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| | rny | RNA binding metal dependent phosphohydrolase; Endoribonuclease that initiates mRNA decay. Belongs to the RNase Y family. (530 aa) |
| | Smon_0923 | PFAM: O-methyltransferase family 3; KEGG: bcb:BCB4264_A4503 O-methyltransferase family protein. (209 aa) |
| | uvrB | Excinuclease ABC, B subunit; 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 [...] (658 aa) |
| | xseA | 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. (442 aa) |
| | smc | SMC domain protein; Required for chromosome condensation and partitioning. Belongs to the SMC family. (1180 aa) |
| | Smon_0916 | KEGG: hypothetical protein. (420 aa) |
| | rplS | Ribosomal protein L19; 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. (119 aa) |
| | Smon_0912 | PFAM: integrase family protein; KEGG: bcy:Bcer98_2627 phage integrase family protein; Belongs to the 'phage' integrase family. (353 aa) |
| | Smon_0910 | PFAM: helix-turn-helix domain protein; SMART: helix-turn-helix domain protein; KEGG: bcu:BCAH820_0476 DNA-binding protein. (130 aa) |
| | Smon_0907 | PFAM: replication initiator A domain protein; KEGG: bcb:BCB4264_A3622 replication protein, putative. (116 aa) |
| | Smon_0900 | PFAM: MobA/MobL protein; KEGG: sbc:SbBS512_D0003 mobilization protein A. (504 aa) |
| | Smon_0870 | KEGG: baa:BXB0107 hypothetical protein. (311 aa) |
| | Smon_0866 | PFAM: DNA topoisomerase type IA central domain protein; TOPRIM domain protein; SMART: DNA topoisomerase I DNA-binding; Toprim sub domain protein; DNA topoisomerase I ATP-binding; KEGG: vfi:VF_B0046 DNA topoisomerase III. (663 aa) |
| | Smon_0865 | PFAM: integrase family protein; KEGG: tdn:Suden_1743 phage integrase; Belongs to the 'phage' integrase family. (353 aa) |
| | Smon_0859 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | Smon_0853 | PFAM: Fmu (Sun) domain protein; NusB/RsmB/TIM44; KEGG: bcy:Bcer98_2517 sun protein. (422 aa) |
| | Smon_0851 | KEGG: gsu:GSU0647 hypothetical protein. (187 aa) |
| | trmD | tRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (245 aa) |
| | Smon_0837 | Recombinational DNA repair protein (RecF pathway)-like protein; Involved in DNA repair and RecF pathway recombination. (215 aa) |
| | Smon_0824 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | Smon_0817 | PFAM: protein of unknown function DUF195; KEGG: cps:CPS_3589 hypothetical protein. (359 aa) |
| | Smon_0815 | PFAM: AAA ATPase central domain protein; ATPase associated with various cellular activities AAA_5; SMART: AAA ATPase; KEGG: nis:NIS_0066 recombination factor protein RarA. (395 aa) |
| | Smon_0810 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | Smon_0796 | TIGRFAM: methylated-DNA/protein-cysteine methyltransferase; PFAM: Methylated-DNA-[protein]-cysteine S- methyltransferase DNA binding; KEGG: eca:ECA2454 methylated DNA--protein-cysteine methyltransferase. (173 aa) |
| | Smon_0792 | PFAM: histone family protein DNA-binding protein; SMART: histone family protein DNA-binding protein; KEGG: cha:CHAB381_0798 DNA-binding protein HU 1 (DNA-binding protein II) (HB); Belongs to the bacterial histone-like protein family. (93 aa) |
| | Smon_0789 | Glycogen/starch/alpha-glucan phosphorylase; Phosphorylase is an important allosteric enzyme in carbohydrate metabolism. Enzymes from different sources differ in their regulatory mechanisms and in their natural substrates. However, all known phosphorylases share catalytic and structural properties. (818 aa) |
| | rsmH | S-adenosyl-methyltransferase MraW; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (309 aa) |
| | Smon_0785 | KEGG: bcb:BCB4264_A3839 exodeoxyribonuclease III; TIGRFAM: exodeoxyribonuclease III Xth; exodeoxyribonuclease III; PFAM: Endonuclease/exonuclease/phosphatase. (251 aa) |
| | glgC | Nucleotidyl transferase; 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. (417 aa) |
| | glgA | Glycogen/starch synthase, ADP-glucose type; Synthesizes alpha-1,4-glucan chains using ADP-glucose. (463 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. (448 aa) |
| | Smon_0775 | PFAM: protein of unknown function DUF147; KEGG: bsu:BSU00880 DNA integrity scanning protein DisA; Belongs to the DisA family. (349 aa) |
| | rimP | Protein of unknown function DUF150; Required for maturation of 30S ribosomal subunits. Belongs to the RimP family. (164 aa) |
| | infB | Translation initiation factor IF-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. (894 aa) |
