_k127_6112655_4	159087.Daro_1973	1.349e-59	215.0	COG1211@1|root,COG1211@2|Bacteria,1MY3B@1224|Proteobacteria,2VMD6@28216|Betaproteobacteria,2KVUZ@206389|Rhodocyclales	206389|Rhodocyclales	I	Catalyzes the formation of 4-diphosphocytidyl-2-C- methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4- phosphate (MEP)	ispD	-	2.7.7.60	ko:K00991	ko00900,ko01100,ko01110,ko01130,map00900,map01100,map01110,map01130	M00096	R05633	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	IspD
LYD3_k127_6112655_5	243231.GSU3367	7.269e-59	216.0	COG0245@1|root,COG0245@2|Bacteria,1MVHA@1224|Proteobacteria,42MJ6@68525|delta/epsilon subdivisions,2WJ67@28221|Deltaproteobacteria,43UN0@69541|Desulfuromonadales	28221|Deltaproteobacteria	I	Involved in the biosynthesis of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), two major building blocks of isoprenoid compounds. Catalyzes the conversion of 4- diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate (CDP-ME2P) to 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (ME-CPP) with a corresponding release of cytidine 5-monophosphate (CMP)	ispF	-	2.7.7.60,4.6.1.12	ko:K01770,ko:K12506	ko00900,ko01100,ko01110,ko01130,map00900,map01100,map01110,map01130	M00096	R05633,R05637	RC00002,RC01440	ko00000,ko00001,ko00002,ko01000	-	-	-	IspD,YgbB
LYD3_k127_6112655_3	640081.Dsui_2400	5.492e-81	294.0	COG0642@1|root,COG3850@1|root,COG0642@2|Bacteria,COG3850@2|Bacteria,1PA1G@1224|Proteobacteria,2WGUD@28216|Betaproteobacteria	28216|Betaproteobacteria	T	Histidine kinase	risS	-	2.7.13.3	ko:K07638	ko02020,ko02026,map02020,map02026	M00445,M00742,M00743	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	HAMP,HATPase_c,HisKA,RisS_PPD
LYD3_k127_6112655_2	1304883.KI912532_gene2336	7.805e-100	331.0	COG0745@1|root,COG0745@2|Bacteria,1MY3D@1224|Proteobacteria,2VI6B@28216|Betaproteobacteria,2KUNC@206389|Rhodocyclales	206389|Rhodocyclales	K	COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain	ompR	-	-	ko:K02483,ko:K07659	ko02020,ko02026,map02020,map02026	M00445,M00742,M00743	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	Response_reg,Trans_reg_C
LYD3_k127_6114587_3	1366050.N234_19220	1.995e-21	94.0	COG1463@1|root,COG1463@2|Bacteria,1NCUG@1224|Proteobacteria,2VRKR@28216|Betaproteobacteria,1K3MD@119060|Burkholderiaceae	28216|Betaproteobacteria	Q	PFAM Mammalian cell entry related domain protein	mlaD	-	-	ko:K02067	ko02010,map02010	M00210,M00669,M00670	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.27	-	-	MlaD
LYD3_k127_6114587_2	1304883.KI912532_gene1652	3.831e-62	224.0	COG2853@1|root,COG2853@2|Bacteria,1MVX0@1224|Proteobacteria,2VQ97@28216|Betaproteobacteria,2KW45@206389|Rhodocyclales	206389|Rhodocyclales	M	VacJ family lipoprotein	vacJ	-	-	ko:K04754	-	-	-	-	ko00000	-	-	-	MlaA
LYD3_k127_6114587_1	1000565.METUNv1_02421	1.266e-62	232.0	COG2854@1|root,COG2854@2|Bacteria,1NKFA@1224|Proteobacteria,2VR85@28216|Betaproteobacteria,2KW7C@206389|Rhodocyclales	206389|Rhodocyclales	Q	ABC-type transport system involved in resistance to organic solvents, auxiliary component	-	-	-	ko:K07323	ko02010,map02010	M00210	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.27.3	-	-	MlaC
LYD3_k127_6114587_4	1217718.ALOU01000072_gene5028	2.12e-05	57.0	COG3113@1|root,COG3113@2|Bacteria,1NGIE@1224|Proteobacteria,2VXUB@28216|Betaproteobacteria,1K9F1@119060|Burkholderiaceae	28216|Betaproteobacteria	S	STAS domain	-	-	-	ko:K07122	ko02010,map02010	M00210	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.27.3	-	-	STAS_2
LYD3_k127_6114587_0	76114.ebA1306	1.423e-113	372.0	COG1131@1|root,COG1131@2|Bacteria,1MUW7@1224|Proteobacteria,2VI81@28216|Betaproteobacteria,2KVD2@206389|Rhodocyclales	206389|Rhodocyclales	V	ABC-type multidrug transport system, ATPase component	-	-	-	ko:K01990	-	M00254	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC_tran
LYD3_k127_6115326_0	204773.HEAR1961	1.599e-82	291.0	COG2807@1|root,COG2807@2|Bacteria,1QUCZ@1224|Proteobacteria,2WH3P@28216|Betaproteobacteria,4792T@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Major Facilitator Superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_6115326_1	1000565.METUNv1_02803	1.937e-38	149.0	COG1763@1|root,COG1763@2|Bacteria,1RD3Q@1224|Proteobacteria,2VSIP@28216|Betaproteobacteria,2KWDE@206389|Rhodocyclales	206389|Rhodocyclales	H	molybdopterin-guanine dinucleotide biosynthesis protein	-	-	-	ko:K03753	-	-	-	-	ko00000	-	-	-	MobB
LYD3_k127_6115326_2	570967.JMLV01000002_gene1900	2.889e-07	53.0	COG3842@1|root,COG3842@2|Bacteria,1RC3N@1224|Proteobacteria,2TY58@28211|Alphaproteobacteria,2JW83@204441|Rhodospirillales	204441|Rhodospirillales	E	ATPases associated with a variety of cellular activities	-	-	-	-	-	-	-	-	-	-	-	-	ABC_tran
LYD3_k127_6123069_2	760117.JN27_05255	1.844e-58	214.0	COG1230@1|root,COG1230@2|Bacteria,1QUZ5@1224|Proteobacteria,2WGMK@28216|Betaproteobacteria,4764Q@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Cation efflux family	zitB	-	-	ko:K16264	-	-	-	-	ko00000,ko02000	2.A.4.1	-	-	Abhydrolase_6,Cation_efflux
LYD3_k127_6123069_3	159087.Daro_0677	5.637e-56	202.0	COG0204@1|root,COG0204@2|Bacteria,1RJMS@1224|Proteobacteria,2VPJM@28216|Betaproteobacteria	28216|Betaproteobacteria	I	Phosphate acyltransferases	-	-	-	-	-	-	-	-	-	-	-	-	Acyltransferase
LYD3_k127_6123069_1	123899.JPQP01000002_gene1126	1.047e-62	222.0	COG2878@1|root,COG2878@2|Bacteria,1MUWU@1224|Proteobacteria,2VN5I@28216|Betaproteobacteria,3T3UE@506|Alcaligenaceae	28216|Betaproteobacteria	C	Part of a membrane complex involved in electron transport	rnfB	-	-	ko:K03616	-	-	-	-	ko00000	-	-	-	FeS,Fer4_21
LYD3_k127_6123069_4	382245.ASA_3294	2.769e-43	181.0	COG0457@1|root,COG0457@2|Bacteria,1P0WK@1224|Proteobacteria,1SU5D@1236|Gammaproteobacteria	1236|Gammaproteobacteria	S	Tetratricopeptide repeat	-	-	-	-	-	-	-	-	-	-	-	-	TPR_8
LYD3_k127_6123069_0	1144342.PMI40_04420	1.825e-99	332.0	COG0177@1|root,COG0177@2|Bacteria,1MUYQ@1224|Proteobacteria,2VIRB@28216|Betaproteobacteria,4734W@75682|Oxalobacteraceae	28216|Betaproteobacteria	L	DNA repair enzyme that has both DNA N-glycosylase activity and AP-lyase activity. The DNA N-glycosylase activity releases various damaged pyrimidines from DNA by cleaving the N- glycosidic bond, leaving an AP (apurinic apyrimidinic) site. The AP-lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate	nth	-	4.2.99.18	ko:K10773	ko03410,map03410	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	EndIII_4Fe-2S,HhH-GPD
LYD3_k127_6123069_5	1120999.JONM01000002_gene880	2.114e-07	52.0	2AFCJ@1|root,315C6@2|Bacteria,1RH66@1224|Proteobacteria,2VSTN@28216|Betaproteobacteria,2KQYI@206351|Neisseriales	206351|Neisseriales	S	Psort location Cytoplasmic, score 8.96	-	-	-	-	-	-	-	-	-	-	-	-	DUF1841
LYD3_k127_6126221_1	1187851.A33M_4208	1.521e-127	412.0	COG0493@1|root,COG0493@2|Bacteria,1MU2H@1224|Proteobacteria,2TSE2@28211|Alphaproteobacteria,3FCY5@34008|Rhodovulum	28211|Alphaproteobacteria	E	Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster	-	-	-	-	-	-	-	-	-	-	-	-	DHODB_Fe-S_bind,Fer4_20,Pyr_redox_2
LYD3_k127_6126221_0	1049564.TevJSym_bb00050	5.923e-218	692.0	COG0674@1|root,COG1014@1|root,COG0674@2|Bacteria,COG1014@2|Bacteria,1NBSJ@1224|Proteobacteria,1S0WV@1236|Gammaproteobacteria,1J5KF@118884|unclassified Gammaproteobacteria	1236|Gammaproteobacteria	C	Pyruvate ferredoxin oxidoreductase and related 2-oxoacid ferredoxin oxidoreductases	korA	-	1.2.7.11,1.2.7.3	ko:K00174	ko00010,ko00020,ko00620,ko00650,ko00720,ko01100,ko01120,ko01130,ko01200,map00010,map00020,map00620,map00650,map00720,map01100,map01120,map01130,map01200	M00009,M00011,M00173,M00620	R01196,R01197	RC00004,RC02742,RC02833	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	PFOR_II,POR,POR_N
LYD3_k127_6132651_1	1437824.BN940_15501	5.306e-194	619.0	COG0365@1|root,COG0365@2|Bacteria,1MUF5@1224|Proteobacteria,2VJJS@28216|Betaproteobacteria,3T2M2@506|Alcaligenaceae	28216|Betaproteobacteria	I	2-aminobenzoate-CoA ligase	bclA_1	-	6.2.1.32	ko:K08295	ko00627,ko01120,map00627,map01120	-	R00982	RC00004,RC00174	ko00000,ko00001,ko01000	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_6132651_2	94624.Bpet0552	1.243e-165	528.0	COG1960@1|root,COG1960@2|Bacteria,1MVQH@1224|Proteobacteria,2VIAN@28216|Betaproteobacteria,3T283@506|Alcaligenaceae	28216|Betaproteobacteria	I	acyl-CoA dehydrogenase	-	-	1.3.8.7	ko:K00249	ko00071,ko00280,ko00410,ko00640,ko01100,ko01110,ko01130,ko01200,ko01212,ko03320,map00071,map00280,map00410,map00640,map01100,map01110,map01130,map01200,map01212,map03320	M00013,M00036,M00087	R00924,R01175,R01279,R02661,R03172,R03777,R03857,R03990,R04095,R04432,R04751,R04754	RC00052,RC00068,RC00076,RC00095,RC00148,RC00246	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_6132651_3	94624.Bpet0551	6.232e-132	433.0	COG1024@1|root,COG1024@2|Bacteria,1MXHV@1224|Proteobacteria,2VHSP@28216|Betaproteobacteria,3T354@506|Alcaligenaceae	28216|Betaproteobacteria	I	Belongs to the enoyl-CoA hydratase isomerase family	abmC	-	-	-	-	-	-	-	-	-	-	-	ECH_1
LYD3_k127_6132651_4	296591.Bpro_0592	1.039e-54	198.0	COG1846@1|root,COG1846@2|Bacteria,1MZE9@1224|Proteobacteria,2VT2T@28216|Betaproteobacteria,4ADVS@80864|Comamonadaceae	28216|Betaproteobacteria	K	PFAM regulatory protein, MarR	badR	-	-	-	-	-	-	-	-	-	-	-	MarR,MarR_2
LYD3_k127_6132651_0	1122221.JHVI01000003_gene384	8.488e-269	835.0	COG0654@1|root,COG1902@1|root,COG0654@2|Bacteria,COG1902@2|Bacteria,1WIIR@1297|Deinococcus-Thermus	1297|Deinococcus-Thermus	C	PFAM NADH flavin oxidoreductase NADH oxidase	-	-	1.14.13.40	ko:K09461	ko00627,ko01120,map00627,map01120	-	R03998,R03999	RC00244	ko00000,ko00001,ko01000	-	-	-	FAD_binding_3,Oxidored_FMN
LYD3_k127_6132814_0	1192124.LIG30_2589	4.822e-132	427.0	COG1064@1|root,COG1064@2|Bacteria,1MUTT@1224|Proteobacteria,2VHZ4@28216|Betaproteobacteria,1K1RM@119060|Burkholderiaceae	28216|Betaproteobacteria	S	alcohol dehydrogenase	-	-	1.1.1.1	ko:K13953	ko00010,ko00071,ko00350,ko00625,ko00626,ko00830,ko00980,ko00982,ko01100,ko01110,ko01120,ko01130,ko01220,map00010,map00071,map00350,map00625,map00626,map00830,map00980,map00982,map01100,map01110,map01120,map01130,map01220	-	R00623,R00754,R02124,R04880,R05233,R05234,R06917,R06927,R07105,R08281,R08306,R08310	RC00050,RC00087,RC00088,RC00099,RC00116,RC00649,RC01734,RC02273	ko00000,ko00001,ko01000	-	-	-	ADH_N
LYD3_k127_6134189_0	1125863.JAFN01000001_gene3168	3.121e-123	401.0	COG3391@1|root,COG3391@2|Bacteria,1P6I0@1224|Proteobacteria,42Q47@68525|delta/epsilon subdivisions,2WJYF@28221|Deltaproteobacteria	28221|Deltaproteobacteria	S	Quinohemoprotein amine dehydrogenase	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6134189_3	1232410.KI421415_gene3049	2.361e-79	275.0	COG0826@1|root,COG0826@2|Bacteria,1RGGH@1224|Proteobacteria,42RX8@68525|delta/epsilon subdivisions,2WNAI@28221|Deltaproteobacteria,43THH@69541|Desulfuromonadales	28221|Deltaproteobacteria	O	peptidase U32	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6134189_1	1232410.KI421415_gene3048	1.223e-120	404.0	COG0826@1|root,COG0826@2|Bacteria,1R58U@1224|Proteobacteria,42Q3K@68525|delta/epsilon subdivisions,2WMIH@28221|Deltaproteobacteria,43T39@69541|Desulfuromonadales	28221|Deltaproteobacteria	O	Peptidase family U32	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_U32
LYD3_k127_6134189_2	1232410.KI421415_gene3047	1.446e-111	388.0	COG1132@1|root,COG1132@2|Bacteria,1MUBM@1224|Proteobacteria,42PRU@68525|delta/epsilon subdivisions,2WMHP@28221|Deltaproteobacteria	28221|Deltaproteobacteria	V	ABC transporter transmembrane region	-	-	-	-	-	-	-	-	-	-	-	-	ABC_membrane,ABC_tran
LYD3_k127_6149597_0	395495.Lcho_4221	1.71e-185	593.0	COG4664@1|root,COG4664@2|Bacteria,1R4MZ@1224|Proteobacteria,2VJ2Q@28216|Betaproteobacteria,1KKH9@119065|unclassified Burkholderiales	28216|Betaproteobacteria	Q	TRAP-type mannitol chloroaromatic compound transport system, large permease component	-	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_6149597_3	1286631.X805_25940	2.286e-48	179.0	COG0517@1|root,COG0517@2|Bacteria,1N0H3@1224|Proteobacteria,2VQEB@28216|Betaproteobacteria,1KKNW@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	CBS domain	-	-	-	-	-	-	-	-	-	-	-	-	CBS
LYD3_k127_6149597_1	1485544.JQKP01000001_gene1214	6.074e-70	250.0	COG0313@1|root,COG0313@2|Bacteria,1RARW@1224|Proteobacteria,2VQ34@28216|Betaproteobacteria,44W80@713636|Nitrosomonadales	28216|Betaproteobacteria	H	Tetrapyrrole (Corrin/Porphyrin) Methylases	rsmI_2	-	2.1.1.198	ko:K07056	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	TP_methylase
LYD3_k127_6149597_2	519989.ECTPHS_10391	7.559e-56	200.0	COG0424@1|root,COG0424@2|Bacteria,1RDA9@1224|Proteobacteria,1S3TQ@1236|Gammaproteobacteria,1WX51@135613|Chromatiales	135613|Chromatiales	D	Maf-like protein	-	-	-	ko:K06287	-	-	-	-	ko00000	-	-	-	Maf
LYD3_k127_6151507_1	1123487.KB892836_gene3270	1.642e-222	713.0	COG0612@1|root,COG0612@2|Bacteria,1MVST@1224|Proteobacteria,2VHVB@28216|Betaproteobacteria,2KV63@206389|Rhodocyclales	206389|Rhodocyclales	S	Belongs to the peptidase M16 family	-	-	-	ko:K07263	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_M16,Peptidase_M16_C
LYD3_k127_6151507_5	1472716.KBK24_0117125	8.939e-77	269.0	COG0697@1|root,COG0697@2|Bacteria,1MVKG@1224|Proteobacteria,2VM56@28216|Betaproteobacteria,1K4PV@119060|Burkholderiaceae	28216|Betaproteobacteria	EG	EamA-like transporter family	eamA	-	-	ko:K15268	-	-	-	-	ko00000,ko02000	2.A.7.3.2	-	-	EamA
LYD3_k127_6151507_3	1454004.AW11_03546	4.452e-140	469.0	COG1219@1|root,COG1219@2|Bacteria,1R8FT@1224|Proteobacteria,2VM85@28216|Betaproteobacteria,1KR7C@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	O	MCM2/3/5 family	-	-	-	ko:K03544	ko04112,map04112	-	-	-	ko00000,ko00001,ko03110	-	-	-	AAA_2,ClpB_D2-small
LYD3_k127_6151507_0	864051.BurJ1DRAFT_2939	2.293e-320	995.0	COG4666@1|root,COG4666@2|Bacteria,1MUNB@1224|Proteobacteria,2VHUG@28216|Betaproteobacteria,1KNFB@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	TIGRFAM TRAP transporter, 4TM 12TM fusion protein	-	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_6151507_2	1472418.BBJC01000005_gene2164	4.405e-145	469.0	COG2358@1|root,COG2358@2|Bacteria,1MXW1@1224|Proteobacteria,2TSK2@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	TRAP transporter solute receptor TAXI family	-	-	-	ko:K07080	-	-	-	-	ko00000	-	-	-	NMT1_3
LYD3_k127_6151507_6	887898.HMPREF0551_2330	1.537e-68	250.0	COG5001@1|root,COG5001@2|Bacteria,1MU2C@1224|Proteobacteria,2VH3V@28216|Betaproteobacteria,1K0RA@119060|Burkholderiaceae	28216|Betaproteobacteria	T	GGDEF domain containing protein	-	-	3.1.4.52	ko:K13243	-	-	R08991	RC00296	ko00000,ko01000	-	-	-	CHASE4,EAL,GAF,GAF_2,GGDEF,PAS,PAS_3,PAS_4,PAS_9
LYD3_k127_6151507_4	887898.HMPREF0551_2331	1.673e-89	315.0	COG2206@1|root,COG2206@2|Bacteria,1MW7F@1224|Proteobacteria,2VHR0@28216|Betaproteobacteria,1K6NR@119060|Burkholderiaceae	28216|Betaproteobacteria	T	Domain of unknown function (DUF3391)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3391,HD,HD_5
LYD3_k127_6151679_1	1000565.METUNv1_00923	6.755e-109	361.0	COG0679@1|root,COG0679@2|Bacteria,1MY23@1224|Proteobacteria,2VI9B@28216|Betaproteobacteria,2KZRN@206389|Rhodocyclales	206389|Rhodocyclales	S	Membrane transport protein	-	-	-	-	-	-	-	-	-	-	-	-	Mem_trans
LYD3_k127_6151679_0	159087.Daro_4128	5.201e-162	516.0	COG0031@1|root,COG0031@2|Bacteria,1MUBE@1224|Proteobacteria,2VJI3@28216|Betaproteobacteria,2KVD7@206389|Rhodocyclales	206389|Rhodocyclales	E	Pyridoxal-phosphate dependent enzyme	-	-	2.5.1.47	ko:K01738	ko00270,ko00920,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00270,map00920,map01100,map01110,map01120,map01130,map01200,map01230	M00021	R00897,R03601,R04859	RC00020,RC02814,RC02821	ko00000,ko00001,ko00002,ko01000	-	-	-	PALP
LYD3_k127_6151679_2	426114.THI_0755	1.012e-23	115.0	COG2940@1|root,COG2940@2|Bacteria,1MWFB@1224|Proteobacteria,2VR5U@28216|Betaproteobacteria,1KKW9@119065|unclassified Burkholderiales	28216|Betaproteobacteria	S	Cysteine-rich motif following a subset of SET domains	-	-	-	ko:K07117	-	-	-	-	ko00000	-	-	-	SET
LYD3_k127_6156718_2	228410.NE2030	6.753e-116	377.0	COG0448@1|root,COG0448@2|Bacteria,1MVTC@1224|Proteobacteria,2VIP2@28216|Betaproteobacteria,372V3@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Catalyzes the synthesis of ADP-glucose, a sugar donor used in elongation reactions on alpha-glucans	glgC	-	2.7.7.27	ko:K00975	ko00500,ko00520,ko01100,ko01110,ko02026,map00500,map00520,map01100,map01110,map02026	M00565	R00948	RC00002	ko00000,ko00001,ko00002,ko01000	-	-	-	NTP_transferase
LYD3_k127_6156718_1	357808.RoseRS_3822	3.412e-122	417.0	COG0596@1|root,COG0596@2|Bacteria,2G8HQ@200795|Chloroflexi,376XF@32061|Chloroflexia	32061|Chloroflexia	S	PFAM alpha beta hydrolase fold	-	-	3.8.1.3	ko:K01561	ko00361,ko00625,ko01100,ko01120,map00361,map00625,map01100,map01120	-	R05287	RC00697	ko00000,ko00001,ko01000	-	-	-	Abhydrolase_1
LYD3_k127_6156718_3	795666.MW7_0585	6.643e-112	380.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VHK8@28216|Betaproteobacteria,1K6UF@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_6156718_0	762376.AXYL_04159	9.67e-288	895.0	COG0129@1|root,COG0129@2|Bacteria,1MV4I@1224|Proteobacteria,2VKKY@28216|Betaproteobacteria,3T5BW@506|Alcaligenaceae	28216|Betaproteobacteria	EG	Belongs to the IlvD Edd family	-	-	4.2.1.82,4.2.1.9	ko:K01687,ko:K22186	ko00040,ko00290,ko00770,ko01100,ko01110,ko01130,ko01210,ko01230,map00040,map00290,map00770,map01100,map01110,map01130,map01210,map01230	M00019,M00570	R01209,R02429,R04441,R05070	RC00468,RC00543,RC01714	ko00000,ko00001,ko00002,ko01000	-	-	-	ILVD_EDD
LYD3_k127_6157895_1	1131553.JIBI01000011_gene736	1.044e-54	196.0	COG0217@1|root,COG0217@2|Bacteria,1MW3X@1224|Proteobacteria,2VIA5@28216|Betaproteobacteria,371YE@32003|Nitrosomonadales	28216|Betaproteobacteria	K	transcriptional regulatory protein	yebC	-	-	-	-	-	-	-	-	-	-	-	Transcrip_reg
LYD3_k127_6157895_2	1123367.C666_13865	1.057e-50	186.0	COG2802@1|root,COG2802@2|Bacteria,1RFYH@1224|Proteobacteria,2VSA4@28216|Betaproteobacteria,2KWC8@206389|Rhodocyclales	206389|Rhodocyclales	S	peptidase S16	-	-	-	ko:K07157	-	-	-	-	ko00000	-	-	-	LON_substr_bdg
LYD3_k127_6157895_0	323848.Nmul_A0081	3.957e-102	340.0	COG1660@1|root,COG1660@2|Bacteria,1MVX6@1224|Proteobacteria,2VIH5@28216|Betaproteobacteria,372SK@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Displays ATPase and GTPase activities	yhbJ	-	-	ko:K06958	-	-	-	-	ko00000,ko03019	-	-	-	ATP_bind_2
LYD3_k127_6157895_3	1120999.JONM01000010_gene4056	1.358e-22	98.0	COG1493@1|root,COG1493@2|Bacteria,1NNN5@1224|Proteobacteria,2VJCH@28216|Betaproteobacteria,2KPR1@206351|Neisseriales	206351|Neisseriales	H	Catalyzes the ATP- as well as the pyrophosphate- dependent phosphorylation of a specific serine residue in HPr, a phosphocarrier protein of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS). HprK P also catalyzes the pyrophosphate-producing, inorganic phosphate-dependent dephosphorylation (phosphorolysis) of seryl-phosphorylated HPr (P- Ser-HPr)	hprK	-	-	ko:K06023	-	-	-	-	ko00000,ko01000	-	-	-	Hpr_kinase_C,Hpr_kinase_N
LYD3_k127_6164050_0	395495.Lcho_1277	5.359e-114	377.0	COG4166@1|root,COG4166@2|Bacteria,1MUVU@1224|Proteobacteria,2VHFM@28216|Betaproteobacteria,1KP9M@119065|unclassified Burkholderiales	28216|Betaproteobacteria	E	Bacterial extracellular solute-binding proteins, family 5 Middle	-	-	-	ko:K02035,ko:K13893	ko02010,ko02024,map02010,map02024	M00239,M00349	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.21,3.A.1.5.24	-	-	SBP_bac_5
