+F Repair protein KO
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DNA Repair and Recombination Proteins - Brenneria uluponensis
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AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
C BER (base exicision repair)
D DNA glycosylases
E PCO85_16815 ung; uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E PCO85_05775 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E PCO85_10840 nth; 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 PCO85_00620 NUDIX domain-containing protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PCO85_19335 mutT; 8-oxo-dGTP diphosphatase MutT K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PCO85_21545 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PCO85_00510 dut; dUTP diphosphatase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
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AProkaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D PCO85_14625 ada; bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D PCO85_04545 alkB; DNA oxidative demethylase AlkB K03919 alkB; DNA oxidative demethylase [EC:1.14.11.33]
C BER (base exicision repair)
D DNA glycosylases
E PCO85_16815 ung; uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E PCO85_03250 mug; G/U mismatch-specific DNA glycosylase K03649 mug; double-stranded uracil-DNA glycosylase [EC:3.2.2.28]
E PCO85_14630 DNA-3-methyladenine glycosylase K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E PCO85_05775 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E PCO85_00780 DNA-3-methyladenine glycosylase I K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E PCO85_00480 mutM; bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E PCO85_10840 nth; endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E PCO85_10615 xthA; exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E PCO85_08815 nfo; deoxyribonuclease IV K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
E PCO85_01460 nfi; deoxyribonuclease V K05982 E3.1.21.7; deoxyribonuclease V [EC:3.1.21.7]
D RecJ
E PCO85_03775 recJ; single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E PCO85_18310 ligA; NAD-dependent DNA ligase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E PCO85_00200 ligB; NAD-dependent DNA ligase LigB K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E PCO85_00105 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 PCO85_08175 uvrB; excinuclease ABC subunit UvrB K03702 uvrB; excinuclease ABC subunit B
E PCO85_08140 uvrC; excinuclease ABC subunit UvrC K03703 uvrC; excinuclease ABC subunit C
E PCO85_21415 uvrD; DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E PCO85_00105 polA; DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E PCO85_18310 ligA; NAD-dependent DNA ligase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E PCO85_00200 ligB; NAD-dependent DNA ligase LigB 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 PCO85_01395 rpoB; DNA-directed RNA polymerase subunit beta K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F PCO85_01400 rpoC; DNA-directed RNA polymerase subunit beta' K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F PCO85_20715 rpoA; DNA-directed RNA polymerase subunit alpha K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F PCO85_00190 rpoZ; DNA-directed RNA polymerase subunit omega K03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F PCO85_12585 mfd; 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 PCO85_06115 mutS; DNA mismatch repair protein MutS K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E PCO85_19995 mutL; DNA mismatch repair endonuclease MutL K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
E PCO85_05810 mutH; DNA mismatch repair endonuclease MutH K03573 mutH; DNA mismatch repair protein MutH
D DNA exonucleases
E PCO85_09405 sbcB; exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E PCO85_16425 xseA; exodeoxyribonuclease VII large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E PCO85_06425 xseB; exodeoxyribonuclease VII small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E PCO85_06075 dnaE; DNA polymerase III subunit alpha K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E PCO85_22515 dnaN; DNA polymerase III subunit beta K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E PCO85_02265 DNA polymerase III subunit chi K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E PCO85_07090 holA; DNA polymerase III subunit delta K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E PCO85_12670 holB; DNA polymerase III subunit delta' K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E PCO85_17065 dnaQ; DNA polymerase III subunit epsilon K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E PCO85_06635 dnaX; DNA polymerase III subunit gamma/tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
E PCO85_03560 DNA polymerase III subunit psi K02344 holD; DNA polymerase III subunit psi [EC:2.7.7.7]
E PCO85_09835 DNA polymerase III subunit theta K02345 holE; DNA polymerase III subunit theta [EC:2.7.7.7]
D DNA ligase
E PCO85_18310 ligA; NAD-dependent DNA ligase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E PCO85_00200 ligB; NAD-dependent DNA ligase LigB K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E PCO85_21415 uvrD; DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E PCO85_19025 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E PCO85_01875 dam; adenine-specific DNA-methyltransferase K06223 dam; DNA adenine methylase [EC:2.1.1.72]
E PCO85_03055 Dam family site-specific DNA-(adenine-N6)-methyltransferase K06223 dam; DNA adenine methylase [EC:2.1.1.72]
E PCO85_14295 DNA adenine methylase K06223 dam; DNA adenine methylase [EC:2.1.1.72]
E PCO85_17240 Dam family site-specific DNA-(adenine-N6)-methyltransferase K06223 dam; DNA adenine methylase [EC:2.1.1.72]
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D RecBC pathway proteins
E PCO85_05870 recB; exodeoxyribonuclease V subunit beta K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E PCO85_05860 recC; exodeoxyribonuclease V subunit gamma K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E PCO85_05875 recD; exodeoxyribonuclease V subunit alpha K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E PCO85_17515 recA; recombinase RecA K03553 recA; recombination protein RecA
