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| | Xaut_3602 | PFAM: 5'-3' exonuclease; SMART: Helix-hairpin-helix domain protein class 2; KEGG: mmr:Mmar10_0016 DNA polymerase I. (299 aa) |
| | Xaut_3604 | Hypothetical protein; KEGG: pde:Pden_3738 transcriptional regulator, fis family. (369 aa) |
| | Xaut_3618 | PFAM: MT-A70 family protein; KEGG: sit:TM1040_1679 MT-A70; Belongs to the MT-A70-like family. (194 aa) |
| | Xaut_3621 | KEGG: nfa:nfa210 hypothetical protein. (283 aa) |
| | Xaut_3622 | TIGRFAM: single-strand binding protein; PFAM: single-strand binding protein/Primosomal replication protein n; KEGG: rsq:Rsph17025_0451 single-strand binding protein. (158 aa) |
| | Xaut_3637 | TIGRFAM: phage head-tail adaptor, putative; KEGG: reu:Reut_A2398 putative bacteriophage protein. (123 aa) |
| | Xaut_3675 | Hypothetical protein. (162 aa) |
| | Xaut_3695 | PFAM: endodeoxyribonuclease RusA; KEGG: mag:amb1933 Holliday junction resolvase. (135 aa) |
| | Xaut_3697 | PFAM: Chromosomal replication initiator DnaA domain; KEGG: ssa:SSA_0001 chromosomal replication initiator protein DnaA, putative. (195 aa) |
| | Xaut_3699 | PFAM: C-5 cytosine-specific DNA methylase; KEGG: mlo:mlr8517 modification methylase; Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family. (579 aa) |
| | Xaut_3734 | PFAM: transposase IS116/IS110/IS902 family protein; KEGG: bja:bll1545 putative transposase. (340 aa) |
| | Xaut_3735 | PFAM: transposase IS3/IS911 family protein; KEGG: rle:pRL110144 putative transposon/insertion element protein. (107 aa) |
| | Xaut_3736 | PFAM: Integrase catalytic region; KEGG: rpa:RPA3836 integrase, catalytic domain. (290 aa) |
| | Xaut_3835 | PFAM: Uracil-DNA glycosylase superfamily; KEGG: nha:Nham_2258 uracil-DNA glycosylase superfamily. (233 aa) |
| | Xaut_3841 | PFAM: HhH-GPD family protein; KEGG: rpc:RPC_4886 HhH-GPD. (217 aa) |
| | dinB | DNA-directed DNA polymerase; 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. (432 aa) |
| | parC | DNA topoisomerase IV, A subunit; 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. (745 aa) |
| | recO | DNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (242 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 [...] (901 aa) |
| | Xaut_4003 | PFAM: transposase IS116/IS110/IS902 family protein; KEGG: bja:bll1545 putative transposase. (340 aa) |
| | Xaut_4005 | PFAM: Integrase catalytic region; KEGG: xcv:XCV2351 transposase. (284 aa) |
| | Xaut_4009 | PFAM: transposase IS116/IS110/IS902 family protein; KEGG: mlo:mlr6190 transposase. (362 aa) |
| | Xaut_4015 | KEGG: pde:Pden_1512 replication protein A. (384 aa) |
| | Xaut_4029 | PFAM: integrase family protein; KEGG: ajs:Ajs_2959 phage integrase family protein; Belongs to the 'phage' integrase family. (467 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. (361 aa) |
| | Xaut_4123 | KEGG: rpd:RPD_1641 hypothetical protein. (1411 aa) |
| | Xaut_4240 | TIGRFAM: exodeoxyribonuclease III; exodeoxyribonuclease III Xth; PFAM: Endonuclease/exonuclease/phosphatase; KEGG: rpc:RPC_2496 exodeoxyribonuclease III (xth). (262 aa) |
| | mfd | Transcription-repair coupling factor; Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site; In the C-terminal section; belongs to the helicase family. RecG subfamily. (1168 aa) |
