+F Repair protein KO
#
DNA Repair and Recombination Proteins - Bradyrhizobium sp. ORS 278
%
!
AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D BRADO6764 ogt2; O-6-methylguanine-DNA methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D BRADO6430 ogt; Putative methylated-DNA-protein-cystein methyltransferase (6-O-methylguanine-DNA methyltransferase) K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D BRADO0442 putative Deoxyribodipyrimidine photo-lyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
D BRADO3224 Deoxyribodipyrimidine photo-lyase (DNA photolyase) (Photoreactivating enzyme) K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E BRADO3880 putative 3-methyladenine DNA glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E BRADO2005 mutY; adenine glycosylase mutY K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E BRADO0152 nth; endonuclease III DNA-(apurinic or apyrimidinic site) lyase K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
D Long Patch-BER factors
E DNA polymerase delta complex
E DNA polymerase epsilon complex
D Short Patch-BER factors
D Other BER factors
C NER (nucleotide excision repair)
D GGR (global genome repair) factors
E XPC-HR23B-CETN2 complex
E Cul4-DDB2 complex
E NER4 complex
D TCR (transcription coupled repair) factors
E DNA-directed RNA polymerase II complex
E Cul4-CSA complex
E Other TCR factor
D TFIIH complex
D RPA (replication factor A)
D Other NER factors
C MMR (mismatch excision repair)
D Mismatch and loop recognition factors
D MutL homologs
D DNA polymerase delta complex
D RPA (replication factor A)
D RFC (replication factor C)
D Other MMR factors
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D MRN(MRX) complex
D BRCA1-core complex
D BRCA1-A complex
D BRCA1-B complex
D BRCA1-C complex
D BRCA complex
D RecA family proteins
D Rad52 family proteins
D Rad54 family proteins
D RecQ family DNA helicases
D Bloom's syndrome complex (BTR)
D RPA (replication factor A)
D Protein phosphatase 4
D AP-5 complex
D SMC5-SMC6 complex
D Other HR factors
C NHEJ (non-homologous end-joining)
D DNA-PK complex
D MRX complex
D DNA Ligase 4 complex
D X-family DNA polymerases
D Other NHEJ factors
C FA (Fanconi anemia) pathway
D FA core complex
D FA core complex binding factors
D Bloom's syndrome complex (BTR)
D FANCD2-I complex
D Downstream FA components
D Other FA pathway factors
C Other DSBR factors
D Protein phosphatase 6
D Ubiquitin ligases
D Others
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
C B-family DNA polymerases
C A-family DNA polymerase
C Rad6 epistasis group
C Other TLS factors
B Check point factors
C Rad9-Hus1-Rad1 complex
C HRAD17(Rad24)-RFC complex
C Rad17-Mec3-Ddc1 complex
C FPC (fork protection complex)
C Triple T complex
C BAG6-UBL4A-GET4 complex
C Other check point factors
B Other factors with a suspected DNA repair function
C DNA polymerases
C Nucleases
C Helicases
C PSO4 complex
C Modulation of nucleotide pools
D BRADO0585 Putative mutator protein mutT K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO2283 conserved hypothetical protein; putative NUDIX domain K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO5692 putative NUDIX hydrolase (modular protein) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO3690 conserved hypothetical protein; putative NUDIX hydrolase family protein. K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO2052 putative Nudix hydrolase family protein; putative ADP-ribose pyrophosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO3028 conserved hypothetical protein; putative MutT/nudix family protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO2098 Putative Nudix hydrolase family protein; putative ADP-ribose pyrophosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO0078 dut; Deoxyuridine 5'-triphosphate nucleotidohydrolase (dUTPase) (dUTP pyrophosphatase) K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
#
AProkaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D BRADO6764 ogt2; O-6-methylguanine-DNA methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D BRADO6430 ogt; Putative methylated-DNA-protein-cystein methyltransferase (6-O-methylguanine-DNA methyltransferase) K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D BRADO0154 putative methylated-DNA--protein-cysteine methyltransferase (O-6-methylguanine-DNA alkyltransferase); putative ADA regulatory protein K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D BRADO0442 putative Deoxyribodipyrimidine photo-lyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