LYD3_k127_6164050_1	1005048.CFU_0632	1.701e-106	349.0	COG0075@1|root,COG0075@2|Bacteria,1MWHJ@1224|Proteobacteria,2VKXZ@28216|Betaproteobacteria	28216|Betaproteobacteria	E	Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family. PhnW subfamily	phnW	-	2.6.1.37	ko:K03430	ko00440,ko01100,ko01120,map00440,map01100,map01120	-	R04152	RC00008,RC00062	ko00000,ko00001,ko01000,ko01007	-	-	-	Aminotran_5
LYD3_k127_6173900_2	760117.JN27_19695	1.009e-167	535.0	COG3508@1|root,COG3508@2|Bacteria,1MV9G@1224|Proteobacteria,2VJUH@28216|Betaproteobacteria,4728F@75682|Oxalobacteraceae	28216|Betaproteobacteria	Q	Involved in the catabolism of homogentisate (2,5- dihydroxyphenylacetate or 2,5-OH-PhAc), a central intermediate in the degradation of phenylalanine and tyrosine. Catalyzes the oxidative ring cleavage of the aromatic ring of homogentisate to yield maleylacetoacetate	hmgA	-	1.13.11.5	ko:K00451	ko00350,ko00643,ko01100,ko01120,map00350,map00643,map01100,map01120	M00044	R02519	RC00737	ko00000,ko00001,ko00002,ko01000	-	-	-	HgmA
LYD3_k127_6173900_4	1121106.JQKB01000016_gene5347	3.052e-18	91.0	2E3JP@1|root,32YI0@2|Bacteria,1N6ZI@1224|Proteobacteria,2UF5U@28211|Alphaproteobacteria,2JUMX@204441|Rhodospirillales	204441|Rhodospirillales	S	Protein of unknown function (DUF2783)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2783
LYD3_k127_6173900_0	1366050.N234_30015	3.621e-227	717.0	COG0654@1|root,COG0654@2|Bacteria,1MUN4@1224|Proteobacteria,2VI73@28216|Betaproteobacteria,1K3XK@119060|Burkholderiaceae	28216|Betaproteobacteria	CH	PFAM monooxygenase FAD-binding	-	-	1.14.13.127	ko:K05712	ko00360,ko01120,ko01220,map00360,map01120,map01220	M00545	R06786,R06787	RC00236	ko00000,ko00001,ko00002,ko01000	-	-	-	FAD_binding_3
LYD3_k127_6173900_1	196367.JNFG01000017_gene4218	2.038e-169	535.0	COG0491@1|root,COG0491@2|Bacteria,1MX4H@1224|Proteobacteria,2VI82@28216|Betaproteobacteria,1K352@119060|Burkholderiaceae	28216|Betaproteobacteria	S	PFAM beta-lactamase domain protein	-	-	-	-	-	-	-	-	-	-	-	-	Lactamase_B
LYD3_k127_6173900_3	316067.Geob_3331	1.712e-113	370.0	COG1638@1|root,COG1638@2|Bacteria,1MVHI@1224|Proteobacteria,42MVD@68525|delta/epsilon subdivisions,2WIY3@28221|Deltaproteobacteria,43U0W@69541|Desulfuromonadales	28221|Deltaproteobacteria	G	Bacterial extracellular solute-binding protein, family 7	-	-	-	-	-	-	-	-	-	-	-	-	DctP
LYD3_k127_6185118_6	666681.M301_1585	3.261e-16	79.0	28KE4@1|root,2ZA0D@2|Bacteria,1MXZT@1224|Proteobacteria,2VNI6@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6185118_1	1349767.GJA_2235	3.659e-101	351.0	COG1404@1|root,COG1404@2|Bacteria,1R5T3@1224|Proteobacteria,2W284@28216|Betaproteobacteria,476MQ@75682|Oxalobacteraceae	28216|Betaproteobacteria	O	Subtilase family	-	-	-	-	-	-	-	-	-	-	-	-	Peptidase_S8
LYD3_k127_6185118_4	1300345.LF41_1608	7.29e-27	121.0	2EBKV@1|root,335M7@2|Bacteria,1NAHA@1224|Proteobacteria,1SICQ@1236|Gammaproteobacteria,1X6IR@135614|Xanthomonadales	135614|Xanthomonadales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	zf-HC2
LYD3_k127_6185118_2	1123073.KB899241_gene1962	5.013e-50	184.0	COG1595@1|root,COG1595@2|Bacteria,1MVPD@1224|Proteobacteria,1SC6Q@1236|Gammaproteobacteria,1X520@135614|Xanthomonadales	135614|Xanthomonadales	K	Belongs to the sigma-70 factor family. ECF subfamily	rpoE4	-	-	ko:K03088	-	-	-	-	ko00000,ko03021	-	-	-	Sigma70_r2,Sigma70_r4,Sigma70_r4_2
LYD3_k127_6185118_0	215803.DB30_7234	3.566e-170	539.0	COG0667@1|root,COG0667@2|Bacteria,1MVEH@1224|Proteobacteria,42MDR@68525|delta/epsilon subdivisions,2WKUR@28221|Deltaproteobacteria,2YU5C@29|Myxococcales	28221|Deltaproteobacteria	C	Aldo/keto reductase family	-	-	-	-	-	-	-	-	-	-	-	-	Aldo_ket_red
LYD3_k127_6185118_5	512565.AMIS_27500	2.404e-21	98.0	COG1846@1|root,COG1846@2|Bacteria,2HWWK@201174|Actinobacteria,4DIN4@85008|Micromonosporales	201174|Actinobacteria	K	helix_turn_helix multiple antibiotic resistance protein	-	-	-	-	-	-	-	-	-	-	-	-	MarR_2
LYD3_k127_62007_2	1249627.D779_0262	5.012e-50	181.0	COG4579@1|root,COG4579@2|Bacteria,1MVRB@1224|Proteobacteria,1RMC2@1236|Gammaproteobacteria,1WVZ5@135613|Chromatiales	135613|Chromatiales	F	Bifunctional enzyme which can phosphorylate or dephosphorylate isocitrate dehydrogenase (IDH) on a specific serine residue. This is a regulatory mechanism which enables bacteria to bypass the Krebs cycle via the glyoxylate shunt in response to the source of carbon. When bacteria are grown on glucose, IDH is fully active and unphosphorylated, but when grown on acetate or ethanol, the activity of IDH declines drastically concomitant with its phosphorylation	aceK	-	2.7.11.5	ko:K00906	-	-	-	-	ko00000,ko01000	-	-	-	AceK
LYD3_k127_62007_3	1156935.QWE_18448	0.0009664	49.0	COG3895@1|root,COG3895@2|Bacteria	2|Bacteria	O	Periplasmic Protein	mliC	GO:0003674,GO:0004857,GO:0005575,GO:0005623,GO:0008150,GO:0009279,GO:0016020,GO:0019867,GO:0030234,GO:0030312,GO:0030313,GO:0031975,GO:0043086,GO:0044092,GO:0044462,GO:0044464,GO:0050790,GO:0060241,GO:0065007,GO:0065009,GO:0071944,GO:0098772	-	-	-	-	-	-	-	-	-	-	MliC
LYD3_k127_62007_1	1216976.AX27061_5673	1.337e-67	241.0	COG2084@1|root,COG2084@2|Bacteria,1MUD0@1224|Proteobacteria,2VKIK@28216|Betaproteobacteria,3T3TK@506|Alcaligenaceae	28216|Betaproteobacteria	I	NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase	garR	-	1.1.1.31,1.1.1.411	ko:K00020,ko:K08319	ko00280,ko01100,map00280,map01100	-	R05066	RC00099	ko00000,ko00001,ko01000	-	-	-	NAD_binding_11,NAD_binding_2
LYD3_k127_62007_0	1349767.GJA_37	6.719e-178	576.0	COG4166@1|root,COG4166@2|Bacteria,1R87R@1224|Proteobacteria,2VKFJ@28216|Betaproteobacteria,47408@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Bacterial extracellular solute-binding proteins, family 5 Middle	-	-	-	-	-	-	-	-	-	-	-	-	SBP_bac_5
LYD3_k127_6201818_0	522306.CAP2UW1_0166	9.858e-242	753.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VHFI@28216|Betaproteobacteria,1KQBT@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	U	TIGRFAM transporter, hydrophobe amphiphile efflux-1 (HAE1) family	-	-	-	ko:K18138	ko01501,ko01503,map01501,map01503	M00647,M00699,M00718	-	-	ko00000,ko00001,ko00002,ko01504,ko02000	2.A.6.2	-	-	ACR_tran
LYD3_k127_6201818_1	522306.CAP2UW1_0165	8.756e-89	299.0	COG1538@1|root,COG1538@2|Bacteria,1MUA8@1224|Proteobacteria,2VI5V@28216|Betaproteobacteria,1KQSR@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	M	TIGRFAM RND efflux system, outer membrane lipoprotein, NodT family	-	-	-	ko:K18139	ko01501,ko02024,map01501,map02024	M00642,M00643,M00647,M00718,M00768,M00822	-	-	ko00000,ko00001,ko00002,ko01504,ko02000	1.B.17,2.A.6.2	-	-	OEP
LYD3_k127_6217171_0	1485544.JQKP01000001_gene914	2.482e-289	902.0	COG5009@1|root,COG5009@2|Bacteria,1MU5A@1224|Proteobacteria,2VHXF@28216|Betaproteobacteria,44V5E@713636|Nitrosomonadales	28216|Betaproteobacteria	M	Penicillin-binding protein OB-like domain	mrcA	-	2.4.1.129,3.4.16.4	ko:K05366	ko00550,ko01100,ko01501,map00550,map01100,map01501	-	-	-	ko00000,ko00001,ko01000,ko01003,ko01011	-	GT51	-	PCB_OB,Transgly,Transpeptidase
LYD3_k127_623249_3	583345.Mmol_2104	1.15e-06	55.0	2DFR0@1|root,2ZSQN@2|Bacteria,1NFG9@1224|Proteobacteria	1224|Proteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_623249_1	1123487.KB892834_gene2675	6.361e-98	326.0	COG0220@1|root,COG0220@2|Bacteria,1MUWJ@1224|Proteobacteria,2VJN2@28216|Betaproteobacteria,2KUWG@206389|Rhodocyclales	206389|Rhodocyclales	J	Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA	trmB	-	2.1.1.33	ko:K03439	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	Methyltransf_4
LYD3_k127_623249_0	1123073.KB899243_gene829	8.379e-203	664.0	COG0438@1|root,COG1216@1|root,COG0438@2|Bacteria,COG1216@2|Bacteria,1MVIM@1224|Proteobacteria,1RPB8@1236|Gammaproteobacteria,1X3GZ@135614|Xanthomonadales	135614|Xanthomonadales	M	Glycosyl transferase	-	-	-	ko:K20444	-	-	-	-	ko00000,ko01000,ko01005,ko02000	4.D.1.3	GT2,GT4	-	Glyco_trans_1_4,Glycos_transf_2
LYD3_k127_623249_2	1121937.AUHJ01000006_gene2525	3.419e-11	66.0	COG0438@1|root,COG1216@1|root,COG0438@2|Bacteria,COG1216@2|Bacteria,1QP7Y@1224|Proteobacteria,1RR12@1236|Gammaproteobacteria	1236|Gammaproteobacteria	M	glycosyl transferase family 2	-	-	-	ko:K20444	-	-	-	-	ko00000,ko01000,ko01005,ko02000	4.D.1.3	GT2,GT4	-	Glyco_trans_1_4,Glycos_transf_2,Methyltransf_23
LYD3_k127_6250807_2	595537.Varpa_4914	1.619e-10	71.0	COG4966@1|root,COG4966@2|Bacteria,1RH2G@1224|Proteobacteria,2VQ2C@28216|Betaproteobacteria,4AFZ5@80864|Comamonadaceae	28216|Betaproteobacteria	NU	Type IV Pilus-assembly protein W	-	-	-	ko:K02672	-	-	-	-	ko00000,ko02035,ko02044	-	-	-	N_methyl,PilW
LYD3_k127_6250807_1	159087.Daro_3037	8.48e-13	79.0	COG4726@1|root,COG4726@2|Bacteria,1N9CE@1224|Proteobacteria,2VU4Z@28216|Betaproteobacteria,2KZUP@206389|Rhodocyclales	206389|Rhodocyclales	NU	Pilus assembly protein PilX	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6250807_0	290397.Adeh_2245	1.518e-133	431.0	COG1012@1|root,COG1012@2|Bacteria,1MUHV@1224|Proteobacteria,42MVJ@68525|delta/epsilon subdivisions,2WKM4@28221|Deltaproteobacteria,2YTUB@29|Myxococcales	28221|Deltaproteobacteria	C	Aldehyde dehydrogenase family	mmsA	-	1.2.1.18,1.2.1.27	ko:K00140	ko00280,ko00410,ko00562,ko00640,ko01100,ko01200,map00280,map00410,map00562,map00640,map01100,map01200	M00013	R00705,R00706,R00922,R00935	RC00004,RC02723,RC02817	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_6260314_1	265072.Mfla_1619	9.511e-151	486.0	COG0124@1|root,COG0124@2|Bacteria,1MV2K@1224|Proteobacteria,2VIGA@28216|Betaproteobacteria,2KKZY@206350|Nitrosomonadales	206350|Nitrosomonadales	J	PFAM tRNA synthetase class II (G H P and S)	hisS	-	6.1.1.21	ko:K01892	ko00970,map00970	M00359,M00360	R03655	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	HGTP_anticodon,tRNA-synt_His
LYD3_k127_6260314_4	1163617.SCD_n01807	2.98e-57	209.0	COG2976@1|root,COG2976@2|Bacteria,1N117@1224|Proteobacteria,2VSHE@28216|Betaproteobacteria	28216|Betaproteobacteria	S	protein conserved in bacteria	-	-	-	-	-	-	-	-	-	-	-	-	TPR_21
LYD3_k127_6260314_3	1163617.SCD_n01806	1.747e-106	364.0	COG1520@1|root,COG1520@2|Bacteria,1MXIJ@1224|Proteobacteria,2VHH5@28216|Betaproteobacteria	28216|Betaproteobacteria	M	Part of the outer membrane protein assembly complex, which is involved in assembly and insertion of beta-barrel proteins into the outer membrane	bamB	-	-	ko:K17713	-	-	-	-	ko00000,ko02000	1.B.33.1	-	-	PQQ_2,PQQ_3
LYD3_k127_6260314_0	1123504.JQKD01000031_gene4563	1.567e-165	532.0	COG1160@1|root,COG1160@2|Bacteria,1MU9S@1224|Proteobacteria,2VI8D@28216|Betaproteobacteria,4ACK5@80864|Comamonadaceae	28216|Betaproteobacteria	S	GTPase that plays an essential role in the late steps of ribosome biogenesis	der	-	-	ko:K03977	-	-	-	-	ko00000,ko03009	-	-	-	KH_dom-like,MMR_HSR1
LYD3_k127_6260314_6	1121004.ATVC01000020_gene40	3.223e-36	139.0	COG1923@1|root,COG1923@2|Bacteria,1MZM1@1224|Proteobacteria,2VTXK@28216|Betaproteobacteria,2KRCS@206351|Neisseriales	206351|Neisseriales	J	RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Also binds with high specificity to tRNAs	hfq	-	-	ko:K03666	ko02024,ko03018,ko05111,map02024,map03018,map05111	-	-	-	ko00000,ko00001,ko03019,ko03036	-	-	-	Hfq
LYD3_k127_6260314_2	1163617.SCD_n01801	9.833e-139	450.0	COG2262@1|root,COG2262@2|Bacteria,1MUA0@1224|Proteobacteria,2VI86@28216|Betaproteobacteria	28216|Betaproteobacteria	S	GTPase that associates with the 50S ribosomal subunit and may have a role during protein synthesis or ribosome biogenesis	hflX	-	-	ko:K03665	-	-	-	-	ko00000,ko03009	-	-	-	GTP-bdg_M,GTP-bdg_N,MMR_HSR1
LYD3_k127_6260314_5	323848.Nmul_A0445	9.066e-53	190.0	COG0330@1|root,COG0330@2|Bacteria,1MUM2@1224|Proteobacteria,2VIG2@28216|Betaproteobacteria,371ZU@32003|Nitrosomonadales	28216|Betaproteobacteria	O	HflC and HflK could encode or regulate a protease	hflK	-	-	ko:K04088	-	M00742	-	-	ko00000,ko00002,ko01000	-	-	-	Band_7,HflK_N
LYD3_k127_6273761_3	1472716.KBK24_0101300	1.07e-79	268.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,2VHFI@28216|Betaproteobacteria,1K4D2@119060|Burkholderiaceae	28216|Betaproteobacteria	V	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family	-	-	-	ko:K18138	ko01501,ko01503,map01501,map01503	M00647,M00699,M00718	-	-	ko00000,ko00001,ko00002,ko01504,ko02000	2.A.6.2	-	-	ACR_tran
LYD3_k127_6273761_2	391038.Bphy_2410	3.66e-138	471.0	COG0845@1|root,COG0845@2|Bacteria,1MUFW@1224|Proteobacteria,2VKCK@28216|Betaproteobacteria,1K367@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family	-	-	-	ko:K03585	ko01501,ko01503,map01501,map01503	M00646,M00647,M00699,M00718	-	-	ko00000,ko00001,ko00002,ko01504,ko02000,ko03036	2.A.6.2,8.A.1.6	-	-	HlyD_D23
LYD3_k127_6273761_1	1218084.BBJK01000029_gene2788	9.212e-158	512.0	COG1538@1|root,COG1538@2|Bacteria,1MUA8@1224|Proteobacteria,2VHFP@28216|Betaproteobacteria,1K0RB@119060|Burkholderiaceae	28216|Betaproteobacteria	M	TIGRFAM RND efflux system, outer membrane lipoprotein, NodT family	-	-	-	-	-	-	-	-	-	-	-	-	OEP
LYD3_k127_6273761_4	1097668.BYI23_A021080	1.201e-73	263.0	COG2358@1|root,COG2358@2|Bacteria,1PNJV@1224|Proteobacteria,2VI8H@28216|Betaproteobacteria,1K1DT@119060|Burkholderiaceae	28216|Betaproteobacteria	S	ABC transporter substrate-binding protein	-	-	-	-	-	-	-	-	-	-	-	-	NMT1_3
LYD3_k127_6273761_0	1366050.N234_06785	0.0	1091.0	COG2902@1|root,COG2902@2|Bacteria,1MXNV@1224|Proteobacteria,2VKIR@28216|Betaproteobacteria,1K20Q@119060|Burkholderiaceae	28216|Betaproteobacteria	E	NAD-glutamate dehydrogenase	gdhB	-	1.4.1.2	ko:K15371	ko00220,ko00250,ko00430,ko00910,ko01100,map00220,map00250,map00430,map00910,map01100	-	R00243	RC00006,RC02799	ko00000,ko00001,ko01000	-	-	-	Bac_GDH
LYD3_k127_62742_2	946483.Cenrod_0414	2.552e-65	223.0	COG0493@1|root,COG1144@1|root,COG0493@2|Bacteria,COG1144@2|Bacteria,1MU2H@1224|Proteobacteria,2VM9R@28216|Betaproteobacteria,4AD4V@80864|Comamonadaceae	28216|Betaproteobacteria	C	Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster	-	-	-	-	-	-	-	-	-	-	-	-	Fer4,Fer4_20,Pyr_redox_2,Pyr_redox_3
LYD3_k127_62742_0	713587.THITH_03495	7.708e-250	782.0	COG0281@1|root,COG0281@2|Bacteria,1MU0A@1224|Proteobacteria,1RQ11@1236|Gammaproteobacteria,1WX9G@135613|Chromatiales	135613|Chromatiales	C	PFAM Malic enzyme, NAD binding domain	-	-	1.1.1.40	ko:K00029	ko00620,ko00710,ko01100,ko01120,ko01200,map00620,map00710,map01100,map01120,map01200	M00169,M00172	R00216	RC00105	ko00000,ko00001,ko00002,ko01000	-	-	-	Malic_M,malic
LYD3_k127_62742_3	713587.THITH_10385	2.599e-46	169.0	COG0838@1|root,COG0838@2|Bacteria	2|Bacteria	C	NADH dehydrogenase (ubiquinone) activity	nuoA	GO:0003674,GO:0003824,GO:0003954,GO:0005575,GO:0008137,GO:0008150,GO:0008152,GO:0016020,GO:0016491,GO:0016651,GO:0016655,GO:0030964,GO:0032991,GO:0044425,GO:0050136,GO:0055114,GO:0098796,GO:1902494	1.6.5.3	ko:K00330	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q4
LYD3_k127_62742_1	713587.THITH_10380	3.099e-87	298.0	COG0377@1|root,COG0377@2|Bacteria,1MUI2@1224|Proteobacteria,1RP4R@1236|Gammaproteobacteria,1WW6I@135613|Chromatiales	135613|Chromatiales	C	NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient	-	-	1.6.5.3	ko:K00331	ko00190,ko01100,map00190,map01100	M00144	R11945	RC00061	ko00000,ko00001,ko00002,ko01000	3.D.1	-	-	Oxidored_q6
LYD3_k127_6279333_0	1123392.AQWL01000001_gene1563	2.494e-187	599.0	COG1086@1|root,COG1086@2|Bacteria,1MWKY@1224|Proteobacteria,2VHGF@28216|Betaproteobacteria,1KRIS@119069|Hydrogenophilales	119069|Hydrogenophilales	M	CoA-binding domain	-	-	-	-	-	-	-	-	-	-	-	-	CoA_binding_3,Polysacc_synt_2
LYD3_k127_6279333_7	1163617.SCD_n02871	4.022e-30	134.0	COG3307@1|root,COG3307@2|Bacteria,1NGAP@1224|Proteobacteria,2VY7V@28216|Betaproteobacteria	28216|Betaproteobacteria	M	O-Antigen ligase	-	-	-	-	-	-	-	-	-	-	-	-	Wzy_C
LYD3_k127_6279333_2	1163617.SCD_n00329	3.958e-134	436.0	COG0548@1|root,COG0548@2|Bacteria,1MU17@1224|Proteobacteria,2VIIY@28216|Betaproteobacteria	28216|Betaproteobacteria	F	Belongs to the acetylglutamate kinase family. ArgB subfamily	argB	-	2.7.2.8	ko:K00930	ko00220,ko01100,ko01110,ko01130,ko01210,ko01230,map00220,map01100,map01110,map01130,map01210,map01230	M00028	R02649	RC00002,RC00043	ko00000,ko00001,ko00002,ko01000	-	-	-	AA_kinase
LYD3_k127_6279333_4	93220.LV28_15625	4.727e-71	245.0	COG1309@1|root,COG1309@2|Bacteria,1MWF7@1224|Proteobacteria,2VQ4C@28216|Betaproteobacteria,1K3TI@119060|Burkholderiaceae	28216|Betaproteobacteria	K	PFAM regulatory protein TetR	slmA	-	-	ko:K05501	-	-	-	-	ko00000,ko03000,ko03036	-	-	-	TetR_N
LYD3_k127_6279333_3	640081.Dsui_1268	7.338e-104	348.0	COG0476@1|root,COG0476@2|Bacteria,1MW7H@1224|Proteobacteria,2VI1U@28216|Betaproteobacteria,2KUF5@206389|Rhodocyclales	206389|Rhodocyclales	H	COG0476 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2	thiF	-	2.7.7.80	ko:K21029	ko04122,map04122	-	R07459	RC00043	ko00000,ko00001,ko01000	-	-	-	ThiF
LYD3_k127_6279333_1	583345.Mmol_0441	6.799e-172	552.0	COG0793@1|root,COG0793@2|Bacteria,1MU39@1224|Proteobacteria,2VJ86@28216|Betaproteobacteria,2KKV4@206350|Nitrosomonadales	206350|Nitrosomonadales	M	Belongs to the peptidase S41A family	-	-	3.4.21.102	ko:K03797	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	PDZ_2,Peptidase_S41
LYD3_k127_6279333_5	1165096.ARWF01000001_gene2160	5.555e-50	179.0	COG0696@1|root,COG0696@2|Bacteria,1MUQ1@1224|Proteobacteria,2VMTN@28216|Betaproteobacteria,2KM0U@206350|Nitrosomonadales	206350|Nitrosomonadales	G	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate	gpmI	-	5.4.2.12	ko:K15633	ko00010,ko00260,ko00680,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00010,map00260,map00680,map01100,map01110,map01120,map01130,map01200,map01230	M00001,M00002,M00003	R01518	RC00536	ko00000,ko00001,ko00002,ko01000	-	-	-	Metalloenzyme,Phosphodiest,iPGM_N
LYD3_k127_6302206_0	1288494.EBAPG3_28250	3.812e-209	665.0	COG0768@1|root,COG0768@2|Bacteria,1MUNY@1224|Proteobacteria,2VIZM@28216|Betaproteobacteria,371RH@32003|Nitrosomonadales	28216|Betaproteobacteria	M	Catalyzes cross-linking of the peptidoglycan cell wall at the division septum	ftsI	-	3.4.16.4	ko:K03587	ko00550,ko01501,map00550,map01501	-	-	-	ko00000,ko00001,ko01000,ko01011,ko03036	-	-	-	PBP_dimer,Transpeptidase
LYD3_k127_6302206_5	1288494.EBAPG3_28260	7.746e-23	100.0	COG3116@1|root,COG3116@2|Bacteria,1N6WK@1224|Proteobacteria,2VW1W@28216|Betaproteobacteria,373NV@32003|Nitrosomonadales	28216|Betaproteobacteria	D	Essential cell division protein. May link together the upstream cell division proteins, which are predominantly cytoplasmic, with the downstream cell division proteins, which are predominantly periplasmic	ftsL	-	-	ko:K03586	-	-	-	-	ko00000,ko03036	-	-	-	FtsL
LYD3_k127_6302206_2	1121035.AUCH01000009_gene918	1.226e-99	343.0	COG0275@1|root,COG0275@2|Bacteria,1MUT4@1224|Proteobacteria,2VIYT@28216|Betaproteobacteria,2KUQH@206389|Rhodocyclales	206389|Rhodocyclales	J	Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA	rsmH	-	2.1.1.199	ko:K03438	-	-	-	-	ko00000,ko01000,ko03009	-	-	-	Methyltransf_5
LYD3_k127_6302206_4	261292.Nit79A3_3527	4.391e-51	186.0	COG2001@1|root,COG2001@2|Bacteria,1RHCG@1224|Proteobacteria,2VRGP@28216|Betaproteobacteria,3733U@32003|Nitrosomonadales	28216|Betaproteobacteria	K	Belongs to the MraZ family	mraZ	-	-	ko:K03925	-	-	-	-	ko00000	-	-	-	MraZ