| | Xaut_4284 | KEGG: bbt:BBta_4522 DNA polymerase III, alpha subunit; TIGRFAM: DNA polymerase III, alpha subunit; PFAM: PHP domain protein; nucleic acid binding OB-fold tRNA/helicase-type; DNA polymerase III alpha subunit; SMART: phosphoesterase PHP domain protein. (1150 aa) |
| | Xaut_4306 | TIGRFAM: ATP-dependent DNA helicase, RecQ family; ATP-dependent DNA helicase RecQ; PFAM: helicase domain protein; HRDC domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases; KEGG: mag:amb4254 superfamily II DNA helicase. (607 aa) |
| | uvrA | 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. (1039 aa) |
| | Xaut_4316 | Single-strand binding protein; Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism. (180 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. (914 aa) |
| | Xaut_4326 | KEGG: nha:Nham_2009 DNA-directed DNA polymerase. (347 aa) |
| | Xaut_4330 | TIGRFAM: hydrolase, TatD family; PFAM: TatD-related deoxyribonuclease; KEGG: mlo:mll0418 putative deoxyribonuclease. (273 aa) |
| | ku | Ku family containing protein; With LigD forms a non-homologous end joining (NHEJ) DNA repair enzyme, which repairs dsDNA breaks with reduced fidelity. Binds linear dsDNA with 5'- and 3'- overhangs but not closed circular dsDNA nor ssDNA. Recruits and stimulates the ligase activity of LigD. Belongs to the prokaryotic Ku family. (299 aa) |
| | ku-2 | Ku family containing protein; With LigD forms a non-homologous end joining (NHEJ) DNA repair enzyme, which repairs dsDNA breaks with reduced fidelity. Binds linear dsDNA with 5'- and 3'- overhangs but not closed circular dsDNA nor ssDNA. Recruits and stimulates the ligase activity of LigD. Belongs to the prokaryotic Ku family. (269 aa) |
| | Xaut_4365 | TIGRFAM: DNA ligase D; DNA ligase D 3'-phosphoesterase domain; DNA polymerase LigD polymerase domain; DNA polymerase LigD ligase region; PFAM: DNA primase small subunit; ATP dependent DNA ligase domain protein; ATP dependent DNA ligase; KEGG: mlo:mll9625 DNA ligase. (886 aa) |
| | lexA | SOS-response transcriptional repressor, LexA; Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair. (237 aa) |
| | ihfA | Integration host factor, alpha subunit; This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control. Belongs to the bacterial histone-like protein family. (105 aa) |
| | Xaut_4415 | PFAM: helicase domain protein; type III restriction protein res subunit; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases; KEGG: nha:Nham_2055 DEAD/DEAH box helicase-like. (697 aa) |
| | Xaut_4517 | PFAM: Chromosomal replication initiator DnaA domain; KEGG: prw:PsycPRwf_0002 chromosomal replication initiator protein DnaA. (136 aa) |
| | Xaut_4524 | PFAM: B transposition protein domain protein; KEGG: ecs:ECs4946 putative DNA transposition protein. (319 aa) |
| | Xaut_4525 | PFAM: Mu transposase; Mu DNA binding I gamma subdomain; Transposase-like Mu; KEGG: rsq:Rsph17025_2121 integrase, catalytic region. (656 aa) |
| | Xaut_4540 | PFAM: heat shock protein DnaJ domain protein; KEGG: bja:bll5157 hypothetical protein. (242 aa) |
| | Xaut_4572 | PFAM: Resolvase domain; Recombinase; KEGG: pde:Pden_3123 recombinase. (584 aa) |
| | Xaut_4587 | PFAM: protein of unknown function DUF1520; KEGG: sme:SMa1082 hypothetical protein. (199 aa) |
