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| | deaD | Cold-shock DEAD-box protein A; DEAD-box RNA helicase involved in various cellular processes at low temperature, including ribosome biogenesis, mRNA degradation and translation initiation. (651 aa) |
| | truB | tRNA pseudouridine synthase B; Responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of transfer RNAs; Belongs to the pseudouridine synthase TruB family. Type 1 subfamily. (314 aa) |
| | ftsJ | Ribosomal RNA large subunit methyltransferase J; Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit. (209 aa) |
| | cafA | Ribonuclease G; Involved in the processing of the 5'-end of 16S rRNA. Could be involved in chromosome segregation and cell division. It may be one of the components of the cytoplasmic axial filaments bundles or merely regulate the formation of this structure (By similarity). (495 aa) |
| | yhdG | Hypothetical protein yhdG; Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines; Belongs to the Dus family. DusB subfamily. (321 aa) |
| | yrdD | Hypothetical protein yrdD; Escherichia coli K-12 ortholog: b3283; Escherichia coli O157:H7 ortholog: z4654. (180 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. (315 aa) |
| | sun | SUN protein; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA. (429 aa) |
| | rpoA | DNA-directed RNA polymerase alpha chain; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (329 aa) |
| | trpS | Tryptophanyl-tRNA synthetase; Catalyzes the attachment of tryptophan to tRNA(Trp). Belongs to the class-I aminoacyl-tRNA synthetase family. (334 aa) |
| | dam | DNA adenine methylase; Escherichia coli K-12 ortholog: b3387; Escherichia coli O157:H7 ortholog: z4740. (278 aa) |
| | rtcA | RNA 3'-terminal phosphate cyclase; Catalyzes the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. The mechanism of action of the enzyme occurs in 3 steps: (A) adenylation of the enzyme by ATP; (B) transfer of adenylate to an RNA-N3'P to produce RNA-N3'PP5'A; (C) and attack of the adjacent 2'-hydroxyl on the 3'-phosphorus in the diester linkage to produce the cyclic end product. The biological role of this enzyme is unknown but it is likely to function in some aspects of cellular RNA processing. (339 aa) |
| | rtcB | Protein rtcB; Escherichia coli K-12 ortholog: b3421; Escherichia coli O157:H7 ortholog: z4779. (429 aa) |
| | c4223 | Putative conserved protein; Residues 6 to 340 of 699 are 37.53 pct identical to residues 14 to 331 of 610 from MG1655 : b3822. (699 aa) |
| | yhhF | Putative methylase yhhF; Specifically methylates the guanine in position 966 of 16S rRNA in the assembled 30S particle; Belongs to the methyltransferase superfamily. RsmD family. (198 aa) |
| | yhiQ | Hypothetical protein yhiQ; Specifically methylates the guanosine in position 1516 of 16S rRNA. (271 aa) |
| | yhiR | Hypothetical protein yhiR; Specifically methylates the adenine in position 2030 of 23S rRNA. (297 aa) |
| | tag | DNA-3-methyladenine glycosylase I; Escherichia coli K-12 ortholog: b3549; Escherichia coli O157:H7 ortholog: z4974. (242 aa) |
| | glyS | Glycyl-tRNA synthetase beta chain; Escherichia coli K-12 ortholog: b3559; Escherichia coli O157:H7 ortholog: z4983. (689 aa) |
| | glyQ | Glycyl-tRNA synthetase alpha chain; Escherichia coli K-12 ortholog: b3560; Escherichia coli O157:H7 ortholog: z4984. (303 aa) |
| | selA | L-seryl-tRNA(Sec) selenium transferase; Converts seryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis; Belongs to the SelA family. (463 aa) |
| | yibK | Hypothetical tRNA/rRNA methyltransferase yibK; 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. (157 aa) |
| | mutM | Formamidopyrimidine-DNA glycosylase; 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. (269 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. (246 aa) |
| | yicF | Hypothetical DNA ligase-like protein yicF; 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. Belongs to the NAD-dependent DNA ligase family. LigB subfamily. (562 aa) |
| | rpoZ | DNA-directed RNA polymerase omega chain; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits (By similarity). (91 aa) |
| | spoU | tRNA (Guanosine-2'-O-)-methyltransferase; Catalyzes the 2'-O methylation of guanosine at position 18 in tRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (229 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. (704 aa) |
| | c4498 | IS1 protein InsB; Escherichia coli O157:H7 ortholog: z1632. (105 aa) |
