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| | gyrA | DNA gyrase subunit A; 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. (871 aa) |
| | Tcr_1198 | SSU ribosomal protein S1P; Binds mRNA; thus facilitating recognition of the initiation point. It is needed to translate mRNA with a short Shine-Dalgarno (SD) purine-rich sequence. (557 aa) |
| | ihfB | Integration host factor, beta subunit; 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. Belongs to the bacterial histone-like protein family. (108 aa) |
| | Tcr_1208 | Conserved hypothetical protein; Bidirectionally degrades single-stranded DNA into large acid- insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides; Belongs to the XseB family. (78 aa) |
| | Tcr_1209 | Exodeoxyribonuclease VII large subunit; Bidirectionally degrades single-stranded DNA into large acid- insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides; Belongs to the XseA family. (522 aa) |
| | gltX | glutamyl-tRNA synthetase; 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); Belongs to the class-I aminoacyl-tRNA synthetase family. Glutamate--tRNA ligase type 1 subfamily. (470 aa) |
| | Tcr_1234 | S24 family peptidase; Represses a number of genes involved in the response to DNA damage (SOS response). (153 aa) |
| | ligA | DNA ligase, NAD-dependent; 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. (672 aa) |
| | pcm-2 | protein-L-isoaspartate O-methyltransferase; Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and/or degradation of damaged proteins. (232 aa) |
| | kdsA | 2-dehydro-3-deoxyphosphooctonate aldolase (KDO 8-P synthase); TIGRFAM: 2-dehydro-3-deoxyphosphooctonate aldolase; PFAM: DAHP synthetase I/KDSA; KEGG: xoo:XOO2966 2-dehydro-3-deoxyphosphooctonate aldolase. (277 aa) |
| | rpmJ | TIGRFAM: ribosomal protein L36; KEGG: xac:XAC2300 50S ribosomal protein L36; Belongs to the bacterial ribosomal protein bL36 family. (41 aa) |
| | rnhB | RNase HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family. (207 aa) |
| | uppS | Undecaprenyl pyrophosphate synthetase; Catalyzes the sequential condensation of isopentenyl diphosphate (IPP) with (2E,6E)-farnesyl diphosphate (E,E-FPP) to yield (2Z,6Z,10Z,14Z,18Z,22Z,26Z,30Z,34E,38E)-undecaprenyl diphosphate (di- trans,octa-cis-UPP). UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide. (244 aa) |
| | frr | Ribosome recycling factor; 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; Belongs to the RRF family. (185 aa) |
| | tsf | Translation elongation factor Ts (EF-Ts); 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. Belongs to the EF-Ts family. (294 aa) |
| | rpsB | PFAM: ribosomal protein S2; KEGG: pae:PA3656 30S ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family. (248 aa) |
| | murB | UDP-N-acetylmuramate dehydrogenase; Cell wall formation. (343 aa) |
| | nagZ | Beta-hexosaminidase; 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. Belongs to the glycosyl hydrolase 3 family. NagZ subfamily. (357 aa) |
| | Tcr_1300 | PFAM: ErfK/YbiS/YcfS/YnhG; KEGG: hypothetical protein. (162 aa) |
| | Tcr_1360 | Primary replicative DNA helicase; Participates in initiation and elongation during chromosome replication; 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. Belongs to the helicase family. DnaB subfamily. (473 aa) |
| | rplI | LSU ribosomal protein L9P; Binds to the 23S rRNA. (150 aa) |
| | rpsR | SSU ribosomal protein S18P; 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; Belongs to the bacterial ribosomal protein bS18 family. (75 aa) |
| | rpsF | SSU ribosomal protein S6P; Binds together with S18 to 16S ribosomal RNA. (114 aa) |
| | Tcr_1403 | PFAM: ABC transporter related; SMART: ATPase; KEGG: msu:MS1240 Uup protein. (556 aa) |
| | smpB | SsrA-binding protein; 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; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. During trans-translation Ala-aminoacylated tmRNA acts like a tRNA, entering the A-site of stalled ribosomes, displacing the stalled mRNA. The ribosome then switches to [...] (158 aa) |
| | Tcr_1410 | Tyrosine recombinase; PFAM: phage integrase; KEGG: dvu:DVU1527 site-specific recombinase, phage integrase family; Belongs to the 'phage' integrase family. (396 aa) |
| | rlmB | RNA methyltransferase TrmH, group 3; Specifically methylates the ribose of guanosine 2251 in 23S rRNA. (244 aa) |
| | Tcr_1498 | KEGG: neu:NE0044 hypothetical protein. (262 aa) |
| | valS | valyl-tRNA synthetase; Catalyzes the attachment of valine to tRNA(Val). As ValRS can inadvertently accommodate and process structurally similar 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; Belongs to the class-I aminoacyl-tRNA synthetase family. ValS type 1 subfamily. (924 aa) |
| | Tcr_1516 | TIGRFAM: lipopolysaccharide heptosyltransferase I; PFAM: glycosyl transferase, family 9; KEGG: ecc:c4447 lipopolysaccharide heptosyltransferase-1. (347 aa) |
| | trpS | tryptophanyl-tRNA synthetase; Catalyzes the attachment of tryptophan to tRNA(Trp). Belongs to the class-I aminoacyl-tRNA synthetase family. (334 aa) |