| | Smon_0768 | PFAM: phosphoesterase RecJ domain protein; phosphoesterase DHHA1; KEGG: bsu:BSU27620 hypothetical protein. (557 aa) |
| | murJ | Integral membrane protein MviN; Involved in peptidoglycan biosynthesis. Transports lipid- linked peptidoglycan precursors from the inner to the outer leaflet of the cytoplasmic membrane. (495 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. (599 aa) |
| | tdk | PFAM: thymidine kinase; KEGG: bsu:BSU37060 thymidine kinase. (358 aa) |
| | dnaX | DNA polymerase III, subunits gamma and tau; 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. (455 aa) |
| | rplI | Ribosomal protein L9; Binds to the 23S rRNA. (150 aa) |
| | Smon_0739 | Replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity. Belongs to the helicase family. DnaB subfamily. (463 aa) |
| | Smon_0716 | DNA-(apurinic or apyrimidinic site) lyase; KEGG: rec:RHECIAT_PB0000014 putative N- glycosylase/DNA lyase protein, HhH-GPD family; PFAM: HhH-GPD family protein; SMART: HhH-GPD family protein. (217 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 [...] (144 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. (402 aa) |
| | Smon_0705 | GTP-binding protein HSR1-related protein; Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity; Belongs to the TRAFAC class YlqF/YawG GTPase family. MTG1 subfamily. (298 aa) |
| | rsmI | Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (226 aa) |
| | Smon_0689 | Hypothetical protein. (1084 aa) |
| | Smon_0664 | PFAM: RNA-directed DNA polymerase (Reverse transcriptase); intron maturase type II; KEGG: bpt:Bpet4285 mobile mitochondrial group II intron of COX1 which IS involved in pre-mRNA splicing and in deletion of introns from mitochondrial DNA. (605 aa) |
| | Smon_0663 | Hypothetical protein; KEGG: hsm:HSM_1190 relaxase/mobilization nuclease family protein. (364 aa) |
| | Smon_0659 | PFAM: protein of unknown function DUF450; type III restriction protein res subunit; SMART: DEAD-like helicase; KEGG: dde:Dde_1859 DEAD/DEAH box helicase-like. (969 aa) |
| | Smon_0658 | PFAM: restriction modification system DNA specificity domain; KEGG: dde:Dde_1860 type I restriction enzyme, S subunit. (473 aa) |
| | Smon_0657 | PFAM: N-6 DNA methylase; KEGG: dde:Dde_1861 type I restriction-modification system specificity subunit. (725 aa) |
| | Smon_0654 | RNA-directed DNA polymerase. (544 aa) |
| | Smon_0646 | PFAM: replication initiator A domain protein. (251 aa) |
| | Smon_0643 | TIGRFAM: RNA methyltransferase, TrmA family; PFAM: (Uracil-5)-methyltransferase; KEGG: RNA methyltransferase; K00599; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (466 aa) |
| | Smon_0641 | Excinuclease ABC, A subunit; 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. (938 aa) |
| | ruvA | Holliday junction DNA helicase 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) |
| | murI | Glutamate racemase; Provides the (R)-glutamate required for cell wall biosynthesis. (256 aa) |
| | Smon_0637 | KEGG: pub:SAR11_1000 DNA polymerase III. (294 aa) |
| | cysS | TIGRFAM: cysteinyl-tRNA synthetase; PFAM: Cysteinyl-tRNA synthetase class Ia; tRNA synthetase class I (M); Cysteinyl-tRNA synthetase class Ia DALR; KEGG: bcb:BCB4264_A0110 cysteinyl-tRNA synthetase; Belongs to the class-I aminoacyl-tRNA synthetase family. (457 aa) |
| | mutS2 | MutS2 family protein; Endonuclease that is involved in the suppression of homologous recombination and may therefore have a key role in the control of bacterial genetic diversity; Belongs to the DNA mismatch repair MutS family. MutS2 subfamily. (779 aa) |
| | rpmF | TIGRFAM: ribosomal protein L32; PFAM: ribosomal L32p protein; KEGG: mno:Mnod_5920 ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family. (63 aa) |
| | mltG | Aminodeoxychorismate lyase; Functions as a peptidoglycan terminase that cleaves nascent peptidoglycan strands endolytically to terminate their elongation. (310 aa) |
| | xseB | Exonuclease VII small subunit; 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. (65 aa) |
| | Smon_0618 | TIGRFAM: methyltransferase; PFAM: Protein of unknown function methylase putative; KEGG: bha:BH2590 hypothetical protein. (183 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. (359 aa) |
| | prfA | Peptide chain release factor 1; Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA. (358 aa) |
| | Smon_0612 | PFAM: Amidase; KEGG: dol:Dole_2535 amidase; Belongs to the amidase family. (529 aa) |
| | Smon_0609 | SMART: serine/threonine protein kinase; KEGG: Protein kinase domain containing protein. (229 aa) |
