+F Repair protein KO
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DNA Repair and Recombination Proteins - Bifidobacterium breve NCFB 2258
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AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D B2258_0323 O6-methylguanine-DNA methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
C BER (base exicision repair)
D DNA glycosylases
E B2258_1343 Uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E B2258_0449 A/G-specific adenine DNA glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E B2258_0277 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 B2258_0074 Mutator MutT protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D B2258_1130 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 B2258_0323 O6-methylguanine-DNA methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
C BER (base exicision repair)
D DNA glycosylases
E B2258_1343 Uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E B2258_0449 A/G-specific adenine DNA glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E B2258_0277 Endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E B2258_1174 Exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E B2258_1013 Endonuclease IV K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
D RecJ
D DNA ligase
E B2258_0636 NAD-dependent DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
C NER (nucleotide excision repair)
D GGR (global genome repair) factors
E B2258_0954 Excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
E B2258_0583 Excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
E B2258_0725 Excinuclease ABC subunit B, involved in nucleotide excision repair K03702 uvrB; excinuclease ABC subunit B
E B2258_0955 Excinuclease ABC subunit C K03703 uvrC; excinuclease ABC subunit C
E B2258_0458 ATP-dependent DNA helicase, UvrD/REP family K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E B2258_0850 ATP-dependent DNA helicase pcrA K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E B2258_0619 DNA-helicase-II-like protein K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E B2258_0636 NAD-dependent 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 B2258_0451 DNA-directed RNA polymerase beta chain K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F B2258_0452 DNA-directed RNA polymerase beta' chain K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F B2258_1629 DNA-directed RNA polymerase alpha chain K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F B2258_1373 DNA-directed RNA polymerase omega chain K03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F B2258_0693 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
D Molecular matchmaker
D Strand discrimination factor
D DNA exonucleases
E B2258_1427 Exodeoxyribonuclease VII large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E B2258_1428 Exodeoxyribonuclease VII small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E B2258_1271 DNA polymerase III alpha subunit K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E B2258_0002 DNA polymerase III, beta chain K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E B2258_1098 DNA polymerase III, delta subunit K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E B2258_0158 DNA polymerase III, delta' subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E B2258_0603 DNA polymerase III alpha subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E B2258_0129 DNA polymerase III subunit gamma/tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E B2258_0636 NAD-dependent DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E B2258_0458 ATP-dependent DNA helicase, UvrD/REP family K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E B2258_0850 ATP-dependent DNA helicase pcrA K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E B2258_0619 DNA-helicase-II-like protein K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E B2258_1445 Single-strand DNA binding protein K03111 ssb; single-strand DNA-binding protein
E B2258_0234 Single-strand DNA binding protein K03111 ssb; single-strand DNA-binding protein
E B2258_0358 Site-specific DNA-methyltransferase K06223 dam; DNA adenine methylase [EC:2.1.1.72]
E B2258_1437 DNA mismatch endonuclease, patch repair protein 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 B2258_1154 RecA protein K03553 recA; recombination protein RecA
E B2258_0978 Holliday junction DNA helicase ruvA K03550 ruvA; holliday junction DNA helicase RuvA
E B2258_0979 Holliday junction DNA helicase ruvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E B2258_0977 Crossover junction endodeoxyribonuclease ruvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E B2258_1369 Primosomal protein N' K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
D RecFOR pathway proteins
E B2258_1154 RecA protein K03553 recA; recombination protein RecA
E B2258_1617 DNA repair protein radA K04485 radA; DNA repair protein RadA/Sms
E B2258_0003 DNA replication and repair protein recF K03629 recF; DNA replication and repair protein RecF
E B2258_0133 DNA-binding protein K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E B2258_0839 putative DNA-binding protein, also contains divergent AAA domain for ATP binding (putative DNA helicase) K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E B2258_0036 ATP-dependent DNA helicases-like protein with AAA region K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E B2258_1726 ATP-dependent DNA helicase recG K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E B2258_0182 DNA-binding protein K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E B2258_0627 DNA repair protein recO K03584 recO; DNA repair protein RecO (recombination protein O)
E B2258_0130 Recombination protein recR K06187 recR; recombination protein RecR
E B2258_0677 DNA repair protein recN K03631 recN; DNA repair protein RecN (Recombination protein N)
E B2258_0978 Holliday junction DNA helicase ruvA K03550 ruvA; holliday junction DNA helicase RuvA
E B2258_0979 Holliday junction DNA helicase ruvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E B2258_0977 Crossover junction endodeoxyribonuclease ruvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
E B2258_1385 CRISPR-associated protein Cas1 K15342 cas1; CRISP-associated protein Cas1
D Archaeal homologous recombinant proteins
C NHEJ (non-homologous end-joining)
D Two-component NHEJ DNA repair complex
D SHIIR (short-homology-independent illegitimate recombination)
E Facilitator
F B2258_1134 DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F B2258_0006 DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F B2258_1143 DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F B2258_0005 DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F B2258_0156 DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F B2258_1354 DNA-binding protein HU K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F B2258_0627 DNA repair protein recO K03584 recO; DNA repair protein RecO (recombination protein O)
F B2258_0130 Recombination protein recR K06187 recR; recombination protein RecR
F B2258_0636 NAD-dependent DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
E Supressor
F B2258_0492 ATP-dependent DNA helicase recQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F B2258_0954 Excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
F B2258_0583 Excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
F B2258_0725 Excinuclease ABC subunit B, involved in nucleotide excision repair K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D B2258_1678 DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
D B2258_0541 ImpB/MucB/SamB family protein involved in DNA repair K03502 umuC; DNA polymerase V
C Other SOS response factors
D B2258_1154 RecA protein K03553 recA; recombination protein RecA
D B2258_1247 LexA repressor K01356 lexA; repressor LexA [EC:3.4.21.88]
D B2258_0677 DNA repair protein recN K03631 recN; DNA repair protein RecN (Recombination protein N)
D B2258_1445 Single-strand DNA binding protein K03111 ssb; single-strand DNA-binding protein
D B2258_0234 Single-strand DNA binding protein K03111 ssb; single-strand DNA-binding protein
D B2258_1153 RecX-like protein K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D B2258_1140 ATP-dependent helicase lhr 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 B2258_0074 Mutator MutT protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D B2258_1794 Phosphohydrolase (MutT/nudix family protein) K23258 mutT1; 8-oxo-(d)GTP phosphatase [EC:3.6.1.69]
D B2258_1130 Deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D B2258_1905 Ribonucleoside-diphosphate reductase alpha chain K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D B2258_1903 Ribonucleoside-diphosphate reductase beta chain 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