| | Xaut_4596 | PFAM: transposase IS3/IS911 family protein; KEGG: rle:pRL70042 putative insertion sequence protein. (146 aa) |
| | Xaut_4599 | KEGG: bbt:BBta_p0135 hypothetical protein. (438 aa) |
| | Xaut_4612 | Transposase; KEGG: gbe:GbCGDNIH1_1790 transposase. (118 aa) |
| | Xaut_4674 | Ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Catalyzes the reduction of ribonucleotides to deoxyribonucleotides. May function to provide a pool of deoxyribonucleotide precursors for DNA repair during oxygen limitation and/or for immediate growth after restoration of oxygen. (1241 aa) |
| | Xaut_4676 | Deoxyribodipyrimidine photo-lyase; PFAM: DNA photolyase FAD-binding; DNA photolyase domain protein; KEGG: rpe:RPE_3442 deoxyribodipyrimidine photo-lyase. (500 aa) |
| | Xaut_4689 | Hypothetical protein; KEGG: vei:Veis_4172 DNA methylase N-4/N-6 domain protein. (241 aa) |
| | Xaut_4690 | PFAM: type III restriction protein res subunit; KEGG: rru:Rru_A0242 type III restriction enzyme, res subunit. (999 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. (97 aa) |
| | Xaut_4751 | TIGRFAM: single-stranded-DNA-specific exonuclease RecJ; PFAM: phosphoesterase RecJ domain protein; phosphoesterase DHHA1; KEGG: rpc:RPC_2813 single-stranded-DNA-specific exonuclease RecJ. (626 aa) |
| | parE | DNA topoisomerase IV, B subunit; 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. (678 aa) |
| | Xaut_4770 | PFAM: magnesium chelatase ChlI subunit; AAA ATPase central domain protein; ATPase associated with various cellular activities AAA_3; ATPase associated with various cellular activities AAA_5; SMART: AAA ATPase; KEGG: bra:BRADO4634 putative polynucleotide enzyme with nucleotide triphosphate hydrolase domain. (436 aa) |
| | Xaut_3051 | PFAM: integrase family protein; KEGG: bbt:BBta_7388 putative integrase; Belongs to the 'phage' integrase family. (413 aa) |
| | Xaut_2252 | PFAM: transposase IS3/IS911 family protein; KEGG: rle:pRL120646 putative transposase-related protein. (131 aa) |
| | Xaut_2245 | PFAM: Resolvase domain; Resolvase helix-turn-helix domain protein; KEGG: acr:Acry_3553 resolvase, N-terminal domain. (183 aa) |
| | Xaut_2233 | PFAM: integrase family protein; KEGG: nha:Nham_0294 phage integrase; Belongs to the 'phage' integrase family. (397 aa) |
| | ihfB | Integration host factor, beta subunit; This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control. Belongs to the bacterial histone-like protein family. (94 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. (622 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. (727 aa) |
| | Xaut_2000 | PFAM: transposase IS4 family protein; KEGG: sil:SPO0489 ISSpo2, transposase. (451 aa) |
| | smc | Chromosome segregation protein SMC; Required for chromosome condensation and partitioning. Belongs to the SMC family. (1150 aa) |
| | Xaut_1946 | PFAM: Radical SAM domain protein; SMART: Elongator protein 3/MiaB/NifB; KEGG: bja:blr2519 hypothetical protein. (437 aa) |
| | Xaut_1876 | PFAM: heat shock protein DnaJ domain protein; KEGG: rpe:RPE_0137 heat shock protein DnaJ domain protein. (134 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. (813 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. (201 aa) |
