DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity
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
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
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
K02838
-
-
0.000000000000000000000000000000000058
140.0
SRR25158408_k127_1265536_4
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
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
K01462
-
3.5.1.88
0.000000000000000000000000009858
116.0
SRR25158408_k127_1265536_6
Attaches a formyl group to the free amino group of methionyl-tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus
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
6-O-methylguanine DNA methyltransferase, DNA binding domain
K07443
-
-
0.00000002209
60.0
SRR25158408_k127_1624534_1
Phosphoglycerate mutase family
-
-
-
0.000006428
56.0
SRR25158408_k127_1647499_0
Beta-lactamase superfamily domain
-
-
-
0.0000000000000000000000000000007777
134.0
SRR25158408_k127_1647499_1
Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
K03676
-
-
0.00000000000000000000000002716
110.0
SRR25158408_k127_1647499_2
Caenorhabditis protein of unknown function, DUF268
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
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
K01611
-
4.1.1.50
0.000000000000001506
81.0
SRR25158408_k127_1862617_0
Mycolic acid cyclopropane synthetase
-
-
-
0.000000000000000000000648
102.0
SRR25158408_k127_1862617_1
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
K02469
-
5.99.1.3
0.000000004699
59.0
SRR25158408_k127_1862617_2
maltose binding
K02027,K10108
-
-
0.000008362
58.0
SRR25158408_k127_1932135_0
COGs COG1914 Mn2 and Fe2 transporter of the NRAMP family
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
K02357
-
-
0.00000000000000000000000000000000002447
139.0
SRR25158408_k127_2033106_2
chitin binding
K22278
-
3.5.1.104
0.00000000000000000002016
98.0
SRR25158408_k127_2033106_3
Belongs to the universal ribosomal protein uS2 family
K02967
-
-
0.00000000000000001459
86.0
SRR25158408_k127_2057441_0
Catalyzes the reversible conversion of 2- phosphoglycerate into phosphoenolpyruvate. It is essential for the degradation of carbohydrates via glycolysis
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
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
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
K03625
-
-
0.000000000000000000000004773
113.0
SRR25158408_k127_2128377_6
Belongs to the bacterial ribosomal protein bL32 family
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 as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane
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
IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins
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
Involved in protein export. Acts as a chaperone by maintaining the newly synthesized protein in an open conformation. Functions as a peptidyl-prolyl cis-trans isomerase
Belongs to the universal ribosomal protein uS9 family
K02996
-
-
0.000000000000000000000000000000005637
132.0
SRR25158408_k127_2692346_1
This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly
K02871
-
-
0.00000000000000000000792
96.0
SRR25158408_k127_2692346_2
Ribosomal protein L17
K02879
-
-
0.0000002234
52.0
SRR25158408_k127_28102_0
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
Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body
K02988
-
-
0.0000000000000000000000003646
115.0
SRR25158408_k127_28102_11
Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site
K02954
-
-
0.00000000000000000005256
91.0
SRR25158408_k127_28102_12
Binds to the 23S rRNA
K02876
-
-
0.0000000000000000001864
94.0
SRR25158408_k127_28102_13
Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation
K02935
-
-
0.00000000000000005824
83.0
SRR25158408_k127_28102_14
Predicted membrane protein (DUF2177)
-
-
-
0.000000000000001844
83.0
SRR25158408_k127_28102_15
Catalyzes the reversible transfer of the terminal phosphate group between ATP and AMP. Plays an important role in cellular energy homeostasis and in adenine nucleotide metabolism
K00939
-
2.7.4.3
0.0000000000004885
78.0
SRR25158408_k127_28102_16
Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors
K02864
-
-
0.000000008747
64.0
SRR25158408_k127_28102_17
peptidoglycan-binding domain-containing protein
