+F Repair protein KO
#
DNA Repair and Recombination Proteins - Roseomonas fluvialis
%
!
AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D Rmf_50560 methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D Rmf_11810 deoxyribodipyrimidine photo-lyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E Rmf_36220 A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E Rmf_01200 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 Rmf_52620 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 Rmf_50560 methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D Rmf_28370 AraC family transcriptional regulator K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D Rmf_44130 hypothetical protein K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D Rmf_11810 deoxyribodipyrimidine photo-lyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
D Rmf_11770 deoxyribodipyrimidine photo-lyase K06876 phrB; (6-4)DNA photolyase [EC:4.1.99.13]
C BER (base exicision repair)
D DNA glycosylases
E Rmf_07900 mismatch-specific DNA-glycosylase K03649 mug; double-stranded uracil-DNA glycosylase [EC:3.2.2.28]
E Rmf_20280 uracil-DNA glycosylase K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E Rmf_31990 uracil-DNA glycosylase K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E Rmf_35990 hypothetical protein K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E Rmf_12890 DNA-3-methyladenine glycosylase 1 K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E Rmf_33010 DNA-3-methyladenine glycosidase K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E Rmf_36220 A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E Rmf_16100 DNA-3-methyladenine glycosylase I K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E Rmf_52650 mutM; formamidopyrimidine-DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E Rmf_01200 nth; endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E Rmf_21720 xthA1; exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E Rmf_26560 exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E Rmf_02310 hypothetical protein K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
E Rmf_09830 nfi; endonuclease V K05982 E3.1.21.7; deoxyribonuclease V [EC:3.1.21.7]
D RecJ
E Rmf_22670 single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E Rmf_10310 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E Rmf_04910 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 Rmf_26330 uvrA; UvrABC system protein A K03701 uvrA; excinuclease ABC subunit A
E Rmf_41410 uvrB; UvrABC system protein B K03702 uvrB; excinuclease ABC subunit B
E Rmf_41550 uvrC; UvrABC system protein C K03703 uvrC; excinuclease ABC subunit C
E Rmf_10120 DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E Rmf_04910 DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E Rmf_10310 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 Rmf_41220 rpoB; DNA-directed RNA polymerase subunit beta K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F Rmf_41210 rpoC; DNA-directed RNA polymerase subunit beta' K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F Rmf_40910 rpoA; DNA-directed RNA polymerase subunit alpha K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F Rmf_31960 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 Rmf_25350 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 Rmf_51700 mutS; DNA mismatch repair protein MutS K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E Rmf_49630 hypothetical protein K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E Rmf_02680 xseA; exodeoxyribonuclease 7 large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E Rmf_48880 xseB; exodeoxyribonuclease 7 small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E Rmf_24910 DNA-directed DNA polymerase K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E Rmf_00020 DNA polymerase III subunit beta K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E Rmf_37670 DNA polymerase III subunit chi K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E Rmf_50640 holA; DNA polymerase III subunit delta K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E Rmf_25230 DNA polymerase III subunit delta' K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E Rmf_35710 hypothetical protein K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E Rmf_51280 DNA polymerase III subunit epsilon K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E Rmf_51470 hypothetical protein K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E Rmf_10310 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E Rmf_10120 DNA helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E Rmf_26320 ssb; single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E Rmf_01720 very short patch repair endonuclease K07458 vsr; DNA mismatch endonuclease, patch repair protein [EC:3.1.-.-]
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D RecBC pathway proteins
E Rmf_29320 recA; protein RecA K03553 recA; recombination protein RecA
E Rmf_14170 ruvA; Holliday junction ATP-dependent DNA helicase RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E Rmf_14180 ruvB; Holliday junction ATP-dependent DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E Rmf_14160 ruvC; crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E Rmf_08700 priA; primosomal protein N' K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
D RecFOR pathway proteins
E Rmf_29320 recA; protein RecA K03553 recA; recombination protein RecA
E Rmf_38300 radA; DNA repair protein RadA K04485 radA; DNA repair protein RadA/Sms
E Rmf_00040 recF; DNA replication and repair protein RecF K03629 recF; DNA replication and repair protein RecF
E Rmf_25380 ATP-dependent DNA helicase RecG K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E Rmf_22670 single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E Rmf_31900 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E Rmf_51450 recR; recombination protein RecR K06187 recR; recombination protein RecR
E Rmf_10340 DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E Rmf_14170 ruvA; Holliday junction ATP-dependent DNA helicase RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E Rmf_14180 ruvB; Holliday junction ATP-dependent DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E Rmf_14160 ruvC; crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
E Rmf_52520 double-strand break repair helicase AddA K16898 addA; ATP-dependent helicase/nuclease subunit A [EC:5.6.2.4 3.1.-.-]
E Rmf_52510 double-strand break repair protein AddB K16899 addB; ATP-dependent helicase/nuclease subunit B [EC:5.6.2.4 3.1.-.-]
D Other HR factor
D Archaeal homologous recombinant proteins
C NHEJ (non-homologous end-joining)
D Two-component NHEJ DNA repair complex
E Rmf_44010 ku; non-homologous end joining protein Ku K10979 ku; DNA end-binding protein Ku
E Rmf_44000 ATP-dependent 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 Rmf_26310 gyrA; DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F Rmf_00050 gyrB; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F Rmf_21450 topA; DNA topoisomerase 1 K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F Rmf_25160 transcriptional regulator K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F Rmf_22670 single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F Rmf_31900 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F Rmf_51450 recR; recombination protein RecR K06187 recR; recombination protein RecR
F Rmf_10310 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F Rmf_19530 ihfA; integration host factor subunit alpha K04764 ihfA; integration host factor subunit alpha
F Rmf_00960 ihfB; integration host factor subunit beta K05788 ihfB; integration host factor subunit beta
E Supressor
F Rmf_18090 recQ; ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F Rmf_26330 uvrA; UvrABC system protein A K03701 uvrA; excinuclease ABC subunit A
F Rmf_41410 uvrB; UvrABC system protein B K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D Rmf_48790 dinB; DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D Rmf_29320 recA; protein RecA K03553 recA; recombination protein RecA
D Rmf_32490 lexA; LexA repressor K01356 lexA; repressor LexA [EC:3.4.21.88]
D Rmf_10340 DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D Rmf_11430 hypothetical protein K14160 imuA; protein ImuA
D Rmf_11420 imuB; protein ImuB K14161 imuB; protein ImuB
D Rmf_11410 dnaE2-2; error-prone DNA polymerase 2 K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D Rmf_26320 ssb; single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D Rmf_46060 recombinase RecX K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D Rmf_36900 DNA helicase K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D Rmf_28540 DNA ligase-associated DEXH box 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 Rmf_52620 dut; deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D Rmf_14460 ribonucleoside-diphosphate reductase K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D Rmf_14480 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