+F Repair protein KO
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DNA Repair and Recombination Proteins - Thiopseudomonas alkaliphila
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AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D AKN87_03265 deoxyribodipyrimidine photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E AKN87_10870 uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E AKN87_01005 3-methyladenine DNA glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E AKN87_08090 adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E AKN87_02070 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 AKN87_00395 hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D AKN87_07625 deoxyuridine 5'-triphosphate nucleotidohydrolase 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 AKN87_03265 deoxyribodipyrimidine photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E AKN87_10870 uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E AKN87_01005 3-methyladenine DNA glycosylase K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E AKN87_08090 adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E AKN87_08410 5-hydroxymethyluracil DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E AKN87_02070 endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E AKN87_02945 exonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E AKN87_08220 exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
D RecJ
E AKN87_10660 ssDNA exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E AKN87_03615 aromatic ring-opening dioxygenase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E AKN87_08475 hypothetical protein K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E AKN87_10675 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 AKN87_07550 excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
E AKN87_03965 excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
E AKN87_10905 uvrC; excinuclease ABC subunit C K03703 uvrC; excinuclease ABC subunit C
E AKN87_08280 uvrD; DNA-dependent helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E AKN87_10675 DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E AKN87_03615 aromatic ring-opening dioxygenase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E AKN87_08475 hypothetical 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 AKN87_09970 rpoB; DNA-directed RNA polymerase subunit beta K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F AKN87_09975 DNA-directed RNA polymerase subunit beta' K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F AKN87_10125 DNA-directed RNA polymerase subunit alpha K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F AKN87_08925 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 AKN87_00575 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 AKN87_02955 DNA mismatch repair protein MutS K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E AKN87_05950 mutL; DNA mismatch repair protein K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E AKN87_00025 sbcB; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E AKN87_05460 exodeoxyribonuclease K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E AKN87_06550 exodeoxyribonuclease VII small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E AKN87_03230 DNA polymerase III subunit alpha K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E AKN87_09045 DNA polymerase III subunit beta K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E AKN87_01205 DNA polymerase III subunit chi K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E AKN87_00220 DNA polymerase III subunit delta K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E AKN87_00725 hypothetical protein K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E AKN87_00415 hypothetical protein K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E AKN87_01995 DNA polymerase III subunit epsilon K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E AKN87_10220 hypothetical protein K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E AKN87_10945 DNA polymerase III subunit gamma/tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E AKN87_03615 aromatic ring-opening dioxygenase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E AKN87_08475 hypothetical protein K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E AKN87_08280 uvrD; DNA-dependent helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E AKN87_01665 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E AKN87_07125 hypothetical protein K03111 ssb; single-strand DNA-binding protein
E AKN87_07540 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E AKN87_01675 restriction endonuclease subunit M 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 AKN87_02500 hypothetical protein K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E AKN87_02495 exodeoxyribonuclease V subunit gamma K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E AKN87_02505 exodeoxyribonuclease V subunit alpha K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E AKN87_00265 recombinase RecA K03553 recA; recombination protein RecA
E AKN87_06400 ATP-dependent DNA helicase RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E AKN87_06395 ruvB; ATP-dependent DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E AKN87_06405 crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E AKN87_01775 endodeoxyribonuclease RusA K01160 rusA; crossover junction endodeoxyribonuclease RusA [EC:3.1.21.10]
E AKN87_04965 primosomal protein N' K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E AKN87_00025 sbcB; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E AKN87_02825 hypothetical protein K03546 sbcC; DNA repair protein SbcC/Rad50
E AKN87_02830 exonuclease SbcD K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E AKN87_00265 recombinase RecA K03553 recA; recombination protein RecA
E AKN87_05915 DNA repair protein RadA K04485 radA; DNA repair protein RadA/Sms
E AKN87_09050 recombinase RecF K03629 recF; DNA replication and repair protein RecF
E AKN87_07895 ATP-dependent DNA helicase RecG K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E AKN87_10660 ssDNA exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E AKN87_02620 hypothetical protein K03584 recO; DNA repair protein RecO (recombination protein O)
E AKN87_10955 recR; recombination protein RecR K06187 recR; recombination protein RecR
E AKN87_11530 recombination and repair protein K03631 recN; DNA repair protein RecN (Recombination protein N)
E AKN87_06205 recombinase RdgC K03554 rdgC; recombination associated protein RdgC
E AKN87_06400 ATP-dependent DNA helicase RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E AKN87_06395 ruvB; ATP-dependent DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E AKN87_06405 crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
D Archaeal homologous recombinant proteins
E AKN87_02825 hypothetical protein K03546 sbcC; DNA repair protein SbcC/Rad50
E AKN87_02830 exonuclease SbcD K03547 sbcD; DNA repair protein SbcD/Mre11
E AKN87_03575 ATP-binding 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 AKN87_03665 DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F AKN87_09055 gyrB; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F AKN87_00770 DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F AKN87_02185 dipicolinate synthase K03530 hupB; DNA-binding protein HU-beta
F AKN87_00065 DNA-binding protein HU K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F AKN87_10660 ssDNA exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F AKN87_02620 hypothetical protein K03584 recO; DNA repair protein RecO (recombination protein O)
F AKN87_10955 recR; recombination protein RecR K06187 recR; recombination protein RecR
F AKN87_03615 aromatic ring-opening dioxygenase LigA K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
F AKN87_08475 hypothetical protein K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F AKN87_00480 Fis family transcriptional regulator K03557 fis; Fis family transcriptional regulator, factor for inversion stimulation protein
F AKN87_01510 ihfA; integration host factor subunit alpha K04764 ihfA; integration host factor subunit alpha
F AKN87_04900 ihfB; integration host factor subunit beta K05788 ihfB; integration host factor subunit beta
E Supressor
F AKN87_00025 sbcB; exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
F AKN87_01105 ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F AKN87_07550 excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
F AKN87_03965 excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D AKN87_03755 DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D AKN87_00265 recombinase RecA K03553 recA; recombination protein RecA
D AKN87_02880 LexA family transcriptional regulator K01356 lexA; repressor LexA [EC:3.4.21.88]
D AKN87_11530 recombination and repair protein K03631 recN; DNA repair protein RecN (Recombination protein N)
D AKN87_01665 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D AKN87_07125 hypothetical protein K03111 ssb; single-strand DNA-binding protein
D AKN87_07540 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D AKN87_00270 hypothetical protein K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D AKN87_08695 ATP-dependent DNA helicase Rep K03656 rep; ATP-dependent DNA helicase Rep [EC:5.6.2.4]
D AKN87_01355 ATP-dependent DNA helicase DinG K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
C Modulation of nucleotide pools
D AKN87_00395 hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D AKN87_07625 deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D AKN87_06135 ribonucleotide-diphosphate reductase subunit alpha K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D AKN87_06140 ribonucleotide-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