| | trmB | tRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (231 aa) |
| | Smon_0597 | TIGRFAM: penicillin-binding protein, 1A family; PFAM: glycosyl transferase family 51; penicillin- binding protein transpeptidase; KEGG: cco:CCC13826_0048 succinate dehydrogenase, iron-sulfur protein subunit. (665 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; Belongs to the radical SAM superfamily. RlmN family. (353 aa) |
| | rph | Ribonuclease PH; Phosphorolytic 3'-5' exoribonuclease that plays an important role in tRNA 3'-end maturation. Removes nucleotide residues following the 3'-CCA terminus of tRNAs; can also add nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates, but this may not be physiologically important. Probably plays a role in initiation of 16S rRNA degradation (leading to ribosome degradation) during starvation. (231 aa) |
| | Smon_0590 | PFAM: methyltransferase small; KEGG: bsu:BSU00340 hypothetical protein; Belongs to the methyltransferase superfamily. (237 aa) |
| | glmM | Phosphoglucosamine mutase; Catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate; Belongs to the phosphohexose mutase family. (453 aa) |
| | Smon_0585 | PFAM: helix-turn-helix domain protein; SMART: helix-turn-helix domain protein. (207 aa) |
| | Smon_0578 | KEGG: ecn:Ecaj_0815 DNA polymerase III, beta subunit; TIGRFAM: DNA polymerase III, beta subunit; PFAM: DNA polymerase III beta chain; SMART: DNA polymerase III beta chain. (371 aa) |
| | Smon_0571 | RNA methyltransferase, TrmA family; KEGG: bha:BH0687 RNA methyltransferase; TIGRFAM: RNA methyltransferase, TrmA family; PFAM: (Uracil-5)-methyltransferase; deoxyribonuclease/rho motif-related TRAM; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (473 aa) |
| | Smon_0567 | TIGRFAM: hydrolase, TatD family; PFAM: TatD-related deoxyribonuclease; KEGG: bsu:BSU00390 hypothetical protein. (256 aa) |
| | Smon_0565 | PFAM: heat shock protein DnaJ domain protein; KEGG: abu:Abu_1033 DnaJ domain-containing protein. (163 aa) |
| | Smon_0561 | PFAM: tRNA/rRNA methyltransferase (SpoU); KEGG: bha:BH3112 rRNA methylase. (254 aa) |
| | Smon_0558 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | Smon_0542 | Ribonucleoside-diphosphate reductase; Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides; Belongs to the ribonucleoside diphosphate reductase small chain family. (333 aa) |
| | Smon_0541 | Ribonucleoside-diphosphate reductase, alpha subunit; Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides. (694 aa) |
| | Smon_0535 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | rpsO | Ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome. (87 aa) |
| | rpsT | Ribosomal protein S20; Binds directly to 16S ribosomal RNA. (88 aa) |
| | Smon_0526 | TIGRFAM: ribosomal protein L31; PFAM: ribosomal protein L31; KEGG: mms:mma_0620 50S ribosomal protein L31; Belongs to the bacterial ribosomal protein bL31 family. (79 aa) |
| | Smon_0523 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | rplA | Ribosomal protein L1; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release. (235 aa) |
| | rplK | Ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (144 aa) |
| | rpmG | TIGRFAM: ribosomal protein L33; PFAM: ribosomal protein L33; KEGG: bcy:Bcer98_3067 50S ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family. (49 aa) |
| | Smon_0515 | KEGG: nis:NIS_1503 hypothetical protein. (84 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. (273 aa) |
| | uvrC | Excinuclease ABC, C subunit; 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. (588 aa) |
| | Smon_0501 | PFAM: peptidase S11 D-alanyl-D-alanine carboxypeptidase 1; beta-lactamase; KEGG: bce:BC4075 D-alanyl-D-alanine carboxypeptidase; Belongs to the peptidase S11 family. (375 aa) |
| | nth | Endonuclease III; 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. (215 aa) |
| | rpmA | TIGRFAM: ribosomal protein L27; PFAM: ribosomal protein L27; KEGG: gbm:Gbem_0163 ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family. (93 aa) |
| | rplU | Ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (98 aa) |
| | Smon_0495 | PFAM: UvrD/REP helicase; KEGG: abu:Abu_2069 ATP-dependent DNA helicase UvrD. (981 aa) |
| | Smon_0494 | KEGG: hypothetical protein. (618 aa) |
| | Smon_0493 | KEGG: hypothetical protein. (221 aa) |
| | rplT | Ribosomal protein L20; 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. (116 aa) |
| | rpmI | TIGRFAM: ribosomal protein L35; PFAM: ribosomal protein L35; KEGG: sat:SYN_01719 50S ribosomal protein L35P; Belongs to the bacterial ribosomal protein bL35 family. (68 aa) |