| | dnaQ | DNA polymerase III, epsilon subunit; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'- 5' exonuclease. (240 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. (720 aa) |
| | xerC-2 | Integrase family protein; Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. The XerC- XerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell division. It also contributes to the segregational stability of plasmids. (354 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. (359 aa) |
| | Xaut_1610 | PFAM: transposase IS3/IS911 family protein; KEGG: mag:amb3265 insertion element ISR1 hypothetical 10 kDa protein A3. (97 aa) |
| | Xaut_1609 | PFAM: transposase IS3/IS911 family protein; KEGG: rle:pRL110144 putative transposon/insertion element protein. (88 aa) |
| | Xaut_1608 | PFAM: Integrase catalytic region; KEGG: rpa:RPA3836 integrase, catalytic domain. (290 aa) |
| | Xaut_1605 | KEGG: rrs:RoseRS_2176 hypothetical protein. (1162 aa) |
| | Xaut_1470 | PFAM: ATP dependent DNA ligase domain protein; ATP dependent DNA ligase; KEGG: rpe:RPE_0725 ATP dependent DNA ligase. (542 aa) |
| | Xaut_1459 | PFAM: DNA polymerase III chi subunit HolC; KEGG: rpa:RPA3059 DNA polymerase III chi subunit. (153 aa) |
| | Xaut_1448 | TIGRFAM: DNA polymerase III, delta subunit; PFAM: DNA polymerase III delta; KEGG: nha:Nham_0100 DNA polymerase III, delta subunit. (342 aa) |
| | Xaut_1417 | TIGRFAM: DNA-3-methyladenine glycosylase I; PFAM: methyladenine glycosylase; KEGG: bja:bll2553 3-methyladenine-DNA glycosylase. (223 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. (496 aa) |
| | Xaut_1368 | KEGG: rpe:RPE_2213 hypothetical protein. (170 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. (639 aa) |
| | Xaut_1173 | PFAM: DNA methylase N-4/N-6 domain protein; KEGG: rpb:RPB_1073 DNA methylase N-4/N-6; Belongs to the N(4)/N(6)-methyltransferase family. (389 aa) |
| | Xaut_1172 | A/G-specific adenine glycosylase; Adenine glycosylase active on G-A mispairs. (355 aa) |
| | Xaut_1160 | KEGG: rpa:RPA0257 hypothetical protein. (566 aa) |
| | Xaut_1099 | PFAM: Resolvase domain; KEGG: jan:Jann_2896 resolvase-like. (212 aa) |
| | Xaut_1098 | PFAM: helicase domain protein; type III restriction protein res subunit; protein of unknown function DUF450; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases; KEGG: rpc:RPC_3651 type III restriction enzyme, res subunit. (1124 aa) |
| | Xaut_1096 | PFAM: putative RNA methylase; N-6 DNA methylase; KEGG: rpc:RPC_3652 N-6 DNA methylase. (486 aa) |
| | Xaut_1095 | PFAM: restriction modification system DNA specificity domain; KEGG: ecv:APECO1_2078 HsdS, type I site-specific deoxyribonuclease. (450 aa) |
| | Xaut_1094 | PFAM: restriction endonuclease; KEGG: zmo:ZMO0028 mrr restriction system protein. (310 aa) |
| | Xaut_1093 | PFAM: transposase IS3/IS911 family protein; KEGG: mag:amb3265 insertion element ISR1 hypothetical 10 kDa protein A3. (84 aa) |
| | Xaut_1090 | PFAM: Resolvase domain; Resolvase helix-turn-helix domain protein; KEGG: acr:Acry_3553 resolvase, N-terminal domain. (159 aa) |
| | Xaut_1087 | SMART: AAA ATPase; KEGG: pth:PTH_2877 hypothetical protein. (590 aa) |
| | Xaut_1070 | PFAM: integrase family protein; KEGG: atc:AGR_L_2007 hypothetical protein; Belongs to the 'phage' integrase family. (365 aa) |