| | insB | Insertion element IS1 1/5/6 protein insB; Escherichia coli K-12 ortholog: b3445; Escherichia coli O157:H7 ortholog: z1562. (119 aa) |
| | insI | Transposase insI for insertion sequence element IS30B/C/D; Escherichia coli K-12 ortholog: b4284; Escherichia coli O157:H7 ortholog: z2993. (383 aa) |
| | c4552 | Transposase insC for insertion element IS2A/D/F/H/I/K; Escherichia coli K-12 ortholog: b4272. (111 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. (805 aa) |
| | dnaN | DNA polymerase III, beta chain; 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 r [...] (366 aa) |
| | rnpA | Ribonuclease P protein component; RNaseP catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. The protein component plays an auxiliary but essential role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. (119 aa) |
| | gidB | Methyltransferase gidB; Specifically methylates the N7 position of guanine in position 527 of 16S rRNA. (207 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. (673 aa) |
| | rhlB | Putative ATP-dependent RNA helicase rhlB; DEAD-box RNA helicase involved in RNA degradation. Has RNA- dependent ATPase activity and unwinds double-stranded RNA. Belongs to the DEAD box helicase family. RhlB subfamily. (421 aa) |
| | rho | Transcription termination factor rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template. (443 aa) |
| | xerC | Integrase/recombinase xerC; Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. Binds cooperatively to specific DNA consensus sequences that are separated from XerD binding sites by a short central region, forming the heterotetrameric XerC-XerD complex that recombines DNA substrates. The 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. In the complex XerC specifically exchanges [...] (298 aa) |
| | uvrD | DNA helicase II; Escherichia coli K-12 ortholog: b3813; Escherichia coli O157:H7 ortholog: z5330. (738 aa) |
| | recQ | ATP-dependent DNA helicase recQ; Escherichia coli K-12 ortholog: b3822; Escherichia coli O157:H7 ortholog: z5343. (611 aa) |
| | yigW | Conserved hypothetical protein; 3'-5' exonuclease that prefers single-stranded DNA and RNA. May play a role in the H(2)O(2)-induced DNA damage repair. Belongs to the metallo-dependent hydrolases superfamily. TatD-type hydrolase family. TatD subfamily. (264 aa) |
| | yihZ | D-tyrosyl-tRNA(Tyr) deacylase; An aminoacyl-tRNA editing enzyme that deacylates mischarged D-aminoacyl-tRNAs. Also deacylates mischarged glycyl-tRNA(Ala), protecting cells against glycine mischarging by AlaRS. Acts via tRNA- based rather than protein-based catalysis; rejects L-amino acids rather than detecting D-amino acids in the active site. By recycling D- aminoacyl-tRNA to D-amino acids and free tRNA molecules, this enzyme counteracts the toxicity associated with the formation of D-aminoacyl- tRNA entities in vivo and helps enforce protein L-homochirality. Belongs to the DTD family. (145 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. (756 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). (366 aa) |
| | rpoB | DNA-directed RNA polymerase beta chain; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1353 aa) |
| | rpoC | DNA-directed RNA polymerase beta' chain; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1407 aa) |
| | yjaD | NADH pyrophosphatase; Escherichia coli K-12 ortholog: b3996; Escherichia coli O157:H7 ortholog: z5571. (257 aa) |
| | nfi | Endonuclease V; DNA repair enzyme involved in the repair of deaminated bases. Selectively cleaves double-stranded DNA at the second phosphodiester bond 3' to a deoxyinosine leaving behind the intact lesion on the nicked DNA. (223 aa) |
| | yjbC | Hypothetical protein yjbC; Dual specificity enzyme that catalyzes the synthesis of pseudouridine from uracil-2604 in 23S ribosomal RNA and from uracil-35 in the anticodon of tRNA(Tyr); Belongs to the pseudouridine synthase RsuA family. (290 aa) |
| | yjbN | Hypothetical protein yjbN; Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines. Specifically modifies U20 and U20a in tRNAs; Belongs to the Dus family. DusA subfamily. (331 aa) |
| | dnaB | 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. (483 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. (940 aa) |
| | lysU | Lysyl-tRNA synthetase, heat inducible; Escherichia coli K-12 ortholog: b4129; Escherichia coli O157:H7 ortholog: z5732; Belongs to the class-II aminoacyl-tRNA synthetase family. (514 aa) |
| | c5175 | Hypothetical protein; Residues 1 to 43 of 43 are 88.37 pct identical to residues 358 to 400 of 400 from GenPept.129 : >gb|AAK69271.1|AF336309_66 (AF336309) unknown [Yersinia enterocolitica]. (43 aa) |