| | infC | Translation initiation factor IF-3; 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. (177 aa) |
| | dnaG | DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. Belongs to the DnaG primase family. (595 aa) |
| | rplL | Ribosomal protein L7/L12; 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. (121 aa) |
| | rplJ | Ribosomal protein L10; 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. (164 aa) |
| | Smon_0439 | Hypothetical protein; KEGG: cco:CCC13826_1620 uracil-DNA glycosylase superfamily protein. (188 aa) |
| | Smon_0435 | PFAM: integrase family protein; integrase domain protein SAM domain protein; KEGG: bcb:BCB4264_A4199 integrase/recombinase XerD; Belongs to the 'phage' integrase family. (299 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 [...] (768 aa) |
| | asnS | TIGRFAM: asparaginyl-tRNA synthetase; PFAM: tRNA synthetase class II (D K and N); nucleic acid binding OB-fold tRNA/helicase-type; KEGG: bba:Bd1054 asparaginyl-tRNA synthetase. (460 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. (865 aa) |
| | recR | Recombination 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. (195 aa) |
| | trpS | tryptophanyl-tRNA synthetase; Catalyzes the attachment of tryptophan to tRNA(Trp). Belongs to the class-I aminoacyl-tRNA synthetase family. (324 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. (291 aa) |
| | Smon_0403 | PFAM: peptidase S11 D-alanyl-D-alanine carboxypeptidase 1; KEGG: mms:mma_3248 D-alanyl-D-alanine carboxypeptidase; Belongs to the peptidase S11 family. (281 aa) |
| | pnp | Polyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (732 aa) |
| | Smon_0394 | TIGRFAM: DNA adenine methylase; PFAM: D12 class N6 adenine-specific DNA methyltransferase; KEGG: wsu:WS1405 methyltransferase. (345 aa) |
| | thrS | threonyl-tRNA synthetase; 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). (633 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. (308 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) |
| | priA | Primosomal protein N; 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. (643 aa) |
| | gatB | glutamyl-tRNA(Gln) amidotransferase, B subunit; 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 | glutamyl-tRNA(Gln) amidotransferase, A subunit; 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). (479 aa) |
| | gatC | glutamyl-tRNA(Gln) amidotransferase, C subunit; 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. (98 aa) |
| | Smon_0366 | PFAM: DNA polymerase III delta; KEGG: conserved hypothetical protein. (295 aa) |
| | murA | UDP-N-acetylglucosamine1- carboxyvinyltransferase; Cell wall formation. Adds enolpyruvyl to UDP-N- acetylglucosamine; Belongs to the EPSP synthase family. MurA subfamily. (422 aa) |
| | Smon_0358 | PFAM: integrase family protein; integrase domain protein SAM domain protein; KEGG: bha:BH1529 integrase/recombinase; Belongs to the 'phage' integrase family. (287 aa) |
| | Smon_0354 | DNA repair protein RecN; May be involved in recombinational repair of damaged DNA. (542 aa) |
| | leuS | TIGRFAM: leucyl-tRNA synthetase; KEGG: gme:Gmet_2300 leucyl-tRNA synthetase; Belongs to the class-I aminoacyl-tRNA synthetase family. (865 aa) |
| | Smon_0348 | TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; KEGG: bha:BH0113 tRNA/rRNA methyltransferase; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (232 aa) |
| | rplQ | TIGRFAM: ribosomal protein L17; PFAM: ribosomal protein L17; KEGG: rplQ; 50S ribosomal protein L17. (125 aa) |
| | rpsD | Ribosomal protein S4; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit. (195 aa) |
| | rpsK | Ribosomal protein S11; 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. (127 aa) |
| | rpsM | Ribosomal protein S13; 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. (121 aa) |
| | rpmJ | TIGRFAM: ribosomal protein L36; PFAM: ribosomal protein L36; KEGG: aba:Acid345_1250 LSU ribosomal protein L36P; Belongs to the bacterial ribosomal protein bL36 family. (37 aa) |
| | infA | Translation initiation factor IF-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) |
| | rnhB | Ribonuclease H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (199 aa) |
| | argS | KEGG: apa:APP7_0039 arginyl-tRNA synthetase; TIGRFAM: arginyl-tRNA synthetase. (572 aa) |
| | polC | DNA polymerase III, alpha subunit; Required for replicative DNA synthesis. This DNA polymerase also exhibits 3' to 5' exonuclease activity. (1465 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. (362 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 [...] (574 aa) |