| | Xaut_1065 | PFAM: transposase IS3/IS911 family protein; KEGG: rle:pRL110144 putative transposon/insertion element protein. (88 aa) |
| | Xaut_1064 | PFAM: Integrase catalytic region; KEGG: rpa:RPA3836 integrase, catalytic domain. (290 aa) |
| | Xaut_1063 | PFAM: integrase family protein; KEGG: atc:AGR_L_2007 hypothetical protein; Belongs to the 'phage' integrase family. (359 aa) |
| | Xaut_1042 | Hypothetical protein; KEGG: rpa:RPA3836 integrase, catalytic domain. (181 aa) |
| | Xaut_0821 | Recombinase; PFAM: Resolvase domain; Recombinase; KEGG: pde:Pden_3123 recombinase. (662 aa) |
| | Xaut_0810 | KEGG: mes:Meso_3807 hypothetical protein. (253 aa) |
| | Xaut_0809 | KEGG: mes:Meso_3808 hypothetical protein. (507 aa) |
| | dnaE2 | DNA polymerase III, alpha subunit; DNA polymerase involved in damage-induced mutagenesis and translesion synthesis (TLS). It is not the major replicative DNA polymerase. (1059 aa) |
| | Xaut_0805 | PFAM: integrase family protein; integrase domain protein SAM domain protein; KEGG: mes:Meso_4144 phage integrase-like SAM-like; Belongs to the 'phage' integrase family. (472 aa) |
| | Xaut_0803 | KEGG: mes:Meso_4142 hypothetical protein. (721 aa) |
| | Xaut_0792 | PFAM: integrase family protein; KEGG: bja:blr8174 probable site-specific integrase/recombinase; Belongs to the 'phage' integrase family. (417 aa) |
| | Xaut_0786 | PFAM: N-6 DNA methylase; KEGG: vvy:VV0266 type I restriction-modification system methyltransferase subunit. (710 aa) |
| | Xaut_0785 | PFAM: type III restriction protein res subunit; protein of unknown function DUF450; EcoEI R domain protein; SMART: DEAD-like helicases; KEGG: nwi:Nwi_0270 DEAD/DEAH box helicase. (791 aa) |
| | Xaut_0782 | PFAM: UvrD/REP helicase; KEGG: bja:blr8088 hypothetical protein. (1107 aa) |
| | Xaut_0781 | KEGG: bja:blr8087 hypothetical protein. (886 aa) |
| | Xaut_0753 | PFAM: transposase IS116/IS110/IS902 family protein; KEGG: mlo:mlr6190 transposase. (362 aa) |
| | Xaut_0710 | KEGG: pde:Pden_1512 replication protein A. (386 aa) |
| | Xaut_0703 | PFAM: transposase IS116/IS110/IS902 family protein; KEGG: mlo:mlr6190 transposase. (362 aa) |
| | Xaut_0683 | PFAM: Integrase catalytic region; KEGG: gbe:GbCGDNIH1_1790 transposase. (291 aa) |
| | Xaut_0677 | PFAM: transposase IS4 family protein; KEGG: sil:SPO0489 ISSpo2, transposase. (451 aa) |
| | Xaut_0620 | PFAM: integrase family protein; KEGG: bbt:BBta_7820 putative phage integrase; Belongs to the 'phage' integrase family. (452 aa) |
| | Xaut_0587 | PFAM: transposase IS116/IS110/IS902 family protein; KEGG: mlo:mlr6190 transposase. (362 aa) |
| | Xaut_0581 | KEGG: pde:Pden_1512 replication protein A. (379 aa) |
| | Xaut_0564 | PFAM: Integrase catalytic region; KEGG: gbe:GbCGDNIH1_1790 transposase. (291 aa) |
| | Xaut_0551 | PFAM: protein of unknown function DUF955; KEGG: rpa:RPA4130 hypothetical protein. (294 aa) |
| | Xaut_0549 | PFAM: type III restriction protein res subunit; KEGG: deb:DehaBAV1_1044 type III restriction enzyme, res subunit. (890 aa) |
| | Xaut_0547 | PFAM: DNA methylase N-4/N-6 domain protein; KEGG: tbd:Tbd_1491 adenine specific DNA-methyltransferase. (752 aa) |
| | Xaut_0544 | PFAM: Relaxase/mobilization nuclease family protein; KEGG: nha:Nham_0596 hypothetical protein. (562 aa) |