| | c5176 | Putative Transposase within prophage; Required for the transposition of the insertion element. (260 aa) |
| | c5196 | Transposase insC for insertion element IS2A/D/F/H/I/K; Escherichia coli K-12 ortholog: b1997. (96 aa) |
| | c5215 | Conserved hypothetical protein; Residues 5 to 587 of 587 are 96.39 pct identical to residues 1 to 583 of 774 from GenPept.129 : >gb|AAK00457.1| (AF200692) unknown [Shigella flexneri 2a]. (587 aa) |
| | yjeA | Putative lysyl-tRNA synthetase; With EpmB is involved in the beta-lysylation step of the post-translational modification of translation elongation factor P (EF- P) on 'Lys-34'. Catalyzes the ATP-dependent activation of (R)-beta- lysine produced by EpmB, forming a lysyl-adenylate, from which the beta-lysyl moiety is then transferred to the epsilon-amino group of EF- P 'Lys-34'; Belongs to the class-II aminoacyl-tRNA synthetase family. EpmA subfamily. (352 aa) |
| | yjeR | Oligoribonuclease; 3'-to-5' exoribonuclease specific for small oligoribonucleotides. (220 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. (616 aa) |
| | miaA | tRNA delta(2)-isopentenylpyrophosphate transferase; Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A); Belongs to the IPP transferase family. (316 aa) |
| | vacB | Ribonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs. Belongs to the RNR ribonuclease family. RNase R subfamily. (827 aa) |
| | yjfH | Hypothetical tRNA/rRNA methyltransferase yjfH; Specifically methylates the ribose of guanosine 2251 in 23S rRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. RlmB subfamily. (243 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. (951 aa) |
| | holC | DNA polymerase III, chi subunit; Escherichia coli K-12 ortholog: b4259; Escherichia coli O157:H7 ortholog: z5871. (147 aa) |
| | c5372 | Hypothetical protein; Residues 1 to 1022 of 1023 are 51.23 pct identical to residues 1 to 1041 of 1043 from GenPept.129 : >gb|AAK02783.1| (AE006106) unknown [Pasteurella multocida]. (1023 aa) |
| | c5373 | Hypothetical protein; Residues 2 to 668 of 670 are 43.91 pct identical to residues 3 to 634 of 636 from GenPept.129 : >gb|AAK02782.1| (AE006106) unknown [Pasteurella multocida]. (670 aa) |
| | c5378 | Hypothetical protein; Residues 1 to 1090 of 1092 are 60.92 pct identical to residues 1 to 1088 of 1089 from GenPept.129 : >gb|AAK02780.1| (AE006106) unknown [Pasteurella multocida]. (1092 aa) |
| | yjiW | Hypothetical protein yjiW; Involved in the degradation and recycling of damaged RNA. It is itself a target for degradation by the ATP-dependent protease Lon. Belongs to the SymE family. (113 aa) |
| | c5424 | Putative restriction modification enzyme M subunit; Methylase; Escherichia coli O157:H7 ortholog: z5947. (507 aa) |
| | yjjT | Ribosomal RNA small subunit methyltransferase C; Specifically methylates the guanine in position 1207 of 16S rRNA in the 30S particle; Belongs to the methyltransferase superfamily. RsmC family. (343 aa) |
| | holD | DNA polymerase III, psi 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. The exact function of the psi subunit is unknown. (137 aa) |
| | lasT | Hypothetical tRNA/rRNA methyltransferase lasT; Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA. (235 aa) |
| | sms | 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. (476 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. (938 aa) |
| | ksgA | 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) |
| | yabO | Ribosomal large subunit pseudouridine synthase A; Dual specificity enzyme that catalyzes the synthesis of pseudouridine from uracil-746 in 23S ribosomal RNA and from uracil-32 in the anticodon stem and loop of transfer RNAs. (219 aa) |
| | hepA | RNA polymerase associated protein; Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair; Belongs to the SNF2/RAD54 helicase family. RapA subfamily. (968 aa) |
| | polB | DNA polymerase II; Escherichia coli K-12 ortholog: b0060; Escherichia coli O157:H7 ortholog: z0068. (783 aa) |
| | c0072 | Transposase; Residues 18 to 169 of 169 are 94.07 pct identical to residues 1 to 152 of 152 from SwissProt.40 : >sp|Q57334|T200_SALTY Transposase for insertion sequence element IS200. (169 aa) |
| | c0086 | Transposase; Residues 18 to 169 of 169 are 95.39 pct identical to residues 1 to 152 of 152 from SwissProt.40 : >sp|Q57334|T200_SALTY Transposase for insertion sequence element IS200. (169 aa) |