D BRADO3224 Deoxyribodipyrimidine photo-lyase (DNA photolyase) (Photoreactivating enzyme) K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
D BRADO2608 conserved hypothetical protein K06876 phrB; (6-4)DNA photolyase [EC:4.1.99.13]
D BRADO2590 alkB; Alkylated DNA repair protein alkB K03919 alkB; DNA oxidative demethylase [EC:1.14.11.33]
C BER (base exicision repair)
D DNA glycosylases
E BRADO5719 putative G/U mismatch-specific DNA glycosylase (mug-like) K03649 mug; double-stranded uracil-DNA glycosylase [EC:3.2.2.28]
E BRADO2643 Putative Uracil-DNA glycosylase K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E BRADO4471 putative uracil-DNA glycosylase K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E BRADO2019 putative DNA polymerases K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E BRADO6499 putative DNA-3-methyladenine glycosidase K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E BRADO3880 putative 3-methyladenine DNA glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E BRADO2005 mutY; adenine glycosylase mutY K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E BRADO2046 tag; 3-methyl-adenine DNA glycosylase I, constitutive K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E BRADO0074 mutM; Bifunctional mutM protein:Formamidopyrimidine-DNA glycosylase (Fapy-DNA glycosylase); (DNA-(apurinic or apyrimidinic site) lyase mutM) (AP lyase mutM) K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E BRADO0152 nth; endonuclease III DNA-(apurinic or apyrimidinic site) lyase K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E BRADO4062 xthA2; exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E BRADO0181 putative exodeoxyribonuclease III (xthA) K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E BRADO3288 exodeoxyribonuclease III (Exonuclease III) (EXO III) (AP endonuclease VI) K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
D RecJ
E BRADO3577 putative single-stranded-DNA-specific exonuclease recJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E BRADO5649 ligA; DNA ligase (Polydeoxyribonucleotide synthase [NAD+]) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E BRADO0752 polA; DNA polymerase I (POL I) K02335 polA; DNA polymerase I [EC:2.7.7.7]
C NER (nucleotide excision repair)
D GGR (global genome repair) factors
E BRADO4010 uvrA; UvrABC system protein A (UvrA protein)(Excinuclease ABC subunit A)(Excinuclease ATPase subunit) K03701 uvrA; excinuclease ABC subunit A
E BRADO5995 putative UvrABC system, protein B (UvrB, Excinuclease ABC subunit B) K03702 uvrB; excinuclease ABC subunit B
E BRADO6055 uvrC; excinuclease ABC subunit C K03703 uvrC; excinuclease ABC subunit C
E BRADO0671 Putative ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E BRADO5618 uvrD; DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E BRADO0752 polA; DNA polymerase I (POL I) K02335 polA; DNA polymerase I [EC:2.7.7.7]
E BRADO5649 ligA; DNA ligase (Polydeoxyribonucleotide synthase [NAD+]) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D TCR (transcription coupled repair) factors
E DNA-directed RNA polymerase complex (RNAP)
F BRADO3054 rpoB; RNA polymerase, beta subunit K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F BRADO3055 rpoC; RNA polymerase, beta prime subunit K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F BRADO3090 rpoA; DNA-directed RNA polymerase alpha chain K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F BRADO4469 rpoZ; RNA polymerase omega subunit K03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F BRADO3771 Mfd; transcription repair coupling factor K03723 mfd; transcription-repair coupling factor (superfamily II helicase) [EC:5.6.2.4]
F BRADO2286 putative transcription repair coupling factor K03723 mfd; transcription-repair coupling factor (superfamily II helicase) [EC:5.6.2.4]
C MMR (mismatch excision repair)
D Mismatch and loop recognition factors