E PCO85_09755 ruvA; Holliday junction branch migration protein RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E PCO85_09760 ruvB; Holliday junction branch migration DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E PCO85_09745 ruvC; crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E PCO85_21890 priA; primosomal protein N' K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E PCO85_18470 priB; primosomal replication protein N K02686 priB; primosomal replication protein N
E PCO85_06620 primosomal replication protein K04067 priC; primosomal replication protein N''
E PCO85_09405 sbcB; exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E PCO85_06310 SbcC/MukB-like Walker B domain-containing protein K03546 sbcC; DNA repair protein SbcC/Rad50
E PCO85_06315 sbcD; exonuclease subunit SbcD K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E PCO85_17515 recA; recombinase RecA K03553 recA; recombination protein RecA
E PCO85_02585 radA; DNA repair protein RadA K04485 radA; DNA repair protein RadA/Sms
E PCO85_22510 recF; DNA replication/repair protein RecF K03629 recF; DNA replication and repair protein RecF
E PCO85_00175 recG; ATP-dependent DNA helicase RecG K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E PCO85_03775 recJ; single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E PCO85_16705 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E PCO85_06645 recR; recombination mediator RecR K06187 recR; recombination protein RecR
E PCO85_04365 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E PCO85_06305 rdgC; recombination-associated protein RdgC K03554 rdgC; recombination associated protein RdgC
E PCO85_09755 ruvA; Holliday junction branch migration protein RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E PCO85_09760 ruvB; Holliday junction branch migration DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E PCO85_09745 ruvC; crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
E PCO85_20470 cas1e; type I-E CRISPR-associated endonuclease Cas1e K15342 cas1; CRISP-associated protein Cas1
E PCO85_08595 DEAD/DEAH box helicase family protein K19789 radD; DNA repair protein RadD
D Archaeal homologous recombinant proteins
E PCO85_06310 SbcC/MukB-like Walker B domain-containing protein K03546 sbcC; DNA repair protein SbcC/Rad50
E PCO85_06315 sbcD; exonuclease subunit SbcD K03547 sbcD; DNA repair protein SbcD/Mre11
C NHEJ (non-homologous end-joining)
D Two-component NHEJ DNA repair complex
D SHIIR (short-homology-independent illegitimate recombination)
E Facilitator
F PCO85_06735 gyrA; DNA topoisomerase (ATP-hydrolyzing) subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F PCO85_22505 gyrB; DNA topoisomerase (ATP-hydrolyzing) subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F PCO85_10825 topA; type I DNA topoisomerase K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F PCO85_01470 hupA; nucleoid-associated protein HU-alpha K05787 hupA; DNA-binding protein HU-alpha
F PCO85_06515 hupB; nucleoid-associated protein HU-beta K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F PCO85_03775 recJ; single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F PCO85_16705 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F PCO85_06645 recR; recombination mediator RecR K06187 recR; recombination protein RecR
F PCO85_18310 ligA; NAD-dependent DNA ligase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
F PCO85_00200 ligB; NAD-dependent DNA ligase LigB K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F PCO85_01555 fis; DNA-binding transcriptional regulator Fis K03557 fis; Fis family transcriptional regulator, factor for inversion stimulation protein
F PCO85_10295 ihfA; integration host factor subunit alpha K04764 ihfA; integration host factor subunit alpha
F PCO85_09215 ihfB; integration host factor subunit beta K05788 ihfB; integration host factor subunit beta
E Supressor
F PCO85_09405 sbcB; exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
F PCO85_21385 recQ; ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F PCO85_08175 uvrB; excinuclease ABC subunit UvrB K03702 uvrB; excinuclease ABC subunit B
F PCO85_10665 hns; DNA-binding transcriptional regulator H-NS K03746 hns; DNA-binding protein H-NS
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D PCO85_17845 dinB; DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D PCO85_17515 recA; recombinase RecA K03553 recA; recombination protein RecA
D PCO85_02825 lexA; transcriptional repressor LexA K01356 lexA; repressor LexA [EC:3.4.21.88]
D PCO85_04365 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D PCO85_19560 DNA polymerase II K02336 polB; DNA polymerase II [EC:2.7.7.7]
D PCO85_19025 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D PCO85_12755 dinI; DNA damage-inducible protein I K12149 dinI; DNA-damage-inducible protein I
D PCO85_17510 recX; recombination regulator RecX K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D PCO85_21685 rep; DNA helicase Rep K03656 rep; ATP-dependent DNA helicase Rep [EC:5.6.2.4]
D PCO85_15930 helD; DNA helicase IV K03658 helD; DNA helicase IV [EC:5.6.2.4]
D PCO85_08295 dinG; ATP-dependent DNA helicase DinG K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D PCO85_10460 ATP-dependent DNA helicase K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
C Modulation of nucleotide pools
D PCO85_00620 NUDIX domain-containing protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PCO85_19335 mutT; 8-oxo-dGTP diphosphatase MutT K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PCO85_21545 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D PCO85_00510 dut; dUTP diphosphatase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D PCO85_06725 nrdA; class 1a ribonucleoside-diphosphate reductase subunit alpha K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D PCO85_06720 nrdB; class Ia ribonucleoside-diphosphate reductase subunit beta 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