| | yabC | S-adenosyl-methyltransferase mraW; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (313 aa) |
| | c0138 | Unknown protein of IS629 encoded within prophage; Escherichia coli O157:H7 ortholog: z2982. (108 aa) |
| | yadB | Hypothetical protein yadB; Catalyzes the tRNA-independent activation of glutamate in presence of ATP and the subsequent transfer of glutamate onto a tRNA(Asp). Glutamate is transferred on the 2-amino-5-(4,5-dihydroxy-2- cyclopenten-1-yl) moiety of the queuosine in the wobble position of the QUC anticodon; Belongs to the class-I aminoacyl-tRNA synthetase family. GluQ subfamily. (308 aa) |
| | yadP | 2'-5' RNA ligase; Hydrolyzes RNA 2',3'-cyclic phosphodiester to an RNA 2'- phosphomonoester; Belongs to the 2H phosphoesterase superfamily. ThpR family. (179 aa) |
| | hrpB | ATP-dependent helicase hrpB; Escherichia coli K-12 ortholog: b0148; Escherichia coli O157:H7 ortholog: z0159. (824 aa) |
| | rnhB | Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family. (198 aa) |
| | dnaE | DNA polymerase III alpha 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. The alpha chain is the DNA polymerase (By similarity). (1160 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 [...] (590 aa) |
| | rnhA | Ribonuclease HI; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (192 aa) |
| | dnaQ | DNA polymerase III, epsilon chain; 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. (246 aa) |
| | c0256 | Hypothetical protein; Residues 7 to 69 of 73 are 66.66 pct identical to residues 5 to 67 of 141 from GenPept.129 : >gb|AAG55763.1|AE005312_9 (AE005312) unknown in putative ISEc8 [Escherichia coli O157:H7 EDL933]. (73 aa) |
| | c0261 | Hypothetical protein; Residues 8 to 372 of 377 are 47.26 pct identical to residues 39 to 390 of 390 from SwissProt.40 : >sp|P55626|Y4QE_RHISN PUTATIVE TRANSPOSASE Y4QE. (377 aa) |
| | c0349 | Putative Transposase within prophage; Required for the transposition of the insertion element. (374 aa) |
| | dinP | DNA polymerase IV; Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII (By similarity). (351 aa) |
| | c0381 | Hypothetical protein; Residues 5 to 381 of 383 are 74.53 pct identical to residues 1 to 377 of 379 from GenPept.129 : >emb|CAD08784.1| (AL627266) conserved hypothetical protein [Salmonella enterica subsp. enterica serovar Typhi]. (383 aa) |
| | queA | S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA). (356 aa) |
| | tgt | Queuine tRNA-ribosyltransferase; Catalyzes the base-exchange of a guanine (G) residue with the queuine precursor 7-aminomethyl-7-deazaguanine (PreQ1) at position 34 (anticodon wobble position) in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). Catalysis occurs through a double-displacement mechanism. The nucleophile active site attacks the C1' of nucleotide 34 to detach the guanine base from the RNA, forming a covalent enzyme-RNA intermediate. The proton acceptor active site deprotonates the incoming PreQ1, allowing a nucleophilic attack on the C1' of the ribose to form th [...] (375 aa) |
| | xseB | Exodeoxyribonuclease 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. (80 aa) |
| | yajK | Thiamine biosynthesis protein thiI; Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS. (482 aa) |
| | dnaX | DNA polymerase III subunit 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. (643 aa) |
| | ybaK | Protein ybaK; Escherichia coli K-12 ortholog: b0481; Escherichia coli O157:H7 ortholog: z0600; Belongs to the prolyl-tRNA editing family. YbaK/EbsC subfamily. (159 aa) |
| | ybbB | Hypothetical protein ybbB; Involved in the post-transcriptional modification of the uridine at the wobble position (U34) of tRNA(Lys), tRNA(Glu) and tRNA(Gln). Catalyzes the conversion of 2-thiouridine (S2U-RNA) to 2- selenouridine (Se2U-RNA). Acts in a two-step process involving geranylation of 2-thiouridine (S2U) to S-geranyl-2-thiouridine (geS2U) and subsequent selenation of the latter derivative to 2-selenouridine (Se2U) in the tRNA chain. (319 aa) |
| | cysS | Cysteinyl-tRNA synthetase; Escherichia coli K-12 ortholog: b0526; Escherichia coli O157:H7 ortholog: z0681; Belongs to the class-I aminoacyl-tRNA synthetase family. (461 aa) |
| | rna | Ribonuclease I precursor; Escherichia coli K-12 ortholog: b0611; Escherichia coli O157:H7 ortholog: z0755; Belongs to the RNase T2 family. (274 aa) |
| | ybeA | Hypothetical protein ybeA; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (155 aa) |
| | holA | DNA polymerase III, delta subunit; Escherichia coli K-12 ortholog: b0640; Escherichia coli O157:H7 ortholog: z0787. (343 aa) |