| | prmB | Modification methylase, HemK family; Specifically methylates the 50S ribosomal protein L3 on a specific glutamine residue; Belongs to the protein N5-glutamine methyltransferase family. PrmB subfamily. (310 aa) |
| | mpl | UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Reutilizes the intact tripeptide L-alanyl-gamma-D-glutamyl- meso-diaminopimelate by linking it to UDP-N-acetylmuramate. Belongs to the MurCDEF family. Mpl subfamily. (458 aa) |
| | csrA | Carbon storage regulator, CsrA / carbon storage regulator, CsrA; A key translational regulator that binds mRNA to regulate translation initiation and/or mRNA stability. Mediates global changes in gene expression, shifting from rapid growth to stress survival by linking envelope stress, the stringent response and the catabolite repression systems. Usually binds in the 5'-UTR; binding at or near the Shine-Dalgarno sequence prevents ribosome-binding, repressing translation, binding elsewhere in the 5'-UTR can activate translation and/or stabilize the mRNA. Its function is antagonized by s [...] (70 aa) |
| | alaS | alanyl-tRNA synthetase; 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. (864 aa) |
| | recA | RecA protein; 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; Belongs to the RecA family. (347 aa) |
| | mutS | DNA mismatch repair protein MutS; This protein is involved in the repair of mismatches in DNA. It is possible that it carries out the mismatch recognition step. This protein has a weak ATPase activity. (871 aa) |
| | gatB | aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; 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); Belongs to the GatB/GatE family. GatB subfamily. (475 aa) |
| | gatA | aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit A; 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). (484 aa) |
| | gatC | aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit C; 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); Belongs to the GatC family. (95 aa) |
| | mrdA | Peptidoglycan glycosyltransferase; Catalyzes cross-linking of the peptidoglycan cell wall. Belongs to the transpeptidase family. MrdA subfamily. (607 aa) |
| | mrdB | Rod shape-determining protein RodA; Peptidoglycan polymerase that is essential for cell wall elongation; Belongs to the SEDS family. MrdB/RodA subfamily. (376 aa) |
| | Tcr_1635 | Penicillin-binding protein 6. Serine peptidase. MEROPS family S11; PFAM: peptidase S11, D-alanyl-D-alanine carboxypeptidase 1; KEGG: mca:MCA0105 D-alanyl-D-alanine carboxypeptidase; Belongs to the peptidase S11 family. (396 aa) |
| | Tcr_1641 | PFAM: transposase IS3/IS911; KEGG: sfx:S4481 IS911 orfA. (102 aa) |
| | Tcr_1642 | PFAM: Integrase, catalytic region; KEGG: vch:VCA0791 transposase OrfAB, subunit B. (271 aa) |
| | Tcr_1647 | Transposase; KEGG: msu:MS2016 hypothetical protein. (616 aa) |
| | rsmA | Dimethyladenosine transferase; 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. (266 aa) |
| | ihfA | Histone-like DNA-binding protein; 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. Belongs to the bacterial histone-like protein family. (97 aa) |
| | pheT | KEGG: sfx:S1635 phenylalanine tRNA synthetase, beta-subunit; TIGRFAM: phenylalanyl-tRNA synthetase, beta subunit. (793 aa) |
| | pheS | KEGG: sfx:S1634 phenylalanine tRNA synthetase, alpha-subunit; TIGRFAM: phenylalanyl-tRNA synthetase, alpha subunit; PFAM: phenylalanyl-tRNA synthetase, class IIc aminoacyl tRNA synthetase, class II-like; Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily. (332 aa) |
| | rplT | LSU ribosomal protein L20P; 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. (118 aa) |
| | rpmI | PFAM: ribosomal protein L35; KEGG: ilo:IL1397 ribosomal protein L35; Belongs to the bacterial ribosomal protein bL35 family. (65 aa) |
| | Tcr_1666 | PFAM: initiation factor 3; KEGG: bps:BPSL1944 translation initiation factor IF-3; Belongs to the IF-3 family. (112 aa) |
| | thrS | threonyl-tRNA synthetase / Ser-tRNA(Thr) hydrolase; 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). Also edits incorrectly charged L-seryl-tRNA(Thr). (642 aa) |
| | Tcr_1671 | PFAM: protein-L-isoaspartate(D-aspartate) O-methyltransferase; KEGG: eba:ebA1645 putative protein-L-isoaspartate O-methyltransferase. (215 aa) |
| | Tcr_1672 | PFAM: ATP dependent DNA ligase; KEGG: msu:MS0939 ATP-dependent DNA ligase. (266 aa) |
| | Tcr_1674 | PFAM: lipopolysaccharide biosynthesis; KEGG: pae:PA3160 O-antigen chain length regulator. (364 aa) |
| | rsmI | Tetrapyrrole (Corrin/Porphyrin) Methylase family protein; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (291 aa) |
| | Tcr_1697 | PFAM: UvrD/REP helicase; KEGG: neu:NE2166 UvrD/REP helicase; Belongs to the helicase family. UvrD subfamily. (1182 aa) |
| | Tcr_1698 | DNA helicase/exodeoxyribonuclease V, subunit B; KEGG: neu:NE2178 hypothetical protein. (922 aa) |
| | Tcr_1740 | Truncated lysyl-tRNA synthetase GenX; PFAM: tRNA synthetase, class II (D, K and N); KEGG: spt:SPA4161 lysyl-tRNA synthetase. (324 aa) |