| | Xaut_0536 | PFAM: Resolvase domain; Resolvase helix-turn-helix domain protein; KEGG: art:Arth_0466 resolvase. (203 aa) |
| | Xaut_0530 | KEGG: nar:Saro_3931 phage integrase family protein. (724 aa) |
| | Xaut_0528 | PFAM: integrase family protein; integrase domain protein SAM domain protein; KEGG: mes:Meso_4229 phage integrase-like SAM-like; Belongs to the 'phage' integrase family. (464 aa) |
| | Xaut_0524 | PFAM: integrase family protein; KEGG: nwi:Nwi_0272 phage integrase; Belongs to the 'phage' integrase family. (407 aa) |
| | Xaut_0499 | PFAM: transposase IS111A/IS1328/IS1533; transposase IS116/IS110/IS902 family protein; KEGG: mlo:mll9195 transposase. (370 aa) |
| | apaG | PFAM: ApaG domain protein; KEGG: bja:bll1101 ApaG protein. (130 aa) |
| | Xaut_0444 | PFAM: integrase family protein; KEGG: rpe:RPE_3261 phage integrase family protein; Belongs to the 'phage' integrase family. (461 aa) |
| | Xaut_0442 | TIGRFAM: Ti-type conjugative transfer relaxase TraA; PFAM: MobA/MobL protein; KEGG: bbt:BBta_6372 putative conjugal transfer protein, TraA. (985 aa) |
| | Xaut_0436 | PFAM: DNA methylase N-4/N-6 domain protein; KEGG: tvo:TVN1476 adenine specific DNA methylase (Mod-related). (696 aa) |
| | Xaut_0435 | PFAM: type III restriction protein res subunit; KEGG: tvo:TVN1475 type III restriction-modification enzyme, helicase subunit. (977 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 [...] (379 aa) |
| | Xaut_0346 | PFAM: 2OG-Fe(II) oxygenase; KEGG: mlo:mlr5099 alkylated DNA repair protein. (218 aa) |
| | Xaut_0331 | DNA repair protein RecN; May be involved in recombinational repair of damaged DNA. (565 aa) |
| | Xaut_0277 | PFAM: Resolvase domain; Recombinase; KEGG: bbt:BBta_0430 putative resolvase. (551 aa) |
| | Xaut_0272 | TIGRFAM: Ti-type conjugative transfer relaxase TraA; PFAM: MobA/MobL protein; KEGG: rpc:RPC_0149 MobA/MobL protein. (976 aa) |
| | Xaut_0269 | KEGG: acr:Acry_0806 hypothetical protein. (102 aa) |
| | Xaut_0268 | PFAM: transposase IS111A/IS1328/IS1533; transposase IS116/IS110/IS902 family protein; KEGG: nha:Nham_4139 transposase IS116/IS110/IS902. (350 aa) |
| | Xaut_0250 | PFAM: transposase IS4 family protein; KEGG: nwi:Nwi_1095 transposase, IS4. (142 aa) |
| | Xaut_0249 | KEGG: nwi:Nwi_2412 ISBm1, transposase orfA. (132 aa) |
| | Xaut_0248 | PFAM: Resolvase domain; KEGG: mes:Meso_3805 resolvase-like. (524 aa) |
| | Xaut_0221 | PFAM: Integrase catalytic region; KEGG: rpa:RPA3836 integrase, catalytic domain. (290 aa) |
| | Xaut_0220 | PFAM: transposase IS3/IS911 family protein; KEGG: rle:pRL110144 putative transposon/insertion element protein. (88 aa) |
| | Xaut_0215 | PFAM: integrase family protein; KEGG: rsp:RSP_2361 putative integrase/resolvase recombinase protein phage-related integrase; Belongs to the 'phage' integrase family. (550 aa) |
| | Xaut_0194 | TIGRFAM: exodeoxyribonuclease III Xth; PFAM: Endonuclease/exonuclease/phosphatase; KEGG: bja:blr0618 exodeoxyribonuclease III. (290 aa) |
| | xerC | Integrase family protein; Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. The XerC- XerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell division. It also contributes to the segregational stability of plasmids. (342 aa) |