LYD3_k127_6302206_1	1163617.SCD_n01207	1.341e-108	374.0	COG0729@1|root,COG0729@2|Bacteria,1MUKM@1224|Proteobacteria,2VHW1@28216|Betaproteobacteria	28216|Betaproteobacteria	M	surface antigen	tama	-	-	ko:K07278	-	-	-	-	ko00000,ko02000	1.B.33.2.4	-	-	Bac_surface_Ag,POTRA,POTRA_TamA_1
LYD3_k127_6302206_3	977880.RALTA_A2429	2.229e-63	248.0	COG2911@1|root,COG2911@2|Bacteria,1MUVD@1224|Proteobacteria,2VJB8@28216|Betaproteobacteria,1K000@119060|Burkholderiaceae	28216|Betaproteobacteria	S	TamB, inner membrane protein subunit of TAM complex	tamB	-	-	ko:K09800	-	-	-	-	ko00000,ko02000	-	-	-	TamB
LYD3_k127_6303616_4	1504672.669786466	5.054e-56	200.0	COG3118@1|root,COG3118@2|Bacteria,1RHUA@1224|Proteobacteria,2VR2G@28216|Betaproteobacteria,4ADZP@80864|Comamonadaceae	28216|Betaproteobacteria	O	PFAM Thioredoxin domain	trxC	-	1.8.1.8	ko:K03672	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	Thioredoxin
LYD3_k127_6303616_2	452637.Oter_3080	1.751e-68	248.0	2CIBN@1|root,2Z8JT@2|Bacteria	2|Bacteria	S	Metal dependent phosphohydrolases with conserved 'HD' motif.	-	-	-	-	-	-	-	-	-	-	-	-	HD
LYD3_k127_6303616_0	1454004.AW11_02744	5.177e-144	469.0	COG0010@1|root,COG0010@2|Bacteria,1MVFH@1224|Proteobacteria,2VJU2@28216|Betaproteobacteria	28216|Betaproteobacteria	E	Belongs to the arginase family	rocF	-	3.5.3.1,3.5.3.11,3.5.3.17,3.5.3.7	ko:K01476,ko:K01480,ko:K12255,ko:K18459	ko00220,ko00330,ko01100,ko01110,ko01130,ko01230,ko05146,map00220,map00330,map01100,map01110,map01130,map01230,map05146	M00029,M00133,M00134	R00551,R01157,R01990	RC00024,RC00329	ko00000,ko00001,ko00002,ko01000	-	-	-	Arginase
LYD3_k127_6303616_1	640511.BC1002_0237	2.539e-90	307.0	COG0583@1|root,COG0583@2|Bacteria,1MWY0@1224|Proteobacteria,2VM3R@28216|Betaproteobacteria,1K09B@119060|Burkholderiaceae	28216|Betaproteobacteria	K	Transcriptional regulator	gcvA	-	-	ko:K03566	ko02026,map02026	-	-	-	ko00000,ko00001,ko03000	-	-	-	HTH_1,LysR_substrate
LYD3_k127_6303616_3	1120953.AUBH01000001_gene589	2.744e-58	203.0	COG0017@1|root,COG0017@2|Bacteria,1MWFV@1224|Proteobacteria,1RMU4@1236|Gammaproteobacteria,464RC@72275|Alteromonadaceae	1236|Gammaproteobacteria	J	COG0017 Aspartyl asparaginyl-tRNA synthetases	asnS	GO:0000166,GO:0003674,GO:0003824,GO:0004812,GO:0004816,GO:0005488,GO:0005524,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0006082,GO:0006139,GO:0006399,GO:0006412,GO:0006418,GO:0006421,GO:0006518,GO:0006520,GO:0006725,GO:0006807,GO:0008144,GO:0008150,GO:0008152,GO:0009058,GO:0009059,GO:0009987,GO:0010467,GO:0016070,GO:0016874,GO:0016875,GO:0017076,GO:0019538,GO:0019752,GO:0030554,GO:0032553,GO:0032555,GO:0032559,GO:0034641,GO:0034645,GO:0034660,GO:0035639,GO:0036094,GO:0043038,GO:0043039,GO:0043043,GO:0043167,GO:0043168,GO:0043170,GO:0043436,GO:0043603,GO:0043604,GO:0044237,GO:0044238,GO:0044249,GO:0044260,GO:0044267,GO:0044271,GO:0044281,GO:0044424,GO:0044464,GO:0046483,GO:0071704,GO:0090304,GO:0097159,GO:0097367,GO:0140098,GO:0140101,GO:1901265,GO:1901360,GO:1901363,GO:1901564,GO:1901566,GO:1901576	6.1.1.22	ko:K01893	ko00970,map00970	M00359,M00360	R03648	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	iSDY_1059.SDY_2327	tRNA-synt_2,tRNA_anti-codon
LYD3_k127_6304767_0	1288494.EBAPG3_21990	0.0	1476.0	COG0493@1|root,COG0543@1|root,COG0493@2|Bacteria,COG0543@2|Bacteria,1PV5D@1224|Proteobacteria,2WB3J@28216|Betaproteobacteria,37281@32003|Nitrosomonadales	28216|Betaproteobacteria	CEH	PFAM FAD-dependent pyridine nucleotide-disulphide oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	Pyr_redox_2
LYD3_k127_6305105_2	404589.Anae109_2748	8.274e-50	192.0	COG0493@1|root,COG0543@1|root,COG1633@1|root,COG0493@2|Bacteria,COG0543@2|Bacteria,COG1633@2|Bacteria,1MU2H@1224|Proteobacteria,42MGY@68525|delta/epsilon subdivisions,2WJHC@28221|Deltaproteobacteria	28221|Deltaproteobacteria	C	TIGRFAM glutamate synthase (NADPH), homotetrameric	nfnA	-	1.4.1.13,1.4.1.14	ko:K00266	ko00250,ko00910,ko01100,ko01110,ko01120,ko01130,ko01230,map00250,map00910,map01100,map01110,map01120,map01130,map01230	-	R00093,R00114,R00248	RC00006,RC00010,RC02799	ko00000,ko00001,ko01000	-	-	-	DHODB_Fe-S_bind,Fer4_20,Pyr_redox_2
LYD3_k127_6305105_0	290397.Adeh_2791	0.0	1263.0	COG0493@1|root,COG0543@1|root,COG1633@1|root,COG0493@2|Bacteria,COG0543@2|Bacteria,COG1633@2|Bacteria,1MU2H@1224|Proteobacteria,42MGY@68525|delta/epsilon subdivisions,2WKB4@28221|Deltaproteobacteria,2YTUD@29|Myxococcales	28221|Deltaproteobacteria	C	Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster	-	-	1.4.1.13,1.4.1.14	ko:K00266	ko00250,ko00910,ko01100,ko01110,ko01120,ko01130,ko01230,map00250,map00910,map01100,map01110,map01120,map01130,map01230	-	R00093,R00114,R00248	RC00006,RC00010,RC02799	ko00000,ko00001,ko01000	-	-	-	Fer4_20,Pyr_redox_2
LYD3_k127_6305105_1	76114.ebA6183	2.957e-67	234.0	COG4681@1|root,COG4681@2|Bacteria,1RDR9@1224|Proteobacteria,2VR81@28216|Betaproteobacteria,2KWB4@206389|Rhodocyclales	206389|Rhodocyclales	S	YaeQ family	-	-	-	-	-	-	-	-	-	-	-	-	YaeQ
LYD3_k127_6313623_3	420662.Mpe_A0408	6.719e-16	79.0	COG3971@1|root,COG3971@2|Bacteria,1RGHI@1224|Proteobacteria,2VRTF@28216|Betaproteobacteria	28216|Betaproteobacteria	Q	2-Keto-4-pentenoate hydratase	-	-	-	-	-	-	-	-	-	-	-	-	FAA_hydrolase
LYD3_k127_6313623_1	1366050.N234_33450	1.467e-70	241.0	COG3791@1|root,COG3791@2|Bacteria,1RD31@1224|Proteobacteria,2VS8R@28216|Betaproteobacteria,1KBZV@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Glutathione-dependent formaldehyde-activating enzyme	-	-	-	-	-	-	-	-	-	-	-	-	GFA
LYD3_k127_6313623_0	522306.CAP2UW1_0062	8.352e-107	360.0	COG2271@1|root,COG2271@2|Bacteria,1PND6@1224|Proteobacteria,2WGS2@28216|Betaproteobacteria,1KR4T@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	G	PFAM major facilitator superfamily MFS_1	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_6313623_2	1380394.JADL01000001_gene2056	2.093e-49	197.0	COG0457@1|root,COG3914@1|root,COG0457@2|Bacteria,COG3914@2|Bacteria,1MVMG@1224|Proteobacteria,2TRVB@28211|Alphaproteobacteria,2JPYC@204441|Rhodospirillales	204441|Rhodospirillales	O	COG0457 FOG TPR repeat	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_transf_41,TPR_16,TPR_19,TPR_2,TPR_8
LYD3_k127_6340813_3	925775.XVE_0149	9.453e-11	63.0	COG2801@1|root,COG2801@2|Bacteria,1MWNX@1224|Proteobacteria,1RQHG@1236|Gammaproteobacteria,1X4ZM@135614|Xanthomonadales	135614|Xanthomonadales	L	PFAM Integrase catalytic region	-	-	-	-	-	-	-	-	-	-	-	-	LZ_Tnp_IS481,rve
LYD3_k127_6340813_1	1454004.AW11_03478	6.369e-81	284.0	COG0582@1|root,COG0582@2|Bacteria,1REK7@1224|Proteobacteria,2VPEX@28216|Betaproteobacteria	28216|Betaproteobacteria	L	phage integrase family	-	-	-	-	-	-	-	-	-	-	-	-	Arm-DNA-bind_3,Phage_integrase
LYD3_k127_6340813_0	85643.Tmz1t_2284	3.585e-302	950.0	COG0249@1|root,COG0249@2|Bacteria,1MUGX@1224|Proteobacteria,2VI3Z@28216|Betaproteobacteria,2KV02@206389|Rhodocyclales	206389|Rhodocyclales	L	that it carries out the mismatch recognition step. This protein has a weak ATPase activity	mutS	-	-	ko:K03555	ko03430,map03430	-	-	-	ko00000,ko00001,ko03400	-	-	-	MutS_I,MutS_II,MutS_III,MutS_IV,MutS_V
LYD3_k127_6340813_2	314607.KB13_239	1.22e-50	188.0	COG1047@1|root,COG1047@2|Bacteria,1RD35@1224|Proteobacteria,2VQA2@28216|Betaproteobacteria	28216|Betaproteobacteria	G	Peptidyl-prolyl cis-trans isomerase	slyD	-	5.2.1.8	ko:K03775	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	FKBP_C
LYD3_k127_6348461_0	1286631.X805_32530	1.246e-117	387.0	COG0348@1|root,COG0348@2|Bacteria,1MVFY@1224|Proteobacteria,2VHRH@28216|Betaproteobacteria,1KIYJ@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	cytochrome C oxidase	ccoG	-	-	-	-	-	-	-	-	-	-	-	Fer4_18,Fer4_5,FixG_C
LYD3_k127_6348461_1	522306.CAP2UW1_2531	6.007e-37	149.0	COG3198@1|root,COG3198@2|Bacteria,1N75J@1224|Proteobacteria,2VTYE@28216|Betaproteobacteria	28216|Betaproteobacteria	S	FixH	-	-	-	ko:K09926	-	-	-	-	ko00000	-	-	-	FixH
LYD3_k127_6348461_3	391735.Veis_1164	7.615e-28	117.0	2EFX9@1|root,339PI@2|Bacteria,1NI0D@1224|Proteobacteria,2VU0U@28216|Betaproteobacteria,4AF5J@80864|Comamonadaceae	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6348461_2	497321.C664_09763	3.06e-33	130.0	COG0664@1|root,COG0664@2|Bacteria,1MVGE@1224|Proteobacteria,2VH04@28216|Betaproteobacteria,2KUDT@206389|Rhodocyclales	206389|Rhodocyclales	K	COG0664 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases	fnr	-	-	ko:K01420	-	-	-	-	ko00000,ko03000	-	-	-	HTH_Crp_2,cNMP_binding
LYD3_k127_6373390_0	1266925.JHVX01000003_gene647	2.28e-113	368.0	COG0028@1|root,COG0028@2|Bacteria,1MU6U@1224|Proteobacteria,2VJ55@28216|Betaproteobacteria,372AD@32003|Nitrosomonadales	28216|Betaproteobacteria	H	TIGRFAM Acetolactate synthase, large subunit, biosynthetic	ilvI	-	2.2.1.6	ko:K01652	ko00290,ko00650,ko00660,ko00770,ko01100,ko01110,ko01130,ko01210,ko01230,map00290,map00650,map00660,map00770,map01100,map01110,map01130,map01210,map01230	M00019,M00570	R00006,R00014,R00226,R03050,R04672,R04673,R08648	RC00027,RC00106,RC01192,RC02744,RC02893	ko00000,ko00001,ko00002,ko01000	-	-	-	TPP_enzyme_C,TPP_enzyme_M,TPP_enzyme_N
LYD3_k127_6373390_1	1163617.SCD_n00817	5.69e-75	259.0	COG1595@1|root,COG1595@2|Bacteria,1R9WC@1224|Proteobacteria,2VQ28@28216|Betaproteobacteria	28216|Betaproteobacteria	K	RNA polymerase	sigE	-	-	ko:K03088	-	-	-	-	ko00000,ko03021	-	-	-	Sigma70_r2,Sigma70_r4_2
LYD3_k127_6373390_3	1071679.BG57_00555	1.711e-11	73.0	2E95F@1|root,333E6@2|Bacteria,1N8N7@1224|Proteobacteria,2VWBC@28216|Betaproteobacteria,1K70X@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Protein of unknown function (DUF3619)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3619
LYD3_k127_6373390_2	640081.Dsui_3532	3.106e-30	128.0	2E3UK@1|root,32YRY@2|Bacteria,1N74J@1224|Proteobacteria,2VVQ2@28216|Betaproteobacteria,2KX7S@206389|Rhodocyclales	206389|Rhodocyclales	S	Protein of unknown function (DUF3106)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3106
LYD3_k127_6425558_2	631454.N177_1108	1.389e-76	283.0	COG0318@1|root,COG0318@2|Bacteria,1MU6G@1224|Proteobacteria,2TR2W@28211|Alphaproteobacteria,1JNEC@119043|Rhodobiaceae	28211|Alphaproteobacteria	IQ	AMP-binding enzyme C-terminal domain	lcfB2	-	-	ko:K18661	ko00280,map00280	-	R03383	RC00004,RC00137	ko00000,ko00001,ko01000	-	-	-	AMP-binding,AMP-binding_C
LYD3_k127_6425558_0	1198452.Jab_2c13610	5.145e-216	677.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2VJME@28216|Betaproteobacteria,473G9@75682|Oxalobacteraceae	28216|Betaproteobacteria	G	Tripartite ATP-independent periplasmic transporter, DctM component	-	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_6425558_3	1198452.Jab_2c13600	1.735e-49	196.0	COG3090@1|root,COG3090@2|Bacteria,1MVKS@1224|Proteobacteria,2VRBP@28216|Betaproteobacteria,474DP@75682|Oxalobacteraceae	28216|Betaproteobacteria	G	TRAP-type C4-dicarboxylate transport system, small permease component	-	-	-	-	-	-	-	-	-	-	-	-	DctQ
LYD3_k127_6425558_1	1286093.C266_02998	6.251e-150	484.0	COG1638@1|root,COG1638@2|Bacteria,1MWAW@1224|Proteobacteria,2VJB5@28216|Betaproteobacteria,1KFF5@119060|Burkholderiaceae	28216|Betaproteobacteria	G	Bacterial extracellular solute-binding protein, family 7	-	-	-	-	-	-	-	-	-	-	-	-	DctP
LYD3_k127_6445141_0	365046.Rta_31810	2.679e-99	331.0	COG1283@1|root,COG1283@2|Bacteria,1MUDE@1224|Proteobacteria,2VJWM@28216|Betaproteobacteria,4AAPQ@80864|Comamonadaceae	28216|Betaproteobacteria	P	Na Pi-cotransporter II-related protein	nptA	-	-	ko:K03324	-	-	-	-	ko00000,ko02000	2.A.58.2	-	-	Na_Pi_cotrans,PhoU
LYD3_k127_6445141_1	1492922.GY26_18885	1.089e-63	230.0	COG0697@1|root,COG0697@2|Bacteria,1R46X@1224|Proteobacteria,1RYTA@1236|Gammaproteobacteria	1236|Gammaproteobacteria	EG	of the drug metabolite transporter (DMT) superfamily	-	-	-	-	-	-	-	-	-	-	-	-	EamA
LYD3_k127_6445141_2	999541.bgla_1g11310	1.118e-20	92.0	COG0404@1|root,COG0665@1|root,COG0404@2|Bacteria,COG0665@2|Bacteria,1MUXJ@1224|Proteobacteria,2VMMA@28216|Betaproteobacteria,1K51F@119060|Burkholderiaceae	28216|Betaproteobacteria	E	Belongs to the GcvT family	-	-	1.5.3.19,1.5.8.4	ko:K00315,ko:K19191	ko00260,ko00760,ko01100,ko01120,map00260,map00760,map01100,map01120	-	R01565,R10102	RC00060,RC00181,RC00557	ko00000,ko00001,ko01000	-	-	-	DAO,FAO_M,GCV_T,GCV_T_C
LYD3_k127_6454446_5	1380394.JADL01000002_gene1248	6.208e-86	289.0	2BZ0R@1|root,2Z7U0@2|Bacteria,1MX37@1224|Proteobacteria,2TSBD@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	Nitrile hydratase	nthA	-	4.2.1.84	ko:K01721,ko:K20807	ko00364,ko00380,ko00627,ko00643,ko01120,map00364,map00380,map00627,map00643,map01120	-	R02828,R04020,R05379,R05596,R07780,R07854	RC00483,RC00792,RC01345,RC01432	ko00000,ko00001,ko01000	-	-	-	NHase_alpha
LYD3_k127_6454446_1	658187.LDG_8703	1.456e-155	519.0	COG3391@1|root,COG3391@2|Bacteria,1RA6R@1224|Proteobacteria,1SE8J@1236|Gammaproteobacteria,1JDB8@118969|Legionellales	118969|Legionellales	S	amine dehydrogenase activity	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6454446_2	296591.Bpro_2639	1.295e-126	411.0	COG1917@1|root,COG1917@2|Bacteria,1RH0Y@1224|Proteobacteria,2VWWA@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Cupin 2, conserved barrel domain protein	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_6454446_4	381666.H16_A0906	1.339e-88	298.0	COG2128@1|root,COG2128@2|Bacteria,1MUDM@1224|Proteobacteria,2VIMU@28216|Betaproteobacteria,1JZUC@119060|Burkholderiaceae	28216|Betaproteobacteria	O	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity	-	-	4.1.1.44	ko:K01607	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	-	R03470	RC00938	ko00000,ko00001,ko01000	-	-	-	CMD
LYD3_k127_6454446_3	419610.Mext_1804	5.815e-111	365.0	COG0412@1|root,COG0412@2|Bacteria,1MW7S@1224|Proteobacteria,2TTPH@28211|Alphaproteobacteria,1JRED@119045|Methylobacteriaceae	28211|Alphaproteobacteria	Q	PFAM Dienelactone hydrolase	-	-	3.1.1.45	ko:K01061	ko00361,ko00364,ko00623,ko01100,ko01110,ko01120,ko01130,map00361,map00364,map00623,map01100,map01110,map01120,map01130	-	R03893,R05510,R05511,R06835,R06838,R08120,R08121,R09136,R09220,R09222	RC01018,RC01906,RC01907,RC02441,RC02467,RC02468,RC02674,RC02675,RC02686	ko00000,ko00001,ko01000	-	-	-	DLH
LYD3_k127_6454446_0	1163617.SCD_n00209	4.117e-198	625.0	COG0044@1|root,COG0044@2|Bacteria,1MVXY@1224|Proteobacteria,2VH1E@28216|Betaproteobacteria	28216|Betaproteobacteria	F	dihydroorotase	pyrX	-	3.5.2.3	ko:K01465	ko00240,ko01100,map00240,map01100	M00051	R01993	RC00632	ko00000,ko00001,ko00002,ko01000	-	-	-	Amidohydro_1,Amidohydro_3
LYD3_k127_6454446_6	1121035.AUCH01000009_gene874	4.647e-64	221.0	COG0540@1|root,COG0540@2|Bacteria,1MWAB@1224|Proteobacteria,2VHG9@28216|Betaproteobacteria,2KUTM@206389|Rhodocyclales	206389|Rhodocyclales	F	Belongs to the ATCase OTCase family	pyrB	-	2.1.3.2	ko:K00609	ko00240,ko00250,ko01100,map00240,map00250,map01100	M00051	R01397	RC00064,RC02850	ko00000,ko00001,ko00002,ko01000	-	-	-	OTCace,OTCace_N
LYD3_k127_6485733_4	443598.AUFA01000017_gene7345	1.529e-16	83.0	COG0582@1|root,COG0582@2|Bacteria,1P8BQ@1224|Proteobacteria,2TUZ9@28211|Alphaproteobacteria,3K0QH@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	L	Belongs to the 'phage' integrase family	-	-	-	-	-	-	-	-	-	-	-	-	Phage_int_SAM_3,Phage_integrase
LYD3_k127_6485733_1	1120999.JONM01000007_gene1759	6.354e-110	378.0	COG0190@1|root,COG0190@2|Bacteria,1MWU4@1224|Proteobacteria,2VI8C@28216|Betaproteobacteria,2KPNN@206351|Neisseriales	206351|Neisseriales	F	Catalyzes the oxidation of 5,10- methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10-methenyltetrahydrofolate to 10- formyltetrahydrofolate	folD	-	1.5.1.5,3.5.4.9	ko:K01491	ko00670,ko00720,ko01100,ko01120,ko01200,map00670,map00720,map01100,map01120,map01200	M00140,M00377	R01220,R01655	RC00202,RC00578	ko00000,ko00001,ko00002,ko01000	-	-	-	THF_DHG_CYH,THF_DHG_CYH_C
LYD3_k127_6485733_3	1122604.JONR01000068_gene4223	2.199e-63	242.0	COG0494@1|root,COG0494@2|Bacteria,1RAFY@1224|Proteobacteria,1T5SZ@1236|Gammaproteobacteria	1236|Gammaproteobacteria	L	Domain of unknown function (DUF4743)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4743,NUDIX
LYD3_k127_6485733_2	443598.AUFA01000021_gene3084	3.527e-83	282.0	COG2128@1|root,COG2128@2|Bacteria,1NC6E@1224|Proteobacteria,2U042@28211|Alphaproteobacteria,3JVRC@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Antioxidant protein with alkyl hydroperoxidase activity. Required for the reduction of the AhpC active site cysteine residues and for the regeneration of the AhpC enzyme activity	-	-	4.1.1.44	ko:K01607	ko00362,ko01100,ko01120,ko01220,map00362,map01100,map01120,map01220	-	R03470	RC00938	ko00000,ko00001,ko01000	-	-	-	-
LYD3_k127_6485733_0	395495.Lcho_1272	1.734e-190	604.0	COG1123@1|root,COG4172@2|Bacteria,1MU09@1224|Proteobacteria,2VH5T@28216|Betaproteobacteria,1KJMZ@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	Belongs to the ABC transporter superfamily	gsiA	-	-	ko:K02031,ko:K02032,ko:K13896	ko02010,ko02024,map02010,map02024	M00239,M00349	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.5,3.A.1.5.21,3.A.1.5.24	-	-	ABC_tran,oligo_HPY
LYD3_k127_6488144_3	404589.Anae109_4128	5.659e-49	176.0	COG2609@1|root,COG2609@2|Bacteria,1MV21@1224|Proteobacteria,42PYN@68525|delta/epsilon subdivisions,2WS4X@28221|Deltaproteobacteria	28221|Deltaproteobacteria	C	Component of the pyruvate dehydrogenase (PDH) complex, that catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)	-	-	1.2.4.1	ko:K00163	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map01200	M00307	R00014,R00209,R01699,R03270	RC00004,RC00027,RC00627,RC02742,RC02744,RC02882	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	Transketolase_N
LYD3_k127_6488144_0	395019.Bmul_1134	2.982e-168	542.0	COG0508@1|root,COG0508@2|Bacteria,1MU7K@1224|Proteobacteria,2VIHA@28216|Betaproteobacteria,1JZXX@119060|Burkholderiaceae	28216|Betaproteobacteria	C	The pyruvate dehydrogenase complex catalyzes the overall conversion of pyruvate to acetyl-CoA and CO(2)	aceF	-	2.3.1.12	ko:K00627	ko00010,ko00020,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,map00010,map00020,map00620,map01100,map01110,map01120,map01130,map01200	M00307	R00209,R02569	RC00004,RC02742,RC02857	br01601,ko00000,ko00001,ko00002,ko01000	-	-	-	2-oxoacid_dh,Biotin_lipoyl,E3_binding
LYD3_k127_6488144_2	228410.NE1743	5.973e-87	308.0	COG0120@1|root,COG0120@2|Bacteria,1MVGR@1224|Proteobacteria,2VH27@28216|Betaproteobacteria,371V1@32003|Nitrosomonadales	28216|Betaproteobacteria	G	Catalyzes the reversible conversion of ribose-5- phosphate to ribulose 5-phosphate	rpiA	-	5.3.1.6	ko:K01807	ko00030,ko00710,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00030,map00710,map01100,map01110,map01120,map01130,map01200,map01230	M00004,M00007,M00165,M00167,M00580	R01056	RC00434	ko00000,ko00001,ko00002,ko01000	-	-	-	Rib_5-P_isom_A,Sugar-bind