| | leuS | Leucyl-tRNA synthetase; Escherichia coli K-12 ortholog: b0642; Escherichia coli O157:H7 ortholog: z0789; Belongs to the class-I aminoacyl-tRNA synthetase family. (907 aa) |
| | ybeY | Hypothetical protein ybeY; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. (155 aa) |
| | glnS | Glutaminyl-tRNA synthetase; Escherichia coli K-12 ortholog: b0680; Escherichia coli O157:H7 ortholog: z0827. (554 aa) |
| | phrB | Deoxyribodipyrimidine photolyase; Escherichia coli K-12 ortholog: b0708; Escherichia coli O157:H7 ortholog: z0859; Belongs to the DNA photolyase family. (472 aa) |
| | nei | Endonuclease VIII; 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 pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine. 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. (263 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 [...] (673 aa) |
| | rhlE | Putative ATP-dependent RNA helicase rhlE; DEAD-box RNA helicase involved in ribosome assembly. Has RNA- dependent ATPase activity and unwinds double-stranded RNA. (453 aa) |
| | dinG | Probable ATP-dependent helicase dinG; DNA-dependent ATPase and 5'-3' DNA helicase. (716 aa) |
| | ybiN | Hypothetical protein ybiN; Specifically methylates the adenine in position 1618 of 23S rRNA. (338 aa) |
| | c0941 | DNA adenine methylase; Escherichia coli K-12 ortholog: b3387; Escherichia coli O157:H7 ortholog: z4740. (285 aa) |
| | ybjF | Hypothetical RNA methyltransferase ybjF; Catalyzes the formation of 5-methyl-uridine at position 747 (m5U747) in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmC subfamily. (375 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). (430 aa) |
| | smtA | Protein smtA; 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. (265 aa) |
| | asnS | Asparaginyl-tRNA synthetase; Escherichia coli K-12 ortholog: b0930; Escherichia coli O157:H7 ortholog: z1278. (466 aa) |
| | ycbY | Hypothetical protein ycbY; 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. (702 aa) |
| | helD | Helicase IV; Escherichia coli K-12 ortholog: b0962; Escherichia coli O157:H7 ortholog: z1313. (715 aa) |
| | yccW | Hypothetical protein yccW; Specifically methylates the cytosine at position 1962 (m5C1962) of 23S rRNA. (396 aa) |
| | c1168 | Unknown in IS1N; Escherichia coli O157:H7 ortholog: z1562. (130 aa) |
| | c1225 | Transposase insE for insertion sequence IS3A/B/C/D/E/fA/fB; Escherichia coli K-12 ortholog: b2088. (74 aa) |
| | c1271 | Hypothetical protein; Residues 1 to 80 of 98 are 48.75 pct identical to residues 19 to 92 of 520 from GenPept.129 : >emb|CAA31541.1| (X13145) hsdM protein (AA 1-520) [Escherichia coli]. (98 aa) |
| | rne | Ribonuclease 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. (1061 aa) |
| | rluC | Ribosomal large subunit pseudouridine synthase C; Responsible for synthesis of pseudouridine from uracil at positions 955, 2504 and 2580 in 23S ribosomal RNA; Belongs to the pseudouridine synthase RluA family. (319 aa) |
| | holB | DNA polymerase III, delta' subunit; Escherichia coli K-12 ortholog: b1099; Escherichia coli O157:H7 ortholog: z1738. (334 aa) |
| | ycfH | Putative deoxyribonuclease ycfH; Escherichia coli K-12 ortholog: b1100; Escherichia coli O157:H7 ortholog: z1739. (285 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; Belongs to the UvrB family. In the N-terminal section; belongs to the UvrB family. (951 aa) |
| | c1400 | Prophage lambda integrase; Int(Lambda); Escherichia coli K-12 ortholog: b1140; Escherichia coli O157:H7 ortholog: z1764; Belongs to the 'phage' integrase family. (372 aa) |
| | recE | Exodeoxyribonuclease VIII; Escherichia coli K-12 ortholog: b1350. (813 aa) |
| | rluE | Hypothetical protein; Responsible for synthesis of pseudouridine from uracil-2457 in 23S ribosomal RNA; Belongs to the pseudouridine synthase RsuA family. (118 aa) |
| | c1519 | Prophage lambda integrase; Int(Lambda); Escherichia coli K-12 ortholog: b1140; Escherichia coli O157:H7 ortholog: z1866; Belongs to the 'phage' integrase family. (380 aa) |
| | c1555 | Putative DNA N-6-adenine-methyltransferase of bacteriophage; Escherichia coli O157:H7 ortholog: z1454. (185 aa) |
| | rus | Crossover junction endodeoxyribonuclease rusA; Endonuclease that resolves Holliday junction intermediates made during homologous genetic recombination and DNA repair. Exhibits sequence and structure-selective cleavage of four-way DNA junctions, where it introduces symmetrical nicks in two strands of the same polarity at the 5' side of CC dinucleotides. Corrects the defects in genetic recombination and DNA repair associated with inactivation of RuvAB or RuvC (By similarity); Belongs to the RusA family. (120 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. (194 aa) |
