+F Repair protein KO
#
DNA Repair and Recombination Proteins - Vibrio vulnificus YJ016
%
!
AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D VVA0037 methylated DNA-protein cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D VVA0357 deoxyribodipyrimidine photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E VV0655 uracil DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E VV2884 A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E VV1186 EndoIII-related endonuclease 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 VV0622 NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D VV1754 NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D VV1786 NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D VVA1421 MutT/nudix family protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
#
AProkaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D VVA0037 methylated DNA-protein cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D VVA0357 deoxyribodipyrimidine photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
D VVA1424 deoxyribodipyrimidine photolyase-related protein K06876 phrB; (6-4)DNA photolyase [EC:4.1.99.13]
C BER (base exicision repair)
D DNA glycosylases
E VV0655 uracil DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E VV2881 putative DNA glycosylase K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E VVA0035 adenosine deaminase K13529 ada-alkA; AraC family transcriptional regulator, regulatory protein of adaptative response / DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E VV2884 A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E VV1398 3-methyladenine DNA glycosylase K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E VV0289 formamidopyrimidine-DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E VV1186 EndoIII-related endonuclease K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E VV2334 exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E VV0654 endonuclease IV K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
D RecJ
E VV0667 single-stranded DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E VV0982 NAD-dependent DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E VV0186 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 VV2956 excinuclease ATPase subunit K03701 uvrA; excinuclease ABC subunit A
E VV1193 excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
E VV1234 nuclease subunit of the excinuclease complex K03703 uvrC; excinuclease ABC subunit C
E VV3191 DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E VV0186 DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E VV0982 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 VV3159 DNA-directed RNA polymerase, beta subunit K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F VV3158 DNA-directed RNA polymerase, beta subunit K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F VV0399 DNA-directed RNA polymerase, alpha subunit K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F VV0242 DNA-directed RNA polymerase, omega subunit K03060 rpoZ; DNA-directed RNA polymerase subunit omega [EC:2.7.7.6]
E TRCF (transcription-repair coupling factor)
F VV2365 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 VV2806 mismatch repair ATPase K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E VV3073 DNA mismatch repair enzyme K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
E VV0674 DNA mismatch repair protein K03573 mutH; DNA mismatch repair protein MutH
D DNA exonucleases
E VV1472 exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E VV0774 exonuclease VII, large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E VV0870 exonuclease VII small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E VV2541 DNA polymerase III, alpha subunit K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E VV0012 DNA polymerase III, beta chain K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E VV2908 DNA polymerase III, chi subunit K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E VV0909 DNA polymerase III, delta subunit K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E VV1281 DNA polymerase III, delta prime subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E VV3132 DNA polymerase III, epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E VVA1495 DNA polymerase III, alpha subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E VV2101 DNA polymerase III, epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E VV2529 DNA polymerase III, epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E VVA1405 DNA polymerase III, epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E VV2411 DNA polymerase III, subunits gamma and tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
E VV2687 DNA polymerase III, psi subunit K02344 holD; DNA polymerase III subunit psi [EC:2.7.7.7]
D DNA ligase
E VV0982 NAD-dependent DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E VV3191 DNA helicase II K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E VV2953 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E VV2986 site-specific DNA 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 VV2614 ATP-dependent exoDNAse beta subunit K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E VV2615 exonuclease V gamma subunit K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E VV2613 ATP-dependent exoDNAse alpha subunit K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E VV2805 RecA recombinase K03553 recA; recombination protein RecA