LYD3_k127_6488144_1	323848.Nmul_A0514	2.041e-134	438.0	COG0014@1|root,COG0014@2|Bacteria,1MUGJ@1224|Proteobacteria,2VJ5M@28216|Betaproteobacteria,372F1@32003|Nitrosomonadales	28216|Betaproteobacteria	E	Catalyzes the NADPH-dependent reduction of L-glutamate 5-phosphate into L-glutamate 5-semialdehyde and phosphate. The product spontaneously undergoes cyclization to form 1-pyrroline-5- carboxylate	proA	GO:0003674,GO:0003824,GO:0004350,GO:0006082,GO:0006520,GO:0006560,GO:0006561,GO:0006807,GO:0008150,GO:0008152,GO:0008652,GO:0009058,GO:0009064,GO:0009084,GO:0009987,GO:0016053,GO:0016491,GO:0016620,GO:0016903,GO:0018130,GO:0019752,GO:0043436,GO:0044237,GO:0044238,GO:0044249,GO:0044281,GO:0044283,GO:0046394,GO:0046483,GO:0055114,GO:0071704,GO:1901360,GO:1901362,GO:1901564,GO:1901566,GO:1901576,GO:1901605,GO:1901607	1.2.1.41	ko:K00147	ko00330,ko00332,ko01100,ko01110,ko01130,ko01230,map00330,map00332,map01100,map01110,map01130,map01230	M00015	R03313	RC00684	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_6528691_7	864051.BurJ1DRAFT_3119	3.49e-12	71.0	COG2186@1|root,COG2186@2|Bacteria,1QZYM@1224|Proteobacteria,2VI66@28216|Betaproteobacteria,1KJZ7@119065|unclassified Burkholderiales	28216|Betaproteobacteria	K	Domain of unknown function (DUF5117)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4953,DUF5117,DUF5118
LYD3_k127_6528691_0	1123393.KB891316_gene2104	5.339e-204	651.0	COG0621@1|root,COG0621@2|Bacteria,1MURS@1224|Proteobacteria,2VHQM@28216|Betaproteobacteria,1KRFR@119069|Hydrogenophilales	119069|Hydrogenophilales	J	Uncharacterized protein family UPF0004	-	-	2.8.4.3	ko:K06168	-	-	R10645,R10646,R10647	RC00003,RC00980,RC03221,RC03222	ko00000,ko01000,ko03016	-	-	-	Radical_SAM,TRAM,UPF0004
LYD3_k127_6528691_1	1387312.BAUS01000004_gene1757	3.774e-127	430.0	COG4206@1|root,COG4206@2|Bacteria,1MW63@1224|Proteobacteria,2VH64@28216|Betaproteobacteria,2KKSU@206350|Nitrosomonadales	206350|Nitrosomonadales	H	TonB dependent receptor	-	-	-	ko:K16092	-	-	-	-	ko00000,ko02000	1.B.14.3	-	-	Plug,TonB_dep_Rec
LYD3_k127_6528691_3	1038869.AXAN01000008_gene4984	1.214e-82	287.0	COG0614@1|root,COG0614@2|Bacteria,1MWVF@1224|Proteobacteria,2VJ7T@28216|Betaproteobacteria,1K1P1@119060|Burkholderiaceae	28216|Betaproteobacteria	P	Periplasmic binding protein	btuF	-	-	ko:K02016,ko:K06858	ko02010,map02010	M00240,M00241	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.13,3.A.1.14	-	-	Peripla_BP_2
LYD3_k127_6528691_4	1000565.METUNv1_03342	3.298e-78	270.0	COG1120@1|root,COG1120@2|Bacteria,1MUNG@1224|Proteobacteria,2VRFJ@28216|Betaproteobacteria,2KW3Z@206389|Rhodocyclales	206389|Rhodocyclales	HP	COG1120 ABC-type cobalamin Fe3 -siderophores transport systems, ATPase components	-	-	3.6.3.34	ko:K02013	ko02010,map02010	M00240	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.14	-	-	ABC_tran
LYD3_k127_6528691_2	640081.Dsui_0530	2.617e-102	344.0	COG0609@1|root,COG0609@2|Bacteria,1MV9W@1224|Proteobacteria,2VK1S@28216|Betaproteobacteria,2KVFR@206389|Rhodocyclales	206389|Rhodocyclales	P	Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily	-	-	-	ko:K02015	ko02010,map02010	M00240	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.14	-	-	FecCD
LYD3_k127_6528691_5	1288494.EBAPG3_22350	3.292e-72	265.0	COG0782@1|root,COG0782@2|Bacteria,1RAP0@1224|Proteobacteria,2VQ09@28216|Betaproteobacteria,372GF@32003|Nitrosomonadales	28216|Betaproteobacteria	K	Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus. GreB releases sequences of up to 9 nucleotides in length	greB	-	-	ko:K04760	-	-	-	-	ko00000,ko03021	-	-	-	GreA_GreB,GreA_GreB_N
LYD3_k127_6528691_6	580332.Slit_2683	6.05e-20	94.0	COG3027@1|root,COG3027@2|Bacteria,1N6YN@1224|Proteobacteria,2VUY2@28216|Betaproteobacteria,44VZ2@713636|Nitrosomonadales	28216|Betaproteobacteria	D	Cell division protein ZapA	zapA	-	-	ko:K09888	-	-	-	-	ko00000,ko03036	-	-	-	ZapA
LYD3_k127_6540472_1	1519464.HY22_00065	1.094e-112	373.0	COG1171@1|root,COG1171@2|Bacteria	2|Bacteria	E	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA	tdcB	-	4.3.1.19	ko:K01754	ko00260,ko00290,ko01100,ko01110,ko01130,ko01200,ko01230,map00260,map00290,map01100,map01110,map01130,map01200,map01230	M00570	R00220,R00996	RC00418,RC02600	ko00000,ko00001,ko00002,ko01000	-	-	-	PALP
LYD3_k127_6540472_0	257310.BB3815	4.508e-137	455.0	COG0477@1|root,COG2814@2|Bacteria,1QW9T@1224|Proteobacteria,2W1Q9@28216|Betaproteobacteria,3T5SY@506|Alcaligenaceae	28216|Betaproteobacteria	EGP	Major Facilitator Superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_6540472_4	228410.NE1954	2.121e-69	245.0	COG0483@1|root,COG0483@2|Bacteria,1MUQT@1224|Proteobacteria,2VIXG@28216|Betaproteobacteria,372NY@32003|Nitrosomonadales	28216|Betaproteobacteria	G	Inositol monophosphatase	suhB	-	3.1.3.25	ko:K01092	ko00521,ko00562,ko01100,ko04070,map00521,map00562,map01100,map04070	M00131	R01185,R01186,R01187	RC00078	ko00000,ko00001,ko00002,ko01000	-	-	-	Inositol_P
LYD3_k127_6540472_2	1123368.AUIS01000008_gene2233	1.25e-112	390.0	COG2132@1|root,COG2132@2|Bacteria,1MU0J@1224|Proteobacteria,1RQ4N@1236|Gammaproteobacteria,2ND99@225057|Acidithiobacillales	225057|Acidithiobacillales	Q	Multicopper oxidase	-	-	-	-	-	-	-	-	-	-	-	-	Cu-oxidase_2,Cu-oxidase_3
LYD3_k127_6540472_3	1217718.ALOU01000019_gene2811	1.715e-75	261.0	COG4772@1|root,COG4772@2|Bacteria,1MXJU@1224|Proteobacteria,2VN9X@28216|Betaproteobacteria,1K2NQ@119060|Burkholderiaceae	28216|Betaproteobacteria	P	TonB-dependent receptor	-	-	-	ko:K02014	-	-	-	-	ko00000,ko02000	1.B.14	-	-	Plug,TonB_dep_Rec
LYD3_k127_6544097_4	1121272.KB903290_gene4628	0.0007747	43.0	COG0664@1|root,COG0664@2|Bacteria,2IRJW@201174|Actinobacteria,4DF04@85008|Micromonosporales	201174|Actinobacteria	T	Cyclic nucleotide-monophosphate binding domain	-	-	-	-	-	-	-	-	-	-	-	-	cNMP_binding
LYD3_k127_6544097_1	1504672.669784583	2.09e-46	177.0	COG0730@1|root,COG0730@2|Bacteria,1MX4T@1224|Proteobacteria,2VRZJ@28216|Betaproteobacteria,4AF81@80864|Comamonadaceae	28216|Betaproteobacteria	S	membrane transporter protein	-	-	-	ko:K07090	-	-	-	-	ko00000	-	-	-	TauE
LYD3_k127_6544097_0	305700.B447_13024	6.808e-85	304.0	COG0789@1|root,COG5012@1|root,COG0789@2|Bacteria,COG5012@2|Bacteria,1R2NF@1224|Proteobacteria,2VJDG@28216|Betaproteobacteria,2KW35@206389|Rhodocyclales	206389|Rhodocyclales	K	B12 binding domain	-	-	-	ko:K22491	-	-	-	-	ko00000,ko03000	-	-	-	B12-binding,B12-binding_2,MerR_1
LYD3_k127_6544097_2	1198452.Jab_1c22290	5.2e-42	168.0	COG1075@1|root,COG1075@2|Bacteria,1N3FV@1224|Proteobacteria,2WFKG@28216|Betaproteobacteria,4747N@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	PGAP1-like protein	-	-	-	-	-	-	-	-	-	-	-	-	Abhydrolase_1,Abhydrolase_6,Hydrolase_4,PGAP1
LYD3_k127_6544097_3	83406.HDN1F_27670	3.444e-22	97.0	COG3320@1|root,COG4221@1|root,COG3320@2|Bacteria,COG4221@2|Bacteria,1QSHC@1224|Proteobacteria,1RQP8@1236|Gammaproteobacteria,1J4MV@118884|unclassified Gammaproteobacteria	1236|Gammaproteobacteria	Q	Short chain dehydrogenase	-	-	-	-	-	-	-	-	-	-	-	-	NAD_binding_4,adh_short
LYD3_k127_6575446_7	1163617.SCD_n00342	2.376e-37	152.0	COG2197@1|root,COG2197@2|Bacteria,1NQH7@1224|Proteobacteria,2VMXI@28216|Betaproteobacteria	28216|Betaproteobacteria	K	response regulator	narL	-	-	ko:K07684	ko02020,map02020	M00471	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	GerE,Response_reg
LYD3_k127_6575446_5	1163617.SCD_n00343	6.986e-75	267.0	COG3850@1|root,COG3850@2|Bacteria,1MWZT@1224|Proteobacteria,2VIFM@28216|Betaproteobacteria	28216|Betaproteobacteria	T	Histidine kinase	narX	-	2.7.13.3	ko:K07673	ko02020,map02020	M00471	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	GAF,GAF_2,HAMP,HATPase_c,HisKA_3,PilJ
LYD3_k127_6575446_0	580332.Slit_1711	0.0	1660.0	COG0243@1|root,COG0243@2|Bacteria,1P01N@1224|Proteobacteria,2VKSY@28216|Betaproteobacteria,44WAX@713636|Nitrosomonadales	28216|Betaproteobacteria	C	Molybdopterin oxidoreductase Fe4S4 domain	-	-	1.8.5.6	ko:K21307	ko00920,ko01100,ko01120,map00920,map01100,map01120	-	R11487	RC00168	ko00000,ko00001,ko01000	-	-	-	Molybdop_Fe4S4,Molybdopterin,Molydop_binding
LYD3_k127_6575446_2	1158150.KB906241_gene855	1.825e-145	464.0	COG0437@1|root,COG0437@2|Bacteria,1MU1B@1224|Proteobacteria,1SYJH@1236|Gammaproteobacteria,1WWTE@135613|Chromatiales	135613|Chromatiales	C	PFAM 4Fe-4S	-	-	-	ko:K00184,ko:K21308	ko00920,ko01100,ko01120,map00920,map01100,map01120	-	R11487	RC00168	ko00000,ko00001	5.A.3	-	-	Fer4_11,Fer4_4,Fer4_7
LYD3_k127_6575446_3	1163617.SCD_n01211	2.195e-131	426.0	COG3302@1|root,COG3302@2|Bacteria,1MWY1@1224|Proteobacteria,2VN4W@28216|Betaproteobacteria	28216|Betaproteobacteria	S	DMSO reductase anchor subunit (DmsC)	dmsC	-	-	ko:K21309	ko00920,ko01100,ko01120,map00920,map01100,map01120	-	R11487	RC00168	ko00000,ko00001	-	-	-	DmsC
LYD3_k127_6575446_1	580332.Slit_1712	1.384e-210	659.0	COG2046@1|root,COG2046@2|Bacteria,1MUQB@1224|Proteobacteria,2VR2T@28216|Betaproteobacteria	28216|Betaproteobacteria	H	PUA-like domain	sat	-	2.7.7.4	ko:K00958	ko00230,ko00261,ko00450,ko00920,ko01100,ko01120,ko01130,map00230,map00261,map00450,map00920,map01100,map01120,map01130	M00176,M00596	R00529,R04929	RC02809,RC02889	ko00000,ko00001,ko00002,ko01000	-	-	-	ATP-sulfurylase,PK,PUA_2
LYD3_k127_6575446_4	1123393.KB891317_gene2372	5.358e-83	286.0	COG1146@1|root,COG1146@2|Bacteria,1RC9N@1224|Proteobacteria,2W1W6@28216|Betaproteobacteria,1KSRH@119069|Hydrogenophilales	119069|Hydrogenophilales	C	Adenosine-5'-phosphosulfate reductase beta subunit	-	-	1.8.99.2	ko:K00395	ko00920,ko01100,ko01120,map00920,map01100,map01120	M00596	R00860,R04927,R08553	RC00007,RC01239,RC02862	ko00000,ko00001,ko00002,ko01000	-	-	-	APS-reductase_C,Fer4_9
LYD3_k127_6575446_6	1123392.AQWL01000009_gene1117	1.591e-69	237.0	COG1053@1|root,COG1053@2|Bacteria,1NZBR@1224|Proteobacteria,2VHJ5@28216|Betaproteobacteria,1KS3F@119069|Hydrogenophilales	119069|Hydrogenophilales	C	FAD binding domain	-	-	1.8.99.2	ko:K00394	ko00920,ko01100,ko01120,map00920,map01100,map01120	M00596	R00860,R04927,R08553	RC00007,RC01239,RC02862	ko00000,ko00001,ko00002,ko01000	-	-	-	FAD_binding_2
LYD3_k127_6604623_2	748247.AZKH_2966	4.806e-109	359.0	COG0457@1|root,COG0789@1|root,COG0457@2|Bacteria,COG0789@2|Bacteria,1N4HS@1224|Proteobacteria,2VMAM@28216|Betaproteobacteria	28216|Betaproteobacteria	K	Tetratricopeptide repeat	-	-	-	-	-	-	-	-	-	-	-	-	TPR_16,TPR_17,TPR_7,TPR_8
LYD3_k127_6604623_1	1123073.KB899242_gene947	2.607e-133	430.0	COG1273@1|root,COG1273@2|Bacteria,1N4UX@1224|Proteobacteria,1RNJ7@1236|Gammaproteobacteria,1X3MS@135614|Xanthomonadales	135614|Xanthomonadales	L	With LigD forms a non-homologous end joining (NHEJ) DNA repair enzyme, which repairs dsDNA breaks with reduced fidelity. Binds linear dsDNA with 5'- and 3'- overhangs but not closed circular dsDNA nor ssDNA. Recruits and stimulates the ligase activity of LigD	ku	-	-	ko:K10979	ko03450,map03450	-	-	-	ko00000,ko00001,ko03400	-	-	-	Ku
LYD3_k127_6604623_0	1123073.KB899242_gene946	1.541e-179	565.0	COG1793@1|root,COG3285@1|root,COG1793@2|Bacteria,COG3285@2|Bacteria,1MVWY@1224|Proteobacteria,1RQ06@1236|Gammaproteobacteria,1X3QM@135614|Xanthomonadales	135614|Xanthomonadales	L	DNA ligase	lig3	-	6.5.1.1	ko:K01971	ko03450,map03450	-	R00381	RC00005	ko00000,ko00001,ko01000,ko03400	-	-	-	DNA_ligase_A_C,DNA_ligase_A_M,LigD_N
LYD3_k127_6609285_2	420662.Mpe_A1273	4.093e-14	72.0	COG0573@1|root,COG0573@2|Bacteria,1MVKP@1224|Proteobacteria,2VH4G@28216|Betaproteobacteria,1KJ4T@119065|unclassified Burkholderiales	28216|Betaproteobacteria	P	probably responsible for the translocation of the substrate across the membrane	pstC	-	-	ko:K02037	ko02010,map02010	M00222	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.7	-	-	BPD_transp_1
LYD3_k127_6609285_1	557598.LHK_00522	8.741e-122	400.0	COG0581@1|root,COG0581@2|Bacteria,1MUWB@1224|Proteobacteria,2VH6Y@28216|Betaproteobacteria,2KQ6D@206351|Neisseriales	206351|Neisseriales	P	Binding-protein-dependent transport system inner membrane component	pstA	-	-	ko:K02038	ko02010,map02010	M00222	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.7	-	-	BPD_transp_1
LYD3_k127_6609285_0	883126.HMPREF9710_04196	3.77e-128	414.0	COG1117@1|root,COG1117@2|Bacteria,1MU16@1224|Proteobacteria,2VI4J@28216|Betaproteobacteria,472AP@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Part of the ABC transporter complex PstSACB involved in phosphate import. Responsible for energy coupling to the transport system	pstB	-	3.6.3.27	ko:K02036	ko02010,map02010	M00222	-	-	ko00000,ko00001,ko00002,ko01000,ko02000	3.A.1.7	-	-	ABC_tran
LYD3_k127_6632631_0	420662.Mpe_A2083	2.869e-153	499.0	COG2186@1|root,COG2186@2|Bacteria,1QZYM@1224|Proteobacteria,2VI66@28216|Betaproteobacteria,1KJZ7@119065|unclassified Burkholderiales	28216|Betaproteobacteria	K	Domain of unknown function (DUF5117)	-	-	-	-	-	-	-	-	-	-	-	-	DUF4953,DUF5117,DUF5118
LYD3_k127_6632631_1	640081.Dsui_1195	5.333e-55	196.0	COG1702@1|root,COG1702@2|Bacteria,1MVDV@1224|Proteobacteria,2VH9V@28216|Betaproteobacteria,2KUF6@206389|Rhodocyclales	206389|Rhodocyclales	T	phosphate starvation-inducible protein PhoH	-	-	-	ko:K06217	-	-	-	-	ko00000	-	-	-	PhoH
LYD3_k127_66524_0	62928.azo1580	4.842e-219	686.0	COG0516@1|root,COG0517@1|root,COG0516@2|Bacteria,COG0517@2|Bacteria,1MUJM@1224|Proteobacteria,2VH9X@28216|Betaproteobacteria,2KVFJ@206389|Rhodocyclales	206389|Rhodocyclales	F	Catalyzes the conversion of inosine 5'-phosphate (IMP) to xanthosine 5'-phosphate (XMP), the first committed and rate- limiting step in the de novo synthesis of guanine nucleotides, and therefore plays an important role in the regulation of cell growth	guaB	-	1.1.1.205	ko:K00088	ko00230,ko00983,ko01100,ko01110,map00230,map00983,map01100,map01110	M00050	R01130,R08240	RC00143,RC02207	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	CBS,IMPDH
LYD3_k127_66524_1	667632.KB890219_gene702	1.314e-28	116.0	COG0518@1|root,COG0519@1|root,COG0518@2|Bacteria,COG0519@2|Bacteria,1MU2A@1224|Proteobacteria,2VHNG@28216|Betaproteobacteria,1K4BU@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Catalyzes the synthesis of GMP from XMP	guaA	-	6.3.5.2	ko:K01951	ko00230,ko00983,ko01100,map00230,map00983,map01100	M00050	R01230,R01231,R08244	RC00010,RC00204	ko00000,ko00001,ko00002,ko01000,ko01002	-	-	-	GATase,GMP_synt_C,NAD_synthase
LYD3_k127_67322_1	1157708.KB907450_gene5832	3.095e-72	250.0	COG3408@1|root,COG3408@2|Bacteria,1PGVT@1224|Proteobacteria,2VHTH@28216|Betaproteobacteria,4ACK3@80864|Comamonadaceae	28216|Betaproteobacteria	G	Alkaline and neutral invertase	-	-	-	-	-	-	-	-	-	-	-	-	Glyco_hydro_100
LYD3_k127_67322_0	62928.azo1725	7.369e-106	349.0	COG0296@1|root,COG0296@2|Bacteria,1QTVN@1224|Proteobacteria,2VGZZ@28216|Betaproteobacteria,2KUPD@206389|Rhodocyclales	206389|Rhodocyclales	G	Catalyzes the formation of the alpha-1,6-glucosidic linkages in glycogen by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position	glgB	-	2.4.1.18	ko:K00700	ko00500,ko01100,ko01110,map00500,map01100,map01110	M00565	R02110	-	ko00000,ko00001,ko00002,ko01000,ko04147	-	CBM48,GH13	-	Alpha-amylase,Alpha-amylase_C,CBM_48
LYD3_k127_674108_3	339670.Bamb_6125	4.144e-05	52.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2VIDV@28216|Betaproteobacteria,1K0II@119060|Burkholderiaceae	28216|Betaproteobacteria	G	TRAP C4-dicarboxylate transport system permease DctM subunit	-	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_674108_1	1123487.KB892864_gene2231	1.614e-50	185.0	COG3090@1|root,COG3090@2|Bacteria	2|Bacteria	G	Trap-type c4-dicarboxylate transport system, small permease component	MA20_38035	-	-	ko:K11689,ko:K21394	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.56.1	-	-	DctQ
LYD3_k127_674108_0	1123487.KB892864_gene2230	2.942e-169	538.0	COG1638@1|root,COG1638@2|Bacteria,1MVHC@1224|Proteobacteria,2VKC6@28216|Betaproteobacteria,2KYXC@206389|Rhodocyclales	206389|Rhodocyclales	G	Bacterial extracellular solute-binding protein, family 7	-	-	-	-	-	-	-	-	-	-	-	-	DctP
LYD3_k127_674108_2	1144319.PMI16_03780	3.013e-19	91.0	COG2186@1|root,COG2186@2|Bacteria,1MY1K@1224|Proteobacteria,2VJT1@28216|Betaproteobacteria,474XT@75682|Oxalobacteraceae	28216|Betaproteobacteria	K	FCD	-	-	-	-	-	-	-	-	-	-	-	-	FCD,GntR
LYD3_k127_674271_1	640081.Dsui_0657	4.445e-84	297.0	COG0840@1|root,COG0840@2|Bacteria,1MU9B@1224|Proteobacteria,2VJBX@28216|Betaproteobacteria,2KU9U@206389|Rhodocyclales	206389|Rhodocyclales	NT	Methyl-accepting chemotaxis protein	pilJ	-	-	ko:K02660	ko02020,ko02025,map02020,map02025	-	-	-	ko00000,ko00001,ko02035,ko02044	-	-	-	MCPsignal,PilJ
LYD3_k127_674271_4	640081.Dsui_0658	2.872e-37	146.0	COG0835@1|root,COG0835@2|Bacteria,1N07Q@1224|Proteobacteria,2VU6N@28216|Betaproteobacteria,2KX20@206389|Rhodocyclales	206389|Rhodocyclales	NT	Chemotaxis signal transduction protein	pilI	-	-	ko:K02659	ko02020,ko02025,map02020,map02025	-	-	-	ko00000,ko00001,ko02035,ko02044	-	-	-	CheW
LYD3_k127_674271_3	640081.Dsui_0659	1.299e-51	186.0	COG0745@1|root,COG0745@2|Bacteria,1RI9T@1224|Proteobacteria,2VSSD@28216|Betaproteobacteria,2KWTI@206389|Rhodocyclales	206389|Rhodocyclales	T	response regulator receiver	pilH	-	-	ko:K02658	ko02020,ko02025,map02020,map02025	M00507	-	-	ko00000,ko00001,ko00002,ko02022,ko02035,ko02044	-	-	-	Response_reg
LYD3_k127_674271_2	640081.Dsui_0660	1.517e-63	220.0	COG0745@1|root,COG0745@2|Bacteria,1RDYB@1224|Proteobacteria,2VR2Q@28216|Betaproteobacteria,2KWB2@206389|Rhodocyclales	206389|Rhodocyclales	T	cheY-homologous receiver domain	pilG	-	-	ko:K02657	ko02020,ko02025,map02020,map02025	M00507	-	-	ko00000,ko00001,ko00002,ko02022,ko02035,ko02044	-	-	-	Response_reg
LYD3_k127_674271_0	1163617.SCD_n00393	1.438e-240	752.0	COG1171@1|root,COG1171@2|Bacteria,1MVWJ@1224|Proteobacteria,2VI5U@28216|Betaproteobacteria	28216|Betaproteobacteria	E	Catalyzes the anaerobic formation of alpha-ketobutyrate and ammonia from threonine in a two-step reaction. The first step involved a dehydration of threonine and a production of enamine intermediates (aminocrotonate), which tautomerizes to its imine form (iminobutyrate). Both intermediates are unstable and short- lived. The second step is the nonenzymatic hydrolysis of the enamine imine intermediates to form 2-ketobutyrate and free ammonia. In the low water environment of the cell, the second step is accelerated by RidA	ilvA	GO:0006082,GO:0006520,GO:0006566,GO:0006807,GO:0008150,GO:0008152,GO:0009066,GO:0009987,GO:0019752,GO:0043436,GO:0044237,GO:0044238,GO:0044281,GO:0071704,GO:1901564,GO:1901605	4.3.1.19	ko:K01754	ko00260,ko00290,ko01100,ko01110,ko01130,ko01200,ko01230,map00260,map00290,map01100,map01110,map01130,map01200,map01230	M00570	R00220,R00996	RC00418,RC02600	ko00000,ko00001,ko00002,ko01000	-	-	-	PALP,Thr_dehydrat_C
LYD3_k127_686319_0	1163617.SCD_n01884	1.111e-207	653.0	COG1148@1|root,COG1148@2|Bacteria,1Q0ZF@1224|Proteobacteria,2VUBQ@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Glucose inhibited division protein A	-	-	1.8.7.3,1.8.98.4,1.8.98.5,1.8.98.6	ko:K03388,ko:K16885	ko00680,ko01100,ko01120,ko01200,map00680,map01100,map01120,map01200	M00356,M00357,M00563,M00567	R04540,R11928,R11931,R11943,R11944	RC00011	ko00000,ko00001,ko00002,ko01000	-	-	-	FAD_oxidored
LYD3_k127_686319_1	292415.Tbd_1647	1.41e-83	287.0	COG1148@1|root,COG1908@1|root,COG1148@2|Bacteria,COG1908@2|Bacteria,1MWAG@1224|Proteobacteria,2WEVG@28216|Betaproteobacteria	28216|Betaproteobacteria	C	Methyl-viologen-reducing hydrogenase, delta subunit	-	-	-	ko:K16886	-	-	-	-	ko00000	-	-	-	Fer4,FlpD,Pyr_redox_2
LYD3_k127_696692_2	305700.B447_07027	5.616e-26	124.0	COG0664@1|root,COG0664@2|Bacteria,1MVGE@1224|Proteobacteria,2VH04@28216|Betaproteobacteria,2KUDT@206389|Rhodocyclales	206389|Rhodocyclales	K	COG0664 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases	fnr	-	-	ko:K01420	-	-	-	-	ko00000,ko03000	-	-	-	HTH_Crp_2,cNMP_binding
LYD3_k127_696692_1	1123354.AUDR01000018_gene1202	2.286e-41	163.0	COG2836@1|root,COG2836@2|Bacteria,1RIGJ@1224|Proteobacteria,2VINE@28216|Betaproteobacteria,1KRQF@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Cytochrome C biogenesis protein transmembrane region	-	-	-	ko:K09792	-	-	-	-	ko00000	-	-	-	DsbD_2