| | efp | Translation elongation factor P (EF-P); Involved in peptide bond synthesis. Alleviates ribosome stalling that occurs when 3 or more consecutive Pro residues or the sequence PPG is present in a protein, possibly by augmenting the peptidyl transferase activity of the ribosome. Modification of Lys-34 is required for alleviation; Belongs to the elongation factor P family. (188 aa) |
| | Tcr_1749 | PFAM: DNA polymerase III chi subunit, HolC; KEGG: yps:YPTB0530 DNA polymerase III, chi subunit. (146 aa) |
| | Tcr_1752 | Hypothetical protein; PFAM: ErfK/YbiS/YcfS/YnhG; KEGG: bba:Bd1075 uncharacterized conserved. (375 aa) |
| | uvrB | Excinuclease ABC subunit B; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. Upon binding of the UvrA(2)B(2) complex to a putative 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 [...] (678 aa) |
| | Tcr_1761 | ABC transporter ATP-binding protein homolog; PFAM: ABC transporter related; SMART: ATPase; KEGG: gsu:GSU0913 ABC transporter, ATP-binding protein. (642 aa) |
| | Tcr_1763 | PFAM: ribonucleotide reductase; KEGG: plu:plu3053 ribonucleoside-diphosphate reductase 1 beta chain (ribonucleotide reductase 1) (B2 protein) (R2 protein). (377 aa) |
| | dnaG | DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (576 aa) |
| | rpsU | PFAM: ribosomal protein S21; KEGG: son:SO1288 ribosomal protein S21; Belongs to the bacterial ribosomal protein bS21 family. (71 aa) |
| | uppP | Undecaprenyl-diphosphatase; Catalyzes the dephosphorylation of undecaprenyl diphosphate (UPP). Confers resistance to bacitracin; Belongs to the UppP family. (255 aa) |
| | Tcr_1852 | Integrase/transposase family protein; PFAM: Integrase, catalytic region; KEGG: vch:VCA0791 transposase OrfAB, subunit B. (252 aa) |
| | Tcr_1853 | PFAM: transposase IS3/IS911; KEGG: vch:VCA0792 transposase OrfAB, subunit A. (100 aa) |
| | rpmB | PFAM: ribosomal protein L28; KEGG: pae:PA5316 50S ribosomal protein L28; Belongs to the bacterial ribosomal protein bL28 family. (78 aa) |
| | rpmG | PFAM: ribosomal protein L33; KEGG: vfi:VF0128 LSU ribosomal protein L33P; Belongs to the bacterial ribosomal protein bL33 family. (50 aa) |
| | mutM | Formamidopyrimidine-DNA glycosylase / DNA-(apurinic or apyrimidinic site) lyase; 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. (280 aa) |
| | Tcr_1932 | Methyltransferase superfamily protein; Specifically methylates the guanine in position 966 of 16S rRNA in the assembled 30S particle; Belongs to the methyltransferase superfamily. RsmD family. (205 aa) |
| | tyrS | tyrosyl-tRNA synthetase; 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); Belongs to the class-I aminoacyl-tRNA synthetase family. TyrS type 2 subfamily. (398 aa) |
| | trmL | rRNA methylase family protein; 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. (154 aa) |
| | priA | Replication restart DNA helicase PriA; 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; Belongs to the helicase family. PriA subfamily. (774 aa) |
| | rsmJ | Conserved hypothetical protein with DUF548; Specifically methylates the guanosine in position 1516 of 16S rRNA. (276 aa) |
| | Tcr_1996 | TIGRFAM: ATP-dependent DNA helicase, RecQ family ATP-dependent DNA helicase RecQ; PFAM: helicase-like HRDC DEAD/DEAH box helicase-like; KEGG: recQ; ATP-dependent DNA helicase RecQ. (629 aa) |
| | deaD | DEAD/DEAH box helicase; DEAD-box RNA helicase involved in various cellular processes at low temperature, including ribosome biogenesis, mRNA degradation and translation initiation. (574 aa) |
| | Tcr_2052 | TIGRFAM: exodeoxyribonuclease III exodeoxyribonuclease III Xth; PFAM: Endonuclease/exonuclease/phosphatase; KEGG: ilo:IL1451 exonuclease III. (273 aa) |
| | Tcr_2056 | TIGRFAM: penicillin-binding protein, 1A family; PFAM: glycosyl transferase, family 51 penicillin-binding protein, transpeptidase; KEGG: ponA; penicillin-binding protein 1A. (804 aa) |
| | rimK | SSU ribosomal protein S6P modification protein; TIGRFAM: alpha-L-glutamate ligases, RimK family; PFAM: ATP-dependent carboxylate-amine ligase-like, ATP-grasp; KEGG: vch:VC2281 ribosomal protein S6 modification protein. (301 aa) |
| | Tcr_2072 | DNA breaking-rejoining enzyme. (896 aa) |
| | Tcr_2073 | DNA breaking-rejoining enzyme. (991 aa) |
| | Tcr_2119 | Transposase; Required for the transposition of the insertion element. (72 aa) |
| | Tcr_2121 | Tyrosine recombinase; PFAM: phage integrase; KEGG: dps:DP2012 similar to pore-forming cytotoxin integrase; Belongs to the 'phage' integrase family. (433 aa) |
| | kdsB2 | 3-deoxy-D-manno-octulosonate cytidylyltransferase; Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria. (248 aa) |
| | Tcr_2142 | 3-deoxy-D-manno-octulosonic-acid transferase; Involved in lipopolysaccharide (LPS) biosynthesis. Catalyzes the transfer of 3-deoxy-D-manno-octulosonate (Kdo) residue(s) from CMP- Kdo to lipid IV(A), the tetraacyldisaccharide-1,4'-bisphosphate precursor of lipid A; Belongs to the glycosyltransferase group 1 family. (406 aa) |
| | recG | ATP-dependent DNA helicase RecG; 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); Belongs to the helicase family. RecG subfamily. (690 aa) |