E BRADO0537 mutS; DNA mismatch repair protein MutS K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E BRADO6079 mutL; DNA mismatch repair protein MutL K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E BRADO6092 putative exonuclease VII, large subunit OB-fold nucleic acid binding domain K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E BRADO2164 xseB; exodeoxyribonuclease small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E BRADO4145 dnaE; DNA polymerase III, alpha subunit K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E BRADO0002 dnaN; DNA polymerase III, beta-subunit K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E BRADO3329 putative DNA polymerase III, chi subunit, HolC K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E BRADO0191 conserved hypothetical protein; putative DNA polymerase III, delta subunit K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E BRADO3828 putative DNA polymerase III, delta prime subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E BRADO0202 dnaQ; DNA polymerase III: epsilon subunit, 3-5 exonucleolytic proofreading function K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E BRADO4398 hypothetical protein; putative DNA-directed DNA polymerase K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E BRADO0763 Putative DNA polymerase III (gamma and tau subunits) K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E BRADO5649 ligA; DNA ligase (Polydeoxyribonucleotide synthase [NAD+]) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E BRADO0671 Putative ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E BRADO5618 uvrD; DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E BRADO4002 ssb; Single-stranded DNA-binding protein controls activity of RecBCD nuclease K03111 ssb; single-strand DNA-binding protein
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D RecBC pathway proteins
E BRADO4985 recA; Recombinase A (recA) K03553 recA; recombination protein RecA
E BRADO1145 ruvA; Holliday junction DNA helicase ruvA K03550 ruvA; holliday junction DNA helicase RuvA
E BRADO1147 ruvB; Holliday junction DNA helicase ruvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E BRADO1144 ruvC; Crossover junction endodeoxyribonuclease ruvC (Holliday junction nuclease ruvC) K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E BRADO0413 priA; Primosomal protein N' (replication factor Y) K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
D RecFOR pathway proteins
E BRADO4985 recA; Recombinase A (recA) K03553 recA; recombination protein RecA
E BRADO3282 radA; DNA repair protein (DNA repair protein) K04485 radA; DNA repair protein RadA/Sms
E BRADO0003 recF; DNA replication and repair protein recF K03629 recF; DNA replication and repair protein RecF
E BRADO3769 recG; DNA helicase, ATP-dependent resolution of Holliday junctions, branch migration K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E BRADO3577 putative single-stranded-DNA-specific exonuclease recJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E BRADO4460 putative DNA repair protein RecO (Recombination protein O) K03584 recO; DNA repair protein RecO (recombination protein O)
E BRADO0765 recR; Recombination protein recR K06187 recR; recombination protein RecR
E BRADO5650 recN; DNA repair protein RecN (Recombination protein N) K03631 recN; DNA repair protein RecN (Recombination protein N)
E BRADO1145 ruvA; Holliday junction DNA helicase ruvA K03550 ruvA; holliday junction DNA helicase RuvA
E BRADO1147 ruvB; Holliday junction DNA helicase ruvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E BRADO1144 ruvC; Crossover junction endodeoxyribonuclease ruvC (Holliday junction nuclease ruvC) K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
E BRADO0084 putative helicase-exonuclease type V protein family, addA subunit K16898 addA; ATP-dependent helicase/nuclease subunit A [EC:5.6.2.4 3.1.-.-]
E BRADO0083 putative helicase-exonuclease type V protein family, addB subunit K16899 addB; ATP-dependent helicase/nuclease subunit B [EC:5.6.2.4 3.1.-.-]
D Other HR factor
D Archaeal homologous recombinant proteins
E BRADO2688 Conserved hypothetical protein; Putative ATPase K06915 herA; DNA double-strand break repair helicase HerA and related ATPase
C NHEJ (non-homologous end-joining)
D Two-component NHEJ DNA repair complex
E BRADO2726 conserved hypothetical protein; putative Ku family protein K10979 ku; DNA end-binding protein Ku
E BRADO5824 conserved hypothetical protein; putative Ku protein K10979 ku; DNA end-binding protein Ku