LYD3_k127_696692_3	1121351.AUAP01000040_gene109	2.457e-06	59.0	28JEX@1|root,2Z98Z@2|Bacteria,1R5IF@1224|Proteobacteria,2VNVG@28216|Betaproteobacteria,2KQ5M@206351|Neisseriales	206351|Neisseriales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_696692_0	420662.Mpe_B0539	8.616e-242	753.0	COG1541@1|root,COG1541@2|Bacteria,1MV1W@1224|Proteobacteria,2VI46@28216|Betaproteobacteria,1KJ6S@119065|unclassified Burkholderiales	28216|Betaproteobacteria	H	Catalyzes the activation of phenylacetic acid (PA) to phenylacetyl-CoA (PA-CoA)	-	-	6.2.1.30	ko:K01912	ko00360,ko01120,ko05111,map00360,map01120,map05111	-	R02539	RC00004,RC00014	ko00000,ko00001,ko01000	-	-	-	AMP-binding,AMP-binding_C_2
LYD3_k127_69879_1	62928.azo2492	8.385e-115	375.0	COG2086@1|root,COG2086@2|Bacteria,1MVH6@1224|Proteobacteria,2VHXJ@28216|Betaproteobacteria,2KUTX@206389|Rhodocyclales	206389|Rhodocyclales	C	Electron transfer flavoprotein	-	-	-	ko:K03521	-	-	-	-	ko00000	-	-	-	ETF
LYD3_k127_69879_0	1198452.Jab_1c16860	1.735e-133	431.0	COG2025@1|root,COG2025@2|Bacteria,1MUFI@1224|Proteobacteria,2VI6W@28216|Betaproteobacteria,47253@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Electron transfer flavoprotein, alpha subunit	etfA	-	-	ko:K03522	-	-	-	-	ko00000,ko04147	-	-	-	ETF,ETF_alpha
LYD3_k127_69879_2	640081.Dsui_2302	2.061e-33	132.0	COG1960@1|root,COG1960@2|Bacteria,1MU20@1224|Proteobacteria,2VGZD@28216|Betaproteobacteria,2KUFZ@206389|Rhodocyclales	206389|Rhodocyclales	C	COG1960 Acyl-CoA dehydrogenases	-	-	-	ko:K20035	ko00920,map00920	-	R11130	RC03363	ko00000,ko00001,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_C,Acyl-CoA_dh_M,Acyl-CoA_dh_N,AcylCoA_DH_N
LYD3_k127_708482_6	1283283.ATXA01000003_gene1552	2.044e-15	91.0	COG1361@1|root,COG3291@1|root,COG1361@2|Bacteria,COG3291@2|Bacteria,2GMCT@201174|Actinobacteria	201174|Actinobacteria	M	Pkd domain containing protein	-	-	-	-	-	-	-	-	-	-	-	-	DUF11
LYD3_k127_708482_0	1097668.BYI23_C000770	1.629e-261	813.0	COG4670@1|root,COG4670@2|Bacteria,1MUJW@1224|Proteobacteria,2VH8B@28216|Betaproteobacteria,1K4Y9@119060|Burkholderiaceae	28216|Betaproteobacteria	I	CoA transferase having broad substrate specificity for short-chain acyl-CoA thioesters with the activity decreasing when the length of the carboxylic acid chain exceeds four carbons	-	-	2.8.3.1	ko:K01026	ko00620,ko00640,ko00643,ko01100,ko01120,map00620,map00640,map00643,map01100,map01120	-	R00928,R01449,R05508	RC00012,RC00014,RC00137	ko00000,ko00001,ko01000	-	-	-	CoA_trans
LYD3_k127_708482_3	365046.Rta_23770	4.572e-129	420.0	COG1082@1|root,COG1082@2|Bacteria,1Q173@1224|Proteobacteria,2VK1Z@28216|Betaproteobacteria,4AAG1@80864|Comamonadaceae	28216|Betaproteobacteria	G	Xylose isomerase	-	-	-	-	-	-	-	-	-	-	-	-	AP_endonuc_2
LYD3_k127_708482_2	1411123.JQNH01000001_gene890	5.781e-157	503.0	COG0329@1|root,COG0329@2|Bacteria,1MV7E@1224|Proteobacteria,2TTT5@28211|Alphaproteobacteria	28211|Alphaproteobacteria	EM	Protein of unknown function (DUF993)	MA20_16880	-	-	-	-	-	-	-	-	-	-	-	DUF993
LYD3_k127_708482_5	1380394.JADL01000011_gene4059	2.21e-72	257.0	COG0169@1|root,COG0169@2|Bacteria,1MVW5@1224|Proteobacteria,2TTIT@28211|Alphaproteobacteria,2JSE4@204441|Rhodospirillales	204441|Rhodospirillales	E	Shikimate dehydrogenase substrate binding domain	-	-	1.1.1.25	ko:K00014	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00022	R02413	RC00206	ko00000,ko00001,ko00002,ko01000	-	-	-	Shikimate_DH,Shikimate_dh_N,ThiF
LYD3_k127_708482_4	1089551.KE386572_gene1143	7.476e-91	305.0	COG1024@1|root,COG1024@2|Bacteria,1MWZC@1224|Proteobacteria,2TRYS@28211|Alphaproteobacteria,4BPKP@82117|unclassified Alphaproteobacteria	28211|Alphaproteobacteria	I	enoyl-CoA hydratase isomerase family	-	-	4.2.1.17	ko:K01692	ko00071,ko00280,ko00281,ko00310,ko00360,ko00362,ko00380,ko00410,ko00627,ko00640,ko00650,ko00903,ko00930,ko01100,ko01110,ko01120,ko01130,ko01212,map00071,map00280,map00281,map00310,map00360,map00362,map00380,map00410,map00627,map00640,map00650,map00903,map00930,map01100,map01110,map01120,map01130,map01212	M00032,M00087	R03026,R03045,R04137,R04170,R04204,R04224,R04738,R04740,R04744,R04746,R04749,R05595,R06411,R06412,R06942,R08093	RC00831,RC00834,RC01086,RC01095,RC01098,RC01103,RC01217,RC02115	ko00000,ko00001,ko00002,ko01000	-	-	-	ECH_1
LYD3_k127_708482_1	1089551.KE386572_gene1145	1.761e-158	509.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2TQW5@28211|Alphaproteobacteria	28211|Alphaproteobacteria	G	COG1593 TRAP-type C4-dicarboxylate transport system large permease component	-	-	-	-	-	-	-	-	-	-	-	-	DctM
LYD3_k127_725584_1	522306.CAP2UW1_1181	3.488e-117	388.0	COG0265@1|root,COG0265@2|Bacteria,1MU63@1224|Proteobacteria,2VI4Q@28216|Betaproteobacteria,1KQED@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	O	Belongs to the peptidase S1C family	mucD	-	3.4.21.107	ko:K04771	ko01503,ko02020,map01503,map02020	M00728	-	-	ko00000,ko00001,ko00002,ko01000,ko01002,ko03110	-	-	-	PDZ_2,Trypsin_2
LYD3_k127_725584_0	93220.LV28_07620	2.557e-117	393.0	COG0642@1|root,COG2205@2|Bacteria,1N1Z2@1224|Proteobacteria,2VJBG@28216|Betaproteobacteria,1K16K@119060|Burkholderiaceae	28216|Betaproteobacteria	T	Histidine kinase	qseC	-	2.7.13.3	ko:K02484,ko:K07645	ko02020,ko02024,map02020,map02024	M00453	-	-	ko00000,ko00001,ko00002,ko01000,ko01001,ko02022	-	-	-	2CSK_N,HATPase_c,HisKA
LYD3_k127_725584_5	93220.LV28_07625	7.685e-90	301.0	COG0745@1|root,COG0745@2|Bacteria,1N7TJ@1224|Proteobacteria,2WEAK@28216|Betaproteobacteria,1K11E@119060|Burkholderiaceae	28216|Betaproteobacteria	K	response regulator	qseB	-	-	ko:K02483,ko:K07666	ko02020,ko02024,map02020,map02024	M00453	-	-	ko00000,ko00001,ko00002,ko02022	-	-	-	Response_reg,Trans_reg_C
LYD3_k127_725584_7	1385935.N836_06800	3.474e-63	219.0	COG0229@1|root,COG0229@2|Bacteria,1G5S6@1117|Cyanobacteria,1HB1V@1150|Oscillatoriales	1117|Cyanobacteria	O	Belongs to the MsrB Met sulfoxide reductase family	msrB	-	1.8.4.12	ko:K07305	-	-	-	-	ko00000,ko01000	-	-	-	SelR
LYD3_k127_725584_4	1380394.JADL01000003_gene4936	2.644e-92	323.0	COG2271@1|root,COG2271@2|Bacteria,1QU9E@1224|Proteobacteria,2TWHH@28211|Alphaproteobacteria	28211|Alphaproteobacteria	G	Major facilitator superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_725584_3	1096546.WYO_0328	7.448e-111	369.0	COG1028@1|root,COG1028@2|Bacteria,1MWJI@1224|Proteobacteria,2TRNJ@28211|Alphaproteobacteria,1JTKS@119045|Methylobacteriaceae	28211|Alphaproteobacteria	IQ	PFAM short-chain dehydrogenase reductase SDR	MA20_19195	-	1.1.1.100	ko:K00059	ko00061,ko00333,ko00780,ko01040,ko01100,ko01130,ko01212,map00061,map00333,map00780,map01040,map01100,map01130,map01212	M00083,M00572	R04533,R04534,R04536,R04543,R04566,R04953,R04964,R07759,R07763,R10116,R10120,R11671	RC00029,RC00117	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	adh_short_C2
LYD3_k127_725584_2	1003200.AXXA_26745	1.464e-111	369.0	COG0625@1|root,COG0625@2|Bacteria,1MUN3@1224|Proteobacteria,2VHCD@28216|Betaproteobacteria,3T2BC@506|Alcaligenaceae	28216|Betaproteobacteria	O	Belongs to the GST superfamily	-	-	2.5.1.18	ko:K00799,ko:K11209	ko00480,ko00980,ko00982,ko00983,ko01524,ko05200,ko05204,ko05225,ko05418,map00480,map00980,map00982,map00983,map01524,map05200,map05204,map05225,map05418	-	R03522,R07002,R07003,R07004,R07023,R07024,R07025,R07026,R07069,R07070,R07083,R07084,R07091,R07092,R07093,R07094,R07100,R07113,R07116,R08280,R09409,R11905	RC00004,RC00069,RC00840,RC00948,RC01704,RC01705,RC01706,RC01758,RC01759,RC01765,RC01767,RC01769,RC02243,RC02527,RC02939,RC02940,RC02942,RC02943,RC02944	ko00000,ko00001,ko01000,ko02000	1.A.12.2.2,1.A.12.3.2	-	-	GST_C,GST_N
LYD3_k127_725584_8	365046.Rta_00900	1.552e-45	178.0	COG2062@1|root,COG2062@2|Bacteria,1N8QW@1224|Proteobacteria	1224|Proteobacteria	T	Histidine phosphatase superfamily (branch 1)	-	-	-	-	-	-	-	-	-	-	-	-	His_Phos_1
LYD3_k127_725584_6	1095769.CAHF01000005_gene1441	2.177e-67	232.0	COG0037@1|root,COG0037@2|Bacteria,1MW5Q@1224|Proteobacteria,2VHWH@28216|Betaproteobacteria,473FX@75682|Oxalobacteraceae	28216|Betaproteobacteria	J	Catalyzes the ATP-dependent 2-thiolation of cytidine in position 32 of tRNA, to form 2-thiocytidine (s(2)C32). The sulfur atoms are provided by the cysteine cysteine desulfurase (IscS) system	ttcA	-	-	ko:K14058	-	-	-	-	ko00000,ko03016	-	-	-	ATP_bind_3
LYD3_k127_726027_0	395494.Galf_0212	6.643e-183	584.0	COG0696@1|root,COG0696@2|Bacteria,1MUQ1@1224|Proteobacteria,2VMTN@28216|Betaproteobacteria,44V6E@713636|Nitrosomonadales	28216|Betaproteobacteria	G	Catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate	gpmI	-	5.4.2.12	ko:K15633	ko00010,ko00260,ko00680,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,map00010,map00260,map00680,map01100,map01110,map01120,map01130,map01200,map01230	M00001,M00002,M00003	R01518	RC00536	ko00000,ko00001,ko00002,ko01000	-	-	-	Metalloenzyme,Phosphodiest,iPGM_N
LYD3_k127_726027_9	1163617.SCD_n02693	3.29e-32	130.0	COG0607@1|root,COG0607@2|Bacteria,1MZ83@1224|Proteobacteria,2VU3D@28216|Betaproteobacteria	28216|Betaproteobacteria	P	PFAM Rhodanese domain protein	glpE	-	2.8.1.1,2.8.1.2	ko:K01011	ko00270,ko00920,ko01100,ko01120,ko04122,map00270,map00920,map01100,map01120,map04122	-	R01931,R03105,R03106	RC00214	ko00000,ko00001,ko01000	-	-	-	Rhodanese
LYD3_k127_726027_7	557598.LHK_02837	5.071e-35	137.0	COG0695@1|root,COG0695@2|Bacteria,1N72P@1224|Proteobacteria,2VU2J@28216|Betaproteobacteria,2KS2I@206351|Neisseriales	206351|Neisseriales	O	Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins	grxC	-	-	ko:K03676	-	-	-	-	ko00000,ko03110	-	-	-	Glutaredoxin
LYD3_k127_726027_5	1236959.BAMT01000002_gene2222	1.145e-46	173.0	COG1952@1|root,COG1952@2|Bacteria,1RI75@1224|Proteobacteria,2VQ1Q@28216|Betaproteobacteria,2KMSR@206350|Nitrosomonadales	206350|Nitrosomonadales	U	One of the proteins required for the normal export of preproteins out of the cell cytoplasm. It is a molecular chaperone that binds to a subset of precursor proteins, maintaining them in a translocation-competent state. It also specifically binds to its receptor SecA	secB	-	-	ko:K03071	ko02024,ko03060,ko03070,map02024,map03060,map03070	M00335	-	-	ko00000,ko00001,ko00002,ko02044,ko03110	3.A.5	-	-	SecB
LYD3_k127_726027_8	1288494.EBAPG3_21730	5.077e-34	141.0	COG3807@1|root,COG3807@2|Bacteria,1MZIA@1224|Proteobacteria,2VUTD@28216|Betaproteobacteria,3739U@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Bacterial SH3 domain	-	-	-	-	-	-	-	-	-	-	-	-	SH3_4
LYD3_k127_726027_3	557598.LHK_02840	2.277e-88	303.0	COG0240@1|root,COG0240@2|Bacteria,1MUU3@1224|Proteobacteria,2VJ91@28216|Betaproteobacteria,2KQ8E@206351|Neisseriales	206351|Neisseriales	I	Psort location Cytoplasmic, score 8.96	gpsA	-	1.1.1.94	ko:K00057	ko00564,ko01110,map00564,map01110	-	R00842,R00844	RC00029	ko00000,ko00001,ko01000	-	-	-	NAD_Gly3P_dh_C,NAD_Gly3P_dh_N
LYD3_k127_726027_4	1157708.KB907457_gene2541	2.303e-48	189.0	COG0219@1|root,COG0219@2|Bacteria,1RCY4@1224|Proteobacteria,2VR5W@28216|Betaproteobacteria,4ADKI@80864|Comamonadaceae	28216|Betaproteobacteria	J	Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S- adenosyl-L-methionine to the 2'-OH of the wobble nucleotide	trmL	-	2.1.1.207	ko:K03216	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	SpoU_methylase
LYD3_k127_726027_6	1163617.SCD_n02668	8.311e-44	171.0	COG1040@1|root,COG1040@2|Bacteria,1RHAV@1224|Proteobacteria,2VSPK@28216|Betaproteobacteria	28216|Betaproteobacteria	S	PFAM Phosphoribosyltransferase	comF	-	-	-	-	-	-	-	-	-	-	-	Pribosyltran
LYD3_k127_726027_1	323848.Nmul_A1129	1.86e-154	495.0	COG0502@1|root,COG0502@2|Bacteria,1MVFF@1224|Proteobacteria,2VHZZ@28216|Betaproteobacteria,3729W@32003|Nitrosomonadales	28216|Betaproteobacteria	H	Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical- based mechanism	bioB	-	2.8.1.6	ko:K01012	ko00780,ko01100,map00780,map01100	M00123,M00573,M00577	R01078	RC00441	ko00000,ko00001,ko00002,ko01000	-	-	-	BATS,Radical_SAM
LYD3_k127_726027_2	76114.ebA6018	3.029e-127	419.0	COG0156@1|root,COG0156@2|Bacteria,1MVVH@1224|Proteobacteria,2VH25@28216|Betaproteobacteria,2KUQ7@206389|Rhodocyclales	206389|Rhodocyclales	H	Catalyzes the decarboxylative condensation of pimeloyl- acyl-carrier protein and L-alanine to produce 8-amino-7- oxononanoate (AON), acyl-carrier protein , and carbon dioxide	bioF	-	2.3.1.47	ko:K00652	ko00780,ko01100,map00780,map01100	M00123,M00573,M00577	R03210,R10124	RC00004,RC00039,RC02725	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_726027_10	261292.Nit79A3_2779	1.416e-16	85.0	COG2267@1|root,COG2267@2|Bacteria,1N2R9@1224|Proteobacteria,2VRME@28216|Betaproteobacteria,372D9@32003|Nitrosomonadales	28216|Betaproteobacteria	I	The physiological role of BioH is to remove the methyl group introduced by BioC when the pimeloyl moiety is complete. It allows to synthesize pimeloyl-ACP via the fatty acid synthetic pathway through the hydrolysis of the ester bonds of pimeloyl-ACP esters	bioH	-	3.1.1.85	ko:K02170	ko00780,ko01100,map00780,map01100	M00572	R09725	RC00460,RC00461	ko00000,ko00001,ko00002,ko01000	-	-	-	Abhydrolase_1,Abhydrolase_6
LYD3_k127_727825_0	1123367.C666_02725	1.256e-229	730.0	COG0128@1|root,COG0283@1|root,COG0128@2|Bacteria,COG0283@2|Bacteria,1MWMK@1224|Proteobacteria,2VGZF@28216|Betaproteobacteria,2KUWK@206389|Rhodocyclales	206389|Rhodocyclales	F	Catalyzes the transfer of the enolpyruvyl moiety of phosphoenolpyruvate (PEP) to the 5-hydroxyl of shikimate-3- phosphate (S3P) to produce enolpyruvyl shikimate-3-phosphate and inorganic phosphate	cmk	-	2.5.1.19	ko:K00800	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00022	R03460	RC00350	ko00000,ko00001,ko00002,ko01000	-	-	-	Cytidylate_kin,EPSP_synthase
LYD3_k127_727825_1	1288494.EBAPG3_23300	7.573e-59	206.0	COG0539@1|root,COG0539@2|Bacteria,1MVAV@1224|Proteobacteria,2VI12@28216|Betaproteobacteria,372RZ@32003|Nitrosomonadales	28216|Betaproteobacteria	J	thus facilitating recognition of the initiation point. It is needed to translate mRNA with a short Shine-Dalgarno (SD) purine-rich sequence	rpsA	-	-	ko:K02945	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	S1
LYD3_k127_735975_1	1121013.P873_08100	1.238e-28	123.0	COG0674@1|root,COG1014@1|root,COG0674@2|Bacteria,COG1014@2|Bacteria,1NBSJ@1224|Proteobacteria,1S0WV@1236|Gammaproteobacteria,1X99Q@135614|Xanthomonadales	135614|Xanthomonadales	C	Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-bdg	-	-	-	-	-	-	-	-	-	-	-	-	POR,POR_N
LYD3_k127_735975_0	1380394.JADL01000003_gene4832	0.0	1009.0	COG0493@1|root,COG1143@1|root,COG0493@2|Bacteria,COG1143@2|Bacteria,1MU2H@1224|Proteobacteria,2TQK5@28211|Alphaproteobacteria,2JSIF@204441|Rhodospirillales	204441|Rhodospirillales	C	Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster	-	-	-	-	-	-	-	-	-	-	-	-	Fer4,Fer4_20,Fer4_7,Fer4_9,Pyr_redox_2,Pyr_redox_3
LYD3_k127_739048_2	1125973.JNLC01000015_gene3399	2.947e-205	642.0	COG1884@1|root,COG1884@2|Bacteria,1MUXX@1224|Proteobacteria,2U39P@28211|Alphaproteobacteria,3K37Z@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	I	Methylmalonyl-CoA mutase	-	-	5.4.99.2,5.4.99.64	ko:K01848,ko:K20906	ko00280,ko00630,ko00640,ko00720,ko01100,ko01120,ko01200,map00280,map00630,map00640,map00720,map01100,map01120,map01200	M00375,M00376,M00741	R00833	RC00395	ko00000,ko00001,ko00002,ko01000	-	-	-	MM_CoA_mutase
LYD3_k127_739048_9	1415754.JQMK01000005_gene1713	5.968e-106	359.0	COG1703@1|root,COG1703@2|Bacteria,1MVI0@1224|Proteobacteria,1RP15@1236|Gammaproteobacteria,46AA6@72275|Alteromonadaceae	1236|Gammaproteobacteria	E	ArgK protein	-	-	-	-	-	-	-	-	-	-	-	-	ArgK
LYD3_k127_739048_19	443152.MDG893_09621	1.098e-60	211.0	COG2185@1|root,COG2185@2|Bacteria,1RKGS@1224|Proteobacteria,1SRRV@1236|Gammaproteobacteria,46BSZ@72275|Alteromonadaceae	1236|Gammaproteobacteria	I	B12 binding domain	-	-	-	-	-	-	-	-	-	-	-	-	B12-binding
LYD3_k127_739048_6	1411123.JQNH01000001_gene3180	7.725e-155	501.0	COG3246@1|root,COG3246@2|Bacteria,1MZTP@1224|Proteobacteria,2TQKN@28211|Alphaproteobacteria	28211|Alphaproteobacteria	S	PFAM Prokaryotic protein of	-	-	-	-	-	-	-	-	-	-	-	-	BKACE
LYD3_k127_739048_25	886377.Murru_2272	2.643e-13	82.0	2CIU6@1|root,32S8H@2|Bacteria,4NSPK@976|Bacteroidetes	976|Bacteroidetes	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_739048_12	1095769.CAHF01000022_gene66	1.514e-94	335.0	COG3185@1|root,COG3185@2|Bacteria,1MVR0@1224|Proteobacteria,2VJHM@28216|Betaproteobacteria,475TM@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	Pfam:DUF1446	-	-	-	-	-	-	-	-	-	-	-	-	AtuA
LYD3_k127_739048_16	1101189.AQUO01000001_gene1510	6.78e-73	254.0	COG0410@1|root,COG0410@2|Bacteria,1QIYG@1224|Proteobacteria,2U27B@28211|Alphaproteobacteria,2PYHI@265|Paracoccus	28211|Alphaproteobacteria	E	ATPases associated with a variety of cellular activities	-	-	-	ko:K01996	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran
LYD3_k127_739048_14	1101189.AQUO01000001_gene1511	2.526e-77	265.0	COG0411@1|root,COG0411@2|Bacteria,1MUFT@1224|Proteobacteria,2U22X@28211|Alphaproteobacteria	28211|Alphaproteobacteria	E	branched-chain amino acid	-	-	-	ko:K01995	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	ABC_tran,BCA_ABC_TP_C
LYD3_k127_739048_11	1101189.AQUO01000001_gene1512	4.088e-98	332.0	COG4177@1|root,COG4177@2|Bacteria,1R9IW@1224|Proteobacteria,2TWGB@28211|Alphaproteobacteria	28211|Alphaproteobacteria	P	Belongs to the binding-protein-dependent transport system permease family	-	-	-	ko:K01998	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	BPD_transp_2
LYD3_k127_739048_10	1101189.AQUO01000001_gene1513	4.539e-105	355.0	COG0559@1|root,COG0559@2|Bacteria,1PH01@1224|Proteobacteria,2V7JN@28211|Alphaproteobacteria,2PYT9@265|Paracoccus	28211|Alphaproteobacteria	E	Branched-chain amino acid transport system / permease component	-	-	-	-	-	-	-	-	-	-	-	-	BPD_transp_2
LYD3_k127_739048_7	1101189.AQUO01000001_gene1514	6.412e-132	438.0	COG0683@1|root,COG0683@2|Bacteria,1MWQB@1224|Proteobacteria,2U0KM@28211|Alphaproteobacteria	28211|Alphaproteobacteria	E	PFAM Extracellular ligand-binding receptor	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_739048_21	596153.Alide_3282	4.614e-40	154.0	COG1545@1|root,COG1545@2|Bacteria	2|Bacteria	I	DUF35 OB-fold domain, acyl-CoA-associated	-	-	-	ko:K07068	-	-	-	-	ko00000	-	-	-	DUF35_N,OB_aCoA_assoc
LYD3_k127_739048_3	1502724.FF80_02483	6.624e-173	551.0	COG0183@1|root,COG0183@2|Bacteria,1MUZV@1224|Proteobacteria,2TRHF@28211|Alphaproteobacteria	28211|Alphaproteobacteria	I	acetyl-coa acetyltransferase	-	-	2.3.1.9	ko:K00626	ko00071,ko00072,ko00280,ko00310,ko00362,ko00380,ko00620,ko00630,ko00640,ko00650,ko00720,ko00900,ko01100,ko01110,ko01120,ko01130,ko01200,ko01212,ko02020,map00071,map00072,map00280,map00310,map00362,map00380,map00620,map00630,map00640,map00650,map00720,map00900,map01100,map01110,map01120,map01130,map01200,map01212,map02020	M00088,M00095,M00373,M00374,M00375	R00238,R01177	RC00004,RC00326	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Thiolase_C,Thiolase_N
LYD3_k127_739048_4	1502724.FF80_02482	4.483e-170	542.0	COG1804@1|root,COG1804@2|Bacteria,1MU2K@1224|Proteobacteria,2TR7Q@28211|Alphaproteobacteria,3N6FR@45401|Hyphomicrobiaceae	28211|Alphaproteobacteria	C	CoA-transferase family III	-	-	-	-	-	-	-	-	-	-	-	-	CoA_transf_3
