+F Repair protein KO
#
DNA Repair and Recombination Proteins - Paenibacillus konkukensis
%
!
AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D SK3146_03288 ogt; Methylated-DNA--protein-cysteine methyltransferase, constitutive K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
C BER (base exicision repair)
D DNA glycosylases
E SK3146_01980 ung; Uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E SK3146_03300 yfhQ; putative A/G-specific adenine glycosylase YfhQ K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E SK3146_01028 nth; 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
E SK3146_06527 hypothetical protein K10843 ERCC3; DNA excision repair protein ERCC-3 [EC:5.6.2.4]
E SK3146_00112 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon K10844 ERCC2; DNA excision repair protein ERCC-2 [EC:5.6.2.3]
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 SK3146_04759 hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_04895 NUDIX domain protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_05093 hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_06116 NUDIX domain protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_06511 mutX_3; 8-oxo-dGTP diphosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_00446 hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_00997 mutX_1; 8-oxo-dGTP diphosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_03316 mutX_2; 8-oxo-dGTP diphosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_04213 ytkD; Putative 8-oxo-dGTP diphosphatase YtkD K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_02642 ndx1_1; Diadenosine hexaphosphate hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_06686 dut; Deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
#
AProkaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D SK3146_03288 ogt; Methylated-DNA--protein-cysteine methyltransferase, constitutive K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D SK3146_06752 btr_31; HTH-type transcriptional activator Btr K13530 adaA; AraC family transcriptional regulator, regulatory protein of adaptative response / methylphosphotriester-DNA alkyltransferase methyltransferase [EC:2.1.1.-]
D SK3146_00508 adaA_2; Bifunctional transcriptional activator/DNA repair enzyme AdaA K13530 adaA; AraC family transcriptional regulator, regulatory protein of adaptative response / methylphosphotriester-DNA alkyltransferase methyltransferase [EC:2.1.1.-]
D SK3146_00509 adaB; Methylated-DNA--protein-cysteine methyltransferase, inducible K13531 adaB; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
C BER (base exicision repair)
D DNA glycosylases
E SK3146_01980 ung; Uracil-DNA glycosylase K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E SK3146_00394 Uracil DNA glycosylase superfamily protein K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E SK3146_00512 alkA; DNA-3-methyladenine glycosylase K01247 alkA; DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E SK3146_03300 yfhQ; putative A/G-specific adenine glycosylase YfhQ K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E SK3146_05897 tag; DNA-3-methyladenine glycosylase 1 K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E SK3146_00795 mutM_1; Formamidopyrimidine-DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E SK3146_02193 mutM_2; Formamidopyrimidine-DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E SK3146_01028 nth; Endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E SK3146_05409 exoA; Exodeoxyribonuclease K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E SK3146_00794 nfo_1; putative endonuclease 4 K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
E SK3146_03137 nfo_2; putative endonuclease 4 K01151 nfo; deoxyribonuclease IV [EC:3.1.21.2]
D RecJ
E SK3146_06080 recJ; Single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E SK3146_03558 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E SK3146_02194 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 SK3146_03610 uvrA_2; UvrABC system protein A K03701 uvrA; excinuclease ABC subunit A
E SK3146_03611 uvrB_1; UvrABC system protein B K03702 uvrB; excinuclease ABC subunit B
E SK3146_05531 uvrC_1; UvrABC system protein C K03703 uvrC; excinuclease ABC subunit C
E SK3146_00712 helD_1; Helicase IV K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SK3146_02985 helD_2; Helicase IV K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SK3146_03394 yjcD; Putative ATP-dependent DNA helicase YjcD K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SK3146_03559 pcrA; ATP-dependent DNA helicase PcrA K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SK3146_02194 polA; DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E SK3146_03558 ligA; 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 SK3146_04240 rpoB; DNA-directed RNA polymerase subunit beta K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F SK3146_04241 rpoC; DNA-directed RNA polymerase subunit beta' K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F SK3146_04274 rpoA; DNA-directed RNA polymerase subunit alpha K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F SK3146_04115 rpoE_3; DNA-directed RNA polymerase subunit delta K03048 rpoE; DNA-directed RNA polymerase subunit delta
F SK3146_06543 rpoZ; 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 SK3146_04170 mfd_2; 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 SK3146_00839 mutS; DNA mismatch repair protein MutS K03555 mutS; DNA mismatch repair protein MutS
E SK3146_05266 mutS2; Endonuclease MutS2 K07456 mutS2; DNA mismatch repair protein MutS2
D Molecular matchmaker
E SK3146_00837 mutL; DNA mismatch repair protein MutL K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E SK3146_01216 xseA; Exodeoxyribonuclease 7 large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E SK3146_01215 xseB; Exodeoxyribonuclease 7 small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E SK3146_02302 dnaE; DNA polymerase III subunit alpha K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E SK3146_06672 polC_3; DNA polymerase III PolC-type K03763 polC; DNA polymerase III subunit alpha, Gram-positive type [EC:2.7.7.7]
E SK3146_06786 polC_4; DNA polymerase III PolC-type K03763 polC; DNA polymerase III subunit alpha, Gram-positive type [EC:2.7.7.7]
