+F Repair protein KO
#
DNA Repair and Recombination Proteins - Methylorubrum extorquens DM4
%
!
AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D METDI3261 phr; deoxyribodipyrimidine photolyase (DNA photolyase) K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E METDI2137 ung; Uracil-DNA glycosylase (UDG) K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E METDI1079 Putative 3-methyladenine DNA glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E METDI3967 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E METDI4616 putative Endonuclease III (DNA-(apurinic or apyrimidinic site) lyase) K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
E METDI0564 nth; endonuclease III DNA glycosylase/apyrimidinic (AP) lyase K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
E METDI3481 hypothetical protein 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 METDI0186 putative mutator MutT protein precursor; putative NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D METDI4961 conserved hypothetical protein; putative MutT/nudix family protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D METDI2156 putative Nudix hydrolase family protein, putative pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D METDI5302 putative GDP-mannose mannosyl hydrolase (nudD) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D METDI2187 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 METDI5321 ada; fused DNA-binding transcriptional dual regulator; O6-methylguanine-DNA methyltransferase K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D METDI3261 phr; deoxyribodipyrimidine photolyase (DNA photolyase) K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E METDI2137 ung; Uracil-DNA glycosylase (UDG) K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E METDI3446 conserved hypothetical protein; DNA glycosylase domain; Uracil DNA glycosylase superfamily K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E METDI3088 ung; Uracil-DNA glycosylase superfamily protein (DNA replication, recombination and repair) K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E METDI5250 putative phage DNA polymerase K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E METDI0069 putative 3-methyladenine DNA glycosylase K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E METDI3681 conserved hypothetical protein; putative DNA glycosylase K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E METDI1079 Putative 3-methyladenine DNA glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E METDI3967 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E METDI5308 tag; 3-methyl-adenine DNA glycosylase I K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E METDI5040 mutM; 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 METDI4616 putative Endonuclease III (DNA-(apurinic or apyrimidinic site) lyase) K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
E METDI0564 nth; endonuclease III DNA glycosylase/apyrimidinic (AP) lyase K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
E METDI3481 hypothetical protein K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E METDI2718 xthA; Exodeoxyribonuclease III (Exonuclease III) (EXO III) (AP endonuclease VI) K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E METDI5024 xthA; Exodeoxyribonuclease III (Exonuclease III) (EXO III) (AP endonuclease VI) K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E METDI3200 nfi; Endonuclease V (Deoxyinosine 3'endonuclease) (Deoxyribonuclease V) (DNase V) K05982 E3.1.21.7; deoxyribonuclease V [EC:3.1.21.7]
D RecJ
E METDI3528 recJ; putative single-strand DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E METDI5692 dnlJ; DNA ligase, NAD(+)-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E METDI3199 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 METDI4877 uvrA; DNA excision repair enzyme subunit, with UvrBC K03701 uvrA; excinuclease ABC subunit A
E METDI0088 Excinuclease ABC, A subunit K03701 uvrA; excinuclease ABC subunit A
E METDI5049 uvrB; UvrABC system protein B (UvrB protein) (Excinuclease ABC subunit B) K03702 uvrB; excinuclease ABC subunit B
E METDI3647 uvrC; DNA exisiton repair enzyme together with UvrAB K03703 uvrC; excinuclease ABC subunit C
E METDI0197 uvrD; DNA-dependent ATPase I and helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E METDI0401 putative ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E METDI3199 polA; DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E METDI5692 dnlJ; DNA ligase, NAD(+)-dependent 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 METDI5011 rpoB; RNA polymerase, beta subunit K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F METDI5012 rpoC; RNA polymerase, beta prime subunit K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F METDI2949 rpoA; DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F METDI3986 rpoZ; DNA-directed RNA polymerase omega chain (RNAP omega subunit) (Transcriptase omega chain) (RNA polymerase omega subunit) K03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F METDI1887 DEAD/DEAH box helicase domain protein K03723 mfd; transcription-repair coupling factor (superfamily II helicase) [EC:5.6.2.4]
F METDI5159 mfd; transcription repair coupling protein, ATP-dependent helicase 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 METDI5283 mutS; DNA mismatch repair protein mutS K03555 mutS; DNA mismatch repair protein MutS
E METDI2576 putative DNA mismatch repair protein K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E METDI5266 mutL; DNA mismatch repair protein mutL K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E METDI4858 xseA; putative exonuclease VII, large subunit OB-fold nucleic acid binding domain K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E METDI5311 xseB; exodeoxyribonuclease VII small subunit (exonuclease VII small subunit) K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E METDI1528 dnaE; DNA polymerase III, alpha subunit K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E METDI0002 dnaN; DNA polymerase III, beta-subunit K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E METDI5706 conserved hypothetical protein K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E METDI2252 putative DNA polymerase III, delta subunit, holA K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E METDI5191 holB; DNA polymerase III, delta prime subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E METDI0201 hypothetical protein, putative exonuclease domain K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E METDI2148 dnaQ; DNA polymerase III epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E METDI2547 dnaX; DNA polymerase III, tau and gamma subunits K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
E METDI5377 hypothetical protein K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