| | hemA | Glutamyl-tRNA reductase; Catalyzes the NADPH-dependent reduction of glutamyl-tRNA(Glu) to glutamate 1-semialdehyde (GSA). (484 aa) |
| | c1704 | Transposase insG for insertion sequence element IS4; Escherichia coli K-12 ortholog: b4278. (401 aa) |
| | yciL | Hypothetical protein yciL; Responsible for synthesis of pseudouridine from uracil-2605 in 23S ribosomal RNA; Belongs to the pseudouridine synthase RsuA family. (291 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 [...] (879 aa) |
| | rnb | Exoribonuclease II; Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3' to 5' direction. (644 aa) |
| | dbpA | ATP-independent RNA helicase dbpA; DEAD-box RNA helicase involved in the assembly of the 50S ribosomal subunit. Has an RNA-dependent ATPase activity, which is specific for 23S rRNA, and a 3' to 5' RNA helicase activity that uses the energy of ATP hydrolysis to destabilize and unwind short rRNA duplexes. (457 aa) |
| | hrpA | ATP-dependent helicase hrpA; Escherichia coli K-12 ortholog: b1413; Escherichia coli O157:H7 ortholog: z2313. (1300 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. (211 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 1 subfamily. (428 aa) |
| | rnt | Ribonuclease T; Trims short 3' overhangs of a variety of RNA species, leaving a one or two nucleotide 3' overhang. Responsible for the end-turnover of tRNA: specifically removes the terminal AMP residue from uncharged tRNA (tRNA-C-C-A). Also appears to be involved in tRNA biosynthesis. (215 aa) |
| | pheS | Phenylalanyl-tRNA synthetase alpha chain; Escherichia coli K-12 ortholog: b1714; Escherichia coli O157:H7 ortholog: z2743; Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily. (331 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). Also edits incorrectly charged L-seryl-tRNA(Thr). (642 aa) |
| | ydiZ | Hypothetical protein ydiZ; Escherichia coli K-12 ortholog: b1724; Escherichia coli O157:H7 ortholog: z2753. (96 aa) |
| | xthA | Exodeoxyribonuclease III; Escherichia coli K-12 ortholog: b1749; Escherichia coli O157:H7 ortholog: z2781. (272 aa) |
| | topB | DNA topoisomerase III; 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 su [...] (667 aa) |
| | yeaK | Hypothetical protein yeaK; Escherichia coli K-12 ortholog: b1787; Escherichia coli O157:H7 ortholog: z2827. (167 aa) |
| | rnd | Ribonuclease D; Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides; Belongs to the RNase D family. (375 aa) |
| | c2212 | Probable ATP-dependent helicase yoaA; Escherichia coli K-12 ortholog: b1808; Escherichia coli O157:H7 ortholog: z2851. (636 aa) |
| | yebU | Hypothetical protein yebU; Specifically methylates the cytosine at position 1407 (m5C1407) of 16S rRNA. (481 aa) |
| | holE | DNA polymerase III, theta 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 (By similarity). (105 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. (336 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. (203 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 (By similarity). (174 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. (590 aa) |
| | argS | Arginyl-tRNA synthetase; Escherichia coli K-12 ortholog: b1876; Escherichia coli O157:H7 ortholog: z2929. (577 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 (By similarity). (610 aa) |
| | fliA | RNA polymerase sigma factor for flagellar operon; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor controls the expression of flagella-related genes; Belongs to the sigma-70 factor family. FliA subfamily. (239 aa) |
| | dcm | DNA-cytosine methyltransferase; Escherichia coli K-12 ortholog: b1961; Escherichia coli O157:H7 ortholog: z3054. (472 aa) |
| | c2472 | Transposase; Residues 1 to 88 of 88 are 71.59 pct identical to residues 1 to 88 of 88 from SwissProt.40 : >sp|Q00931|LCRS_YERPE Low calcium response locus protein S. (88 aa) |
| | c2503 | Transposase; Residues 6 to 393 of 398 are 58.82 pct identical to residues 3 to 393 of 405 from SwissProt.40 : >sp|P19780|YIS1_STRCO Insertion element IS110 hypothetical 43.6 kDa protein. (398 aa) |
| | c2512 | Transposase; Residues 1 to 340 of 340 are 99.70 pct identical to residues 1 to 340 of 340 from GenPept.129 : >emb|CAC43410.1| (X16664) Y1093 protein [Escherichia coli]. (340 aa) |
