+F Repair protein KO
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DNA Repair and Recombination Proteins - Yersinia pestis D106004
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AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D YPD4_2013 ogt; putative methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D YPD4_2336 phrB; putative deoxyribodipyrimidine photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E YPD4_2327 ung; uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E YPD4_0732 A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E YPD4_1966 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 YPD4_0495 mutator protein MutT K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D YPD4_0045 dut; deoxyuridine 5-triphosphate nucleotidohydrolase 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 YPD4_2013 ogt; putative methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D YPD4_0066 bifunctional regulatory protein/DNA repair protein K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D YPD4_2336 phrB; putative deoxyribodipyrimidine photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E YPD4_2327 ung; uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E YPD4_1627 putative glycosidase K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E YPD4_0732 A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E YPD4_3586 DNA-3-methyladenine glycosylase K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E YPD4_0048 mutM; formamidopyrimidine-DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E YPD4_1966 nth; endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E YPD4_1906 xthA; exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E YPD4_1155 nfo; endonuclease IV K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
E YPD4_3286 nfi; endonuclease V (deoxyinosine 3endoduclease) K05982 E3.1.21.7; deoxyribonuclease V [EC:3.1.21.7]
D RecJ
E YPD4_0790 recJ; single-stranded-DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E YPD4_0039 ligA2; DNA ligase, NAD-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E YPD4_2619 DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E YPD4_0016 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 YPD4_0284 uvrA; excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
E YPD4_1007 uvrB; excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
E YPD4_1652 uvrC; excinuclease ABC subunit C K03703 uvrC; excinuclease ABC subunit C
E YPD4_3388 uvrD; DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E YPD4_0016 polA; DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E YPD4_0039 ligA2; DNA ligase, NAD-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E YPD4_2619 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 YPD4_3298 rpoB; DNA-directed RNA polymerase beta subunit K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F YPD4_3297 rpoC; DNA-directed RNA polymerase beta subunit K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F YPD4_0201 rpoA; DNA-directed RNA polymerase alpha subunit K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F YPD4_2108 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 YPD4_2939 DNA mismatch repair protein MutS K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E YPD4_0322 mutL; DNA mismatch repair protein K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
E YPD4_0873 DNA mismatch repair protein K03573 mutH; DNA mismatch repair protein MutH
D DNA exonucleases
E YPD4_1388 sbcB; exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E YPD4_2254 xseA; exodeoxyribonuclease VII large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E YPD4_0926 dnaE; DNA polymerase III subunit alpha K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E YPD4_pMT0052 DNA polymerase III K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E YPD4_3607 dnaN; DNA polymerase III subunit beta K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E YPD4_3025 holC; DNA polymerase III subunit chi K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E YPD4_2412 DNA polymerase III, delta subunit K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E YPD4_2124 holB; DNA polymerase III subunit delta K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E YPD4_0947 dnaQ; DNA polymerase III subunit epsilon K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E YPD4_2739 dnaX; DNA polymerase III subunits gamma and tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
E YPD4_0368 holD; DNA polymerase III subunit psi K02344 holD; DNA polymerase III subunit psi [EC:2.7.7.7]
D DNA ligase
E YPD4_0039 ligA2; DNA ligase, NAD-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E YPD4_2619 DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E YPD4_3388 uvrD; DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E YPD4_0285 ssb; single-strand DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E YPD4_0135 DNA adenine methylase K06223 dam; DNA adenine methylase [EC:2.1.1.72]
E YPD4_1844 putative 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 YPD4_0885 exodeoxyribonuclease V beta chain K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E YPD4_0886 exodeoxyribonuclease V beta chain K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E YPD4_0883 recC; exodeoxyribonuclease V gamma chain K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E YPD4_0887 recD; exodeoxyribonuclease V alpha chain K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E YPD4_2897 recA; recombinase A K03553 recA; recombination protein RecA