E SK3146_03743 dnaN; DNA polymerase III subunit beta K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E SK3146_06250 DNA polymerase III subunit delta K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E SK3146_04148 dnaX_2; DNA polymerase III subunit tau K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E SK3146_04125 dnaX_1; DNA polymerase III subunit tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E SK3146_03558 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E SK3146_00712 helD_1; Helicase IV K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SK3146_02985 helD_2; Helicase IV K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SK3146_03394 yjcD; Putative ATP-dependent DNA helicase YjcD K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SK3146_03559 pcrA; ATP-dependent DNA helicase PcrA K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SK3146_03766 ssb; Single-stranded DNA-binding protein ssb K03111 ssb; single-strand DNA-binding protein
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D RecBC pathway proteins
E SK3146_06709 recombinase A K03553 recA; recombination protein RecA
E SK3146_06066 ruvA; Holliday junction ATP-dependent DNA helicase RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E SK3146_06067 ruvB_2; Holliday junction ATP-dependent DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E SK3146_06065 ruvC; Crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E SK3146_06545 priA; Primosomal protein N' K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E SK3146_06279 sbcC; Nuclease SbcCD subunit C K03546 sbcC; DNA repair protein SbcC/Rad50
E SK3146_06278 sbcD; Nuclease SbcCD subunit D K03547 sbcD; DNA repair protein SbcD/Mre11
D RecFOR pathway proteins
E SK3146_06709 recombinase A K03553 recA; recombination protein RecA
E SK3146_04218 hypothetical protein K04485 radA; DNA repair protein RadA/Sms
E SK3146_03741 recF; DNA replication and repair protein RecF K03629 recF; DNA replication and repair protein RecF
E SK3146_06560 recG; ATP-dependent DNA helicase RecG K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E SK3146_06080 recJ; Single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E SK3146_06299 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E SK3146_04127 recR; Recombination protein RecR K06187 recR; recombination protein RecR
E SK3146_01208 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E SK3146_06066 ruvA; Holliday junction ATP-dependent DNA helicase RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E SK3146_06067 ruvB_2; Holliday junction ATP-dependent DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E SK3146_06065 ruvC; Crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
D AddAB pathway proteins
E SK3146_06277 addA; ATP-dependent helicase/nuclease subunit A K16898 addA; ATP-dependent helicase/nuclease subunit A [EC:5.6.2.4 3.1.-.-]
E SK3146_06276 addB; ATP-dependent helicase/deoxyribonuclease subunit B K16899 addB; ATP-dependent helicase/nuclease subunit B [EC:5.6.2.4 3.1.-.-]
D Other HR factor
E SK3146_04781 cas4-cas1; CRISPR-associated protein Cas4/endonuclease Cas1 fusion K15342 cas1; CRISP-associated protein Cas1
D Archaeal homologous recombinant proteins
E SK3146_06279 sbcC; Nuclease SbcCD subunit C K03546 sbcC; DNA repair protein SbcC/Rad50
E SK3146_06278 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
E SK3146_04503 ykoV_1; putative DNA repair protein YkoV K10979 ku; DNA end-binding protein Ku
E SK3146_06086 ykoV_2; putative DNA repair protein YkoV K10979 ku; DNA end-binding protein Ku
E SK3146_04502 Putative DNA ligase-like protein K01971 ligD; bifunctional non-homologous end joining protein LigD [EC:6.5.1.1]
E SK3146_00033 Putative DNA ligase-like protein K01971 ligD; bifunctional non-homologous end joining protein LigD [EC:6.5.1.1]
D SHIIR (short-homology-independent illegitimate recombination)
E Facilitator
F SK3146_03737 gyrA; DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F SK3146_03739 gyrB_2; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F SK3146_06621 topA; DNA topoisomerase 1 K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F SK3146_01088 hup_1; DNA-binding protein HU K03530 hupB; DNA-binding protein HU-beta
F SK3146_02674 hup_2; DNA-binding protein HU K03530 hupB; DNA-binding protein HU-beta
F SK3146_04175 hup_3; DNA-binding protein HU K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F SK3146_06080 recJ; Single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F SK3146_06299 recO; DNA repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F SK3146_04127 recR; Recombination protein RecR K06187 recR; recombination protein RecR
F SK3146_03558 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
E Supressor
F SK3146_03356 recQ; ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F SK3146_03610 uvrA_2; UvrABC system protein A K03701 uvrA; excinuclease ABC subunit A
F SK3146_03611 uvrB_1; UvrABC system protein B K03702 uvrB; excinuclease ABC subunit B
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D SK3146_01954 dinB_2; DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D SK3146_06709 recombinase A K03553 recA; recombination protein RecA
D SK3146_00815 lexA; LexA repressor K01356 lexA; repressor LexA [EC:3.4.21.88]
D SK3146_01208 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D SK3146_03766 ssb; Single-stranded DNA-binding protein ssb K03111 ssb; single-strand DNA-binding protein
D SK3146_06710 recX; Regulatory protein RecX K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D SK3146_01039 hypothetical protein K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D SK3146_02012 dinG; putative ATP-dependent helicase DinG K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D SK3146_06782 putative 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 SK3146_04759 hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_04895 NUDIX domain protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_05093 hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_06116 NUDIX domain protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_06511 mutX_3; 8-oxo-dGTP diphosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_00446 hypothetical protein K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_00997 mutX_1; 8-oxo-dGTP diphosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_03316 mutX_2; 8-oxo-dGTP diphosphatase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_04213 ytkD; Putative 8-oxo-dGTP diphosphatase YtkD K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_02642 ndx1_1; Diadenosine hexaphosphate hydrolase K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SK3146_06686 dut; Deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D SK3146_01727 nrdE; Ribonucleoside-diphosphate reductase 2 subunit alpha K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D SK3146_01894 nrdZ; Ribonucleoside-diphosphate reductase NrdZ K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D SK3146_01726 nrdF; Ribonucleoside-diphosphate reductase subunit beta K00526 E1.17.4.1B; ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]
C Others
D SK3146_06679 nrnA_2; Bifunctional oligoribonuclease and 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: August 19, 2024