| | Xaut_0080 | PFAM: transposase IS4 family protein; KEGG: sil:SPO0489 ISSpo2, transposase. (451 aa) |
| | Xaut_0073 | PFAM: Chromosomal replication initiator DnaA domain; KEGG: hne:HNE_0741 DnaA domain protein. (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. (921 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. (378 aa) |
| | Xaut_0002 | DNA polymerase III, beta subunit; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...] (373 aa) |
| | dnaA | Chromosomal replication initiator protein DnaA; Plays an important role in the initiation and regulation of chromosomal replication. Binds to the origin of replication; it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box): 5'- TTATC[CA]A[CA]A-3'. DnaA binds to ATP and to acidic phospholipids. (506 aa) |
| | Xaut_2284 | PFAM: heat shock protein DnaJ domain protein; KEGG: bra:BRADO1388 hypothetical protein; partial homology with benzene monooxygenase ferredoxin. (221 aa) |
| | Xaut_2285 | PFAM: transposase IS111A/IS1328/IS1533; transposase IS116/IS110/IS902 family protein; KEGG: mlo:mll9195 transposase. (370 aa) |
| | Xaut_2303 | PFAM: metallophosphoesterase; KEGG: swi:Swit_4995 metallophosphoesterase. (373 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. (779 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. (1000 aa) |
| | Xaut_2385 | PFAM: transposase IS3/IS911 family protein; KEGG: bja:blr2053 putative transposase. (70 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. (489 aa) |
| | Xaut_2404 | Replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with DnaC protein, primase, and other prepriming proteins. Belongs to the helicase family. DnaB subfamily. (493 aa) |
| | Xaut_2426 | KEGG: pde:Pden_5114 DNA polymerase III, epsilon subunit; TIGRFAM: DNA polymerase III, epsilon subunit; PFAM: Exonuclease RNase T and DNA polymerase III; SMART: Exonuclease. (719 aa) |
| | Xaut_2564 | KEGG: pnu:Pnuc_1164 hypothetical protein. (431 aa) |
| | Xaut_2586 | PFAM: NUDIX hydrolase; KEGG: bbt:BBta_7592 putative mutator protein MutT. (138 aa) |
| | Xaut_2653 | TIGRFAM: Ti-type conjugative transfer relaxase TraA; PFAM: MobA/MobL protein; KEGG: rpc:RPC_0149 MobA/MobL protein. (976 aa) |
| | Xaut_2656 | KEGG: acr:Acry_0806 hypothetical protein. (102 aa) |
| | Xaut_2657 | PFAM: transposase IS111A/IS1328/IS1533; transposase IS116/IS110/IS902 family protein; KEGG: nha:Nham_4139 transposase IS116/IS110/IS902. (350 aa) |
| | Xaut_2665 | PFAM: Integrase catalytic region; KEGG: gbe:GbCGDNIH1_1790 transposase. (291 aa) |
| | Xaut_2677 | PFAM: transposase IS4 family protein; KEGG: nwi:Nwi_1095 transposase, IS4. (142 aa) |
| | Xaut_2678 | KEGG: nwi:Nwi_2412 ISBm1, transposase orfA. (132 aa) |
| | Xaut_2709 | KEGG: bbt:BBta_0480 putative transposase. (130 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 [...] (866 aa) |
| | Xaut_2813 | TIGRFAM: methylated-DNA--protein-cysteine methyltransferase; PFAM: helix-turn-helix- domain containing protein AraC type; Methylated-DNA-[protein]-cysteine S-methyltransferase DNA binding; KEGG: nha:Nham_0160 transcriptional regulator, AraC family. (309 aa) |
| | Xaut_2851 | PFAM: Resolvase domain; Recombinase; KEGG: swi:Swit_3384 resolvase, N-terminal domain. (565 aa) |
| | Xaut_2874 | PFAM: transposase IS116/IS110/IS902 family protein; KEGG: mlo:mlr6190 transposase. (362 aa) |