-
-
-
0.00000002042
66.0
SRR25158408_k127_28102_18
PFAM membrane-flanked domain
-
-
-
0.00001127
55.0
SRR25158408_k127_28102_2
Catalyzes the irreversible NADPH-dependent deamination of GMP to IMP. It functions in the conversion of nucleobase, nucleoside and nucleotide derivatives of G to A nucleotides, and in maintaining the intracellular balance of A and G nucleotides
The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently
This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7 L12 stalk, and near the tRNA binding site of the peptidyltransferase center
One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit
K02994
-
-
0.00000000000000000000000000000001365
130.0
SRR25158408_k127_28102_8
This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance
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
K02356
-
-
0.000000000000000000000000000003917
126.0
SRR25158408_k127_2851050_0
-
-
-
-
0.000000000001068
74.0
SRR25158408_k127_2863643_0
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 as an ATP-driven molecular motor driving the stepwise translocation of polypeptide chains across the membrane
K03070
-
-
7.385e-208
666.0
SRR25158408_k127_2863643_1
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
K01873
-
6.1.1.9
2.794e-196
636.0
SRR25158408_k127_2863643_2
SET domain
K07117
-
-
0.00000000000000000000000000000004296
132.0
SRR25158408_k127_2863643_3
Belongs to the small heat shock protein (HSP20) family
Catalyzes the addition of an amino acid to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanyl-D-glutamate (UMAG) in the biosynthesis of bacterial cell-wall peptidoglycan
K01928
-
6.3.2.13
0.00000000000000000000000004186
117.0
SRR25158408_k127_293764_2
Binds directly to 16S ribosomal RNA
K02968
-
-
0.00000003327
58.0
SRR25158408_k127_3031377_0
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
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
K01159
-
3.1.22.4
0.00000000000000000000000000000002652
132.0
SRR25158408_k127_3040761_0
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
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
Required for chromosome condensation and partitioning
K03529
-
-
0.00000000000000000000000000000000000000000051
180.0
SRR25158408_k127_3059938_3
Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process
-
-
-
0.00000000000000000000000004668
118.0
SRR25158408_k127_3059938_4
probably involved in intracellular septation
K06190
-
-
0.000000000000000000001048
104.0
SRR25158408_k127_3059938_5
COG0494 NTP pyrophosphohydrolases including oxidative damage repair enzymes
K01515
-
3.6.1.13
0.000000000000381
76.0
SRR25158408_k127_3120994_0
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
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
K03074
-
-
0.00000000000000000000000000000000000000000004271
175.0
SRR25158408_k127_3120994_2
Peptidoglycan-binding domain 1 protein
-
-
-
0.0000001682
64.0
SRR25158408_k127_3283490_0
Participates in transcription elongation, termination and antitermination
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 NADPH and FADH(2) as the reductant
-
-
-
0.00000000000000000000000000000000003211
141.0
SRR25158408_k127_3283490_3
2'-deoxycytidine 5'-triphosphate deaminase (DCD)
K01494
-
3.5.4.13
0.0000000000000000000000000000008345
136.0
SRR25158408_k127_3283490_4
Protein of unknown function (DUF541)
K09807
GO:0005575,GO:0005623,GO:0042597,GO:0044464
-
0.00000000000000000001971
100.0
SRR25158408_k127_3283490_5
Tetratricopeptide repeat
-
-
-
0.000005127
57.0
SRR25158408_k127_3283490_6
Essential subunit of the Sec protein translocation channel SecYEG. Clamps together the 2 halves of SecY. May contact the channel plug during translocation
K03073
-
-
0.0002231
46.0
SRR25158408_k127_3304400_0
Spermine/spermidine synthase domain
-
-
-
0.00000000000000000001017
104.0
SRR25158408_k127_3326692_0
Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation
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
Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism
K03111
-
-
0.00000000000000000000000000000000147
134.0
SRR25158408_k127_3326692_4
Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit
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
