+F Repair protein KO
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DNA Repair and Recombination Proteins - Desulfobulbus oligotrophicus
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AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D HP555_01190 methylated-DNA--[protein]-cysteine S-methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D HP555_08070 methylated-DNA--[protein]-cysteine S-methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
C BER (base exicision repair)
D DNA glycosylases
E HP555_12520 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
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 HP555_02910 ERCC4 domain-containing 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 HP555_06185 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D HP555_06600 8-oxo-dGTP diphosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D HP555_09855 (deoxy)nucleoside triphosphate pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D HP555_06300 dut; dUTP diphosphatase 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 HP555_01190 methylated-DNA--[protein]-cysteine S-methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D HP555_08070 methylated-DNA--[protein]-cysteine S-methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
C BER (base exicision repair)
D DNA glycosylases
E HP555_06345 uracil-DNA glycosylase K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E HP555_01195 DNA-3-methyladenine glycosylase 2 family protein K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E HP555_12520 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E HP555_02455 mutM; bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
D AP endonucleases
E HP555_05760 xth; exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E HP555_04910 deoxyribonuclease IV K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
D RecJ
E HP555_10505 recJ; single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E HP555_05830 ligA; NAD-dependent DNA ligase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E HP555_06940 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 HP555_01180 uvrA; excinuclease ABC subunit UvrA K03701 uvrA; excinuclease ABC subunit A
E HP555_11440 uvrB; excinuclease ABC subunit UvrB K03702 uvrB; excinuclease ABC subunit B
E HP555_11300 uvrC; excinuclease ABC subunit UvrC K03703 uvrC; excinuclease ABC subunit C
E HP555_01545 UvrD-helicase domain-containing protein K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E HP555_09325 ATP-dependent helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E HP555_11610 ATP-dependent helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E HP555_06940 polA; DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E HP555_05830 ligA; NAD-dependent DNA ligase LigA 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 HP555_07525 rpoB; DNA-directed RNA polymerase subunit beta K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F HP555_07530 rpoC; DNA-directed RNA polymerase subunit beta' K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F HP555_07695 DNA-directed RNA polymerase subunit alpha K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F HP555_04550 hypothetical protein K03048 rpoE; DNA-directed RNA polymerase subunit delta
F HP555_08655 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 HP555_04520 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 HP555_05715 mutS; DNA mismatch repair protein MutS K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E HP555_08085 mutL; DNA mismatch repair endonuclease MutL K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E HP555_13555 exodeoxyribonuclease VII large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E HP555_00035 xseB; exodeoxyribonuclease VII small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E HP555_00005 dnaE; DNA polymerase III subunit alpha K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E HP555_04030 dnaN; DNA polymerase III subunit beta K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E HP555_06785 hypothetical protein K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E HP555_02055 holB; DNA polymerase III subunit delta' K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E HP555_10715 3'-5' exonuclease K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E HP555_09525 dnaX; DNA polymerase III subunit gamma/tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E HP555_05830 ligA; NAD-dependent DNA ligase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E HP555_01545 UvrD-helicase domain-containing protein K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E HP555_09325 ATP-dependent helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E HP555_11610 ATP-dependent helicase K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E HP555_01505 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E HP555_12150 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E HP555_03215 vsr; DNA mismatch endonuclease Vsr 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 HP555_04480 recB; exodeoxyribonuclease V subunit beta K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E HP555_04485 recC; exodeoxyribonuclease V subunit gamma K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E HP555_02915 AAA family ATPase K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E HP555_04475 recD; exodeoxyribonuclease V subunit alpha K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E HP555_03810 recA; recombinase RecA K03553 recA; recombination protein RecA