LYD3_k127_739048_8	1280947.HY30_15890	1.568e-107	355.0	COG1024@1|root,COG1024@2|Bacteria,1MWZC@1224|Proteobacteria,2VFVB@28211|Alphaproteobacteria	28211|Alphaproteobacteria	I	Enoyl-CoA hydratase/isomerase	-	-	-	-	-	-	-	-	-	-	-	-	ECH_1
LYD3_k127_739048_5	1429916.X566_22110	8.794e-167	539.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,2TQKE@28211|Alphaproteobacteria,3JVH0@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	I	Acyl-CoA dehydrogenase, C-terminal domain	-	-	1.3.8.7	ko:K00249	ko00071,ko00280,ko00410,ko00640,ko01100,ko01110,ko01130,ko01200,ko01212,ko03320,map00071,map00280,map00410,map00640,map01100,map01110,map01130,map01200,map01212,map03320	M00013,M00036,M00087	R00924,R01175,R01279,R02661,R03172,R03777,R03857,R03990,R04095,R04432,R04751,R04754	RC00052,RC00068,RC00076,RC00095,RC00148,RC00246	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_739048_0	1101189.AQUO01000001_gene1515	1.786e-242	767.0	COG0146@1|root,COG0146@2|Bacteria,1QU46@1224|Proteobacteria,2TVYU@28211|Alphaproteobacteria,2PU8H@265|Paracoccus	28211|Alphaproteobacteria	EQ	Hydantoinase B/oxoprolinase	hyuB	-	3.5.2.14	ko:K01474	ko00330,ko01100,map00330,map01100	-	R03187	RC00632	ko00000,ko00001,ko01000	-	-	-	Hydantoinase_B
LYD3_k127_739048_1	1101189.AQUO01000001_gene1516	1.605e-241	767.0	COG0145@1|root,COG0145@2|Bacteria,1MU2Y@1224|Proteobacteria,2TQZ6@28211|Alphaproteobacteria,2PWGA@265|Paracoccus	28211|Alphaproteobacteria	EQ	Hydantoinase/oxoprolinase N-terminal region	-	-	3.5.2.14	ko:K01473	ko00330,ko01100,map00330,map01100	-	R03187	RC00632	ko00000,ko00001,ko01000	-	-	-	Hydant_A_N,Hydantoinase_A
LYD3_k127_739048_20	1306990.BARG01000038_gene4519	2.93e-58	217.0	COG2186@1|root,COG2186@2|Bacteria,2GMTJ@201174|Actinobacteria	201174|Actinobacteria	K	gntR family	-	-	-	ko:K05799	-	-	-	-	ko00000,ko03000	-	-	-	FCD,GntR
LYD3_k127_739048_13	1268622.AVS7_02453	4.273e-85	295.0	COG3181@1|root,COG3181@2|Bacteria,1MYJX@1224|Proteobacteria,2VM8F@28216|Betaproteobacteria,4AC6J@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_739048_17	1123392.AQWL01000004_gene2546	2.974e-70	247.0	COG3023@1|root,COG3023@2|Bacteria,1RDHU@1224|Proteobacteria,2VR5A@28216|Betaproteobacteria,1KRM8@119069|Hydrogenophilales	119069|Hydrogenophilales	V	Ami_2	-	-	3.5.1.28	ko:K03806	-	-	-	-	ko00000,ko01000,ko01011	-	-	-	Amidase_2
LYD3_k127_739048_18	596153.Alide_1554	5.542e-64	223.0	COG2917@1|root,COG2917@2|Bacteria,1NWIZ@1224|Proteobacteria,2VRHB@28216|Betaproteobacteria,4ADFM@80864|Comamonadaceae	28216|Betaproteobacteria	D	probably involved in intracellular septation	ispZ	-	-	ko:K06190	-	-	-	-	ko00000	-	-	-	IspA
LYD3_k127_739048_24	522306.CAP2UW1_3306	1.041e-19	96.0	COG0271@1|root,COG0271@2|Bacteria,1MZG5@1224|Proteobacteria,2VVNP@28216|Betaproteobacteria,1KQ5G@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	T	Belongs to the BolA IbaG family	bolA	-	-	ko:K05527	-	-	-	-	ko00000,ko03000	-	-	-	BolA
LYD3_k127_739048_15	1163617.SCD_n01471	8.924e-74	258.0	COG0760@1|root,COG0760@2|Bacteria,1MZDK@1224|Proteobacteria,2VJZP@28216|Betaproteobacteria	28216|Betaproteobacteria	M	peptidylprolyl isomerase	-	-	5.2.1.8	ko:K03769	-	-	-	-	ko00000,ko01000,ko03110	-	-	-	Rotamase,Rotamase_2,Rotamase_3,SurA_N_3
LYD3_k127_739048_23	1095769.CAHF01000021_gene911	8.121e-33	133.0	29717@1|root,2ZU9N@2|Bacteria,1RJ7P@1224|Proteobacteria,2VT23@28216|Betaproteobacteria,474HM@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter TctB family	tctB4	-	-	-	-	-	-	-	-	-	-	-	TctB
LYD3_k127_739048_22	338969.Rfer_3212	4.524e-34	132.0	COG3333@1|root,COG3333@2|Bacteria,1MUKR@1224|Proteobacteria,2VHKU@28216|Betaproteobacteria,4AAHM@80864|Comamonadaceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter TctA family	tctA4	-	-	ko:K07793	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.80.1	-	-	TctA
LYD3_k127_752167_1	1207076.ALAT01000105_gene1962	1.305e-27	117.0	COG0332@1|root,COG0332@2|Bacteria,1MU9N@1224|Proteobacteria,1RNIR@1236|Gammaproteobacteria,1Z1IP@136846|Pseudomonas stutzeri group	1236|Gammaproteobacteria	I	COG0332 3-oxoacyl- acyl-carrier-protein synthase III	fabH	-	2.3.1.207	ko:K16872	-	-	-	-	ko00000,ko01000	-	-	-	ACP_syn_III,ACP_syn_III_C
LYD3_k127_752167_0	1121937.AUHJ01000001_gene665	4.835e-117	396.0	COG1020@1|root,COG1020@2|Bacteria,1N7HY@1224|Proteobacteria,1RZG3@1236|Gammaproteobacteria,466R7@72275|Alteromonadaceae	1236|Gammaproteobacteria	Q	Protein of unknown function (DUF1298)	-	-	-	-	-	-	-	-	-	-	-	-	DUF1298,WES_acyltransf
LYD3_k127_767871_1	1005048.CFU_4103	1.122e-166	534.0	COG0436@1|root,COG0436@2|Bacteria,1MW0Z@1224|Proteobacteria,2VI01@28216|Betaproteobacteria,4737T@75682|Oxalobacteraceae	28216|Betaproteobacteria	E	PFAM Aminotransferase class I and II	aspC	-	2.6.1.1	ko:K00812	ko00220,ko00250,ko00270,ko00330,ko00350,ko00360,ko00400,ko00401,ko00950,ko00960,ko01100,ko01110,ko01130,ko01210,ko01230,map00220,map00250,map00270,map00330,map00350,map00360,map00400,map00401,map00950,map00960,map01100,map01110,map01130,map01210,map01230	-	R00355,R00694,R00734,R00896,R02433,R02619,R05052	RC00006	ko00000,ko00001,ko01000,ko01007	-	-	-	Aminotran_1_2
LYD3_k127_767871_0	1198452.Jab_2c19650	0.0	1884.0	COG2373@1|root,COG2373@2|Bacteria,1MV7J@1224|Proteobacteria,2VI2R@28216|Betaproteobacteria,4730W@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	extracellular alpha-helical protein	-	-	-	ko:K06894	-	-	-	-	ko00000	-	-	-	A2M,A2M_N,A2M_N_2,MG1
LYD3_k127_767871_2	1218084.BBJK01000125_gene7030	4.396e-16	93.0	COG4953@1|root,COG4953@2|Bacteria,1MUA9@1224|Proteobacteria,2VMGW@28216|Betaproteobacteria,1K1FS@119060|Burkholderiaceae	28216|Betaproteobacteria	M	penicillin-binding protein	pbpC	-	2.4.1.129	ko:K05367	ko00550,map00550	-	-	-	ko00000,ko00001,ko01000,ko01003,ko01011	-	GT51	-	BiPBP_C,Transgly,Transpeptidase
LYD3_k127_768168_1	76114.ebA2060	3.32e-133	426.0	COG1884@1|root,COG1884@2|Bacteria,1MUXX@1224|Proteobacteria,2VIT2@28216|Betaproteobacteria,2KV3E@206389|Rhodocyclales	28216|Betaproteobacteria	I	Methylmalonyl-CoA mutase	icmF	-	5.4.99.2,5.4.99.63,5.4.99.64	ko:K01847,ko:K01848,ko:K14447,ko:K20906	ko00280,ko00630,ko00640,ko00720,ko01100,ko01120,ko01200,map00280,map00630,map00640,map00720,map01100,map01120,map01200	M00373,M00375,M00376,M00741	R00833,R09292	RC00395,RC02835	ko00000,ko00001,ko00002,ko01000	-	-	-	ArgK,B12-binding,MM_CoA_mutase
LYD3_k127_768168_2	76114.ebD52	1.522e-57	206.0	COG2185@1|root,COG2185@2|Bacteria,1RKGS@1224|Proteobacteria,2VW7W@28216|Betaproteobacteria	28216|Betaproteobacteria	I	B12 binding domain	-	-	5.4.99.2,5.4.99.64	ko:K01849,ko:K20907	ko00280,ko00630,ko00640,ko00720,ko01100,ko01120,ko01200,map00280,map00630,map00640,map00720,map01100,map01120,map01200	M00375,M00376,M00741	R00833	RC00395	ko00000,ko00001,ko00002,ko01000	-	-	-	B12-binding
LYD3_k127_768168_0	316055.RPE_3222	2.393e-181	573.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,2TQKE@28211|Alphaproteobacteria	28211|Alphaproteobacteria	I	acyl-CoA dehydrogenase	-	-	1.3.8.1	ko:K00248	ko00071,ko00280,ko00650,ko01100,ko01110,ko01120,ko01200,ko01212,map00071,map00280,map00650,map01100,map01110,map01120,map01200,map01212	-	R01175,R01178,R02661,R03172,R04751	RC00052,RC00068,RC00076,RC00120,RC00148	ko00000,ko00001,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_785201_0	522306.CAP2UW1_1261	1.305e-277	874.0	COG5164@1|root,COG5164@2|Bacteria,1MX1Z@1224|Proteobacteria,2VKEC@28216|Betaproteobacteria	28216|Betaproteobacteria	K	regulation of DNA-templated transcription, elongation	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_785201_2	1000565.METUNv1_01510	1.841e-158	510.0	COG0446@1|root,COG0446@2|Bacteria,1NR3M@1224|Proteobacteria,2VKIS@28216|Betaproteobacteria,2KVRE@206389|Rhodocyclales	206389|Rhodocyclales	S	FAD-dependent pyridine	-	-	-	-	-	-	-	-	-	-	-	-	Pyr_redox_2
LYD3_k127_785201_1	338969.Rfer_2223	1.198e-204	642.0	COG0446@1|root,COG0446@2|Bacteria,1NR3M@1224|Proteobacteria,2VJSV@28216|Betaproteobacteria,4AAZZ@80864|Comamonadaceae	28216|Betaproteobacteria	O	PFAM FAD-dependent pyridine nucleotide-disulphide oxidoreductase	-	-	-	-	-	-	-	-	-	-	-	-	Pyr_redox_2,Reductase_C,Rieske
LYD3_k127_785201_3	1000565.METUNv1_01509	4.889e-23	99.0	COG1977@1|root,COG1977@2|Bacteria,1QVHT@1224|Proteobacteria,2WGRV@28216|Betaproteobacteria,2KZQI@206389|Rhodocyclales	206389|Rhodocyclales	H	Mut7-C ubiquitin	-	-	-	-	-	-	-	-	-	-	-	-	ThiS
LYD3_k127_808819_0	1123242.JH636435_gene2698	1.06e-227	708.0	COG1982@1|root,COG1982@2|Bacteria,2J1X0@203682|Planctomycetes	203682|Planctomycetes	E	Orn/Lys/Arg decarboxylase, N-terminal domain	-	-	-	-	-	-	-	-	-	-	-	-	OKR_DC_1,OKR_DC_1_C,OKR_DC_1_N
LYD3_k127_808819_1	448385.sce0929	8.518e-137	463.0	COG5002@1|root,COG5002@2|Bacteria,1R5EN@1224|Proteobacteria,430V0@68525|delta/epsilon subdivisions,2WVT6@28221|Deltaproteobacteria,2YXP7@29|Myxococcales	28221|Deltaproteobacteria	T	PAS fold	-	-	-	-	-	-	-	-	-	-	-	-	HATPase_c,HisKA,PAS_9
LYD3_k127_817633_1	76114.ebA6034	2.653e-70	251.0	COG0560@1|root,COG0560@2|Bacteria,1MWA3@1224|Proteobacteria,2VKZJ@28216|Betaproteobacteria,2KUQT@206389|Rhodocyclales	206389|Rhodocyclales	E	phosphoserine phosphatase	serB	-	3.1.3.3	ko:K01079	ko00260,ko00680,ko01100,ko01120,ko01130,ko01200,ko01230,map00260,map00680,map01100,map01120,map01130,map01200,map01230	M00020	R00582	RC00017	ko00000,ko00001,ko00002,ko01000,ko01009	-	-	-	DUF4072,HAD
LYD3_k127_817633_0	1163617.SCD_n01794	8.467e-166	530.0	COG0557@1|root,COG0557@2|Bacteria,1MUS6@1224|Proteobacteria,2VHBJ@28216|Betaproteobacteria	28216|Betaproteobacteria	J	3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs	rnr	-	-	ko:K12573	ko03018,map03018	-	-	-	ko00000,ko00001,ko01000,ko03016,ko03019	-	-	-	OB_RNB,RNB,S1
LYD3_k127_823309_2	94624.Bpet4348	1.535e-42	166.0	COG0247@1|root,COG0277@1|root,COG0247@2|Bacteria,COG0277@2|Bacteria,1MU6Y@1224|Proteobacteria,2VHCG@28216|Betaproteobacteria,3T6RJ@506|Alcaligenaceae	28216|Betaproteobacteria	C	4Fe-4S dicluster domain	-	-	-	-	-	-	-	-	-	-	-	-	CCG,FAD-oxidase_C,FAD_binding_4,Fer4_8
LYD3_k127_823309_0	1007105.PT7_1574	4.611e-199	626.0	COG0075@1|root,COG0075@2|Bacteria,1MWHJ@1224|Proteobacteria,2VI9Q@28216|Betaproteobacteria,3T51C@506|Alcaligenaceae	28216|Betaproteobacteria	E	Serine-pyruvate aminotransferase archaeal aspartate aminotransferase	sgaA	-	2.6.1.44,2.6.1.45,2.6.1.51	ko:K00830	ko00250,ko00260,ko00630,ko00680,ko01100,ko01110,ko01120,ko01130,ko01200,ko04146,map00250,map00260,map00630,map00680,map01100,map01110,map01120,map01130,map01200,map04146	M00346,M00532	R00369,R00372,R00585,R00588	RC00006,RC00008,RC00018	ko00000,ko00001,ko00002,ko01000,ko01007	-	-	-	Aminotran_5
LYD3_k127_823309_1	1197906.CAJQ02000023_gene2267	4.567e-87	289.0	COG3333@1|root,COG3333@2|Bacteria,1MUKR@1224|Proteobacteria,2TR4Q@28211|Alphaproteobacteria,3JT7G@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Tripartite tricarboxylate transporter TctA family	MA20_43210	-	-	ko:K07793	ko02020,map02020	-	-	-	ko00000,ko00001,ko02000	2.A.80.1	-	-	TctA
LYD3_k127_823469_2	365044.Pnap_1120	3.964e-61	220.0	COG3185@1|root,COG3185@2|Bacteria,1MUVZ@1224|Proteobacteria,2VJCK@28216|Betaproteobacteria,4A9UI@80864|Comamonadaceae	28216|Betaproteobacteria	C	PFAM Glyoxalase bleomycin resistance protein dioxygenase	hppD	-	1.13.11.27	ko:K00457	ko00130,ko00350,ko00360,ko01100,map00130,map00350,map00360,map01100	M00044	R01372,R02521	RC00505,RC00738	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Glyoxalase,Glyoxalase_5
LYD3_k127_823469_3	1265502.KB905938_gene2421	4.283e-40	155.0	COG0071@1|root,COG0071@2|Bacteria,1NA27@1224|Proteobacteria,2VU9B@28216|Betaproteobacteria,4AJF0@80864|Comamonadaceae	28216|Betaproteobacteria	O	Belongs to the small heat shock protein (HSP20) family	-	-	-	-	-	-	-	-	-	-	-	-	HSP20
LYD3_k127_823469_1	748247.AZKH_2998	4.177e-67	236.0	COG0071@1|root,COG0071@2|Bacteria,1N7C7@1224|Proteobacteria,2VRGX@28216|Betaproteobacteria,2KWZ5@206389|Rhodocyclales	206389|Rhodocyclales	O	Hsp20/alpha crystallin family	-	-	-	ko:K13993	ko04141,map04141	-	-	-	ko00000,ko00001,ko03110	-	-	-	HSP20
LYD3_k127_823469_0	748247.AZKH_p0420	1.566e-91	307.0	28NKC@1|root,2ZBM7@2|Bacteria,1MWMY@1224|Proteobacteria,2VQ6Y@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_823469_4	1231391.AMZF01000013_gene2562	8.072e-32	124.0	COG0842@1|root,COG0842@2|Bacteria,1MUH1@1224|Proteobacteria,2VJMJ@28216|Betaproteobacteria,3T36Z@506|Alcaligenaceae	28216|Betaproteobacteria	V	Transport permease protein	yadH	-	-	ko:K01992	-	M00254	-	-	ko00000,ko00002,ko02000	3.A.1	-	-	ABC2_membrane
LYD3_k127_823724_0	292415.Tbd_2112	5.791e-146	473.0	COG0442@1|root,COG0442@2|Bacteria,1MU7E@1224|Proteobacteria,2VGZ9@28216|Betaproteobacteria,1KS96@119069|Hydrogenophilales	119069|Hydrogenophilales	J	Aminoacyl-tRNA editing domain	-	-	6.1.1.15	ko:K01881	ko00970,map00970	M00359,M00360	R03661	RC00055,RC00523	ko00000,ko00001,ko00002,ko01000,ko01007,ko03016	-	-	-	HGTP_anticodon,tRNA-synt_2b,tRNA_edit
LYD3_k127_823724_3	1123354.AUDR01000018_gene1207	3.547e-41	156.0	COG0589@1|root,COG0589@2|Bacteria,1MZ3K@1224|Proteobacteria,2VR37@28216|Betaproteobacteria	28216|Betaproteobacteria	T	universal stress protein	-	-	-	-	-	-	-	-	-	-	-	-	Usp
LYD3_k127_823724_2	795666.MW7_3496	1.946e-63	232.0	COG2217@1|root,COG2217@2|Bacteria,1MU08@1224|Proteobacteria,2VJSM@28216|Betaproteobacteria,1K53J@119060|Burkholderiaceae	28216|Betaproteobacteria	P	heavy metal translocating P-type ATPase	ccoI	-	3.6.3.4	ko:K01533	-	-	R00086	RC00002	ko00000,ko01000	3.A.3.5	-	-	ATPase-cat_bd,E1-E2_ATPase,HMA,Hydrolase
LYD3_k127_823724_1	1000565.METUNv1_03820	4.323e-133	456.0	COG2217@1|root,COG2217@2|Bacteria,1MU08@1224|Proteobacteria,2VJSM@28216|Betaproteobacteria,2KV1V@206389|Rhodocyclales	206389|Rhodocyclales	P	cation transport ATPase	ccoI	-	3.6.3.4	ko:K01533	-	-	R00086	RC00002	ko00000,ko01000	3.A.3.5	-	-	ATPase-cat_bd,E1-E2_ATPase,HMA,Hydrolase
LYD3_k127_82835_0	1123367.C666_09120	5.04e-84	279.0	COG1328@1|root,COG1328@2|Bacteria,1MWMS@1224|Proteobacteria,2VJYM@28216|Betaproteobacteria,2KZ4S@206389|Rhodocyclales	206389|Rhodocyclales	F	Anaerobic ribonucleoside-triphosphate reductase	-	-	-	-	-	-	-	-	-	-	-	-	ATP-cone,NRDD
LYD3_k127_82835_2	1123367.C666_09125	3.683e-23	103.0	COG1328@1|root,COG1328@2|Bacteria,1N8MB@1224|Proteobacteria,2VW43@28216|Betaproteobacteria	28216|Betaproteobacteria	F	Anaerobic ribonucleoside-triphosphate reductase	-	-	-	-	-	-	-	-	-	-	-	-	NRDD
LYD3_k127_82835_1	292415.Tbd_2170	3.416e-72	253.0	COG1180@1|root,COG1180@2|Bacteria,1NQC1@1224|Proteobacteria,2VQMN@28216|Betaproteobacteria,1KSHY@119069|Hydrogenophilales	119069|Hydrogenophilales	O	4Fe-4S single cluster domain	-	-	-	-	-	-	-	-	-	-	-	-	Fer4_12,Radical_SAM
LYD3_k127_82835_3	596154.Alide2_3911	3.125e-09	65.0	COG1612@1|root,COG1612@2|Bacteria,1NDQQ@1224|Proteobacteria,2VWPV@28216|Betaproteobacteria,4AGYI@80864|Comamonadaceae	28216|Betaproteobacteria	O	Cytochrome oxidase assembly protein	-	-	-	ko:K02259	ko00190,ko00860,ko01100,ko01110,ko02020,ko04714,map00190,map00860,map01100,map01110,map02020,map04714	M00154	R07412	RC00769	ko00000,ko00001,ko00002,ko03029	3.D.4.4	-	-	COX15-CtaA
LYD3_k127_831222_1	257310.BB1810	1.622e-132	429.0	COG0210@1|root,COG0210@2|Bacteria,1MU0G@1224|Proteobacteria,2VM2H@28216|Betaproteobacteria,3T57X@506|Alcaligenaceae	28216|Betaproteobacteria	L	Superfamily I DNA and RNA helicases	pcrA	-	3.6.4.12	ko:K03657	ko03420,ko03430,map03420,map03430	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	UvrD-helicase,UvrD_C
LYD3_k127_831222_3	1385519.N801_15195	1.491e-18	97.0	COG0642@1|root,COG2205@2|Bacteria,2I2M2@201174|Actinobacteria,4FFYD@85021|Intrasporangiaceae	201174|Actinobacteria	T	GAF domain	-	-	-	-	-	-	-	-	-	-	-	-	DUF3365,GAF_2,HAMP,HATPase_c,HisKA,Response_reg
LYD3_k127_831222_2	266264.Rmet_0122	3.059e-48	180.0	COG1670@1|root,COG1670@2|Bacteria,1N36Q@1224|Proteobacteria,2VVHU@28216|Betaproteobacteria	28216|Betaproteobacteria	J	Acetyltransferase (GNAT) domain	-	-	-	-	-	-	-	-	-	-	-	-	Acetyltransf_3
LYD3_k127_831222_0	426114.THI_2157	9.148e-202	642.0	COG1960@1|root,COG1960@2|Bacteria,1MU20@1224|Proteobacteria,2VHMA@28216|Betaproteobacteria,1KKG1@119065|unclassified Burkholderiales	28216|Betaproteobacteria	C	Acyl-CoA dehydrogenase, C-terminal domain	aidB	-	-	ko:K09456	-	-	-	-	ko00000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M
LYD3_k127_832777_2	62928.azo3237	2.222e-25	109.0	COG2331@1|root,COG2331@2|Bacteria,1N6Q9@1224|Proteobacteria,2VTX5@28216|Betaproteobacteria,2KXAG@206389|Rhodocyclales	206389|Rhodocyclales	S	Putative regulatory protein	-	-	-	-	-	-	-	-	-	-	-	-	Zn-ribbon_8
LYD3_k127_832777_1	1122165.AUHS01000014_gene2783	3.535e-26	113.0	COG1585@1|root,COG1585@2|Bacteria,1N474@1224|Proteobacteria,1TD2K@1236|Gammaproteobacteria,1JG3D@118969|Legionellales	118969|Legionellales	OU	NfeD-like C-terminal, partner-binding	-	-	-	-	-	-	-	-	-	-	-	-	NfeD
LYD3_k127_832777_0	216591.BCAL2072	1.139e-109	370.0	COG0330@1|root,COG0330@2|Bacteria,1MUM8@1224|Proteobacteria,2VHBD@28216|Betaproteobacteria,1K0SQ@119060|Burkholderiaceae	28216|Betaproteobacteria	O	PFAM band 7 protein	qmcA	-	-	-	-	-	-	-	-	-	-	-	Band_7,Band_7_C
LYD3_k127_84158_1	640081.Dsui_1326	2.383e-53	199.0	COG0517@1|root,COG0517@2|Bacteria,1RJTX@1224|Proteobacteria,2VTQI@28216|Betaproteobacteria,2KWPB@206389|Rhodocyclales	206389|Rhodocyclales	S	Domain in cystathionine beta-synthase and other proteins.	-	-	-	-	-	-	-	-	-	-	-	-	CBS
LYD3_k127_84158_2	1163617.SCD_n00799	1.254e-29	120.0	COG0425@1|root,COG0425@2|Bacteria,1MZA5@1224|Proteobacteria,2VVW5@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Belongs to the sulfur carrier protein TusA family	-	-	-	ko:K04085	ko04122,map04122	-	-	-	ko00000,ko00001,ko01000,ko03016	-	-	-	TusA
LYD3_k127_84158_0	62928.azo0908	4.854e-79	271.0	COG0809@1|root,COG0809@2|Bacteria,1MUH3@1224|Proteobacteria,2VHJF@28216|Betaproteobacteria,2KVHN@206389|Rhodocyclales	206389|Rhodocyclales	F	Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA)	queA	-	2.4.99.17	ko:K07568	-	-	-	-	ko00000,ko01000,ko03016	-	-	-	Queuosine_synth
LYD3_k127_846537_0	1123392.AQWL01000002_gene1982	2.63e-88	300.0	COG0019@1|root,COG0019@2|Bacteria,1MUA6@1224|Proteobacteria,2VI3M@28216|Betaproteobacteria,1KRG7@119069|Hydrogenophilales	119069|Hydrogenophilales	E	Pyridoxal-dependent decarboxylase, pyridoxal binding domain	-	-	4.1.1.20	ko:K01586	ko00300,ko01100,ko01110,ko01120,ko01130,ko01230,map00300,map01100,map01110,map01120,map01130,map01230	M00016,M00525,M00526,M00527	R00451	RC00299	ko00000,ko00001,ko00002,ko01000	-	-	-	Orn_Arg_deC_N,Orn_DAP_Arg_deC
LYD3_k127_846537_1	1348657.M622_00065	7.678e-22	101.0	COG1965@1|root,COG1965@2|Bacteria,1RH9A@1224|Proteobacteria,2VVS3@28216|Betaproteobacteria,2KWZ7@206389|Rhodocyclales	206389|Rhodocyclales	P	Belongs to the frataxin	cyaY	-	-	ko:K06202	-	-	-	-	ko00000	-	-	-	Frataxin_Cyay
LYD3_k127_846537_2	1502770.JQMG01000001_gene1370	1.682e-18	86.0	COG1451@1|root,COG1451@2|Bacteria,1MXZU@1224|Proteobacteria,2VNC5@28216|Betaproteobacteria,2KMCG@206350|Nitrosomonadales	206350|Nitrosomonadales	S	Protein of unknown function DUF45	-	-	-	ko:K07043	-	-	-	-	ko00000	-	-	-	DUF45
LYD3_k127_852186_3	522306.CAP2UW1_0180	2.143e-35	140.0	28KUM@1|root,2ZABC@2|Bacteria,1R683@1224|Proteobacteria,2VPU1@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Protein of unknown function (DUF2868)	-	-	-	-	-	-	-	-	-	-	-	-	DUF2868,DUF3482