| | glmU | UDP-N-acetylglucosamine pyrophosphorylase / glucosamine-1-phosphate N-acetyltransferase; 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. In the C-terminal section; belongs to the t [...] (454 aa) |
| | rsmG | Glucose inhibited division protein B; Specifically methylates the N7 position of guanine in position 527 of 16S rRNA. (216 aa) |
| | rlmD | 23S rRNA (uracil-5-)-methyltransferase RumA; Catalyzes the formation of 5-methyl-uridine at position 1939 (m5U1939) in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmD subfamily. (407 aa) |
| | rpmH | PFAM: ribosomal protein L34; KEGG: pst:PSPTO5615 ribosomal protein L34; Belongs to the bacterial ribosomal protein bL34 family. (44 aa) |
| | Tcr_2200 | TIGRFAM: methylated-DNA--protein-cysteine methyltransferase; PFAM: methylated-DNA-[protein]-cysteine S-methyltransferase; KEGG: mmp:MMP0069 methyltransferase. (107 aa) |
| | dnaA | Chromosomal replication initiator protein DnaA; Plays an important role in the initiation and regulation of chromosomal replication. Binds to the origin of replication; 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. (467 aa) |
| | Tcr_0002 | DNA polymerase III, beta subunit; 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; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...] (368 aa) |
| | recF | DNA replication and repair protein RecF; The RecF protein is involved in DNA metabolism; it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP. (362 aa) |
| | gyrB | DNA gyrase subunit B; 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. (813 aa) |
| | polA | DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family. (939 aa) |
| | cmoM | SAM-dependent methyltransferase; Catalyzes the methylation of 5-carboxymethoxyuridine (cmo5U) to form 5-methoxycarbonylmethoxyuridine (mcmo5U) at position 34 in tRNAs; Belongs to the class I-like SAM-binding methyltransferase superfamily. CmoM family. (259 aa) |
| | Tcr_0086 | Conserved hypothetical protein with a DNA breaking-rejoining enzyme, catalytic core; KEGG: eca:ECA1061 putative integrase. (779 aa) |
| | Tcr_0088 | Conserved hypothetical protein of the phage integrase family; PFAM: phage integrase; KEGG: ecs:ECs3512 putative site specific recombinase. (427 aa) |
| | trmB | tRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (240 aa) |
| | Tcr_0120 | A/G-specific DNA-adenine glycosylase; Adenine glycosylase active on G-A mispairs. (350 aa) |
| | rpmE2 | LSU ribosomal protein L31P; Binds the 23S rRNA; Belongs to the bacterial ribosomal protein bL31 family. Type B subfamily. (83 aa) |
| | mnmC | Conserved hypothetical protein; Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34; In the N-terminal section; belongs to the methyltransferase superfamily. tRNA (mnm(5)s(2)U34)-methyltransferase family. (674 aa) |
| | trmA | tRNA (uracil-5-)-methyltransferase; Dual-specificity methyltransferase that catalyzes the formation of 5-methyluridine at position 54 (m5U54) in all tRNAs, and that of position 341 (m5U341) in tmRNA (transfer-mRNA). (374 aa) |
| | Tcr_0191 | Ribosomal RNA small subunit methyltransferase B; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA. (436 aa) |
| | fmt | methionyl-tRNA formyltransferase; 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; Belongs to the Fmt family. (312 aa) |
| | def | Peptide deformylase; 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. (169 aa) |
| | topA | DNA topoisomerase I; 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 supe [...] (835 aa) |
| | argS | KEGG: mca:MCA3089 arginyl-tRNA synthetase; TIGRFAM: arginyl-tRNA synthetase. (592 aa) |
| | rep | ATP-dependent DNA helicase Rep; Rep helicase is a single-stranded DNA-dependent ATPase involved in DNA replication; 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. (677 aa) |
| | tuf1 | Translation elongation factor Tu; This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis. (396 aa) |
| | rplK | LSU ribosomal protein L11P; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (142 aa) |
| | rplA | LSU ribosomal protein L1P; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release. (231 aa) |
| | rplJ | LSU ribosomal protein L10P; Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors. Belongs to the universal ribosomal protein uL10 family. (166 aa) |
| | rplL | LSU ribosomal protein L12P; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation; Belongs to the bacterial ribosomal protein bL12 family. (123 aa) |
| | rpsL | SSU ribosomal protein S12P; With S4 and S5 plays an important role in translational accuracy. (124 aa) |
| | rpsG | SSU ribosomal protein S7P; 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; Belongs to the universal ribosomal protein uS7 family. (157 aa) |
| | fusA | Translation elongation factor 2 (EF-2/EF-G); Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. [...] (700 aa) |
| | rpsJ | SSU ribosomal protein S10P; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (103 aa) |
| | rplC | LSU ribosomal protein L3P; 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. (212 aa) |
