+F Repair protein KO
#
DNA Repair and Recombination Proteins - Pseudomonas mendocina ymp
%
!
AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D Pmen_1887 methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D Pmen_1071 deoxyribodipyrimidine photo-lyase type I K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E Pmen_1381 Uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E Pmen_3805 methylpurine-DNA glycosylase (MPG) K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E Pmen_4259 A/G-specific DNA-adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E Pmen_1398 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
E Pmen_4111 helicase c2 K10844 ERCC2; DNA excision repair protein ERCC-2 [EC:5.6.2.3]
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 Pmen_0934 8-oxo-dGTPase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D Pmen_1413 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D Pmen_3179 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D Pmen_4378 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 Pmen_1887 methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D Pmen_0834 DNA-O6-methylguanine--protein-cysteine S-methyltransferase / Transcriptional regulator Ada K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D Pmen_1071 deoxyribodipyrimidine photo-lyase type I K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
D Pmen_1204 deoxyribodipyrimidine photolyase-related protein K06876 phrB; (6-4)DNA photolyase [EC:4.1.99.13]
C BER (base exicision repair)
D DNA glycosylases
E Pmen_1381 Uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E Pmen_4147 hypothetical protein K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E Pmen_1888 AlkA domain protein K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E Pmen_3805 methylpurine-DNA glycosylase (MPG) K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E Pmen_4259 A/G-specific DNA-adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E Pmen_0015 DNA-3-methyladenine glycosylase I K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E Pmen_4197 Formamidopyrimidine-DNA glycosylase / DNA-(apurinic or apyrimidinic site) lyase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E Pmen_1398 DNA-(apurinic or apyrimidinic site) lyase K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E Pmen_2436 Exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E Pmen_4384 exodeoxyribonuclease III Xth K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E Pmen_0899 Endonuclease V K05982 E3.1.21.7; deoxyribonuclease V [EC:3.1.21.7]
D RecJ
E Pmen_3376 exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E Pmen_2746 DNA ligase, NAD-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Pmen_0453 DNA ligase (NAD(+)) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E Pmen_0154 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 Pmen_3878 Excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
E Pmen_2737 Excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
E Pmen_2374 Excinuclease ABC subunit C K03703 uvrC; excinuclease ABC subunit C
E Pmen_4513 ATP-dependent DNA helicase UvrD K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E Pmen_0154 DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E Pmen_2746 DNA ligase, NAD-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Pmen_0453 DNA ligase (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 Pmen_3916 DNA-directed RNA polymerase subunit beta K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F Pmen_3915 DNA-directed RNA polymerase subunit beta' K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F Pmen_3884 DNA-directed RNA polymerase subunit alpha K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F Pmen_4389 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 Pmen_1593 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
D Molecular matchmaker
E Pmen_0633 DNA mismatch repair protein MutL K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E Pmen_3314 Exodeoxyribonuclease I subunit C K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E Pmen_3490 Exodeoxyribonuclease VII large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E Pmen_3840 exodeoxyribonuclease VII, small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E Pmen_3038 DNA polymerase III, alpha subunit K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E Pmen_0002 DNA polymerase III, beta subunit K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E Pmen_3528 DNA polymerase III, chi subunit K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E Pmen_3788 DNA polymerase III, delta subunit K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E Pmen_1634 DNA polymerase III, delta prime subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E Pmen_3729 DNA polymerase III, epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E Pmen_4544 Exonuclease, RNase T and DNA polymerase III K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E Pmen_2067 DNA polymerase III, epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E Pmen_4098 DNA polymerase III, epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E Pmen_2647 DNA polymerase III, subunits gamma and tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E Pmen_2746 DNA ligase, NAD-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Pmen_0453 DNA ligase (NAD(+)) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E Pmen_4513 ATP-dependent DNA helicase UvrD K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E Pmen_3876 single-strand binding protein K03111 ssb; single-strand DNA-binding protein
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D RecBC pathway proteins
E Pmen_1986 DNA helicase/exodeoxyribonuclease V, beta subunit K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E Pmen_1985 DNA helicase/exodeoxyribonuclease V, gamma subunit K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E Pmen_1987 DNA helicase/exodeoxyribonuclease V, alpha subunit K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E Pmen_3015 RecA protein K03553 recA; recombination protein RecA
E Pmen_0425 recA protein K03553 recA; recombination protein RecA