Catalyzes the attachment of threonine to tRNA(Thr) in a two-step reaction L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr)
PFAM Arginine-tRNA-protein transferase, C terminus
K21420
-
2.3.2.29
0.000000000000000000000000000000000000005251
154.0
SRR25158408_k127_3437182_5
SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
K07117
-
-
0.00000000000000000000000006885
113.0
SRR25158408_k127_3437182_6
COG0537 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family
K19710
-
2.7.7.53
0.0000000000000000004639
92.0
SRR25158408_k127_3437182_7
Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily
K01889
-
6.1.1.20
0.0000000000000018
76.0
SRR25158408_k127_3437182_8
-
-
-
-
0.000001651
56.0
SRR25158408_k127_3509533_0
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)
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
K03695
-
-
3.476e-291
919.0
SRR25158408_k127_3726544_1
Destroys radicals which are normally produced within the cells and which are toxic to biological systems
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
Responsible for synthesis of pseudouridine from uracil
K06180
-
5.4.99.23
0.000000000000000000000000000000000000000842
156.0
SRR25158408_k127_3729691_2
This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site
Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome
K02948
-
-
0.0000000000000000000000000000000008868
134.0
SRR25158408_k127_3910250_3
Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits
One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre- initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initation complex
K02518
-
-
0.000000000000007432
77.0
SRR25158408_k127_3910250_5
Belongs to the bacterial ribosomal protein bL36 family
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)
First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan
K01000
-
2.7.8.13
0.00000000004998
64.0
SRR25158408_k127_4053620_0
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
K03702,K08999
-
-
4.64e-236
748.0
SRR25158408_k127_4053620_1
The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate
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)
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
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
One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit
K02895
-
-
0.000000000000000000791
89.0
SRR25158408_k127_4057926_13
The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome
K02890
-
-
0.000000000000000005395
88.0
SRR25158408_k127_4057926_14
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
K02892
-
-
0.00000000000003711
76.0
SRR25158408_k127_4057926_3
Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation
Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs
K02878
-
-
0.000000000000000000000000000000000000000000341
162.0
SRR25158408_k127_4057926_5
This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits
K02931
-
-
0.0000000000000000000000000000000000000000007323
162.0
SRR25158408_k127_4057926_6
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
K02906
-
-
0.00000000000000000000000000000000000000227
154.0
SRR25158408_k127_4057926_7
50S ribosomal protein L4
K02926
-
-
0.0000000000000000000000000000000000001183
150.0
SRR25158408_k127_4057926_8
Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome
Caenorhabditis protein of unknown function, DUF268
-
-
-
0.000000000000000000000001094
107.0
SRR25158408_k127_4058192_8
Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
Converts alpha-N-acetylneuranimic acid (Neu5Ac) to the beta-anomer, accelerating the equilibrium between the alpha- and beta-anomers. Probably facilitates sialidase-negative bacteria to compete sucessfully for limited amounts of extracellular Neu5Ac, which is likely taken up in the beta-anomer. In addition, the rapid removal of sialic acid from solution might be advantageous to the bacterium to damp down host responses
-
-
-
0.0000565
56.0
SRR25158408_k127_4116620_0
-
-
-
-
0.000000000000000000003624
112.0
SRR25158408_k127_4117991_0
Adenylate guanylate cyclase catalytic domain protein
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
K10563
-
3.2.2.23,4.2.99.18
0.00000000000000000000006441
101.0
SRR25158408_k127_4253013_2
Threonylcarbamoyl adenosine biosynthesis protein TsaE
This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance
K02897
-
-
0.0000000000000000000000001256