| | rplD | LSU ribosomal protein L4P; One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. (206 aa) |
| | rplW | LSU ribosomal protein L23P; 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; Belongs to the universal ribosomal protein uL23 family. (98 aa) |
| | rplB | LSU ribosomal protein L2P; 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; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family. (275 aa) |
| | rpsS | SSU ribosomal protein S19P; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (90 aa) |
| | rplV | LSU ribosomal protein L22P; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). (110 aa) |
| | rpsC | SSU ribosomal protein S3P; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation; Belongs to the universal ribosomal protein uS3 family. (228 aa) |
| | rplP | LSU ribosomal protein L16P; Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs; Belongs to the universal ribosomal protein uL16 family. (137 aa) |
| | rpmC | PFAM: ribosomal protein L29; KEGG: son:SO0239 50S ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family. (62 aa) |
| | rpsQ | SSU ribosomal protein S17P; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (87 aa) |
| | rplN | LSU ribosomal protein L14P; Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome; Belongs to the universal ribosomal protein uL14 family. (122 aa) |
| | rplX | LSU ribosomal protein L24P; One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. (104 aa) |
| | rplE | LSU ribosomal protein L5P; 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; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. (180 aa) |
| | rpsN | SSU ribosomal protein S14P; 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; Belongs to the universal ribosomal protein uS14 family. (101 aa) |
| | rpsH | SSU ribosomal protein S8P; 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; Belongs to the universal ribosomal protein uS8 family. (131 aa) |
| | rplF | LSU ribosomal protein L6P; 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; Belongs to the universal ribosomal protein uL6 family. (177 aa) |
| | rplR | LSU ribosomal protein L18P; 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. (117 aa) |
| | rpsE | SSU ribosomal protein S5P; With S4 and S12 plays an important role in translational accuracy; Belongs to the universal ribosomal protein uS5 family. (169 aa) |
| | rpmD | PFAM: ribosomal protein L30; KEGG: cvi:CV4168 50S ribosomal protein L30. (65 aa) |
| | rplO | LSU ribosomal protein L15P; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (144 aa) |
| | rpsM | SSU ribosomal protein S13P; 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; these bridges are implicated in subunit movement. Contacts the tRNAs in the A and P-sites. Belongs to the universal ribosomal protein uS13 family. (118 aa) |
| | rpsK | SSU ribosomal protein S11P; 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; Belongs to the universal ribosomal protein uS11 family. (129 aa) |
| | rpsD | SSU ribosomal protein S4P; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit. (206 aa) |
| | rplQ | PFAM: ribosomal protein L17; KEGG: ilo:IL1890 ribosomal protein L17. (128 aa) |
| | uvrA | Excinuclease ABC subunit A; 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. (935 aa) |
| | Tcr_0327 | TIGRFAM: single-strand binding protein; PFAM: single-strand binding protein/Primosomal replication protein n; KEGG: son:SO4028 single-strand binding protein. (201 aa) |
| | Tcr_0328 | PFAM: phage integrase; KEGG: eca:ECA1059 putative integrase. (394 aa) |
| | Tcr_0329 | DNA breaking-rejoining enzyme; PFAM: phage integrase; KEGG: xac:XAC2903 hypothetical protein. (513 aa) |
| | Tcr_0330 | KEGG: eca:ECA1061 putative integrase. (676 aa) |
| | Tcr_0332 | PFAM: N-6 DNA methylase; KEGG: rba:RB11379 type I restriction-modification system DNA methylase. (709 aa) |
| | Tcr_0333 | PFAM: restriction modification system DNA specificity domain; KEGG: xfa:XF2741 type I restriction-modification system specificity determinant. (371 aa) |
| | Tcr_0334 | Type I site-specific deoxyribonuclease, R subunit; Subunit R is required for both nuclease and ATPase activities, but not for modification. (1075 aa) |
| | rplU | LSU ribosomal protein L21P; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (104 aa) |
| | rpmA | PFAM: ribosomal protein L27; KEGG: sfx:S3443 50S ribosomal subunit protein L27; Belongs to the bacterial ribosomal protein bL27 family. (85 aa) |
| | glyQ | PFAM: glycyl-tRNA synthetase, alpha subunit; KEGG: son:SO0015 glycyl-tRNA synthetase alpha chain. (308 aa) |
| | glyS | KEGG: ecc:c4378 glycyl-tRNA synthetase beta chain. (690 aa) |
| | ung | Uracil-DNA glycosylase; Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine. (232 aa) |
| | parE | DNA topoisomerase IV subunit B; Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule; Belongs to the type II topoisomerase family. ParE type 1 subfamily. (628 aa) |
| | Tcr_0377 | Integrase/transposase family protein; PFAM: Integrase, catalytic region; KEGG: vpa:VPA1395 putative transposase. (636 aa) |