E HP555_05405 ruvA; Holliday junction branch migration protein RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E HP555_05410 ruvB; Holliday junction branch migration DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E HP555_05400 ruvC; crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E HP555_10630 priA; primosomal protein N' K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E HP555_03235 AAA family ATPase K03546 sbcC; DNA repair protein SbcC/Rad50
E HP555_13330 AAA family ATPase K03546 sbcC; DNA repair protein SbcC/Rad50
E HP555_03230 exonuclease SbcCD subunit D C-terminal domain-containing protein K03547 sbcD; DNA repair protein SbcD/Mre11
E HP555_13335 exonuclease SbcCD subunit D C-terminal domain-containing protein K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E HP555_03810 recA; recombinase RecA K03553 recA; recombination protein RecA
E HP555_00970 radA; DNA repair protein RadA K04485 radA; DNA repair protein RadA/Sms
E HP555_07210 putative DNA binding domain-containing protein K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E HP555_07220 putative DNA binding domain-containing protein K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E HP555_10505 recJ; single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E HP555_05860 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E HP555_09515 recR; recombination protein RecR K06187 recR; recombination protein RecR
E HP555_05375 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E HP555_03730 rdgC; recombination-associated protein RdgC K03554 rdgC; recombination associated protein RdgC
E HP555_05405 ruvA; Holliday junction branch migration protein RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E HP555_05410 ruvB; Holliday junction branch migration DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E HP555_05400 ruvC; crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
E HP555_09980 cas1c; type I-C CRISPR-associated endonuclease Cas1 K15342 cas1; CRISP-associated protein Cas1
E HP555_12315 cas1; CRISPR-associated endonuclease Cas1 K15342 cas1; CRISP-associated protein Cas1
D Archaeal homologous recombinant proteins
E HP555_03235 AAA family ATPase K03546 sbcC; DNA repair protein SbcC/Rad50
E HP555_13330 AAA family ATPase K03546 sbcC; DNA repair protein SbcC/Rad50
E HP555_03230 exonuclease SbcCD subunit D C-terminal domain-containing protein K03547 sbcD; DNA repair protein SbcD/Mre11
E HP555_13335 exonuclease SbcCD subunit D C-terminal domain-containing protein K03547 sbcD; DNA repair protein SbcD/Mre11
E HP555_11655 DUF853 family 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 HP555_04020 gyrA; DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F HP555_04025 gyrB; DNA topoisomerase (ATP-hydrolyzing) subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
E Supressor
F HP555_01420 HU family DNA-binding protein K03530 hupB; DNA-binding protein HU-beta
F HP555_11110 HU family DNA-binding protein K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F HP555_10505 recJ; single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F HP555_05860 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F HP555_09515 recR; recombination protein RecR K06187 recR; recombination protein RecR
F HP555_05830 ligA; NAD-dependent DNA ligase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F HP555_11365 integration host factor subunit alpha K04764 ihfA; integration host factor subunit alpha
F HP555_11920 integration host factor subunit alpha K04764 ihfA; integration host factor subunit alpha
F HP555_01145 integration host factor subunit beta K05788 ihfB; integration host factor subunit beta
F HP555_06515 integration host factor subunit beta K05788 ihfB; integration host factor subunit beta
E Supressor
F HP555_01180 uvrA; excinuclease ABC subunit UvrA K03701 uvrA; excinuclease ABC subunit A
F HP555_11440 uvrB; excinuclease ABC subunit UvrB K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D HP555_01475 hypothetical protein K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
D HP555_07030 dinB; DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D HP555_03810 recA; recombinase RecA K03553 recA; recombination protein RecA
D HP555_01465 lexA; repressor LexA K01356 lexA; repressor LexA [EC:3.4.21.88]
D HP555_02865 lexA; transcriptional repressor LexA K01356 lexA; repressor LexA [EC:3.4.21.88]
D HP555_05375 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D HP555_01480 DNA polymerase III subunit alpha K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D HP555_01505 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D HP555_12150 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D HP555_00615 ATP-dependent DNA helicase K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
C Modulation of nucleotide pools
D HP555_06185 NUDIX hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D HP555_06600 8-oxo-dGTP diphosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D HP555_09855 (deoxy)nucleoside triphosphate pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D HP555_06300 dut; dUTP diphosphatase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D HP555_13250 adenosylcobalamin-dependent ribonucleoside-diphosphate reductase K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
C Others
D HP555_06280 bifunctional oligoribonuclease/PAP phosphatase NrnA K06881 nrnA; bifunctional oligoribonuclease and PAP phosphatase NrnA [EC:3.1.3.7 3.1.13.3]
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#[ BRITE | KEGG2 | KEGG ]
#Last updated: March 29, 2024