| | Smon_0294 | PFAM: Domain of unknown function DUF1957; glycoside hydrolase family 57; KEGG: ank:AnaeK_1135 domain of unknown function DUF1957; Belongs to the glycosyl hydrolase 57 family. (524 aa) |
| | rpmB | TIGRFAM: ribosomal protein L28; PFAM: ribosomal protein L28; KEGG: csa:Csal_2971 LSU ribosomal protein L28P; Belongs to the bacterial ribosomal protein bL28 family. (87 aa) |
| | Smon_0289 | Site-specific DNA-methyltransferase (adenine- specific); PFAM: D12 class N6 adenine-specific DNA methyltransferase; KEGG: hpg:HPG27_1422 type II methylase. (337 aa) |
| | Smon_0272 | KEGG: cjr:CJE0603 hypothetical protein; Belongs to the methyltransferase superfamily. (203 aa) |
| | Smon_0266 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | Smon_0263 | KEGG: hypothetical protein. (200 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. (879 aa) |
| | Smon_0218 | PFAM: transposase IS200-family protein; KEGG: hpy:HP1008 IS200 insertion sequence from SARA17. (146 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; 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. (292 aa) |
| | rpsB | TIGRFAM: ribosomal protein S2; PFAM: ribosomal protein S2; KEGG: bha:BH2427 30S ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family. (257 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. (492 aa) |
| | rplW | Ribosomal protein L25/L23; 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. (94 aa) |
| | rplD | Ribosomal protein L4/L1e; Forms part of the polypeptide exit tunnel. (214 aa) |
| | rplC | Ribosomal protein L3; 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; Belongs to the universal ribosomal protein uL3 family. (208 aa) |
| | rpsJ | Ribosomal protein S10; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (102 aa) |
| | tuf | Translation elongation factor Tu; This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis. (394 aa) |
| | fusA | Translation elongation factor 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. EF-G/EF-2 s [...] (691 aa) |
| | rpsG | Ribosomal protein S7; 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. (156 aa) |
| | rpsL | Ribosomal protein S12; 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. (123 aa) |
| | Smon_0160 | TIGRFAM: DNA-cytosine methyltransferase; PFAM: C-5 cytosine-specific DNA methylase; KEGG: ngk:NGK_2479 modification methylase NgoPII. (328 aa) |
| | Smon_0131 | PFAM: B3/4 domain protein; KEGG: mlo:mll6378 hypothetical protein. (231 aa) |
| | Smon_0124 | PFAM: Heparinase II/III family protein; KEGG: bat:BAS5121 hypothetical protein. (594 aa) |
| | Smon_0103 | PFAM: acyltransferase 3; KEGG: bsu:BSU27140 hypothetical protein. (584 aa) |
| | Smon_0100 | KEGG: abu:Abu_0282 hypothetical protein. (450 aa) |
| | mnmE | tRNA modification GTPase TrmE; Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. TrmE GTPase family. (455 aa) |
| | rpmH | TIGRFAM: ribosomal protein L34; PFAM: ribosomal protein L34; KEGG: lpc:LPC_3320 50S ribosomal protein L34; Belongs to the bacterial ribosomal protein bL34 family. (44 aa) |
| | murB | UDP-N-acetylenolpyruvoylglucosamine reductase; Cell wall formation. (283 aa) |
| | murC | UDP-N-acetylmuramate/alanine ligase; Cell wall formation; Belongs to the MurCDEF family. (445 aa) |
| | Smon_0088 | Site-specific DNA-methyltransferase (adenine- specific); PFAM: DNA methylase N-4/N-6 domain protein; KEGG: hpa:HPAG1_0048 type II DNA modification enzyme. (369 aa) |
| | murE | UDP-N-acetylmuramyl-tripeptide synthetase; 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. (476 aa) |
| | Smon_0080 | TIGRFAM: single-stranded-DNA-specific exonuclease RecJ; PFAM: phosphoesterase RecJ domain protein; phosphoesterase DHHA1; KEGG: sat:SYN_02529 single-stranded DNA-specific exonuclease. (883 aa) |
| | Smon_0060 | DNA-cytosine methyltransferase; KEGG: rbe:RBE_1392 site-specific DNA methylase; TIGRFAM: DNA-cytosine methyltransferase; PFAM: C-5 cytosine-specific DNA methylase. (329 aa) |
| | Smon_0058 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | mfd | DEAD/DEAH box helicase domain protein; 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. (900 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. (358 aa) |
| | murG | Undecaprenyldiphospho-muramoylpentapeptidebeta-N -acetylglucosaminyltransferase; 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. (348 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. (457 aa) |
