+F Repair protein KO
#
DNA Repair and Recombination Proteins - Bradyrhizobium diazoefficiens USDA 110
%
!
AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D bll7808 bll7808; methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D bll1113 bll1113; methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D blr0915 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D blr5310 blr5310; DNA photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E bll4476 bll4476; DNA-3-methyladenine glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E blr2499 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E blr0689 blr0689; endonuclease III 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 blr0207 blr0207; NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D bll6630 bll6630; ORF_ID:bll6630; hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D bll2562 nudD; GDP-mannose mannosyl hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D bll0758 dut; deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
#
AProkaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D bll7808 bll7808; methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D bll1113 bll1113; methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D blr0915 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D bll0687 bll0687; transcriptional regulatory protein K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D bll8171 bll8171; transcriptional regulatory protein K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D blr5310 blr5310; DNA photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
D blr2963 alkB; alkylated DNA repair protein K03919 alkB; DNA oxidative demethylase [EC:1.14.11.33]
C BER (base exicision repair)
D DNA glycosylases
E blr6661 blr6661; ORF_ID:blr6661; putative glycosylase K03649 mug; double-stranded uracil-DNA glycosylase [EC:3.2.2.28]
E bll3023 bll3023; ORF_ID:bll3023; hypothetical protein K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E blr5068 blr5068; ORF_ID:blr5068; hypothetical protein K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E bll2523 bll2523; ORF_ID:bll2523; hypothetical protein K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E bll1371 alkA; DNA-3-methyladenine glycosidase II K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E bll4476 bll4476; DNA-3-methyladenine glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E blr2499 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E bll2553 tag; 3-methyladenine-DNA glycosylase K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E blr0762 blr0762; formamidopyrimidine-DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E blr0689 blr0689; endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E blr0618 blr0618; exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E blr4761 blr4761; exonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E bll4069 bll4069; exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E blr3667 blr3667; ORF_ID:blr3667; hypothetical protein K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
D RecJ
E blr4377 recJ; single-stranded-DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E bll6591 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E blr8131 polA; DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
C NER (nucleotide excision repair)
D GGR (global genome repair) factors
E blr4702 uvrA; ABC excinuclease subunit A K03701 uvrA; excinuclease ABC subunit A
E blr8051 uvrA; ORF_ID:blr8051; putative excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
E blr7431 uvrB; excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
E blr7470 uvrC; excinuclease ABC chain C K03703 uvrC; excinuclease ABC subunit C
E blr6561 blr6561; DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E blr5493 uvrD; ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E blr8131 polA; DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E bll6591 ligA; DNA ligase 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 bll5410 rpoB; DNA-directed RNA polymerase beta chain K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F bll5409 rpoC; DNA-directed RNA polymerase beta' chain K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F bll5376 rpoA; DNA-directed RNA polymerase alpha subunit K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F bll5066 rnpO; RNA polymerase omega subunit K03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F bll4601 mfd; transcription-repair coupling factor K03723 mfd; transcription-repair coupling factor (superfamily II helicase) [EC:5.6.2.4]
F bll4667 bll4667; ORF_ID:bll4667; probable 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 bll0924 mutS; DNA mismatch repair protein K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E blr7493 mutL; DNA mismatch repair protein K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E bll0068 bll0068; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E blr7507 blr7507; exodeoxyribonuclease VII large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E bsl2652 bsl2652; exodeoxyribonuclease small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E bll4866 dnaE; DNA polymerase III alpha chain K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E bll0829 dnaN; DNA polymerase III beta chain K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E blr4109 blr4109; ORF_ID:blr4109; hypothetical protein K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E blr0629 blr0629; ORF_ID:blr0629; hypothetical protein K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E bll4517 bll4517; ORF_ID:bll4517; probable DNA polymerase III delta prime subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E blr0640 dnaQ; DNA polymerase III epsilon chain K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E blr4117 blr4117; ORF_ID:blr4117; putative nuclease K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E blr8018 blr8018; ORF_ID:blr8018; hypothetical protein K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E bll8083 bll8083; ORF_ID:bll8083; hypothetical protein K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E bll8116 bll8116; DNA polymerase III tau subunit K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E bll6591 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E blr6561 blr6561; DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E blr5493 uvrD; ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E bll4698 ssb; single-strand DNA binding protein K03111 ssb; single-strand DNA-binding protein