| | Xaut_2905 | PFAM: Integrase catalytic region; KEGG: mlo:mlr6150 transposase. (286 aa) |
| | Xaut_2962 | PFAM: DNA topoisomerase type IA zn finger domain protein; KEGG: vfi:VF1465 superfamily I DNA and RNA helicases. (170 aa) |
| | Xaut_2985 | PFAM: UvrD/REP helicase; KEGG: rpa:RPA2215 possible ATP-dependent exodeoxyribonuclease (subunit A); Belongs to the helicase family. UvrD subfamily. (1131 aa) |
| | Xaut_2986 | KEGG: rpa:RPA2216 hypothetical protein. (884 aa) |
| | Xaut_2990 | Putative ATPase; KEGG: rpa:RPA2219 possible ATPase. (1406 aa) |
| | Xaut_3008 | PFAM: transposase IS116/IS110/IS902 family protein; KEGG: mlo:mlr6190 transposase. (362 aa) |
| | Xaut_3015 | KEGG: pde:Pden_1512 replication protein A. (391 aa) |
| | Xaut_3035 | KEGG: nar:Saro_3931 phage integrase family protein. (724 aa) |
| | Xaut_3037 | PFAM: integrase family protein; integrase domain protein SAM domain protein; KEGG: mes:Meso_4229 phage integrase-like SAM-like. (464 aa) |
| | Xaut_3039 | PFAM: transposase IS4 family protein; KEGG: psb:Psyr_0095 transposase, IS4. (473 aa) |
| | Xaut_2271 | PFAM: transposase IS4 family protein; KEGG: sil:SPO0489 ISSpo2, transposase. (451 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. (643 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. (169 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. (205 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. (343 aa) |
| | Xaut_3128 | KEGG: rpe:RPE_3282 chromosomal replication initiator, DnaA. (244 aa) |
| | Xaut_3254 | PFAM: transposase IS4 family protein; KEGG: sil:SPO0489 ISSpo2, transposase. (451 aa) |
| | Xaut_3300 | TIGRFAM: Double-strand break repair helicase AddA; PFAM: UvrD/REP helicase; KEGG: bbt:BBta_0090 putative helicase-exonuclease type V protein family, AddA subunit; Belongs to the helicase family. UvrD subfamily. (1167 aa) |
| | Xaut_3306 | PFAM: protein of unknown function DUF195; KEGG: bra:BRADO0769 conserved hypothetical protein; putative RmuC family protein. (388 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. (293 aa) |
| | Xaut_3326 | KEGG: mlo:mll0558 hypothetical protein. (225 aa) |
| | Xaut_3437 | TIGRFAM: phage/plasmid primase, P4 family; PFAM: primase P4; KEGG: bja:bll8257 hypothetical protein. (462 aa) |
| | Xaut_3444 | PFAM: integrase family protein; KEGG: bbt:BBta_6353 P4-like integrase; Belongs to the 'phage' integrase family. (401 aa) |
| | dnaE2-2 | DNA polymerase III, alpha subunit; DNA polymerase involved in damage-induced mutagenesis and translesion synthesis (TLS). It is not the major replicative DNA polymerase. (1116 aa) |
| | Xaut_3469 | KEGG: rpc:RPC_1732 hypothetical protein. (480 aa) |
| | Xaut_3470 | KEGG: bbt:BBta_2985 hypothetical protein. (289 aa) |
| | Xaut_3471 | PFAM: transposase IS3/IS911 family protein; KEGG: rle:pRL110144 putative transposon/insertion element protein. (88 aa) |
| | Xaut_3472 | PFAM: Integrase catalytic region; KEGG: rpa:RPA3836 integrase, catalytic domain. (290 aa) |
| | Xaut_3484 | KEGG: rpb:RPB_3925 hypothetical protein. (460 aa) |
| | Xaut_3589 | Hypothetical protein; KEGG: mxa:MXAN_4918 transposase, IS630 family. (292 aa) |
| | Xaut_3599 | KEGG: rsq:Rsph17025_1727 hypothetical protein. (117 aa) |
| | Xaut_3601 | Hypothetical protein. (163 aa) |