114.0
SRR25158408_k127_43170_5
COG NOG15344 non supervised orthologous group
-
-
-
0.0000000000000000000009058
98.0
SRR25158408_k127_43170_7
-
-
-
-
0.00000000005706
64.0
SRR25158408_k127_43170_8
COG NOG14600 non supervised orthologous group
-
-
-
0.000000001843
59.0
SRR25158408_k127_43170_9
-
-
-
-
0.0000008686
56.0
SRR25158408_k127_4331373_0
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
K03072
-
-
0.000000000000000000000000000000000002874
147.0
SRR25158408_k127_4490649_0
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
Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpA that pull DNA away from mid-cell into both cell halves
K06024
GO:0003674,GO:0005488,GO:0005515,GO:0042802
-
0.000000006679
63.0
SRR25158408_k127_4655280_0
Peptidase family M23
-
-
-
0.00000000000000000000001976
112.0
SRR25158408_k127_4665928_0
PAP2 superfamily C-terminal
-
-
-
0.0000000000000000000000000000000000004766
149.0
SRR25158408_k127_4665928_1
E1-E2 ATPase
K01533,K17686
-
3.6.3.4,3.6.3.54
0.000000003482
64.0
SRR25158408_k127_4665928_2
Aldose 1-epimerase
-
-
-
0.0002958
51.0
SRR25158408_k127_4669916_0
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 NADPH and FADH(2) as the reductant
An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and or decay
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
K03703
-
-
0.00000000001378
67.0
SRR25158408_k127_4709522_0
One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex
Responsible for synthesis of pseudouridine from uracil
K06180
-
5.4.99.23
0.000000000000000000000000000000000000009215
153.0
SRR25158408_k127_4709522_4
Protein of unknown function (DUF4446)
-
-
-
0.0000000000000000005546
94.0
SRR25158408_k127_4709522_5
One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Required for efficient processing of 16S rRNA. May interact with the 5'-terminal helix region of 16S rRNA
K02834
-
-
0.00000000005176
67.0
SRR25158408_k127_4879804_0
Catalyzes the conversion of GDP-D-mannose to GDP-4- dehydro-6-deoxy-D-mannose
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
COG0847 DNA polymerase III epsilon subunit and related 3'-5'
K02342,K10857
-
2.7.7.7
0.000000000000000000000000000004239
128.0
SRR25158408_k127_4952196_3
P22 coat protein-protein 5 domain protein
-
-
-
0.000000000000000000000002368
115.0
SRR25158408_k127_4952196_4
Tfp pilus assembly protein FimV
-
-
-
0.000000000000000000000005097
120.0
SRR25158408_k127_4952196_5
-
-
-
-
0.0000000000000000003954
95.0
SRR25158408_k127_4952196_6
N-acetylmuramoyl-L-alanine amidase
K01447
-
3.5.1.28
0.000000000000000000989
92.0
SRR25158408_k127_4952196_8
dephospho-CoA kinase activity
-
-
-
0.0000000000000003554
85.0
SRR25158408_k127_4952196_9
Phage plasmid primase P4 family
-
-
-
0.0000000000102
77.0
SRR25158408_k127_5065062_0
PFAM Glycoside hydrolase, family 18
-
-
-
0.00000000000000000000008099
109.0
SRR25158408_k127_5065062_1
Participates in chromosomal partition during cell division. May act via the formation of a condensin-like complex containing Smc and ScpB that pull DNA away from mid-cell into both cell halves
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
Has a glutathione-disulfide oxidoreductase activity in the presence of NADPH and glutathione reductase. Reduces low molecular weight disulfides and proteins
K03676,K06191
-
-
0.0000000000000000004564
90.0
SRR25158408_k127_5088678_5
Uncharacterized ACR, COG1430
K09005
-
-
0.00000000000002429
79.0
SRR25158408_k127_5088678_6
Belongs to the small heat shock protein (HSP20) family
K13993
-
-
0.000000000001713
70.0
SRR25158408_k127_5092574_0
RmuC family
K09760
-
-
0.00000000000000000000000000000000000005858
156.0
SRR25158408_k127_5092574_1
This protein binds to 23S rRNA in the presence of protein L20
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
Cell division protein that is involved in the assembly of the Z ring. May serve as a membrane anchor for the Z ring
K03590
-
-
0.00000000000000000000000000000000004035
149.0
SRR25158408_k127_5113357_3
Belongs to the peptidase S26 family
K03100
-
3.4.21.89
0.000000000000000000000001607
113.0
SRR25158408_k127_5113357_4
The natural substrate for this enzyme may be peptidyl- tRNAs which drop off the ribosome during protein synthesis
K01056
-
3.1.1.29
0.000000000000000000000001953
108.0