E YPD4_1817 ruvA; Holliday junction DNA helicase motor protein K03550 ruvA; holliday junction DNA helicase RuvA
E YPD4_1818 ruvB; Holliday junction DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E YPD4_1816 ruvC; Holliday junction resolvase K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E YPD4_0096 priA; primosome assembly protein PriA K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E YPD4_2741 priC; primosomal replication protein n K04067 priC; primosomal replication protein N''
E YPD4_1388 sbcB; exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E YPD4_2811 periplasmic binding transport protein K03546 sbcC; DNA repair protein SbcC/Rad50
E YPD4_2810 sbcD; exonuclease SbcD K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E YPD4_2897 recA; recombinase A K03553 recA; recombination protein RecA
E YPD4_0382 radA; DNA repair protein RadA K04485 radA; DNA repair protein RadA/Sms
E YPD4_3606 recF; recombination protein F K03629 recF; DNA replication and repair protein RecF
E YPD4_0035 recG; ATP-dependent DNA helicase K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E YPD4_0790 recJ; single-stranded-DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E YPD4_2311 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E YPD4_2737 recombination protein RecR K06187 recR; recombination protein RecR
E YPD4_0961 DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E YPD4_2813 rdgC; recombination associated protein K03554 rdgC; recombination associated protein RdgC
E YPD4_1817 ruvA; Holliday junction DNA helicase motor protein K03550 ruvA; holliday junction DNA helicase RuvA
E YPD4_1818 ruvB; Holliday junction DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E YPD4_1816 ruvC; Holliday junction resolvase K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
E YPD4_2158 hypothetical protein K15342 cas1; CRISP-associated protein Cas1
E YPD4_1120 putative DEAD box helicase family protein K19789 radD; DNA repair protein RadD
D Archaeal homologous recombinant proteins
E YPD4_2811 periplasmic binding transport protein K03546 sbcC; DNA repair protein SbcC/Rad50
E YPD4_2810 sbcD; exonuclease SbcD K03547 sbcD; DNA repair protein SbcD/Mre11
E YPD4_0149 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
D SHIIR (short-homology-independent illegitimate recombination)
E Facilitator
F YPD4_1081 gyrA; DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F YPD4_3605 gyrB; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F YPD4_1949 topA; 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 YPD4_0790 recJ; single-stranded-DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F YPD4_2311 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F YPD4_2737 recombination protein RecR K06187 recR; recombination protein RecR
F YPD4_0039 ligA2; DNA ligase, NAD-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
F YPD4_2619 DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
E Supressor
F YPD4_1388 sbcB; exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
F YPD4_3379 recQ; ATP-dependent DNA helicase K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F YPD4_0284 uvrA; excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
F YPD4_1007 uvrB; excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
F YPD4_1913 hns; DNA-binding protein Hns K03746 hns; DNA-binding protein H-NS
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D YPD4_2826 dinP; DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D YPD4_2897 recA; recombinase A K03553 recA; recombination protein RecA
D YPD4_0276 lexA; LexA repressor K01356 lexA; repressor LexA [EC:3.4.21.88]
D YPD4_0961 DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D YPD4_0456 DNA polymerase II K02336 polB; DNA polymerase II [EC:2.7.7.7]
D YPD4_0285 ssb; single-strand DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D YPD4_2896 recX; RecA regulator RecX K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D YPD4_3417 rep; ATP-dependent DNA helicase Rep K03656 rep; ATP-dependent DNA helicase Rep [EC:5.6.2.4]
D YPD4_1280 helD; DNA helicase IV K03658 helD; DNA helicase IV [EC:5.6.2.4]
D YPD4_1072 dinG; putative ATP-dependent helicase DinG K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D YPD4_1831 putative DEAD box family helicase K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
C Modulation of nucleotide pools
D YPD4_0495 mutator protein MutT K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D YPD4_0045 dut; deoxyuridine 5-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D YPD4_2375 nrdE; ribonucleotide-diphosphate reductase alpha subunit K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D YPD4_1079 nrdA; ribonucleotide-diphosphate reductase alpha subunit K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D YPD4_1078 nrdB; ribonucleotide-diphosphate reductase beta subunit K00526 E1.17.4.1B; ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]
D YPD4_2376 nrdF; ribonucleotide-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