E BRADO5823 putative ATP-dependent DNA ligase K01971 ligD; bifunctional non-homologous end joining protein LigD [EC:6.5.1.1]
D SHIIR (short-homology-independent illegitimate recombination)
E Facilitator
F BRADO3999 gyrA; DNA gyrase, subunit A, type II topoisomerase K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F BRADO0004 gyrB; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F BRADO4508 topA; DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
F BRADO0345 conserved hypothetical protein; putative eukaryotic-like DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F BRADO3577 putative single-stranded-DNA-specific exonuclease recJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F BRADO4460 putative DNA repair protein RecO (Recombination protein O) K03584 recO; DNA repair protein RecO (recombination protein O)
F BRADO0765 recR; Recombination protein recR K06187 recR; recombination protein RecR
F BRADO5649 ligA; DNA ligase (Polydeoxyribonucleotide synthase [NAD+]) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F BRADO4416 ihfA; integration host factor alpha-subunit (IHF-alpha) K04764 ihfA; integration host factor subunit alpha
F BRADO0094 ihfB; Integration host factor beta-subunit (IHF-beta) K05788 ihfB; integration host factor subunit beta
E Supressor
F BRADO1125 recQ; ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F BRADO4010 uvrA; UvrABC system protein A (UvrA protein)(Excinuclease ABC subunit A)(Excinuclease ATPase subunit) K03701 uvrA; excinuclease ABC subunit A
F BRADO5995 putative UvrABC system, protein B (UvrB, Excinuclease ABC subunit B) K03702 uvrB; excinuclease ABC subunit B
F BRADO4837 putative histone-like nucleoid-structuring protein H-NS family K03746 hns; DNA-binding protein H-NS
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D BRADO4523 dinB; DNA polymerase IV, devoid of proofreading, damage-inducible protein P K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
D BRADO1464 dinB; DNA polymerase IV, devoid of proofreading, damage-inducible protein P K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D BRADO4985 recA; Recombinase A (recA) K03553 recA; recombination protein RecA
D BRADO5340 putative LexA repressor K01356 lexA; repressor LexA [EC:3.4.21.88]
D BRADO4120 lexA; SOS response transcriptional repressor, lexA K01356 lexA; repressor LexA [EC:3.4.21.88]
D BRADO5650 recN; DNA repair protein RecN (Recombination protein N) K03631 recN; DNA repair protein RecN (Recombination protein N)
D BRADO2645 conserved hypothetical protein K14160 imuA; protein ImuA
D BRADO2646 putative DNA-directed DNA polymerase K14161 imuB; protein ImuB
D BRADO2647 dnaE2; Error-prone DNA polymerase K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D BRADO4002 ssb; Single-stranded DNA-binding protein controls activity of RecBCD nuclease K03111 ssb; single-strand DNA-binding protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D BRADO6735 putative ATP dependent DNA helicase K03724 lhr; ATP-dependent helicase Lhr and Lhr-like helicase [EC:5.6.2.6 5.6.2.4]
C Modulation of nucleotide pools
D BRADO0585 Putative mutator protein mutT K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO2283 conserved hypothetical protein; putative NUDIX domain K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO5692 putative NUDIX hydrolase (modular protein) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO3690 conserved hypothetical protein; putative NUDIX hydrolase family protein. K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO2052 putative Nudix hydrolase family protein; putative ADP-ribose pyrophosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO3028 conserved hypothetical protein; putative MutT/nudix family protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO2098 Putative Nudix hydrolase family protein; putative ADP-ribose pyrophosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D BRADO0078 dut; Deoxyuridine 5'-triphosphate nucleotidohydrolase (dUTPase) (dUTP pyrophosphatase) K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D BRADO3475 nrd; ribonucleotide reductase large subunit. K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
C Others
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#[ BRITE | KEGG2 | KEGG ]
#Last updated: March 29, 2024