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D RecBC pathway proteins
E bll4266 bll4266; ORF_ID:bll4266; unknown protein K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E bll5755 recA; RecA protein K03553 recA; recombination protein RecA
E blr1536 ruvA; holliday junction DNA helicase K03550 ruvA; holliday junction DNA helicase RuvA
E blr1537 ruvB; holliday junction DNA helicase K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E blr1535 ruvC; ORF_ID:blr1535; probable holliday junction nuclease K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E bll0445 priA; primosomal protein N' K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E bll0068 bll0068; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E bll1921 bll1921; ORF_ID:bll1921; exonuclease subunit SbcD homolog K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E bll5755 recA; RecA protein K03553 recA; recombination protein RecA
E bll4062 radA; DNA repair protein K04485 radA; DNA repair protein RadA/Sms
E bll0827 recF; DNA replication and repair protein K03629 recF; DNA replication and repair protein RecF
E blr4603 recG; ATP-dependent DNA helicase K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E blr4377 recJ; single-stranded-DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E bll5058 bll5058; recO-like protein K03584 recO; DNA repair protein RecO (recombination protein O)
E bll8114 recR; recombination protein K06187 recR; recombination protein RecR
E bll6593 recN; DNA repair protein K03631 recN; DNA repair protein RecN (Recombination protein N)
E blr1536 ruvA; holliday junction DNA helicase K03550 ruvA; holliday junction DNA helicase RuvA
E blr1537 ruvB; holliday junction DNA helicase K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E blr1535 ruvC; ORF_ID:blr1535; probable holliday junction nuclease K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
E bll0752 bll0752; ORF_ID:bll0752; putative helicase 2 K16898 addA; ATP-dependent helicase/nuclease subunit A [EC:5.6.2.4 3.1.-.-]
E bll0753 bll0753; ORF_ID:bll0753; hypothetical protein 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 bll1921 bll1921; ORF_ID:bll1921; exonuclease subunit SbcD homolog K03547 sbcD; DNA repair protein SbcD/Mre11
E blr3062 blr3062; ORF_ID:blr3062; hypothetical protein 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 blr6774 blr6774; ORF_ID:blr6774; hypothetical protein K10979 ku; DNA end-binding protein Ku
E bll8014 bll8014; ORF_ID:bll8014; hypothetical protein K10979 ku; DNA end-binding protein Ku
E blr1588 blr1588; conserved hypothetical protein K10979 ku; DNA end-binding protein Ku
E bll3120 bll3120; ORF_ID:bll3120; putative ATP-dependent DNA ligase protein K10979 ku; DNA end-binding protein Ku
E bll6773 bll6773; ORF_ID:bll6773; probable DNA ligase K01971 ligD; bifunctional non-homologous end joining protein LigD [EC:6.5.1.1]
E blr8022 blr8022; ORF_ID:blr8022; similar to 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 bll4696 gyrA; DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F bll0823 gyrB; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F blr5111 topA; DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
F bll0572 bll0572; ORF_ID:bll0572; putative DNA topoisomerase I (EC 5.99.1.2) K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F bsr4925 hup; ORF_ID:bsr4925; probable DNA-binding protein HU K03530 hupB; DNA-binding protein HU-beta
F bsl8312 hupT; HNS-type DNA binding protein K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F blr4377 recJ; single-stranded-DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F bll5058 bll5058; recO-like protein K03584 recO; DNA repair protein RecO (recombination protein O)
F bll8114 recR; recombination protein K06187 recR; recombination protein RecR
F bll6591 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F bll5019 ihfA; integration host factor alpha subunit K04764 ihfA; integration host factor subunit alpha
F blr0742 ihfB; integration host factor beta subunit K05788 ihfB; integration host factor subunit beta
E Supressor
F bll0068 bll0068; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
F bll0242 recQ; ATP-dependent DNA helicase K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F blr4702 uvrA; ABC excinuclease subunit A K03701 uvrA; excinuclease ABC subunit A
F blr8051 uvrA; ORF_ID:blr8051; putative excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
F blr7431 uvrB; excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D bll0861 dinP; DNA-damage-inducible protein K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
D blr5126 blr5126; DNA-damage inducible protein P K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D bll5755 recA; RecA protein K03553 recA; recombination protein RecA
D blr4826 lexA; LexA repressor K01356 lexA; repressor LexA [EC:3.4.21.88]
D blr6135 blr6135; ORF_ID:blr6135; unknown protein K01356 lexA; repressor LexA [EC:3.4.21.88]
D bll6593 recN; DNA repair protein K03631 recN; DNA repair protein RecN (Recombination protein N)
D blr3024 blr3024; ORF_ID:blr3024; hypothetical protein K14160 imuA; protein ImuA
D blr3025 blr3025; ORF_ID:blr3025; hypothetical protein K14161 imuB; protein ImuB
D blr3026 dnaE; DNA polymerase III alpha chain K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D bll4698 ssb; single-strand DNA binding protein K03111 ssb; single-strand DNA-binding protein
B Other factors with a suspected DNA repair function
C DNA polymerase
D blr8027 blr8027; ORF_ID:blr8027; putative DNA polymerase beta family K02347 polX; DNA polymerase (family X)
C DNA helicases
D blr1148 lhr; large ATP-dependent helicase-related protein 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 blr0207 blr0207; NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D bll6630 bll6630; ORF_ID:bll6630; hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D bll2562 nudD; GDP-mannose mannosyl hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D bll0758 dut; deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D bll0007 bll0007; ORF_ID:bll0007; probable ribonucleoside-diphosphate reductase (EC 1.17.4.1) K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D bll4274 nrdE; ribonucleoside-diphosphate reductase 2 alpha chain K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D bll0006 nrdB; ribonucleoside-diphosphate reductase beta subunit K00526 E1.17.4.1B; ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]
C Others
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#[ BRITE | KEGG2 | KEGG ]
#Last updated: March 29, 2024