| | mraY | phospho-N-acetylmuramoyl-pentapeptide-transferas e; First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan; Belongs to the glycosyltransferase 4 family. MraY subfamily. (362 aa) |
| | Smon_0025 | TIGRFAM:UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-di aminopimelate/D-alanyl-D-alanylligase; PFAM: Mur ligase middle domain protein; cytoplasmic peptidoglycan synthetase domain protein; KEGG: bca:BCE_2244 UDP-N-acetylmuramoylalanyl-D- glutamyl-2,6-diaminopimelate--D-alanyl- D-alanyl ligase, degenerate. (405 aa) |
| | Smon_0023 | PFAM: glycoside hydrolase family 25; SMART: glycoside hydrolase family 25; KEGG: ban:BA3501 lysozyme, putative. (233 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). (422 aa) |
| | rplM | Ribosomal protein L13; 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. (144 aa) |
| | rpsI | PFAM: ribosomal protein S9; KEGG: bha:BH0169 30S ribosomal protein S9; Belongs to the universal ribosomal protein uS9 family. (130 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. (848 aa) |
| | dnaA | Chromosomal replication initiator 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. Belongs to the DnaA family. (441 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. (365 aa) |
| | Smon_1492 | Hypothetical protein. (89 aa) |
| | rpsF | Ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA. (93 aa) |
| | Smon_1480 | TIGRFAM: single-strand binding protein; PFAM: single-strand binding protein/Primosomal replication protein n; KEGG: bcb:BCB4264_A2176 single-stranded DNA-binding protein. (134 aa) |
| | rpsR | Ribosomal protein S18; 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. (77 aa) |
| | Smon_1474 | KEGG: bcr:BCAH187_A4730 DNA polymerase III, alpha subunit; TIGRFAM: DNA polymerase III, alpha subunit; PFAM: DNA polymerase III alpha subunit; PHP domain protein; SMART: phosphoesterase PHP domain protein. (1056 aa) |
| | Smon_1455 | KEGG: prw:PsycPRwf_1121 hypothetical protein. (305 aa) |
| | Smon_1453 | PFAM: Eco57I restriction endonuclease; KEGG: ajs:Ajs_0197 Eco57I restriction endonuclease. (348 aa) |
| | rpsP | TIGRFAM: ribosomal protein S16; PFAM: ribosomal protein S16; KEGG: gsu:GSU0643 30S ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (88 aa) |
| | glmU | UDP-N-acetylglucosamine pyrophosphorylase; 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. (450 aa) |
| | Smon_1427 | PFAM: NUDIX hydrolase; KEGG: dps:DP2873 7,8-dihydro-8-oxoguanine- triphosphatase. (151 aa) |
| | Smon_1419 | Site-specific DNA-methyltransferase (adenine- specific); PFAM: DNA methylase N-4/N-6 domain protein; KEGG: bcr:BCAH187_A5299 DNA methylase domain protein. (528 aa) |
| | Smon_1417 | KEGG: rsh:Rsph17029_3199 hypothetical protein. (380 aa) |
| | uppP | Undecaprenol kinase; Catalyzes the dephosphorylation of undecaprenyl diphosphate (UPP). Confers resistance to bacitracin; Belongs to the UppP family. (268 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 [...] (378 aa) |
| | Smon_1346 | Hypothetical protein. (65 aa) |
| | Smon_1329 | DNA-directed DNA polymerase; PFAM: UMUC domain protein DNA-repair protein; KEGG: UV damage repair protein, ImpB/MucB/SamB family; Belongs to the DNA polymerase type-Y family. (421 aa) |
| | rplB | Ribosomal protein L2; 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 | Ribosomal protein S19; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (87 aa) |
| | rplV | Ribosomal protein L22; 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. (110 aa) |
| | rpsC | Ribosomal protein S3; 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. (219 aa) |
| | rplP | Ribosomal protein L16; 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. (140 aa) |
| | rpmC | TIGRFAM: ribosomal protein L29; PFAM: ribosomal protein L29; KEGG: bsu:BSU01240 50S ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family. (63 aa) |
| | rpsQ | Ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (84 aa) |
| | rplN | Ribosomal protein L14; 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 | Ribosomal protein L24; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (127 aa) |
| | rplE | Ribosomal protein L5; 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. (184 aa) |
| | rpsN | Ribosomal protein S14; 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. (95 aa) |
| | rpsH | Ribosomal protein S8; 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 | Ribosomal protein L6; 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 | Ribosomal protein L18; 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. (120 aa) |