SRR25158408_k127_5113357_5
Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA
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
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
K02945,K03527
-
1.17.7.4
0.00000000000000000000000000000000000000000006731
174.0
SRR25158408_k127_5161489_2
Beta-lactamase superfamily domain
-
-
-
0.00000000000000000000003934
107.0
SRR25158408_k127_5278069_0
Belongs to the class-II aminoacyl-tRNA synthetase family
Catalyzes the attachment of proline to tRNA(Pro) in a two-step reaction proline is first activated by ATP to form Pro- AMP and then transferred to the acceptor end of tRNA(Pro). As ProRS can inadvertently accommodate and process non-cognate amino acids such as alanine and cysteine, to avoid such errors it has two additional distinct editing activities against alanine. One activity is designated as 'pretransfer' editing and involves the tRNA(Pro)-independent hydrolysis of activated Ala-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Ala-tRNA(Pro). The misacylated Cys- tRNA(Pro) is not edited by ProRS
Presumably involved in the processing and regular turnover of intracellular proteins. Catalyzes the removal of unsubstituted N-terminal amino acids from various peptides
K01255
-
3.4.11.1
0.0000000000000000000000000000000000000002372
169.0
SRR25158408_k127_5278069_7
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
DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity
This enzyme is involved in nucleotide metabolism it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA
TIGRFAM ATPase, P-type (transporting), HAD superfamily, subfamily IC
K01533,K17686
-
3.6.3.4,3.6.3.54
3.569e-251
795.0
SRR25158408_k127_618998_1
Heavy metal transport detoxification protein
-
-
-
0.000000000000000000000000000000000000397
153.0
SRR25158408_k127_618998_2
Domain of unknown function (DUF305)
-
-
-
0.0000000000000000000000000003004
115.0
SRR25158408_k127_618998_3
Cytochrome C biogenesis protein transmembrane region
-
-
-
0.000000000000006032
80.0
SRR25158408_k127_618998_4
6-O-methylguanine DNA methyltransferase, DNA binding domain
K07443
-
-
0.00000008886
58.0
SRR25158408_k127_618998_6
phosphoglycerate mutase
K15634
-
5.4.2.12
0.000004676
56.0
SRR25158408_k127_627379_0
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
-
-
-
0.00000000000005947
74.0
SRR25158408_k127_627379_1
RecB family exonuclease
K07465
-
-
0.0002182
53.0
SRR25158408_k127_628027_0
dehydratase
K17865
-
4.2.1.55
0.00000000000000000000000002379
118.0
SRR25158408_k127_628027_2
FecR protein
-
-
-
0.0008082
51.0
SRR25158408_k127_629564_0
Heat shock 70 kDa protein
K04043
-
-
6.784e-229
724.0
SRR25158408_k127_629564_1
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
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
Involved in the gluconeogenesis. Catalyzes stereospecifically the conversion of dihydroxyacetone phosphate (DHAP) to D-glyceraldehyde-3-phosphate (G3P)
K01803
-
5.3.1.1
0.00000000000000000000000000000007514
135.0
SRR25158408_k127_744605_0
Belongs to the class-I aminoacyl-tRNA synthetase family
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
Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction the enzyme is irreversibly inactivated
K00567
-
2.1.1.63
0.0000000000000000696
82.0
SRR25158408_k127_744605_9
Belongs to the ribulose-phosphate 3-epimerase family
K01783
-
5.1.3.1
0.00000000000334
75.0
SRR25158408_k127_779659_0
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
Converts alpha-N-acetylneuranimic acid (Neu5Ac) to the beta-anomer, accelerating the equilibrium between the alpha- and beta-anomers. Probably facilitates sialidase-negative bacteria to compete sucessfully for limited amounts of extracellular Neu5Ac, which is likely taken up in the beta-anomer. In addition, the rapid removal of sialic acid from solution might be advantageous to the bacterium to damp down host responses
Involved in the gluconeogenesis. Catalyzes stereospecifically the conversion of dihydroxyacetone phosphate (DHAP) to D-glyceraldehyde-3-phosphate (G3P)
K01803
-
5.3.1.1
0.00000000000000000000000000000005718
136.0
SRR25158408_k127_925591_2
Belongs to the membrane fusion protein (MFP) (TC 8.A.1) family
K02005
-
-
0.00003701
54.0
SRR25158408_k127_981903_0
DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