E VV2285 holliday junction resolvasome, DNA-binding subunit K03550 ruvA; holliday junction DNA helicase RuvA
E VV2284 holliday junction resolvasome, helicase subunit K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E VV2287 crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E VV3012 primosomal protein N' K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E VV2983 primosomal replication protein N K02686 priB; primosomal replication protein N
E VV2331 primosomal replication protein N'' K04067 priC; primosomal replication protein N''
E VV1472 exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E VVA0587 putative exonuclease SbcC K03546 sbcC; DNA repair protein SbcC/Rad50
E VVA0586 DNA repair exonuclease K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E VV2805 RecA recombinase K03553 recA; recombination protein RecA
E VV2672 predicted ATP-dependent serine protease K04485 radA; DNA repair protein RadA/Sms
E VV0013 Recombinational DNA repair ATPase K03629 recF; DNA replication and repair protein RecF
E VV0239 RecG-like helicase K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E VV0667 single-stranded DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E VV2829 Recombinational DNA repair protein K03584 recO; DNA repair protein RecO (recombination protein O)
E VV2409 Recombinational DNA repair protein K06187 recR; recombination protein RecR
E VV0822 DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E VV0722 DNA recombination-dependent growth factor C K03554 rdgC; recombination associated protein RdgC
E VV2285 holliday junction resolvasome, DNA-binding subunit K03550 ruvA; holliday junction DNA helicase RuvA
E VV2284 holliday junction resolvasome, helicase subunit K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E VV2287 crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
D Other HR factor
E VVA1544 hypothetical protein K15342 cas1; CRISP-associated protein Cas1
E VV1425 DNA or RNA helicase K19789 radD; DNA repair protein RadD
D Archaeal homologous recombinant proteins
E VVA0587 putative exonuclease SbcC K03546 sbcC; DNA repair protein SbcC/Rad50
E VVA0586 DNA repair exonuclease 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 VV1247 DNA gyrase, subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F VV0014 DNA gyrase, subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F VV2314 DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F VV3145 bacterial nucleoid DNA-binding protein K05787 hupA; DNA-binding protein HU-alpha
F VV1107 bacterial nucleoid DNA-binding protein K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F VV0667 single-stranded DNA-specific exonuclease K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F VV2829 Recombinational DNA repair protein K03584 recO; DNA repair protein RecO (recombination protein O)
F VV2409 Recombinational DNA repair protein K06187 recR; recombination protein RecR
F VV0982 NAD-dependent DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F VV3139 factor-for-inversion stimulation protein K03557 fis; Fis family transcriptional regulator, factor for inversion stimulation protein
F VV1966 integration host factor, alpha subunit K04764 ihfA; integration host factor subunit alpha
F VV1301 bacterial nucleoid DNA-binding protein K05788 ihfB; integration host factor subunit beta
E Supressor
F VV1472 exonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
F VV3187 ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F VV2580 DNA helicase K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F VV2956 excinuclease ATPase subunit K03701 uvrA; excinuclease ABC subunit A
F VV1193 excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
F VV1346 DNA-binding protein H-NS K03746 hns; DNA-binding protein H-NS
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D VV2581 DNA-damage-inducible protein P K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D VV2805 RecA recombinase K03553 recA; recombination protein RecA
D VV0123 SOS-response transcriptional repressor K01356 lexA; repressor LexA [EC:3.4.21.88]
D VV0822 DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D VV1232 DNA polymerase elongation subunit K02336 polB; DNA polymerase II [EC:2.7.7.7]
D VV1296 conserved hypothetical protein K14160 imuA; protein ImuA
D VV1295 uncharacterized protein conserved in bacteria K14161 imuB; protein ImuB
D VV1294 DNA polymerase III, alpha subunit K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D VV2953 single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D VV2804 conserved hypothetical protein K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D VV0040 ATP-dependent DNA helicase Rep K03656 rep; ATP-dependent DNA helicase Rep [EC:5.6.2.4]
D VVA0629 DNA and RNA helicase K03658 helD; DNA helicase IV [EC:5.6.2.4]
D VV2329 ATP-dependent helicase, DinG family K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D VV1048 Rad3-related DNA helicase K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
C Modulation of nucleotide pools
D VV0622 NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D VV1754 NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D VV1786 NTP pyrophosphohydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D VVA1421 MutT/nudix family protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D VV1244 ribonucleotide reductase, alpha subunit K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D VV1243 ribonucleotide reductase, beta subunit K00526 E1.17.4.1B; ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]
C Others
!
#
#[ BRITE | KEGG2 | KEGG ]
#Last updated: August 19, 2024