| | parC | DNA topoisomerase IV subunit A; Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule; Belongs to the type II topoisomerase GyrA/ParC subunit family. ParC type 1 subfamily. (742 aa) |
| | prmC | Modification methylase, HemK family; Methylates the class 1 translation termination release factors RF1/PrfA and RF2/PrfB on the glutamine residue of the universally conserved GGQ motif; Belongs to the protein N5-glutamine methyltransferase family. PrmC subfamily. (279 aa) |
| | prfA | Bacterial peptide chain release factor 1 (bRF-1); Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA. (363 aa) |
| | rplY | LSU ribosomal protein L25P; This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Belongs to the bacterial ribosomal protein bL25 family. CTC subfamily. (193 aa) |
| | pth | peptidyl-tRNA hydrolase; The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis. Belongs to the PTH family. (192 aa) |
| | xerC | Tyrosine recombinase XerC subunit; Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. The XerC- XerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell division. It also contributes to the segregational stability of plasmids. (317 aa) |
| | prmA | LSU ribosomal protein L11P methyltransferase; Methylates ribosomal protein L11; Belongs to the methyltransferase superfamily. PrmA family. (294 aa) |
| | rplM | LSU ribosomal protein L13P; 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. (142 aa) |
| | rpsI | PFAM: ribosomal protein S9; KEGG: ilo:IL0415 ribosomal protein S9; Belongs to the universal ribosomal protein uS9 family. (130 aa) |
| | Tcr_0463 | Ribonucleoside-diphosphate reductase class Ia alpha subunit; Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides. (760 aa) |
| | lnt | Apolipoprotein N-acyltransferase; Catalyzes the phospholipid dependent N-acylation of the N- terminal cysteine of apolipoprotein, the last step in lipoprotein maturation; Belongs to the CN hydrolase family. Apolipoprotein N- acyltransferase subfamily. (488 aa) |
| | leuS | TIGRFAM: leucyl-tRNA synthetase; PFAM: aminoacyl-tRNA synthetase, class Ia; KEGG: pst:PSPTO4812 leucyl-tRNA synthetase. (877 aa) |
| | Tcr_0481 | TIGRFAM: DNA polymerase III, delta subunit; PFAM: DNA polymerase III, delta; KEGG: ppu:PP4796 DNA polymerase III, delta subunit. (338 aa) |
| | rlmH | Conserved hypothetical protein with DUF163; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (145 aa) |
| | rpsT | SSU ribosomal protein S20P; Binds directly to 16S ribosomal RNA. (87 aa) |
| | murJ | Multidrug/oligosaccharidyl-lipid/polysaccharide (MOP) flippase superfamily protein; Involved in peptidoglycan biosynthesis. Transports lipid- linked peptidoglycan precursors from the inner to the outer leaflet of the cytoplasmic membrane. (498 aa) |
| | ileS | Isoleucyl-tRNA synthetase; Catalyzes the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar 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). Belongs to the class-I aminoacyl-tRNA synthetase family. IleS type 1 subfamily. (943 aa) |
| | rlmL | Putative RNA methylase; Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA. Belongs to the methyltransferase superfamily. RlmKL family. (734 aa) |
| | Tcr_0502 | 3-deoxy-D-manno-octulosonic-acid transferase; Involved in lipopolysaccharide (LPS) biosynthesis. Catalyzes the transfer of 3-deoxy-D-manno-octulosonate (Kdo) residue(s) from CMP- Kdo to lipid IV(A), the tetraacyldisaccharide-1,4'-bisphosphate precursor of lipid A; Belongs to the glycosyltransferase group 1 family. (436 aa) |
| | glgC | Glucose-1-phosphate adenylyltransferase; Involved in the biosynthesis of ADP-glucose, a building block required for the elongation reactions to produce glycogen. Catalyzes the reaction between ATP and alpha-D-glucose 1-phosphate (G1P) to produce pyrophosphate and ADP-Glc; Belongs to the bacterial/plant glucose-1-phosphate adenylyltransferase family. (422 aa) |
| | glgB | 1,4-alpha-glucan branching enzyme; 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; Belongs to the glycosyl hydrolase 13 family. GlgB subfamily. (726 aa) |
| | glgA | Glycogen/starch synthase, ADP-glucose type; Synthesizes alpha-1,4-glucan chains using ADP-glucose. (491 aa) |
| | greB | GreA/GreB family elongation factor; 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. (154 aa) |
| | dnaX | DNA polymerase III, tau subunit; 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. (696 aa) |
| | recR | DNA replication and repair protein RecR; 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. (197 aa) |
| | rsmH | S-adenosyl-methyltransferase MraW; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (314 aa) |
| | ftsI | Peptidoglycan synthetase FtsI; Catalyzes cross-linking of the peptidoglycan cell wall at the division septum. (577 aa) |
| | murE | UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; 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. Belongs to the MurCDEF family. MurE subfamily. (505 aa) |