| | sbcB | Escherichia coli K-12 ortholog: b2011; Escherichia coli O157:H7 ortholog: z3173. (491 aa) |
| | alkA | DNA-3-methyladenine glycosylase II; Escherichia coli K-12 ortholog: b2068; Escherichia coli O157:H7 ortholog: z3237. (282 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) |
| | yohI | Hypothetical protein yohI; Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines. Specifically modifies U16 in tRNAs. Belongs to the Dus family. DusC subfamily. (338 aa) |
| | nfo | Endonuclease IV; Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic (AP) sites, generating a 3'-hydroxyl group and a 5'-terminal sugar phosphate. (285 aa) |
| | rsuA | Ribosomal small subunit pseudouridine synthase A; Responsible for synthesis of pseudouridine from uracil-516 in 16S ribosomal RNA. (263 aa) |
| | 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. (875 aa) |
| | elaC | Protein elaC; Zinc phosphodiesterase, which has both exoribonuclease and endoribonuclease activities. (305 aa) |
| | truA | tRNA pseudouridine synthase A; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (270 aa) |
| | yfcK | Hypothetical protein yfcK; 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. (688 aa) |
| | yfcB | Hypothetical adenine-specific methylase yfcB; Specifically methylates the 50S ribosomal protein L3 on 'Gln- 150'; Belongs to the protein N5-glutamine methyltransferase family. PrmB subfamily. (421 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). (471 aa) |
| | lig | DNA ligase; 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. (671 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. (458 aa) |
| | hisS | Histidyl-tRNA synthetase; Escherichia coli K-12 ortholog: b2514; Escherichia coli O157:H7 ortholog: z3777. (424 aa) |
| | yfgB | Hypothetical protein yfgB; 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. (384 aa) |
| | yfhQ | Hypothetical tRNA/rRNA methyltransferase yfhQ; Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA. (246 aa) |
| | rnc | Ribonuclease III; Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism. (226 aa) |
| | yfiC | Hypothetical protein yfiC; Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC). (285 aa) |
| | srmB | ATP-dependent RNA helicase srmB; DEAD-box RNA helicase involved in the assembly of the 50S ribosomal subunit at low temperature. Exhibits RNA-stimulated ATP hydrolysis and RNA unwinding activity; Belongs to the DEAD box helicase family. SrmB subfamily. (444 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; Belongs to the uracil-DNA glycosylase (UDG) superfamily. UNG family. (229 aa) |
| | yfiF | Hypothetical tRNA/rRNA methyltransferase yfiF; Escherichia coli K-12 ortholog: b2581; Escherichia coli O157:H7 ortholog: z3865; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (370 aa) |
| | yfiP | Hypothetical protein yfiP; Escherichia coli K-12 ortholog: b2583; Escherichia coli O157:H7 ortholog: z3868. (249 aa) |
| | sfhB | Ribosomal large subunit pseudouridine synthase D; Responsible for synthesis of pseudouridine from uracil at positions 1911, 1915 and 1917 in 23S ribosomal RNA; Belongs to the pseudouridine synthase RluA family. (326 aa) |
| | trmD | tRNA (Guanine-N(1)-)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (255 aa) |
| | pinR | Putative DNA-invertase from lambdoid prophage Rac; Escherichia coli K-12 ortholog: b1374; Escherichia coli O157:H7 ortholog: z5885; Belongs to the site-specific recombinase resolvase family. (196 aa) |
| | c3189 | Hypothetical protein; Endonuclease that resolves Holliday junction intermediates made during homologous genetic recombination and DNA repair. Exhibits sequence and structure-selective cleavage of four-way DNA junctions, where it introduces symmetrical nicks in two strands of the same polarity at the 5' side of dinucleotides. Corrects the defects in genetic recombination and DNA repair associated with inactivation of ruvAB or ruvC; Belongs to the rusA family. (129 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. (353 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. (853 aa) |
| | ygbO | Protein ygbO; Responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs; Belongs to the pseudouridine synthase TruD family. (349 aa) |
| | ygcA | 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. (433 aa) |
| | yqcB | Hypothetical protein yqcB; Responsible for synthesis of pseudouridine from uracil-65 in transfer RNAs; Belongs to the pseudouridine synthase RluA family. (260 aa) |