LYD3_k127_852186_1	522306.CAP2UW1_0179	6.502e-191	611.0	COG2262@1|root,COG2262@2|Bacteria,1QV04@1224|Proteobacteria,2WGNW@28216|Betaproteobacteria	28216|Betaproteobacteria	S	Domain of unknown function (DUF3482)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3482,MMR_HSR1
LYD3_k127_852186_0	522306.CAP2UW1_2695	1.27e-192	608.0	COG0183@1|root,COG0183@2|Bacteria,1MU8C@1224|Proteobacteria,2W9F8@28216|Betaproteobacteria,1KQYJ@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	I	Thiolase, C-terminal domain	-	-	-	-	-	-	-	-	-	-	-	-	Thiolase_C,Thiolase_N
LYD3_k127_852186_2	381666.H16_B0699	2.421e-106	348.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,2VH9Y@28216|Betaproteobacteria,1K0HZ@119060|Burkholderiaceae	28216|Betaproteobacteria	C	acyl-CoA dehydrogenase	-	-	1.3.8.7	ko:K00249	ko00071,ko00280,ko00410,ko00640,ko01100,ko01110,ko01130,ko01200,ko01212,ko03320,map00071,map00280,map00410,map00640,map01100,map01110,map01130,map01200,map01212,map03320	M00013,M00036,M00087	R00924,R01175,R01279,R02661,R03172,R03777,R03857,R03990,R04095,R04432,R04751,R04754	RC00052,RC00068,RC00076,RC00095,RC00148,RC00246	ko00000,ko00001,ko00002,ko01000	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_859610_2	292415.Tbd_2332	4.255e-89	314.0	COG0654@1|root,COG0654@2|Bacteria,1MU6I@1224|Proteobacteria,2VIPS@28216|Betaproteobacteria,1KS34@119069|Hydrogenophilales	119069|Hydrogenophilales	CH	FAD binding domain	-	-	-	ko:K03185	ko00130,ko01100,ko01110,map00130,map01100,map01110	M00117	R04989,R08773	RC02670	ko00000,ko00001,ko00002,ko01000	-	-	-	FAD_binding_3
LYD3_k127_859610_1	1163617.SCD_n00319	3.523e-89	297.0	COG5405@1|root,COG5405@2|Bacteria,1MVF2@1224|Proteobacteria,2VIFV@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Protease subunit of a proteasome-like degradation complex believed to be a general protein degrading machinery	hslV	-	3.4.25.2	ko:K01419	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Proteasome
LYD3_k127_859610_5	305700.B447_12272	1.516e-38	162.0	COG1366@1|root,COG1366@2|Bacteria,1R08G@1224|Proteobacteria,2VIGK@28216|Betaproteobacteria,2KVYW@206389|Rhodocyclales	206389|Rhodocyclales	T	Belongs to the anti-sigma-factor antagonist family	-	-	-	-	-	-	-	-	-	-	-	-	STAS_2
LYD3_k127_859610_3	292415.Tbd_1852	5.915e-77	261.0	COG3748@1|root,COG3748@2|Bacteria,1RFIZ@1224|Proteobacteria,2VRTS@28216|Betaproteobacteria,1KRXX@119069|Hydrogenophilales	119069|Hydrogenophilales	S	Pfam:DUF989	-	-	-	-	-	-	-	-	-	-	-	-	Urate_ox_N
LYD3_k127_859610_4	859657.RPSI07_3332	1.001e-51	194.0	COG1734@1|root,COG1734@2|Bacteria,1RD08@1224|Proteobacteria,2VQR5@28216|Betaproteobacteria,1K758@119060|Burkholderiaceae	28216|Betaproteobacteria	T	Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters	dksA	-	-	ko:K06204	ko02026,map02026	-	-	-	ko00000,ko00001,ko03000,ko03009,ko03021	-	-	-	zf-dskA_traR
LYD3_k127_859610_0	381666.H16_A0479	2.114e-145	471.0	COG0418@1|root,COG0418@2|Bacteria,1MUYP@1224|Proteobacteria,2VH6F@28216|Betaproteobacteria,1K06B@119060|Burkholderiaceae	28216|Betaproteobacteria	F	Catalyzes the reversible cyclization of carbamoyl aspartate to dihydroorotate	pyrC	-	3.5.2.3	ko:K01465	ko00240,ko01100,map00240,map01100	M00051	R01993	RC00632	ko00000,ko00001,ko00002,ko01000	-	-	-	Amidohydro_1
LYD3_k127_861635_2	85643.Tmz1t_3715	6.501e-58	203.0	COG1526@1|root,COG1526@2|Bacteria,1MY28@1224|Proteobacteria,2VK94@28216|Betaproteobacteria,2KV23@206389|Rhodocyclales	206389|Rhodocyclales	C	Required for formate dehydrogenase (FDH) activity. Acts as a sulfur carrier protein that transfers sulfur from IscS to the molybdenum cofactor prior to its insertion into FDH	fdhD	-	-	ko:K02379	-	-	-	-	ko00000	-	-	-	FdhD-NarQ
LYD3_k127_861635_3	1385517.N800_12720	2.82e-37	150.0	COG3791@1|root,COG3791@2|Bacteria,1N031@1224|Proteobacteria,1S69Q@1236|Gammaproteobacteria,1X8MY@135614|Xanthomonadales	135614|Xanthomonadales	S	Glutathione-dependent formaldehyde-activating enzyme	-	-	-	-	-	-	-	-	-	-	-	-	GFA
LYD3_k127_861635_1	76114.ebA2945	2.067e-83	282.0	COG0746@1|root,COG0746@2|Bacteria,1RH3M@1224|Proteobacteria,2VQR2@28216|Betaproteobacteria,2KW8P@206389|Rhodocyclales	206389|Rhodocyclales	H	Transfers a GMP moiety from GTP to Mo-molybdopterin (Mo- MPT) cofactor (Moco or molybdenum cofactor) to form Mo- molybdopterin guanine dinucleotide (Mo-MGD) cofactor	mobA	-	2.7.7.77	ko:K03752	ko00790,ko01100,map00790,map01100	-	R11581	-	ko00000,ko00001,ko01000	-	-	-	NTP_transf_3
LYD3_k127_861635_0	204773.HEAR1403	4.281e-96	322.0	COG0303@1|root,COG0303@2|Bacteria,1MVD5@1224|Proteobacteria,2VH78@28216|Betaproteobacteria,473QZ@75682|Oxalobacteraceae	28216|Betaproteobacteria	H	Transfers a GMP moiety from GTP to Mo-molybdopterin (Mo- MPT) cofactor (Moco or molybdenum cofactor) to form Mo- molybdopterin guanine dinucleotide (Mo-MGD) cofactor	moeA2	-	2.10.1.1	ko:K03750	ko00790,ko01100,map00790,map01100	-	R09735	RC03462	ko00000,ko00001,ko01000	-	-	-	MoCF_biosynth,MoeA_C,MoeA_N
LYD3_k127_863367_7	395495.Lcho_3686	1.944e-106	350.0	COG0683@1|root,COG0683@2|Bacteria,1MX94@1224|Proteobacteria,2VHQ4@28216|Betaproteobacteria	28216|Betaproteobacteria	E	COG0683 ABC-type branched-chain amino acid transport systems, periplasmic component	-	-	-	ko:K01999	ko02010,ko02024,map02010,map02024	M00237	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.4	-	-	Peripla_BP_6
LYD3_k127_863367_4	1380394.JADL01000003_gene5229	7.071e-129	422.0	COG0673@1|root,COG0673@2|Bacteria,1MUZI@1224|Proteobacteria,2U21V@28211|Alphaproteobacteria,2JXPB@204441|Rhodospirillales	204441|Rhodospirillales	S	Oxidoreductase family, NAD-binding Rossmann fold	-	-	1.1.1.292	ko:K19181	-	-	-	-	ko00000,ko01000	-	-	-	GFO_IDH_MocA,GFO_IDH_MocA_C
LYD3_k127_863367_8	319003.Bra1253DRAFT_02572	1.598e-96	323.0	COG1028@1|root,COG1028@2|Bacteria,1MU2T@1224|Proteobacteria,2TSDG@28211|Alphaproteobacteria,3JT3N@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	IQ	Enoyl-(Acyl carrier protein) reductase	-	-	1.1.1.401	ko:K21883	ko00051,ko01120,map00051,map01120	-	R11339	RC00089	ko00000,ko00001,ko01000	-	-	-	adh_short,adh_short_C2
LYD3_k127_863367_6	1071679.BG57_02765	6.282e-107	354.0	COG1024@1|root,COG1024@2|Bacteria,1MWZC@1224|Proteobacteria,2VN7V@28216|Betaproteobacteria,1K54U@119060|Burkholderiaceae	28216|Betaproteobacteria	I	Enoyl-CoA hydratase/isomerase	-	-	4.2.1.149	ko:K08299	-	-	R10675	RC01095	ko00000,ko01000	-	-	-	ECH_1
LYD3_k127_863367_0	1123060.JONP01000008_gene4641	5.631e-206	646.0	COG1804@1|root,COG1804@2|Bacteria,1MU2K@1224|Proteobacteria,2TR7Q@28211|Alphaproteobacteria,2JQKF@204441|Rhodospirillales	204441|Rhodospirillales	C	III protein, CoA-transferase family	-	-	-	-	-	-	-	-	-	-	-	-	CoA_transf_3
LYD3_k127_863367_2	1123060.JONP01000008_gene4641	1.721e-200	631.0	COG1804@1|root,COG1804@2|Bacteria,1MU2K@1224|Proteobacteria,2TR7Q@28211|Alphaproteobacteria,2JQKF@204441|Rhodospirillales	204441|Rhodospirillales	C	III protein, CoA-transferase family	-	-	-	-	-	-	-	-	-	-	-	-	CoA_transf_3
LYD3_k127_863367_10	398527.Bphyt_5818	1.836e-75	255.0	COG0757@1|root,COG0757@2|Bacteria,1RDDT@1224|Proteobacteria,2VR4Y@28216|Betaproteobacteria,1K5S0@119060|Burkholderiaceae	28216|Betaproteobacteria	E	Catalyzes a trans-dehydration via an enolate intermediate	aroQ	-	4.2.1.10	ko:K03786	ko00400,ko01100,ko01110,ko01130,ko01230,map00400,map01100,map01110,map01130,map01230	M00022	R03084	RC00848	ko00000,ko00001,ko00002,ko01000	-	-	-	DHquinase_II
LYD3_k127_863367_12	488538.SAR116_0921	4.416e-66	249.0	COG1028@1|root,COG1028@2|Bacteria	488538.SAR116_0921|-	IQ	oxidoreductase activity, acting on CH-OH group of donors	-	-	1.1.1.100	ko:K00059	ko00061,ko00333,ko00780,ko01040,ko01100,ko01130,ko01212,map00061,map00333,map00780,map01040,map01100,map01130,map01212	M00083,M00572	R04533,R04534,R04536,R04543,R04566,R04953,R04964,R07759,R07763,R10116,R10120,R11671	RC00029,RC00117	ko00000,ko00001,ko00002,ko01000,ko01004	-	-	-	-
LYD3_k127_863367_1	663610.JQKO01000009_gene477	3.648e-203	647.0	COG0446@1|root,COG2146@1|root,COG0446@2|Bacteria,COG2146@2|Bacteria,1NR3M@1224|Proteobacteria,2TS0K@28211|Alphaproteobacteria,3NAVA@45404|Beijerinckiaceae	28211|Alphaproteobacteria	P	Reductase C-terminal	-	-	1.18.1.1	ko:K05297	ko00071,map00071	-	R02000	-	ko00000,ko00001,ko01000	-	-	-	Pyr_redox_2,Pyr_redox_dim,Reductase_C,Rieske
LYD3_k127_863367_11	631362.Thi970DRAFT_01801	2.165e-69	242.0	COG2995@1|root,COG2995@2|Bacteria,1N2QU@1224|Proteobacteria,1S9RM@1236|Gammaproteobacteria,1X0MS@135613|Chromatiales	135613|Chromatiales	S	overlaps another CDS with the same product name	-	-	-	-	-	-	-	-	-	-	-	-	PqiA
LYD3_k127_863367_9	631362.Thi970DRAFT_01800	1.305e-81	286.0	COG2995@1|root,COG2995@2|Bacteria,1MWG1@1224|Proteobacteria,1RM9Z@1236|Gammaproteobacteria,1X00J@135613|Chromatiales	135613|Chromatiales	S	overlaps another CDS with the same product name	-	-	-	-	-	-	-	-	-	-	-	-	PqiA
LYD3_k127_863367_3	1454004.AW11_02390	1.528e-194	622.0	COG1463@1|root,COG3008@1|root,COG1463@2|Bacteria,COG3008@2|Bacteria,1MU1T@1224|Proteobacteria,2VJ44@28216|Betaproteobacteria,1KQCG@119066|unclassified Betaproteobacteria	28216|Betaproteobacteria	Q	MlaD protein	pqiB	-	-	ko:K06192	-	-	-	-	ko00000	-	-	-	MlaD
LYD3_k127_863367_13	631362.Thi970DRAFT_01798	3.344e-55	200.0	COG3009@1|root,COG3009@2|Bacteria,1RII3@1224|Proteobacteria,1SC0K@1236|Gammaproteobacteria,1X0WR@135613|Chromatiales	135613|Chromatiales	S	ABC-type transport auxiliary lipoprotein component	-	-	-	-	-	-	-	-	-	-	-	-	ABC_trans_aux
LYD3_k127_863367_14	1288494.EBAPG3_14050	2.909e-18	99.0	COG3427@1|root,COG3427@2|Bacteria,1N55Y@1224|Proteobacteria,2VTZD@28216|Betaproteobacteria,3748Z@32003|Nitrosomonadales	28216|Betaproteobacteria	S	Polyketide cyclase / dehydrase and lipid transport	-	-	-	-	-	-	-	-	-	-	-	-	Polyketide_cyc
LYD3_k127_863367_5	1123072.AUDH01000002_gene2548	1.679e-119	393.0	COG0457@1|root,COG0457@2|Bacteria,1N01S@1224|Proteobacteria,2TSR4@28211|Alphaproteobacteria,2JQKI@204441|Rhodospirillales	204441|Rhodospirillales	S	COG0457 FOG TPR repeat	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_876117_0	1254432.SCE1572_46360	2.443e-43	177.0	COG2433@1|root,COG2433@2|Bacteria,1RJ1Q@1224|Proteobacteria,43CJE@68525|delta/epsilon subdivisions,2X7TT@28221|Deltaproteobacteria,2Z3N4@29|Myxococcales	28221|Deltaproteobacteria	S	Transposase IS66 family	-	-	-	ko:K07484	-	-	-	-	ko00000	-	-	-	DDE_Tnp_IS66,DDE_Tnp_IS66_C,LZ_Tnp_IS66
LYD3_k127_876117_1	1192034.CAP_7761	1.197e-22	102.0	COG3436@1|root,COG3436@2|Bacteria,1RHDW@1224|Proteobacteria,4360E@68525|delta/epsilon subdivisions,2X0HX@28221|Deltaproteobacteria,2Z0TS@29|Myxococcales	28221|Deltaproteobacteria	L	High confidence in function and specificity	-	-	-	ko:K07484	-	-	-	-	ko00000	-	-	-	TnpB_IS66
LYD3_k127_882723_1	742159.HMPREF0004_2195	2.911e-57	201.0	COG3396@1|root,COG3396@2|Bacteria,1MVQ7@1224|Proteobacteria,2VHQZ@28216|Betaproteobacteria,3T2JZ@506|Alcaligenaceae	28216|Betaproteobacteria	S	Phenylacetate-CoA oxygenase	paaA	-	1.14.13.149	ko:K02609	ko00360,ko01120,map00360,map01120	-	R09838	RC02690	ko00000,ko00001,ko01000	-	-	-	PaaA_PaaC
LYD3_k127_882723_3	1198452.Jab_2c29840	9.725e-50	184.0	COG3460@1|root,COG3460@2|Bacteria,1RHM5@1224|Proteobacteria,2VST3@28216|Betaproteobacteria,474KA@75682|Oxalobacteraceae	28216|Betaproteobacteria	Q	Phenylacetic acid degradation B	paaB	-	-	ko:K02610	ko00360,ko01120,map00360,map01120	-	R09838	RC02690	ko00000,ko00001	-	-	-	PaaB
LYD3_k127_882723_0	1217718.ALOU01000005_gene1537	8.562e-107	352.0	COG3396@1|root,COG3396@2|Bacteria,1MVYQ@1224|Proteobacteria,2VJ03@28216|Betaproteobacteria	28216|Betaproteobacteria	S	phenylacetic acid	paaC	-	1.14.13.149	ko:K02611	ko00360,ko01120,map00360,map01120	-	R09838	RC02690	ko00000,ko00001,ko01000	-	-	-	PaaA_PaaC
LYD3_k127_882723_2	1185652.USDA257_c50060	2.923e-56	205.0	COG2151@1|root,COG2151@2|Bacteria,1RF3S@1224|Proteobacteria,2TRQW@28211|Alphaproteobacteria,4BAWH@82115|Rhizobiaceae	28211|Alphaproteobacteria	S	Iron-sulfur cluster assembly protein	paaD	-	-	ko:K02612	ko00360,ko01120,map00360,map01120	-	R09838	RC02690	ko00000,ko00001	-	-	-	FeS_assembly_P
LYD3_k127_882723_4	1349767.GJA_640	5.33e-10	64.0	COG1018@1|root,COG1018@2|Bacteria,1MY2Q@1224|Proteobacteria,2VKK1@28216|Betaproteobacteria,4736I@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Oxidoreductase FAD-binding domain	paaE	-	-	ko:K02613	ko00360,ko01120,map00360,map01120	-	R09838	RC02690	ko00000,ko00001	-	-	-	FAD_binding_6,Fer2,NAD_binding_1
LYD3_k127_884196_3	1266925.JHVX01000008_gene313	2.287e-42	173.0	COG1778@1|root,COG1778@2|Bacteria,1RH85@1224|Proteobacteria,2VRQX@28216|Betaproteobacteria,371MQ@32003|Nitrosomonadales	28216|Betaproteobacteria	S	haloacid dehalogenase-like hydrolase	kdsC	-	3.1.3.45	ko:K03270	ko00540,ko01100,map00540,map01100	M00063	R03350	RC00017	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	Hydrolase,Hydrolase_3
LYD3_k127_884196_1	1434929.X946_2123	3.705e-125	410.0	COG0517@1|root,COG0794@1|root,COG0517@2|Bacteria,COG0794@2|Bacteria,1MUXD@1224|Proteobacteria,2VI24@28216|Betaproteobacteria,1K0GY@119060|Burkholderiaceae	28216|Betaproteobacteria	M	Belongs to the SIS family. GutQ KpsF subfamily	kdsD	-	5.3.1.13	ko:K06041	ko00540,ko01100,map00540,map01100	M00063	R01530	RC00541	ko00000,ko00001,ko00002,ko01000,ko01005	-	-	-	CBS,SIS
LYD3_k127_884196_0	1163617.SCD_n00563	2.406e-221	706.0	COG0475@1|root,COG1226@1|root,COG0475@2|Bacteria,COG1226@2|Bacteria,1MV34@1224|Proteobacteria,2VHQQ@28216|Betaproteobacteria	28216|Betaproteobacteria	P	Belongs to the monovalent cation proton antiporter 2 (cpa2) transporter (TC 2.A.37) family	kefB	-	-	ko:K03455	-	-	-	-	ko00000	2.A.37	-	-	Na_H_Exchanger,TrkA_C,TrkA_N
LYD3_k127_884196_2	261292.Nit79A3_2543	8.45e-45	166.0	COG1127@1|root,COG1127@2|Bacteria,1MUSD@1224|Proteobacteria,2VJIA@28216|Betaproteobacteria,372BX@32003|Nitrosomonadales	28216|Betaproteobacteria	Q	ABC transporter	ttg2A	-	-	ko:K02065	ko02010,map02010	M00210,M00669,M00670	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.27	-	-	ABC_tran
LYD3_k127_897884_0	76114.ebA3828	5.478e-100	329.0	COG0087@1|root,COG0087@2|Bacteria,1MUST@1224|Proteobacteria,2VJ3V@28216|Betaproteobacteria,2KV3R@206389|Rhodocyclales	206389|Rhodocyclales	J	One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit	rplC	-	-	ko:K02906	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L3
LYD3_k127_897884_1	62928.azo3416	2.111e-88	297.0	COG0088@1|root,COG0088@2|Bacteria,1MXPF@1224|Proteobacteria,2VHS6@28216|Betaproteobacteria,2KVFP@206389|Rhodocyclales	206389|Rhodocyclales	J	50S ribosomal protein L4	rplD	-	-	ko:K02926	ko03010,map03010	M00178	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L4
LYD3_k127_897884_2	76114.ebB125	7.483e-39	149.0	COG0089@1|root,COG0089@2|Bacteria,1MZXX@1224|Proteobacteria,2VU1C@28216|Betaproteobacteria,2KWRX@206389|Rhodocyclales	206389|Rhodocyclales	J	One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome	rplW	-	-	ko:K02892	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L23
LYD3_k127_897884_3	887898.HMPREF0551_1904	2.618e-14	74.0	COG0090@1|root,COG0090@2|Bacteria,1MVTD@1224|Proteobacteria,2VHSD@28216|Betaproteobacteria,1K0IX@119060|Burkholderiaceae	28216|Betaproteobacteria	J	One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity	rplB	-	-	ko:K02886	ko03010,map03010	M00178,M00179	-	-	br01610,ko00000,ko00001,ko00002,ko03011	-	-	-	Ribosomal_L2,Ribosomal_L2_C
LYD3_k127_901864_0	1234364.AMSF01000090_gene2456	9.523e-290	895.0	COG0209@1|root,COG0209@2|Bacteria,1MUJ8@1224|Proteobacteria,1RQUR@1236|Gammaproteobacteria,1X2Z8@135614|Xanthomonadales	135614|Xanthomonadales	F	Catalyzes the reduction of ribonucleotides to deoxyribonucleotides. May function to provide a pool of deoxyribonucleotide precursors for DNA repair during oxygen limitation and or for immediate growth after restoration of oxygen	-	-	1.17.4.1	ko:K00525	ko00230,ko00240,ko01100,map00230,map00240,map01100	M00053	R02017,R02018,R02019,R02024	RC00613	ko00000,ko00001,ko00002,ko01000,ko03400	-	-	-	LAGLIDADG_3,Ribonuc_red_lgC,Ribonuc_red_lgN
LYD3_k127_90823_9	1485544.JQKP01000007_gene1950	3.329e-46	167.0	COG0024@1|root,COG0024@2|Bacteria,1MU99@1224|Proteobacteria,2VH2K@28216|Betaproteobacteria,44VG0@713636|Nitrosomonadales	28216|Betaproteobacteria	J	Metallopeptidase family M24	map	GO:0003674,GO:0003824,GO:0004177,GO:0005488,GO:0005506,GO:0005575,GO:0005622,GO:0005623,GO:0005737,GO:0005829,GO:0006464,GO:0006508,GO:0006807,GO:0008150,GO:0008152,GO:0008198,GO:0008233,GO:0008235,GO:0008237,GO:0008238,GO:0009987,GO:0016787,GO:0019538,GO:0036211,GO:0043167,GO:0043169,GO:0043170,GO:0043412,GO:0044237,GO:0044238,GO:0044260,GO:0044267,GO:0044424,GO:0044444,GO:0044464,GO:0046872,GO:0046914,GO:0070006,GO:0070011,GO:0070084,GO:0071704,GO:0140096,GO:1901564	3.4.11.18	ko:K01265	-	-	-	-	ko00000,ko01000,ko01002	-	-	-	Peptidase_M24
LYD3_k127_90823_0	1163617.SCD_n01638	6.348e-302	950.0	COG2844@1|root,COG2844@2|Bacteria,1MV54@1224|Proteobacteria,2VI2G@28216|Betaproteobacteria	28216|Betaproteobacteria	O	Modifies, by uridylylation and deuridylylation, the PII regulatory proteins (GlnB and homologs), in response to the nitrogen status of the cell that GlnD senses through the glutamine level. Under low glutamine levels, catalyzes the conversion of the PII proteins and UTP to PII-UMP and PPi, while under higher glutamine levels, GlnD hydrolyzes PII-UMP to PII and UMP (deuridylylation). Thus, controls uridylylation state and activity of the PII proteins, and plays an important role in the regulation of nitrogen	glnD	-	2.7.7.59	ko:K00990	ko02020,map02020	-	-	-	ko00000,ko00001,ko01000	-	-	-	ACT,GlnD_UR_UTase,HD,NTP_transf_2
LYD3_k127_90823_8	228410.NE1755	4.122e-77	261.0	COG0242@1|root,COG0242@2|Bacteria,1R9XK@1224|Proteobacteria,2VQ0U@28216|Betaproteobacteria,372DY@32003|Nitrosomonadales	28216|Betaproteobacteria	J	Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions	def2	-	3.5.1.88	ko:K01462	-	-	-	-	ko00000,ko01000	-	-	-	Pep_deformylase
LYD3_k127_90823_6	76114.ebA6375	3.518e-97	325.0	COG0005@1|root,COG0005@2|Bacteria,1MUWW@1224|Proteobacteria,2VJQQ@28216|Betaproteobacteria,2KV4J@206389|Rhodocyclales	206389|Rhodocyclales	F	Purine nucleoside phosphorylase which is highly specific for 6-oxopurine nucleosides. Cleaves guanosine or inosine to respective bases and sugar-1-phosphate molecules. Involved in purine salvage	-	-	2.4.2.28	ko:K00772	ko00270,ko01100,map00270,map01100	M00034	R01402	RC00063,RC02819	ko00000,ko00001,ko00002,ko01000	-	-	-	PNP_UDP_1
LYD3_k127_90823_4	159087.Daro_1725	5.648e-132	449.0	COG5008@1|root,COG5008@2|Bacteria,1QTTX@1224|Proteobacteria,2VHU7@28216|Betaproteobacteria,2KVCM@206389|Rhodocyclales	206389|Rhodocyclales	NU	twitching motility protein	-	-	-	ko:K02670	-	-	-	-	ko00000,ko02035,ko02044	3.A.15.2	-	-	T2SSE
LYD3_k127_90823_3	1000565.METUNv1_01319	7.266e-160	533.0	COG0624@1|root,COG0624@2|Bacteria,1MW6G@1224|Proteobacteria,2VHRF@28216|Betaproteobacteria,2KUDN@206389|Rhodocyclales	206389|Rhodocyclales	E	Catalyzes the hydrolysis of N-succinyl-L,L- diaminopimelic acid (SDAP), forming succinate and LL-2,6- diaminoheptanedioate (DAP), an intermediate involved in the bacterial biosynthesis of lysine and meso-diaminopimelic acid, an essential component of bacterial cell walls	dapE	-	3.5.1.18	ko:K01439	ko00300,ko01100,ko01120,ko01230,map00300,map01100,map01120,map01230	M00016	R02734	RC00064,RC00090	ko00000,ko00001,ko00002,ko01000	-	-	-	M20_dimer,Peptidase_M20