| | rpsE | Ribosomal protein S5; Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body. Belongs to the universal ribosomal protein uS5 family. (165 aa) |
| | rpmD | TIGRFAM: ribosomal protein L30; PFAM: ribosomal protein L30; KEGG: pmr:PMI3273 50S ribosomal protein L30. (59 aa) |
| | rplO | Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (178 aa) |
| | Smon_1264 | PFAM: RNA-binding S4 domain protein; SMART: RNA-binding S4 domain protein; KEGG: bcy:Bcer98_2546 RNA-binding S4 domain- containing protein. (245 aa) |
| | gyrB | DNA gyrase, B 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. (660 aa) |
| | gyrA | DNA gyrase, A 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. (870 aa) |
| | pheS | KEGG: pca:Pcar_1422 phenylalanyl-tRNA synthetase, alpha subunit; TIGRFAM: phenylalanyl-tRNA synthetase, alpha subunit; PFAM: phenylalanyl-tRNA synthetase class IIc; aminoacyl tRNA synthetase class II domain protein; Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily. (338 aa) |
| | pheT | TIGRFAM: phenylalanyl-tRNA synthetase, beta subunit; KEGG: sat:SYN_01723 phenylalanyl-tRNA synthetase beta chain. (806 aa) |
| | Smon_1246 | KEGG: nmn:NMCC_1163 type II restriction enzyme NlaIV. (224 aa) |
| | Smon_1245 | TIGRFAM: DNA-cytosine methyltransferase; PFAM: C-5 cytosine-specific DNA methylase; KEGG: nmn:NMCC_1162 DNA (cytosine-5-)- methyltransferase. (438 aa) |
| | Smon_1234 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | Smon_1233 | KEGG: msu:MS0633 anaerobic ribonucleoside triphosphate reductase; TIGRFAM: anaerobic ribonucleoside-triphosphate reductase; PFAM: ATP-cone domain protein; formate C- acetyltransferase glycine radical. (704 aa) |
| | Smon_1207 | PFAM: Fibronectin-binding A domain protein; protein of unknown function DUF814; KEGG: bcb:BCB4264_A3974 putative fibronectin- binding protein. (520 aa) |
| | Smon_1202 | PFAM: integrase family protein; KEGG: tdn:Suden_0800 phage integrase. (346 aa) |
| | Smon_1198 | PFAM: replication initiator A domain protein; KEGG: bcb:BCB4264_A3622 replication protein, putative. (117 aa) |
| | Smon_1193 | PFAM: MobA/MobL protein; KEGG: sbc:SbBS512_D0003 mobilization protein A. (507 aa) |
| | Smon_1163 | KEGG: baa:BXB0107 hypothetical protein. (306 aa) |
| | Smon_1157 | PFAM: DNA topoisomerase type IA central domain protein; TOPRIM domain protein; SMART: DNA topoisomerase I DNA-binding; Toprim sub domain protein; DNA topoisomerase I ATP-binding; KEGG: vfi:VF_B0046 DNA topoisomerase III. (667 aa) |
| | mnmG-2 | Glucose inhibited division protein A; NAD-binding protein involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA-cmnm(5)s(2)U34; Belongs to the MnmG family. (619 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. (348 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. (689 aa) |
| | Smon_1111 | PFAM: protein of unknown function DUF34; KEGG: NIF3-like protein 1, putative. (255 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. (861 aa) |
| | Smon_1095 | PFAM: RNA binding S1 domain protein; SMART: Resolvase RNase H domain protein fold; RNA binding S1 domain protein; KEGG: bcy:Bcer98_0241 RNA-binding S1 domain- containing protein. (762 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). (928 aa) |
| | glyQ | KEGG: pca:Pcar_0598 glycyl-tRNA synthetase subunit alpha; TIGRFAM: glycyl-tRNA synthetase, alpha subunit; PFAM: glycyl-tRNA synthetase alpha subunit. (293 aa) |
| | glyS | KEGG: bha:BH1371 glycyl-tRNA synthetase subunit beta; TIGRFAM: glycyl-tRNA synthetase, beta subunit; PFAM: glycyl-tRNA synthetase beta subunit. (668 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. (334 aa) |
| | Smon_1088 | Protein of unknown function DUF558; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit. (233 aa) |
| | Smon_1085 | Penicillin-binding protein 2; KEGG: prw:PsycPRwf_0800 peptidoglycan glycosyltransferase; TIGRFAM: penicillin-binding protein 2; PFAM: penicillin-binding protein transpeptidase; Penicillin-binding protein dimerisation domain. (625 aa) |
| | rsmG | Methyltransferase GidB; Specifically methylates the N7 position of a guanine in 16S rRNA; Belongs to the methyltransferase superfamily. RNA methyltransferase RsmG family. (231 aa) |
| | ddl | D-alanine/D-alanine ligase; Cell wall formation; Belongs to the D-alanine--D-alanine ligase family. (299 aa) |
| | Smon_1072 | Hypothetical protein; KEGG: Dsec_Top2; GM17008 gene product from transcript GM17008-RA. (215 aa) |