E Pmen_1271 Holliday junction DNA helicase subunit RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E Pmen_1272 Holliday junction DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E Pmen_1270 Holliday junction endonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E Pmen_0536 replication restart DNA helicase PriA K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E Pmen_3314 Exodeoxyribonuclease I subunit C K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E Pmen_3538 SMC domain protein K03546 sbcC; DNA repair protein SbcC/Rad50
E Pmen_3542 Exodeoxyribonuclease I subunit D K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E Pmen_3015 RecA protein K03553 recA; recombination protein RecA
E Pmen_0425 recA protein K03553 recA; recombination protein RecA
E Pmen_0756 DNA replication and repair protein RadA K04485 radA; DNA repair protein RadA/Sms
E Pmen_0003 DNA replication and repair protein RecF K03629 recF; DNA replication and repair protein RecF
E Pmen_4397 ATP-dependent DNA helicase RecG K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E Pmen_3376 exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E Pmen_1477 DNA replication and repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E Pmen_2645 recombination protein RecR K06187 recR; recombination protein RecR
E Pmen_3626 DNA replication and repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E Pmen_1313 putative exonuclease, RdgC K03554 rdgC; recombination associated protein RdgC
E Pmen_1271 Holliday junction DNA helicase subunit RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E Pmen_1272 Holliday junction DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E Pmen_1270 Holliday junction endonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
E Pmen_3755 CRISPR-associated protein, Cas1 family K15342 cas1; CRISP-associated protein Cas1
D Archaeal homologous recombinant proteins
E Pmen_3538 SMC domain protein K03546 sbcC; DNA repair protein SbcC/Rad50
E Pmen_3542 Exodeoxyribonuclease I subunit D K03547 sbcD; DNA repair protein SbcD/Mre11
E Pmen_3308 protein of unknown function DUF853, NPT hydrolase putative 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 Pmen_3216 Ku domain protein K10979 ku; DNA end-binding protein Ku
E Pmen_3217 ATP-dependent DNA ligase LigD phosphoesterase module / ATP-dependent DNA ligase LigD polymerase module K01971 ligD; bifunctional non-homologous end joining protein LigD [EC:6.5.1.1]
D SHIIR (short-homology-independent illegitimate recombination)
E Facilitator
F Pmen_1848 DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F Pmen_0004 DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F Pmen_1583 DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
F Pmen_2775 DNA topoisomerase K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F Pmen_4401 bacterial nucleoid protein HU alpha subunit K05787 hupA; DNA-binding protein HU-alpha
F Pmen_2053 bacterial nucleoid protein HU beta subunit K03530 hupB; DNA-binding protein HU-beta
F Pmen_2651 histone family protein DNA-binding protein K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F Pmen_3376 exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F Pmen_1477 DNA replication and repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F Pmen_2645 recombination protein RecR K06187 recR; recombination protein RecR
F Pmen_2746 DNA ligase, NAD-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
F Pmen_0453 DNA ligase (NAD(+)) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F Pmen_0709 DNA-binding protein Fis K03557 fis; Fis family transcriptional regulator, factor for inversion stimulation protein
F Pmen_1982 integration host factor, alpha subunit K04764 ihfA; integration host factor subunit alpha
F Pmen_1855 integration host factor, beta subunit K05788 ihfB; integration host factor subunit beta
E Supressor
F Pmen_3314 Exodeoxyribonuclease I subunit C K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
F Pmen_1812 ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F Pmen_0369 ATP-dependent DNA helicase, RecQ-like protein K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F Pmen_3878 Excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
F Pmen_2737 Excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D Pmen_1726 DNA-directed DNA polymerase K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D Pmen_3015 RecA protein K03553 recA; recombination protein RecA
D Pmen_0425 recA protein K03553 recA; recombination protein RecA
D Pmen_1587 SOS-response transcriptional repressor, LexA K01356 lexA; repressor LexA [EC:3.4.21.88]
D Pmen_3626 DNA replication and repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D Pmen_3572 DNA damage-inducible DNA polymerase II K02336 polB; DNA polymerase II [EC:2.7.7.7]
D Pmen_1936 hypothetical protein K14160 imuA; protein ImuA
D Pmen_1935 Nucleotidyltransferase/DNA polymerase involved in DNA repair-like protein K14161 imuB; protein ImuB
D Pmen_1934 DNA polymerase III, alpha subunit K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D Pmen_3876 single-strand binding protein K03111 ssb; single-strand DNA-binding protein
D Pmen_3014 regulatory protein RecX K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D Pmen_0253 ATP-dependent DNA helicase Rep K03656 rep; ATP-dependent DNA helicase Rep [EC:5.6.2.4]
D Pmen_1427 helicase c2 K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D Pmen_2194 DEAD/H associated domain protein K03724 lhr; ATP-dependent helicase Lhr and Lhr-like helicase [EC:5.6.2.6 5.6.2.4]
D Pmen_3426 DEAD/DEAH box helicase domain 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 Pmen_0934 8-oxo-dGTPase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D Pmen_1413 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D Pmen_3179 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D Pmen_4378 deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D Pmen_3151 ribonucleoside-diphosphate reductase, alpha subunit K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D Pmen_3152 Ribonucleoside-diphosphate reductase K00526 E1.17.4.1B; ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]
C Others
!
#
#[ BRITE | KEGG2 | KEGG ]
#Last updated: March 29, 2024