LYD3_k127_90823_5	1485544.JQKP01000017_gene611	2.813e-117	396.0	COG2890@1|root,COG2890@2|Bacteria,1MX8Q@1224|Proteobacteria,2VIPK@28216|Betaproteobacteria,44VM3@713636|Nitrosomonadales	28216|Betaproteobacteria	J	Specifically methylates the 50S ribosomal protein L3 on a specific glutamine residue	prmB	-	2.1.1.298	ko:K07320	-	-	R10806	RC00003,RC03279	ko00000,ko01000,ko03009	-	-	-	MTS
LYD3_k127_90823_1	1437448.AZRT01000082_gene3790	3.578e-206	667.0	COG0028@1|root,COG0028@2|Bacteria,1MU6U@1224|Proteobacteria,2TSB1@28211|Alphaproteobacteria,1J2R0@118882|Brucellaceae	28211|Alphaproteobacteria	EH	Thiamine pyrophosphate enzyme, N-terminal TPP binding domain	-	-	2.2.1.6	ko:K01652	ko00290,ko00650,ko00660,ko00770,ko01100,ko01110,ko01130,ko01210,ko01230,map00290,map00650,map00660,map00770,map01100,map01110,map01130,map01210,map01230	M00019,M00570	R00006,R00014,R00226,R03050,R04672,R04673,R08648	RC00027,RC00106,RC01192,RC02744,RC02893	ko00000,ko00001,ko00002,ko01000	-	-	-	TPP_enzyme_C,TPP_enzyme_M,TPP_enzyme_N
LYD3_k127_90823_10	497321.C664_09853	3.438e-46	173.0	COG2716@1|root,COG2716@2|Bacteria,1MZJ6@1224|Proteobacteria,2VRVD@28216|Betaproteobacteria,2KWIM@206389|Rhodocyclales	206389|Rhodocyclales	E	Glycine cleavage system regulatory protein	gcvR	-	-	-	-	-	-	-	-	-	-	-	ACT,ACT_6
LYD3_k127_90823_2	1192124.LIG30_0070	3.044e-182	579.0	COG3391@1|root,COG3391@2|Bacteria,1R78P@1224|Proteobacteria,2VJ7I@28216|Betaproteobacteria,1K6AC@119060|Burkholderiaceae	28216|Betaproteobacteria	S	TIGRFAM 40-residue YVTN family beta-propeller repeat	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_90823_7	1038869.AXAN01000099_gene5985	8.39e-96	322.0	COG1402@1|root,COG1402@2|Bacteria,1R4JB@1224|Proteobacteria,2WFGJ@28216|Betaproteobacteria,1K58U@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Creatinine amidohydrolase	-	-	-	-	-	-	-	-	-	-	-	-	Creatininase
LYD3_k127_90823_11	640081.Dsui_0697	8.993e-22	100.0	COG0515@1|root,COG0515@2|Bacteria,1MV1P@1224|Proteobacteria,2VKJ8@28216|Betaproteobacteria,2KW95@206389|Rhodocyclales	206389|Rhodocyclales	KLT	Protein tyrosine kinase	-	-	2.7.11.1	ko:K12132	-	-	-	-	ko00000,ko01000,ko01001	-	-	-	Pkinase
LYD3_k127_934473_9	935848.JAEN01000030_gene248	2.359e-06	57.0	COG1593@1|root,COG1593@2|Bacteria,1MU0F@1224|Proteobacteria,2TQW5@28211|Alphaproteobacteria,2PWIX@265|Paracoccus	28211|Alphaproteobacteria	G	Tripartite ATP-independent periplasmic transporter, DctM component	-	-	-	ko:K21393	-	-	-	-	ko00000,ko02000	2.A.56.1	-	-	DctM
LYD3_k127_934473_8	66692.ABC4078	3.649e-16	86.0	COG3090@1|root,COG3090@2|Bacteria,1VFX5@1239|Firmicutes,4HPB2@91061|Bacilli,1ZIPQ@1386|Bacillus	91061|Bacilli	G	Tripartite ATP-independent periplasmic transporters, DctQ component	-	-	-	-	-	-	-	-	-	-	-	-	DctQ
LYD3_k127_934473_2	1089551.KE386572_gene1147	3.714e-130	424.0	COG1638@1|root,COG1638@2|Bacteria,1MVHC@1224|Proteobacteria,2TRZE@28211|Alphaproteobacteria	28211|Alphaproteobacteria	G	COG1638 TRAP-type C4-dicarboxylate transport system, periplasmic component	-	-	-	-	-	-	-	-	-	-	-	-	DctP
LYD3_k127_934473_6	1097668.BYI23_C000790	2.344e-51	190.0	COG2030@1|root,COG2030@2|Bacteria,1RCZ5@1224|Proteobacteria,2VVTF@28216|Betaproteobacteria,1K99B@119060|Burkholderiaceae	28216|Betaproteobacteria	I	MaoC like domain	-	-	-	-	-	-	-	-	-	-	-	-	MaoC_dehydratas
LYD3_k127_934473_0	1166948.JPZL01000004_gene154	1.187e-166	532.0	COG1960@1|root,COG1960@2|Bacteria,1MUDR@1224|Proteobacteria,1RMMJ@1236|Gammaproteobacteria,1XI78@135619|Oceanospirillales	135619|Oceanospirillales	I	acyl-CoA dehydrogenase	-	-	-	-	-	-	-	-	-	-	-	-	Acyl-CoA_dh_1,Acyl-CoA_dh_M,Acyl-CoA_dh_N
LYD3_k127_934473_3	1121106.JQKB01000005_gene2133	2.508e-108	370.0	COG0673@1|root,COG0673@2|Bacteria,1MUP0@1224|Proteobacteria,2VF2U@28211|Alphaproteobacteria,2JWJW@204441|Rhodospirillales	204441|Rhodospirillales	S	Oxidoreductase family, C-terminal alpha/beta domain	-	-	-	-	-	-	-	-	-	-	-	-	GFO_IDH_MocA,GFO_IDH_MocA_C
LYD3_k127_934473_4	460265.Mnod_0647	9.056e-91	311.0	COG1609@1|root,COG1609@2|Bacteria,1MVUR@1224|Proteobacteria,2TR33@28211|Alphaproteobacteria,1JTU9@119045|Methylobacteriaceae	28211|Alphaproteobacteria	K	helix_turn _helix lactose operon repressor	-	-	-	ko:K02529	-	-	-	-	ko00000,ko03000	-	-	-	LacI,Peripla_BP_3
LYD3_k127_934473_7	314265.R2601_00550	6.815e-35	138.0	COG2030@1|root,COG2030@2|Bacteria,1R8SS@1224|Proteobacteria	1224|Proteobacteria	I	MaoC like domain	-	-	4.2.1.55	ko:K17865	ko00630,ko00650,ko01120,ko01200,map00630,map00650,map01120,map01200	M00373	R03027	RC00831	ko00000,ko00001,ko00002,ko01000	-	-	-	MaoC_dehydratas
LYD3_k127_934473_5	1411123.JQNH01000001_gene3675	1.95e-78	273.0	COG1028@1|root,COG1028@2|Bacteria,1RB83@1224|Proteobacteria,2U55T@28211|Alphaproteobacteria	28211|Alphaproteobacteria	IQ	With different specificities (related to short-chain alcohol	-	-	-	-	-	-	-	-	-	-	-	-	adh_short_C2
LYD3_k127_934473_1	93220.LV28_08040	1.309e-161	516.0	COG0673@1|root,COG0673@2|Bacteria,1PYTN@1224|Proteobacteria,2VKKE@28216|Betaproteobacteria,1KGRJ@119060|Burkholderiaceae	28216|Betaproteobacteria	S	Oxidoreductase family, NAD-binding Rossmann fold	-	-	-	-	-	-	-	-	-	-	-	-	GFO_IDH_MocA
LYD3_k127_942406_1	1121035.AUCH01000014_gene2443	1.051e-79	273.0	COG2905@1|root,COG2905@2|Bacteria,1MW8U@1224|Proteobacteria,2VHE1@28216|Betaproteobacteria,2KVCU@206389|Rhodocyclales	206389|Rhodocyclales	T	signal-transduction protein containing cAMP-binding and CBS domains	-	-	-	-	-	-	-	-	-	-	-	-	CBS,DUF294,DUF294_C
LYD3_k127_942406_2	748247.AZKH_p0190	1.436e-16	80.0	2DNR5@1|root,32YQH@2|Bacteria,1NBXJ@1224|Proteobacteria,2VW7K@28216|Betaproteobacteria	28216|Betaproteobacteria	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_942406_0	404589.Anae109_2030	0.0	1031.0	COG0591@1|root,COG0642@1|root,COG0591@2|Bacteria,COG2205@2|Bacteria,1MUY7@1224|Proteobacteria,43CC6@68525|delta/epsilon subdivisions,2X7N2@28221|Deltaproteobacteria	28221|Deltaproteobacteria	T	Histidine kinase A domain protein	-	-	-	-	-	-	-	-	-	-	-	-	GAF_2,HATPase_c,HisKA
LYD3_k127_944204_0	1163617.SCD_n00279	4.123e-304	943.0	COG0247@1|root,COG0277@1|root,COG0247@2|Bacteria,COG0277@2|Bacteria,1MU43@1224|Proteobacteria,2VHYU@28216|Betaproteobacteria	28216|Betaproteobacteria	C	FAD linked oxidase domain protein	glpCD	-	-	-	-	-	-	-	-	-	-	-	CCG,DUF3400,DUF3683,FAD-oxidase_C,FAD_binding_4,Fer4_8
LYD3_k127_94864_1	639030.JHVA01000001_gene2841	4.593e-89	321.0	COG1012@1|root,COG1012@2|Bacteria,3Y2RN@57723|Acidobacteria,2JKDB@204432|Acidobacteriia	204432|Acidobacteriia	C	Aldehyde dehydrogenase family	-	-	1.2.1.18,1.2.1.27	ko:K00140	ko00280,ko00410,ko00562,ko00640,ko01100,ko01200,map00280,map00410,map00562,map00640,map01100,map01200	M00013	R00705,R00706,R00922,R00935	RC00004,RC02723,RC02817	ko00000,ko00001,ko00002,ko01000	-	-	-	Aldedh
LYD3_k127_94864_0	1366050.N234_08955	8.2e-109	361.0	COG0477@1|root,COG0477@2|Bacteria,1MXZ3@1224|Proteobacteria,2VH3E@28216|Betaproteobacteria,1K2TP@119060|Burkholderiaceae	28216|Betaproteobacteria	EGP	Major facilitator superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_3
LYD3_k127_94864_2	1366050.N234_08955	1.249e-60	216.0	COG0477@1|root,COG0477@2|Bacteria,1MXZ3@1224|Proteobacteria,2VH3E@28216|Betaproteobacteria,1K2TP@119060|Burkholderiaceae	28216|Betaproteobacteria	EGP	Major facilitator superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_3
LYD3_k127_952037_0	1366050.N234_31235	3.594e-110	361.0	COG1541@1|root,COG1541@2|Bacteria,1MV1W@1224|Proteobacteria,2VI46@28216|Betaproteobacteria,1K3IM@119060|Burkholderiaceae	28216|Betaproteobacteria	H	Catalyzes the activation of phenylacetic acid (PA) to phenylacetyl-CoA (PA-CoA)	paaK	-	6.2.1.30	ko:K01912	ko00360,ko01120,ko05111,map00360,map01120,map05111	-	R02539	RC00004,RC00014	ko00000,ko00001,ko01000	-	-	-	AMP-binding,AMP-binding_C_2
LYD3_k127_952037_1	1304883.KI912532_gene242	2.126e-53	196.0	COG2050@1|root,COG2050@2|Bacteria,1RH35@1224|Proteobacteria,2VRC2@28216|Betaproteobacteria,2KWSU@206389|Rhodocyclales	206389|Rhodocyclales	Q	phenylacetic acid degradation protein	paaI	-	-	ko:K02614	ko00360,map00360	-	R09840	RC00004,RC00014	ko00000,ko00001,ko01000	-	-	-	4HBT
LYD3_k127_952037_2	29581.BW37_00387	1.672e-44	167.0	COG1250@1|root,COG1250@2|Bacteria,1MU9P@1224|Proteobacteria,2VK75@28216|Betaproteobacteria,472K8@75682|Oxalobacteraceae	28216|Betaproteobacteria	I	PFAM 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain, 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain	paaH	-	1.1.1.157	ko:K00074	ko00360,ko00362,ko00650,ko01100,ko01120,map00360,map00362,map00650,map01100,map01120	-	R01976,R05576,R06941	RC00029,RC00117	ko00000,ko00001,ko01000	-	-	-	3HCDH,3HCDH_N
LYD3_k127_952860_1	1123257.AUFV01000003_gene1169	1.013e-104	350.0	COG2211@1|root,COG2211@2|Bacteria,1QVH9@1224|Proteobacteria,1SM3A@1236|Gammaproteobacteria,1XDFJ@135614|Xanthomonadales	135614|Xanthomonadales	G	Major Facilitator Superfamily	-	-	-	-	-	-	-	-	-	-	-	-	MFS_1
LYD3_k127_952860_0	1116472.MGMO_55c00330	2.848e-165	526.0	COG3511@1|root,COG3511@2|Bacteria,1MVNS@1224|Proteobacteria,1RZUB@1236|Gammaproteobacteria,1XDZS@135618|Methylococcales	135618|Methylococcales	M	Phosphoesterase family	-	-	-	-	-	-	-	-	-	-	-	-	Phosphoesterase
LYD3_k127_963900_0	1469245.JFBG01000053_gene2072	2.351e-252	785.0	COG0129@1|root,COG0129@2|Bacteria,1MUTQ@1224|Proteobacteria,1RMP2@1236|Gammaproteobacteria,1WW0Q@135613|Chromatiales	1236|Gammaproteobacteria	EG	Belongs to the IlvD Edd family	-	-	4.2.1.12	ko:K01690	ko00030,ko01100,ko01120,ko01200,map00030,map01100,map01120,map01200	M00008	R02036	RC00543	ko00000,ko00001,ko00002,ko01000	-	-	-	ILVD_EDD
LYD3_k127_963900_1	204773.HEAR1371	8.184e-54	196.0	COG2010@1|root,COG2010@2|Bacteria,1N0EF@1224|Proteobacteria,2VT6G@28216|Betaproteobacteria,4778E@75682|Oxalobacteraceae	28216|Betaproteobacteria	C	Cytochrome c mono- and diheme variants	-	-	-	-	-	-	-	-	-	-	-	-	Cytochrom_C
LYD3_k127_96581_3	1411123.JQNH01000001_gene3809	4.276e-118	386.0	COG0161@1|root,COG0161@2|Bacteria,1MU2N@1224|Proteobacteria,2TQND@28211|Alphaproteobacteria	28211|Alphaproteobacteria	E	Belongs to the class-III pyridoxal-phosphate-dependent aminotransferase family	bioA	-	2.6.1.18	ko:K00822	ko00280,ko00410,ko00640,ko01100,map00280,map00410,map00640,map01100	-	R00907,R04187	RC00008,RC00062,RC00160	ko00000,ko00001,ko01000,ko01007	-	-	-	Aminotran_3
LYD3_k127_96581_2	1411123.JQNH01000001_gene3811	2.275e-186	589.0	COG0686@1|root,COG0686@2|Bacteria,1QTX1@1224|Proteobacteria,2TQQC@28211|Alphaproteobacteria	28211|Alphaproteobacteria	C	Belongs to the AlaDH PNT family	ald	-	1.4.1.1	ko:K00259	ko00250,ko00430,ko01100,map00250,map00430,map01100	-	R00396	RC00008	ko00000,ko00001,ko01000	-	-	-	AlaDh_PNT_C,AlaDh_PNT_N
LYD3_k127_96581_0	1216976.AX27061_3155	1.161e-272	850.0	COG0028@1|root,COG0028@2|Bacteria,1MWUB@1224|Proteobacteria,2VMC1@28216|Betaproteobacteria,3T5NB@506|Alcaligenaceae	28216|Betaproteobacteria	EH	Belongs to the TPP enzyme family	xsc	-	2.3.3.15	ko:K03852	ko00430,map00430	-	R05651	RC02903,RC02909	ko00000,ko00001,ko01000	-	-	-	TPP_enzyme_C,TPP_enzyme_M,TPP_enzyme_N
LYD3_k127_96581_1	1038869.AXAN01000051_gene5560	2.627e-265	832.0	COG0469@1|root,COG0469@2|Bacteria,1MU21@1224|Proteobacteria,2VHN5@28216|Betaproteobacteria,1K180@119060|Burkholderiaceae	28216|Betaproteobacteria	G	Belongs to the pyruvate kinase family	ttuE	-	2.7.1.40	ko:K00873	ko00010,ko00230,ko00620,ko01100,ko01110,ko01120,ko01130,ko01200,ko01230,ko04922,ko04930,ko05165,ko05203,ko05230,map00010,map00230,map00620,map01100,map01110,map01120,map01130,map01200,map01230,map04922,map04930,map05165,map05203,map05230	M00001,M00002,M00049,M00050	R00200,R00430,R01138,R01858,R02320	RC00002,RC00015	ko00000,ko00001,ko00002,ko01000,ko04131,ko04147	-	-	-	PK,PK_C
LYD3_k127_96581_4	556268.OFAG_01171	3.573e-97	323.0	COG0226@1|root,COG0226@2|Bacteria,1MUAZ@1224|Proteobacteria,2VIJV@28216|Betaproteobacteria,472HC@75682|Oxalobacteraceae	28216|Betaproteobacteria	P	Part of the ABC transporter complex PstSACB involved in phosphate import	pstS	-	-	ko:K02040	ko02010,ko02020,ko05152,map02010,map02020,map05152	M00222	-	-	ko00000,ko00001,ko00002,ko02000	3.A.1.7	-	-	PBP_like_2
LYD3_k127_974528_2	1158182.KB905021_gene773	2.011e-47	173.0	COG0247@1|root,COG0247@2|Bacteria,1RF02@1224|Proteobacteria,1S302@1236|Gammaproteobacteria,1WX78@135613|Chromatiales	135613|Chromatiales	C	Protein of unknown function (DUF3501)	-	-	-	-	-	-	-	-	-	-	-	-	DUF3501
LYD3_k127_974528_1	279714.FuraDRAFT_0774	3.042e-70	242.0	COG1666@1|root,COG1666@2|Bacteria,1RDTF@1224|Proteobacteria,2VPZU@28216|Betaproteobacteria,2KQYV@206351|Neisseriales	206351|Neisseriales	S	Belongs to the UPF0234 family	-	-	-	ko:K09767	-	-	-	-	ko00000	-	-	-	DUF520
LYD3_k127_974528_0	234267.Acid_4448	3.432e-240	747.0	COG0137@1|root,COG0137@2|Bacteria,3Y3DD@57723|Acidobacteria	57723|Acidobacteria	E	Belongs to the argininosuccinate synthase family. Type 2 subfamily	argG	-	6.3.4.5	ko:K01940	ko00220,ko00250,ko01100,ko01110,ko01130,ko01230,ko05418,map00220,map00250,map01100,map01110,map01130,map01230,map05418	M00029,M00844,M00845	R01954	RC00380,RC00629	ko00000,ko00001,ko00002,ko01000,ko04147	-	-	-	Arginosuc_synth
LYD3_k127_974528_3	1095769.CAHF01000011_gene2435	3.698e-26	109.0	COG3181@1|root,COG3181@2|Bacteria,1MU58@1224|Proteobacteria,2VHK8@28216|Betaproteobacteria,4731A@75682|Oxalobacteraceae	28216|Betaproteobacteria	S	Tripartite tricarboxylate transporter family receptor	-	-	-	-	-	-	-	-	-	-	-	-	TctC
LYD3_k127_979029_0	29581.BW37_01306	1.648e-81	275.0	COG0632@1|root,COG0632@2|Bacteria,1MWJR@1224|Proteobacteria,2VJ98@28216|Betaproteobacteria,473AX@75682|Oxalobacteraceae	28216|Betaproteobacteria	L	The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB	ruvA	-	3.6.4.12	ko:K03550	ko03440,map03440	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	HHH_5,RuvA_C,RuvA_N
LYD3_k127_979029_3	1120983.KB894574_gene783	1.879e-41	167.0	COG0637@1|root,COG0637@2|Bacteria,1NSPA@1224|Proteobacteria,2U0W3@28211|Alphaproteobacteria,1JPAX@119043|Rhodobiaceae	28211|Alphaproteobacteria	S	HAD-hyrolase-like	-	-	-	-	-	-	-	-	-	-	-	-	HAD_2
LYD3_k127_979029_1	159087.Daro_4063	1.669e-72	250.0	COG0817@1|root,COG0817@2|Bacteria,1MUJI@1224|Proteobacteria,2VQ3U@28216|Betaproteobacteria,2KW42@206389|Rhodocyclales	206389|Rhodocyclales	L	Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group	ruvC	-	3.1.22.4	ko:K01159	ko03440,map03440	-	-	-	ko00000,ko00001,ko01000,ko03400	-	-	-	RuvC
LYD3_k127_979029_2	1163617.SCD_n00668	1.468e-59	207.0	COG0217@1|root,COG0217@2|Bacteria,1MW3X@1224|Proteobacteria,2VIA5@28216|Betaproteobacteria	28216|Betaproteobacteria	K	transcriptional regulatory protein	yebC	-	-	-	-	-	-	-	-	-	-	-	Transcrip_reg
LYD3_k127_981178_1	472759.Nhal_0440	1.977e-106	357.0	COG1459@1|root,COG1459@2|Bacteria,1MV4U@1224|Proteobacteria,1RQ86@1236|Gammaproteobacteria,1WWYV@135613|Chromatiales	135613|Chromatiales	NU	Type II secretion system	-	-	-	ko:K02455	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	T2SSF
LYD3_k127_981178_3	663610.JQKO01000008_gene242	7.671e-40	154.0	COG2165@1|root,COG2165@2|Bacteria,1RDX2@1224|Proteobacteria,2U7GY@28211|Alphaproteobacteria,3NBA0@45404|Beijerinckiaceae	28211|Alphaproteobacteria	NU	Type II secretion system (T2SS), protein G	gspG	-	-	ko:K02456	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	N_methyl,T2SSG
LYD3_k127_981178_4	713586.KB900536_gene2471	2.633e-31	136.0	COG4970@1|root,COG4970@2|Bacteria,1NBWI@1224|Proteobacteria,1S5MN@1236|Gammaproteobacteria,1WY85@135613|Chromatiales	135613|Chromatiales	U	General secretion pathway protein H	-	-	-	ko:K02457	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	GspH,N_methyl
LYD3_k127_981178_8	870187.Thini_3448	1.307e-11	72.0	COG4967@1|root,COG4967@2|Bacteria,1N992@1224|Proteobacteria,1T2RT@1236|Gammaproteobacteria,463TR@72273|Thiotrichales	72273|Thiotrichales	NU	Prokaryotic N-terminal methylation motif	-	-	-	-	-	-	-	-	-	-	-	-	N_methyl
LYD3_k127_981178_6	1123399.AQVE01000007_gene1191	1.023e-24	117.0	COG2165@1|root,COG2165@2|Bacteria,1NH1V@1224|Proteobacteria,1SFJC@1236|Gammaproteobacteria,463DQ@72273|Thiotrichales	72273|Thiotrichales	NU	Prokaryotic N-terminal methylation motif	-	-	-	-	-	-	-	-	-	-	-	-	N_methyl
LYD3_k127_981178_2	472759.Nhal_3652	4.471e-47	187.0	COG3156@1|root,COG3156@2|Bacteria,1RJRE@1224|Proteobacteria,1S6CB@1236|Gammaproteobacteria,1WW8Y@135613|Chromatiales	135613|Chromatiales	U	PFAM General secretion pathway protein K	-	-	-	ko:K02460	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	T2SSK
LYD3_k127_981178_5	323261.Noc_0758	5.594e-31	140.0	COG3166@1|root,COG4972@1|root,COG3166@2|Bacteria,COG4972@2|Bacteria,1RJTG@1224|Proteobacteria,1S6RT@1236|Gammaproteobacteria,1WXKF@135613|Chromatiales	135613|Chromatiales	NU	fimbrial assembly	-	-	-	ko:K02461	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	PilM_2,PilN
LYD3_k127_981178_7	243233.MCA1122	1.734e-16	90.0	2DKUH@1|root,30CV1@2|Bacteria,1NCRM@1224|Proteobacteria,1SBMH@1236|Gammaproteobacteria,1XGYH@135618|Methylococcales	135618|Methylococcales	S	Type II secretion system (T2SS), protein M subtype b	-	-	-	ko:K02462	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	T2SSM_b
LYD3_k127_981178_10	288000.BBta_2621	0.0003891	51.0	2E9H8@1|root,333QC@2|Bacteria,1RCA1@1224|Proteobacteria,2U6G1@28211|Alphaproteobacteria,3JYF1@41294|Bradyrhizobiaceae	28211|Alphaproteobacteria	S	Pfam:T4SC	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_981178_0	765914.ThisiDRAFT_1131	2.478e-124	434.0	COG1450@1|root,COG1450@2|Bacteria,1MUUA@1224|Proteobacteria,1RPJS@1236|Gammaproteobacteria,1WVZW@135613|Chromatiales	135613|Chromatiales	NU	Type II and III secretion system protein	-	-	-	ko:K02453	ko03070,ko05111,map03070,map05111	M00331	-	-	ko00000,ko00001,ko00002,ko02044	3.A.15	-	-	Secretin,Secretin_N
LYD3_k127_981178_9	105559.Nwat_2346	2.97e-07	58.0	2E8SE@1|root,33338@2|Bacteria,1NAYQ@1224|Proteobacteria,1SGKS@1236|Gammaproteobacteria,1X1M5@135613|Chromatiales	135613|Chromatiales	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-
LYD3_k127_987300_0	1163617.SCD_n02923	4.76e-121	395.0	COG0840@1|root,COG0840@2|Bacteria,1MU9B@1224|Proteobacteria,2VJBX@28216|Betaproteobacteria	28216|Betaproteobacteria	NT	chemotaxis	pilJ	-	-	ko:K02660	ko02020,ko02025,map02020,map02025	-	-	-	ko00000,ko00001,ko02035,ko02044	-	-	-	MCPsignal,PilJ
LYD3_k127_987300_1	640081.Dsui_0656	7.309e-100	345.0	COG0643@1|root,COG0784@1|root,COG2198@1|root,COG0643@2|Bacteria,COG0784@2|Bacteria,COG2198@2|Bacteria,1MUAG@1224|Proteobacteria,2VJSZ@28216|Betaproteobacteria,2KUBP@206389|Rhodocyclales	206389|Rhodocyclales	KNT	COG0643 Chemotaxis protein histidine kinase and related kinases	pilL	-	-	ko:K02487,ko:K06596	ko02020,ko02025,map02020,map02025	M00507	-	-	ko00000,ko00001,ko00002,ko01001,ko02022,ko02035	-	-	-	CheW,HATPase_c,Hpt,Response_reg
LYD3_k127_990623_0	1122603.ATVI01000005_gene2916	1.171e-170	548.0	COG0841@1|root,COG0841@2|Bacteria,1MU48@1224|Proteobacteria,1RMBN@1236|Gammaproteobacteria,1X5NX@135614|Xanthomonadales	135614|Xanthomonadales	V	Belongs to the resistance-nodulation-cell division (RND) (TC 2.A.6) family	-	-	-	-	-	-	-	-	-	-	-	-	ACR_tran
LYD3_k127_990623_1	1123392.AQWL01000006_gene574	9.366e-32	126.0	COG2518@1|root,COG2518@2|Bacteria,1RD6S@1224|Proteobacteria,2VJX3@28216|Betaproteobacteria,1KRWY@119069|Hydrogenophilales	119069|Hydrogenophilales	O	Ribosomal RNA adenine dimethylase	-	-	2.1.1.77	ko:K00573	-	-	-	-	ko00000,ko01000	-	-	-	PCMT
## 2900 queries scanned
## Total time (seconds): 13.964629411697388
## Rate: 207.67 q/s