E METDI5378 hypothetical protein K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E METDI5692 dnlJ; DNA ligase, NAD(+)-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E METDI0197 uvrD; DNA-dependent ATPase I and helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E METDI0401 putative ATP-dependent DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E METDI3020 ssb; Single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E METDI2587 putative single-strand binding protein/primosomal replication protein K03111 ssb; single-strand DNA-binding protein
E METDI4366 adenine-specific DNA 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 METDI0009 recD; Helicase K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E METDI3334 recA; DNA strand exchange and recombination protein with protease and nuclease activity K03553 recA; recombination protein RecA
E METDI1111 ruvA; Holliday junction ATP-dependent DNA helicase ruvA K03550 ruvA; holliday junction DNA helicase RuvA
E METDI5823 ruvB; Holliday junction ATP-dependent DNA helicase K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E METDI1109 ruvC; RuvC; Holliday junction nuclease K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E METDI1484 priA; Primosome factor N' (replication factor Y) K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E METDI0179 sbcC; Nuclease sbcCD subunit C K03546 sbcC; DNA repair protein SbcC/Rad50
E METDI0178 sbcD; ATP-dependent dsDNA exonuclease K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E METDI3334 recA; DNA strand exchange and recombination protein with protease and nuclease activity K03553 recA; recombination protein RecA
E METDI4928 radA; DNA repair protein RadA K04485 radA; DNA repair protein RadA/Sms
E METDI0003 recF; putative RecF protein K03629 recF; DNA replication and repair protein RecF
E METDI5157 recG; DNA helicase, ATP-dependent resolution of Holliday junctions, branch migration K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E METDI3528 recJ; putative single-strand DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E METDI1533 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E METDI2306 recR; recombination protein recR K06187 recR; recombination protein RecR
E METDI3723 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E METDI1111 ruvA; Holliday junction ATP-dependent DNA helicase ruvA K03550 ruvA; holliday junction DNA helicase RuvA
E METDI5823 ruvB; Holliday junction ATP-dependent DNA helicase K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E METDI1109 ruvC; RuvC; Holliday junction nuclease K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
E METDI5475 putative helicase-exonuclease type V protein family K16898 addA; ATP-dependent helicase/nuclease subunit A [EC:5.6.2.4 3.1.-.-]
E METDI5474 conserved hypothetical protein K16899 addB; ATP-dependent helicase/nuclease subunit B [EC:5.6.2.4 3.1.-.-]
D Other HR factor
E METDI3589 putative helicase domain protein, DEAD/DEAH motif K19789 radD; DNA repair protein RadD
D Archaeal homologous recombinant proteins
E METDI0179 sbcC; Nuclease sbcCD subunit C K03546 sbcC; DNA repair protein SbcC/Rad50
E METDI0178 sbcD; ATP-dependent dsDNA exonuclease K03547 sbcD; DNA repair protein SbcD/Mre11
E METDI5449 yjgR; putative enzyme with nucleoside triphosphate hydrolase domain 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 METDI5617 gyrA; DNA gyrase, subunit A (type II topoisomerase) K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F METDI3310 gyrB; DNA gyrase, subunit B (type II topoisomerase) K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F METDI4100 TopA; DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
F METDI2738 putative 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 METDI3528 recJ; putative single-strand DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F METDI1533 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F METDI2306 recR; recombination protein recR K06187 recR; recombination protein RecR
F METDI5692 dnlJ; DNA ligase, NAD(+)-dependent K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F METDI2820 ihfA; integration host factor (IHF), DNA-binding protein, alpha subunit K04764 ihfA; integration host factor subunit alpha
F METDI0057 ihfB; integration host factor (IHF), beta subunit, site-specific recombination K05788 ihfB; integration host factor subunit beta
E Supressor
F METDI0006 recQ; ATP-dependent DNA helicase K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F METDI4877 uvrA; DNA excision repair enzyme subunit, with UvrBC K03701 uvrA; excinuclease ABC subunit A
F METDI0088 Excinuclease ABC, A subunit K03701 uvrA; excinuclease ABC subunit A
F METDI5049 uvrB; UvrABC system protein B (UvrB protein) (Excinuclease ABC subunit B) K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D METDI5774 dinB; DNA polymerase IV (Pol IV) K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
D METDI4328 umuC; component of DNA polymerase V, subunit C K03502 umuC; DNA polymerase V
D METDI0144 umuC; component of DNA polymerase V, subunit C K03502 umuC; DNA polymerase V
D METDI4424 putative DNA-directed DNA polymerase K03502 umuC; DNA polymerase V
D p2METDI0016 hypothetical protein K03502 umuC; DNA polymerase V
D METDI0143 umuD; component of DNA polymerase V, subunit D K03503 umuD; DNA polymerase V [EC:3.4.21.-]
D METDI4329 umuD; component of DNA polymerase V, subunit D K03503 umuD; DNA polymerase V [EC:3.4.21.-]
D METDI5562 conserved hypothetical protein, putative repressor protein K03503 umuD; DNA polymerase V [EC:3.4.21.-]
C Other SOS response factors
D METDI3334 recA; DNA strand exchange and recombination protein with protease and nuclease activity K03553 recA; recombination protein RecA
D METDI5736 lexA; SOS response transcriptional repressor, lexA K01356 lexA; repressor LexA [EC:3.4.21.88]
D METDI3723 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D METDI5624 putative damage-inducible mutagenesis protein (ImuA-like) K14160 imuA; protein ImuA
D METDI5625 putative damage-inducible mutagenesis protein (ImuB-like) K14161 imuB; protein ImuB
D METDI5626 dnaE; error-prone DNA polymerase, DNA polymerase III, alpha subunit K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D METDI3020 ssb; Single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D METDI2587 putative single-strand binding protein/primosomal replication protein K03111 ssb; single-strand DNA-binding protein
D METDI3085 Conserved hypothetical protein K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D METDI3942 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 METDI0186 putative mutator MutT protein precursor; putative NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D METDI4961 conserved hypothetical protein; putative MutT/nudix family protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D METDI2156 putative Nudix hydrolase family protein, putative pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D METDI5302 putative GDP-mannose mannosyl hydrolase (nudD) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D METDI2187 dut; deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D METDI1585 nrd; ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent, 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