| | exo | Exodeoxyribonuclease IX; Has flap endonuclease activity. During DNA replication, flap endonucleases cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. (281 aa) |
| | recD | Exodeoxyribonuclease V alpha chain; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repa [...] (608 aa) |
| | recB | Exodeoxyribonuclease V beta chain; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repai [...] (1183 aa) |
| | recC | Exodeoxyribonuclease V gamma chain; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repa [...] (1122 aa) |
| | c3432 | Transposase; Residues 1 to 112 of 112 are 96.42 pct identical to residues 41 to 152 of 152 from SwissProt.40 : >sp|Q57334|T200_SALTY Transposase for insertion sequence element IS200. (112 aa) |
| | lysS | Lysyl-tRNA synthetase; Escherichia coli K-12 ortholog: b2890; Escherichia coli O157:H7 ortholog: z4228; Belongs to the class-II aminoacyl-tRNA synthetase family. (505 aa) |
| | xerD | Integrase/recombinase xerD; Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. Binds cooperatively to specific DNA consensus sequences that are separated from XerC binding sites by a short central region, forming the heterotetrameric XerC-XerD complex that recombines DNA substrates. The 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. In the complex XerD specifically exchanges [...] (298 aa) |
| | endA | Endonuclease I precursor; Escherichia coli K-12 ortholog: b2945; Escherichia coli O157:H7 ortholog: z4290. (236 aa) |
| | yggH | Hypothetical methyltransferase yggH; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. TrmB family. (239 aa) |
| | mutY | A/G-specific adenine glycosylase; Adenine glycosylase active on G-A mispairs. (360 aa) |
| | c3560 | Unknown protein encoded by ISEc8 within prophage; Escherichia coli O157:H7 ortholog: z5096. (134 aa) |
| | c3576 | Unknown in IS; Escherichia coli O157:H7 ortholog: z1589. (100 aa) |
| | c3577 | Unknown protein encoded by ISEc8 within prophage; Escherichia coli O157:H7 ortholog: z5096. (133 aa) |
| | c3596 | Hypothetical protein in IS; Escherichia coli O157:H7 ortholog: z5879. (108 aa) |
| | c3612 | Transposase insC for insertion element IS2A/D/F/H/I/K; Escherichia coli K-12 ortholog: b4272. (124 aa) |
| | c3617 | Unknown in putative ISEc8; Escherichia coli O157:H7 ortholog: z1648. (145 aa) |
| | c3640 | Unknown in ISEc8; Escherichia coli O157:H7 ortholog: z1598. (120 aa) |
| | c3659 | Unknown protein encoded by ISEc8; Escherichia coli O157:H7 ortholog: z4315. (215 aa) |
| | c3703 | Transposase insG for insertion sequence element IS4; Escherichia coli K-12 ortholog: b4278. (449 aa) |
| | parC | 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. (752 aa) |
| | parE | 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. (630 aa) |
| | c3803 | Putative Transposase; Escherichia coli O157:H7 ortholog: z5815. (150 aa) |
| | cca | tRNA nucleotidyltransferase; Catalyzes the addition and repair of the essential 3'- terminal CCA sequence in tRNAs without using a nucleic acid template. Adds these three nucleotides in the order of C, C, and A to the tRNA nucleotide-73, using CTP and ATP as substrates and producing inorganic pyrophosphate. Also shows phosphatase, 2'-nucleotidase and 2',3'-cyclic phosphodiesterase activities. These phosphohydrolase activities are probably involved in the repair of the tRNA 3'-CCA terminus degraded by intracellular RNases. (412 aa) |
| | dnaG | DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (581 aa) |
| | ygjF | G/U mismatch-specific DNA glycosylase; Excises ethenocytosine and uracil, which can arise by alkylation or deamination of cytosine, respectively, from the corresponding mispairs with guanine in ds-DNA. It is capable of hydrolyzing the carbon-nitrogen bond between the sugar-phosphate backbone of the DNA and the mispaired base. The complementary strand guanine functions in substrate recognition. Required for DNA damage lesion repair in stationary-phase cells; Belongs to the uracil-DNA glycosylase (UDG) superfamily. TDG/mug family. (168 aa) |
| | ygjO | Putative ribosomal RNA small subunit methyltransferase D; Specifically methylates the guanine in position 1835 (m2G1835) of 23S rRNA. (378 aa) |
| | yhaV | Hypothetical protein yhaV; Toxic component of a type II toxin-antitoxin (TA) system. Has RNase activity in vitro. Acts as a transcription factor. The YhaV/PrlF complex binds the prlF-yhaV operon, probably negatively regulating its expression (By similarity). (154 aa) |
| | yraL | Hypothetical protein yraL; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (287 aa) |