| | murF | UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D- alanine ligase; Involved in cell wall formation. Catalyzes the final step in the synthesis of UDP-N-acetylmuramoyl-pentapeptide, the precursor of murein; Belongs to the MurCDEF family. MurF subfamily. (474 aa) |
| | mraY | Phospho-N-acetylmuramoyl-pentapeptide- transferase; First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan; Belongs to the glycosyltransferase 4 family. MraY subfamily. (361 aa) |
| | murD | UDP-N-acetylmuramoylalanine--D-glutamate ligase; Cell wall formation. Catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine (UMA). Belongs to the MurCDEF family. (449 aa) |
| | ftsW | Cell division protein FtsW; Peptidoglycan polymerase that is essential for cell division. Belongs to the SEDS family. FtsW subfamily. (389 aa) |
| | murG | Undecaprenyl-PP-MurNAc-pentapeptide-UDPGlcNAc GlcNAc transferase; 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); Belongs to the glycosyltransferase 28 family. MurG subfamily. (355 aa) |
| | lgt | Prolipoprotein diacylglyceryl transferase; Catalyzes the transfer of the diacylglyceryl group from phosphatidylglycerol to the sulfhydryl group of the N-terminal cysteine of a prolipoprotein, the first step in the formation of mature lipoproteins; Belongs to the Lgt family. (266 aa) |
| | murC | UDP-N-acetylmuramate--L-alanine ligase; Cell wall formation; Belongs to the MurCDEF family. (461 aa) |
| | ddl | D-alanine--D-alanine ligase; Cell wall formation. (313 aa) |
| | Tcr_0592 | MutT/NUDIX family protein; TIGRFAM: mutator MutT protein; PFAM: NUDIX hydrolase thiamine monophosphate synthase; KEGG: pst:PSPTO4397 mutT/nudix family protein / thiamine phosphate synthase. (316 aa) |
| | trmJ | RNA methyltransferase, TrmH family, group 1; Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA. (268 aa) |
| | rlmN | Radical SAM enzyme, Cfr family; Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs. m2A2503 modification seems to play a crucial role in the proofreading step occurring at the peptidyl transferase center and thus would serve to optimize ribosomal fidelity; Belongs to the radical SAM superfamily. RlmN family. (370 aa) |
| | hisS | KEGG: pst:PSPTO1435 histidyl-tRNA synthetase; TIGRFAM: histidyl-tRNA synthetase; PFAM: tRNA synthetase, class II (G, H, P and S) Anticodon-binding. (426 aa) |
| | rpsP | PFAM: ribosomal protein S16; KEGG: ilo:IL1726 ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (80 aa) |
| | trmD | tRNA (Guanine37-N(1)-) methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (237 aa) |
| | rplS | LSU ribosomal protein L19P; 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. (115 aa) |
| | xerD | Tyrosine recombinase XerD subunit; Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. The XerC- XerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell division. It also contributes to the segregational stability of plasmids. (297 aa) |
| | Tcr_0656 | PFAM: phage integrase; KEGG: ppu:PP1532 phage integrase, putative; Belongs to the 'phage' integrase family. (372 aa) |
| | Tcr_0658 | PFAM: C-5 cytosine-specific DNA methylase; KEGG: ppu:PP3989 DNA-cytosine methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family. (648 aa) |
| | rne | RNAse E; 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. Belongs to the RNase E/G family. RNase E subfamily. (752 aa) |
| | rpmF | TIGRFAM: ribosomal protein L32; PFAM: ribosomal L32p protein; KEGG: xac:XAC1122 50S ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family. (57 aa) |
| | mltG | Conserved hypothetical protein; Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation. (335 aa) |
| | Tcr_0719 | KEGG: pae:PA2961 DNA polymerase III delta' subunit. (325 aa) |
| | Tcr_0720 | TIGRFAM: hydrolase, TatD family; PFAM: TatD-related deoxyribonuclease; KEGG: neu:NE1516 uncharacterized protein family UPF0006. (257 aa) |
| | prfB | Bacterial peptide chain release factor 2 (bRF-2); Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA. (332 aa) |
| | lysS | TIGRFAM: lysyl-tRNA synthetase; PFAM: tRNA synthetase, class II (G, H, P and S) tRNA synthetase, class II (D, K and N) nucleic acid binding, OB-fold, tRNA/helicase-type; KEGG: ilo:IL0822 lysyl-tRNA synthetase class II; Belongs to the class-II aminoacyl-tRNA synthetase family. (504 aa) |
| | lepA | GTP-binding protein LepA; 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. (601 aa) |
| | recO | DNA replication and repair protein RecO; Involved in DNA repair and RecF pathway recombination. (246 aa) |
| | Tcr_0757 | MCP methyltransferase, CheR-type; Methylation of the membrane-bound methyl-accepting chemotaxis proteins (MCP) to form gamma-glutamyl methyl ester residues in MCP. (275 aa) |
| | Tcr_0766 | Recombination protein MgsA; PFAM: AAA ATPase, central region; SMART: ATPase; KEGG: pae:PA2613 putative ATPase. (453 aa) |
| | serS | seryl-tRNA synthetase; 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). (428 aa) |
| | Tcr_0790 | PFAM: elongation factor P/YeiP; KEGG: stm:STM2211.S elongation factor P. (188 aa) |
| | rlmE | Ribosomal RNA methyltransferase RrmJ/FtsJ; 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. (206 aa) |