| | Smon_1071 | PFAM: DNA methylase N-4/N-6 domain protein; KEGG: tdn:Suden_1355 site-specific DNA- methyltransferase (adenine-specific); Belongs to the N(4)/N(6)-methyltransferase family. (391 aa) |
| | hisS | KEGG: bba:Bd1107 histidyl-tRNA synthetase; TIGRFAM: histidyl-tRNA synthetase; PFAM: tRNA synthetase class II (G H P and S); Anticodon-binding domain protein. (414 aa) |
| | aspS | aspartyl-tRNA synthetase; Catalyzes the attachment of L-aspartate to tRNA(Asp) in a two-step reaction: L-aspartate is first activated by ATP to form Asp- AMP and then transferred to the acceptor end of tRNA(Asp). Belongs to the class-II aminoacyl-tRNA synthetase family. Type 1 subfamily. (587 aa) |
| | cas9 | CRISPR-associated protein, Csn1 family; CRISPR (clustered regularly interspaced short palindromic repeat) is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain spacers, sequences complementary to antecedent mobile elements, and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). In type II CRISPR systems correct processing of pre-crRNA requires a trans- encoded small RNA (tracrRNA), endogenous ribonuclease 3 (rnc) and this [...] (1259 aa) |
| | cas1 | CRISPR-associated protein Cas1; CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain spacers, sequences complementary to antecedent mobile elements, and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Acts as a dsDNA endonuclease. Involved in the integration of spacer DNA into the CRISPR cassette. (308 aa) |
| | cas2 | CRISPR-associated protein Cas2; CRISPR (clustered regularly interspaced short palindromic repeat), is an adaptive immune system that provides protection against mobile genetic elements (viruses, transposable elements and conjugative plasmids). CRISPR clusters contain sequences complementary to antecedent mobile elements and target invading nucleic acids. CRISPR clusters are transcribed and processed into CRISPR RNA (crRNA). Functions as a ssRNA-specific endoribonuclease. Involved in the integration of spacer DNA into the CRISPR cassette. (104 aa) |
| | Smon_1054 | TIGRFAM: translation elongation factor Tu; small GTP-binding protein; PFAM: protein synthesis factor GTP-binding; elongation factor Tu domain protein; elongation factor Tu domain 2 protein; KEGG: aha:AHA_4036 elongation factor Tu. (394 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. (606 aa) |
| | Smon_1038 | PFAM: putative RNA methylase; KEGG: dal:Dalk_2235 hypothetical protein; Belongs to the N(4)/N(6)-methyltransferase family. (249 aa) |
| | rlmH | Protein of unknown function DUF163; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (154 aa) |
| | lysS | TIGRFAM: lysyl-tRNA synthetase; PFAM: tRNA synthetase class II (D K and N); nucleic acid binding OB-fold tRNA/helicase-type; KEGG: gsu:GSU2271 lysyl-tRNA synthetase; Belongs to the class-II aminoacyl-tRNA synthetase family. (496 aa) |
| | Smon_1013 | Hypothetical protein; KEGG: vsa:pVSAL840_45 transposase. (407 aa) |
| | Smon_1012 | TIGRFAM: small GTP-binding protein; PFAM: elongation factor G domain IV; elongation factor G domain protein; protein synthesis factor GTP- binding; KEGG: sat:SYN_02930 elongation factor G. (659 aa) |
| | efp | Translation elongation factor P; 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. (190 aa) |
| | Smon_0990 | tRNA/rRNA methyltransferase (SpoU); Could methylate the ribose at the nucleotide 34 wobble position in tRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. TrmL subfamily. (172 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; Belongs to the class-I aminoacyl-tRNA synthetase family. MetG type 2B subfamily. (624 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. (200 aa) |
| | Smon_0964 | PFAM: UvrD/REP helicase; KEGG: bcy:Bcer98_0285 ATP-dependent DNA helicase PcrA. (735 aa) |
| | Smon_0957 | PFAM: methyltransferase small; Methyltransferase type 12; KEGG: bcz:BCZK0095 methyltransferase. (202 aa) |
| | mnmG | Glucose inhibited division protein A; NAD-binding protein involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA-cmnm(5)s(2)U34; Belongs to the MnmG family. (635 aa) |
| | Smon_0949 | PFAM: Uracil-DNA glycosylase superfamily; KEGG: uracil-DNA glycosylase; K03648 uracil-DNA glycosylase; Belongs to the uracil-DNA glycosylase (UDG) superfamily. UNG family. (537 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. (675 aa) |
| | Smon_0930 | TIGRFAM: rod shape-determining protein RodA; PFAM: cell cycle protein; KEGG: rod shape-determining protein RodA; K05837 rod shape determining protein RodA; Belongs to the SEDS family. (371 aa) |
