+F Repair protein KO
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DNA Repair and Recombination Proteins - Shewanella benthica
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AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D SHEWBE_3447 ogt; Methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
C BER (base exicision repair)
D DNA glycosylases
E SHEWBE_1346 ung; uracil-DNA-glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E SHEWBE_1758 mutY; adenine DNA glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E SHEWBE_2592 nth; endonuclease III DNA glycosylase/apyrimidinic (AP) 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
D RPA (replication factor A)
D Other NER factors
E SHEWBE_0211 Atp-dependent rna helicase, eif-4a family protein K10848 ERCC4; DNA excision repair protein ERCC-4 [EC:3.1.-.-]
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 SHEWBE_0897 mutT; Mutator mutT protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SHEWBE_0201 dut; deoxyuridinetriphosphatase 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 SHEWBE_3447 ogt; Methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
C BER (base exicision repair)
D DNA glycosylases
E SHEWBE_1346 ung; uracil-DNA-glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E SHEWBE_1758 mutY; adenine DNA glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E SHEWBE_0585 tag; 3-methyl-adenine DNA glycosylase I, constitutive K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E SHEWBE_0699 mutM; formamidopyrimidine/5-formyluracil/5-hydroxymethyluracil DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E SHEWBE_2592 nth; endonuclease III DNA glycosylase/apyrimidinic (AP) lyase K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E SHEWBE_3264 xthA; exonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E SHEWBE_1669 nfo; endonuclease IV with intrinsic 3'-5' exonuclease activity K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
D RecJ
E SHEWBE_1473 recJ; ssDNA exonuclease, 5' --> 3'-specific K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E SHEWBE_3338 DNA ligase, NAD(+)-dependent (modular protein) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E SHEWBE_0675 polA; fused DNA polymerase I 5'->3' exonuclease; 3'->5' polymerase; 3'->5' exonuclease K02335 polA; DNA polymerase I [EC:2.7.7.7]
C NER (nucleotide excision repair)
D GGR (global genome repair) factors
E SHEWBE_4417 uvrA; ATPase and DNA damage recognition protein of nucleotide excision repair excinuclease UvrABC K03701 uvrA; excinuclease ABC subunit A
E SHEWBE_2601 uvrB; excinulease of nucleotide excision repair, DNA damage recognition component K03702 uvrB; excinuclease ABC subunit B
E SHEWBE_2421 uvrC; excinuclease UvrABC, endonuclease subunit K03703 uvrC; excinuclease ABC subunit C
E SHEWBE_0029 uvrD; DNA-dependent ATPase I and helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SHEWBE_0675 polA; fused DNA polymerase I 5'->3' exonuclease; 3'->5' polymerase; 3'->5' exonuclease K02335 polA; DNA polymerase I [EC:2.7.7.7]
E SHEWBE_3338 DNA ligase, NAD(+)-dependent (modular protein) 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 SHEWBE_0331 rpoB; DNA-directed RNA polymerase beta chain (Transcriptase beta chain) (RNA polymerase beta subunit) K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F SHEWBE_0329 rpoC; DNA-directed RNA polymerase beta' chain (Transcriptase beta' chain) (RNA polymerase beta' subunit) K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F SHEWBE_0299 rpoA; RNA polymerase, alpha subunit K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F SHEWBE_0217 rpoZ; RNA polymerase, omega subunit K03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F SHEWBE_3208 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 SHEWBE_3830 mutS; methyl-directed mismatch repair protein K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E SHEWBE_1150 mutL; methyl-directed mismatch repair protein K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
E SHEWBE_1613 mutH; methyl-directed mismatch repair protein K03573 mutH; DNA mismatch repair protein MutH
D DNA exonucleases
E SHEWBE_3013 sbcB; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E SHEWBE_3642 xseA; exonuclease VII, large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E SHEWBE_1833 xseB; exonuclease VII small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E SHEWBE_1944 dnaE; DNA polymerase III alpha subunit K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E SHEWBE_0577 dnaN; DNA polymerase III, beta subunit K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E SHEWBE_4178 DNA polymerase III, chi subunit K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E SHEWBE_4031 DNA polymerase III, delta subunit K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E SHEWBE_3044 DNA polymerase III, delta prime subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E SHEWBE_2896 putative DNA polymerase III K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E SHEWBE_3294 Exonuclease K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E SHEWBE_3230 DNA polymerase III, gamma and tau subunits K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E SHEWBE_3338 DNA ligase, NAD(+)-dependent (modular protein) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E SHEWBE_0029 uvrD; DNA-dependent ATPase I and helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SHEWBE_4415 ssb; Single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E SHEWBE_0880 dam; DNA adenine methylase 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 SHEWBE_2525 recB; RecBCD enzyme subunit RecB K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E SHEWBE_2526 recC; RecBCD enzyme subunit RecC K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E SHEWBE_2524 recD; exonuclease V (RecBCD complex), alpha chain K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E SHEWBE_3828 recA; DNA strand exchange and recombination protein with protease and nuclease activity K03553 recA; recombination protein RecA
E SHEWBE_2586 ruvA; component of RuvABC resolvasome, regulatory subunit K03550 ruvA; holliday junction DNA helicase RuvA