| | Tcr_0832 | Tyrosine recombinase family protein; PFAM: phage integrase; KEGG: lpn:lpg2057 prophage dlp12 integrase; Belongs to the 'phage' integrase family. (341 aa) |
| | Tcr_0833 | Tyrosine recombinase family protein; KEGG: lpf:lpl2496 hypothetical protein; Belongs to the 'phage' integrase family. (298 aa) |
| | Tcr_0858 | UmuD protein. Serine peptidase. MEROPS family S24; PFAM: peptidase S24, S26A and S26B; KEGG: syc:syc0007_d DNA polymerase V; Belongs to the peptidase S24 family. (206 aa) |
| | Tcr_0859 | impB/mucB/samB family protein; PFAM: UMUC-like DNA-repair protein; KEGG: ecs:ECs1679 UmuC protein. (450 aa) |
| | Tcr_0866 | DNA repair protein RecN; May be involved in recombinational repair of damaged DNA. (555 aa) |
| | dnaJ | Chaperone protein DnaJ; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, DnaK-independent fashion. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, D [...] (387 aa) |
| | Tcr_0875 | Conserved hypothetical protein with peptidyl-tRNA hydrolase domain; PFAM: Class I peptide chain release factor; KEGG: pae:PA0868 hypothetical protein. (138 aa) |
| | aspS | aspartyl-tRNA synthetase; Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Reaction proceeds in two steps: L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp/Asn); Belongs to the class-II aminoacyl-tRNA synthetase family. Type 1 subfamily. (596 aa) |
| | ruvC | Crossover junction endodeoxyribonuclease RuvC; 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. (172 aa) |
| | ruvA | Holliday junction DNA helicase subunit RuvA; 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. (200 aa) |
| | ruvB | Holliday junction DNA helicase RuvB; 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. (340 aa) |
| | glnS | KEGG: son:SO1786 glutaminyl-tRNA synthetase; TIGRFAM: glutaminyl-tRNA synthetase; PFAM: glutamyl-tRNA synthetase, class Ic. (559 aa) |
| | cysS | KEGG: mca:MCA0509 cysteinyl-tRNA synthetase; TIGRFAM: cysteinyl-tRNA synthetase; PFAM: cysteinyl-tRNA synthetase, class Ia; Belongs to the class-I aminoacyl-tRNA synthetase family. (456 aa) |
| | rnhA | RNase HI; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (145 aa) |
| | dnaQ | DNA polymerase III, epsilon subunit; 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. (231 aa) |
| | kdsB1 | 3-deoxy-manno-octulosonate cytidylyltransferase; Activates KDO (a required 8-carbon sugar) for incorporation into bacterial lipopolysaccharide in Gram-negative bacteria. (259 aa) |
| | prfC | Bacterial peptide chain release factor 3 (bRF-3); 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. Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. PrfC subfamily. (524 aa) |
| | Tcr_0976 | YrbI family phosphatase; Catalyzes the hydrolysis of 3-deoxy-D-manno-octulosonate 8- phosphate (KDO 8-P) to 3-deoxy-D-manno-octulosonate (KDO) and inorganic phosphate; Belongs to the KdsC family. (180 aa) |
| | murA | UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine; Belongs to the EPSP synthase family. MurA subfamily. (418 aa) |
| | radA | DNA repair protein RadA; 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. (457 aa) |
| | nth | Endonuclease III / DNA-(apurinic or apyrimidinic site) lyase; 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. (210 aa) |
| | metG | methionyl-tRNA synthetase; Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation. (680 aa) |
| | rlmJ | Conserved hypothetical protein with DUF519; Specifically methylates the adenine in position 2030 of 23S rRNA. (282 aa) |
| | pcm | Hypothetical protein; Catalyzes the methyl esterification of L-isoaspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and/or degradation of damaged proteins. (667 aa) |
| | proS | prolyl-tRNA synthetase; 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 dea [...] (572 aa) |
| | mutL | DNA mismatch repair protein MutL; This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a 'molecular matchmaker', a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex. (630 aa) |
| | infA | Bacterial translation initiation factor 1 (bIF-1); 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 initiation complex. (72 aa) |
| | Tcr_1115 | KEGG: vfi:VF1947 DNA polymerase III alpha subunit; TIGRFAM: DNA polymerase III, alpha subunit; PFAM: PHP-like nucleic acid binding, OB-fold, tRNA/helicase-type; SMART: Phosphoesterase PHP-like. (1158 aa) |
| | infB | Bacterial translation initiation factor 2 (bIF-2); 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; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. IF-2 subfamily. (818 aa) |
| | rpsO | SSU ribosomal protein S15P; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the platform of the 30S subunit by binding and bridging several RNA helices of the 16S rRNA. (88 aa) |
| | pnp | Polyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (694 aa) |
| | uvrC | Excinuclease ABC subunit C; 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. (613 aa) |
| | mfd | Transcription-repair coupling factor; 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; In the C-terminal section; belongs to the helicase family. RecG subfamily. (1159 aa) |