E SHEWBE_2587 ruvB; holliday junction helicase, subunit B K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E SHEWBE_2585 ruvC; component of RuvABC resolvasome, endonuclease K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E SHEWBE_0926 priA; Primosome factor n' (replication factor Y) K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E SHEWBE_1106 priB; primosomal protein N K02686 priB; primosomal replication protein N
E SHEWBE_2147 putative Primosomal replication protein n'' K04067 priC; primosomal replication protein N''
E SHEWBE_3013 sbcB; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E SHEWBE_2175 putative Exonuclease SbcC K03546 sbcC; DNA repair protein SbcC/Rad50
E SHEWBE_2174 sbcD; Nuclease SbcCD subunit D K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E SHEWBE_3828 recA; DNA strand exchange and recombination protein with protease and nuclease activity K03553 recA; recombination protein RecA
E SHEWBE_3911 radA; repair protein radA homolog K04485 radA; DNA repair protein RadA/Sms
E SHEWBE_0578 recF; gap repair protein K03629 recF; DNA replication and repair protein RecF
E SHEWBE_0229 recG; ATP-dependent DNA helicase K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E SHEWBE_1473 recJ; ssDNA exonuclease, 5' --> 3'-specific K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E SHEWBE_1633 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E SHEWBE_3226 recR; gap repair protein K06187 recR; recombination protein RecR
E SHEWBE_3847 recN; recombination and repair protein K03631 recN; DNA repair protein RecN (Recombination protein N)
E SHEWBE_1856 rdgC; DNA-binding protein, non-specific K03554 rdgC; recombination associated protein RdgC
E SHEWBE_2586 ruvA; component of RuvABC resolvasome, regulatory subunit K03550 ruvA; holliday junction DNA helicase RuvA
E SHEWBE_2587 ruvB; holliday junction helicase, subunit B K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E SHEWBE_2585 ruvC; component of RuvABC resolvasome, endonuclease K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
E SHEWBE_3714 cas1; CRISPR-associated endonuclease Cas1 K15342 cas1; CRISP-associated protein Cas1
E SHEWBE_2349 yejH; putative nucleic acid ATP-dependent helicase K19789 radD; DNA repair protein RadD
D Archaeal homologous recombinant proteins
E SHEWBE_2175 putative Exonuclease SbcC K03546 sbcC; DNA repair protein SbcC/Rad50
E SHEWBE_2174 sbcD; Nuclease SbcCD subunit D 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 SHEWBE_2789 gyrA; DNA gyrase (type II topoisomerase), subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F SHEWBE_0579 gyrB; DNA gyrase, subunit B (type II topoisomerase) K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F SHEWBE_3217 topA; DNA topoisomerase I, omega subunit K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F SHEWBE_0976 hupB; HU, DNA-binding transcriptional regulator, beta subunit K03530 hupB; DNA-binding protein HU-beta
F SHEWBE_2117 hupB; DNA-binding protein HU-beta K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F SHEWBE_1473 recJ; ssDNA exonuclease, 5' --> 3'-specific K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F SHEWBE_1633 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F SHEWBE_3226 recR; gap repair protein K06187 recR; recombination protein RecR
F SHEWBE_3338 DNA ligase, NAD(+)-dependent (modular protein) K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F SHEWBE_4509 fis; global DNA-binding transcriptional dual regulator K03557 fis; Fis family transcriptional regulator, factor for inversion stimulation protein
F SHEWBE_2444 himA; integration host factor (IHF), alpha subunit, DNA-binding protein, DNA replication K04764 ihfA; integration host factor subunit alpha
F SHEWBE_2783 ihfB; integration host factor (IHF), DNA-binding protein, beta subunit K05788 ihfB; integration host factor subunit beta
E Supressor
F SHEWBE_3013 sbcB; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
F SHEWBE_2805 ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F SHEWBE_0193 recQ; ATP-dependent DNA helicase K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F SHEWBE_4417 uvrA; ATPase and DNA damage recognition protein of nucleotide excision repair excinuclease UvrABC K03701 uvrA; excinuclease ABC subunit A
F SHEWBE_2601 uvrB; excinulease of nucleotide excision repair, DNA damage recognition component K03702 uvrB; excinuclease ABC subunit B
F SHEWBE_1968 hns; global nucleic acid-binding transcriptional dual regulator H-NS K03746 hns; DNA-binding protein H-NS
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D SHEWBE_3963 dinB; DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
D SHEWBE_2990 Peptidase S24, S26A and S26B K03503 umuD; DNA polymerase V [EC:3.4.21.-]
C Other SOS response factors
D SHEWBE_3828 recA; DNA strand exchange and recombination protein with protease and nuclease activity K03553 recA; recombination protein RecA
D SHEWBE_0772 lexA; DNA-binding transcriptional repressor of SOS regulon K01356 lexA; repressor LexA [EC:3.4.21.88]
D SHEWBE_3847 recN; recombination and repair protein K03631 recN; DNA repair protein RecN (Recombination protein N)
D SHEWBE_2150 polB; DNA polymerase II K02336 polB; DNA polymerase II [EC:2.7.7.7]
D SHEWBE_4415 ssb; Single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D SHEWBE_2252 Regulatory protein RecX K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D SHEWBE_0009 rep; DNA helicase and single-stranded DNA-dependent ATPase K03656 rep; ATP-dependent DNA helicase Rep [EC:5.6.2.4]
D SHEWBE_2728 UvrD/REP helicase family protein K03658 helD; DNA helicase IV [EC:5.6.2.4]
D SHEWBE_2149 dinG; putative ATP-dependent helicase DinG homolog K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D SHEWBE_2457 yoaA; putative ATP-dependent helicase K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
C Modulation of nucleotide pools
D SHEWBE_0897 mutT; Mutator mutT protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SHEWBE_0201 dut; deoxyuridinetriphosphatase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D SHEWBE_2793 nrdA; ribonucleoside diphosphate reductase 1, alpha subunit K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D SHEWBE_2794 nrdB; ribonucleoside diphosphate reductase 1, beta subunit, ferritin-like 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: August 19, 2024