+F	Repair protein	KO
#<h2><a href="/kegg/brite.html"><img src="/Fig/bget/kegg3.gif" align="middle" border=0></a>&nbsp; DNA Repair and Recombination Proteins - Rothia amarae</h2>
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A<b>Eukaryotic type</b>
B  SSBR (single strand breaks repair)
C    Direct repair
D      IDM48_07440 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        IDM48_02035 uracil-DNA glycosylase	K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27] 
E        IDM48_01550 A/G-specific adenine glycosylase	K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31] 
E        IDM48_02480 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
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      IDM48_07810 (deoxy)nucleoside triphosphate pyrophosphohydrolase	K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55] 
D      IDM48_10630 NUDIX hydrolase	K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55] 
D      IDM48_00835 (deoxy)nucleoside triphosphate pyrophosphohydrolase	K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55] 
D      IDM48_03515 NUDIX domain-containing protein	K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55] 
D      IDM48_06940 dut; dUTP diphosphatase	K01520 dut; dUTP diphosphatase [EC:3.6.1.23] 
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A<b>Prokaryotic type</b>
B  SSBR (single strand breaks repair)
C    Direct repair
D      IDM48_07440 methylated-DNA--[protein]-cysteine S-methyltransferase	K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63] 
D      IDM48_07445 alpha-ketoglutarate-dependent dioxygenase AlkB	K03919 alkB; DNA oxidative demethylase [EC:1.14.11.33] 
C    BER (base exicision repair)
D      DNA glycosylases
E        IDM48_02035 uracil-DNA glycosylase	K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27] 
E        IDM48_06895 mismatch-specific DNA-glycosylase	K03649 mug; double-stranded uracil-DNA glycosylase [EC:3.2.2.28] 
E        IDM48_01550 A/G-specific adenine glycosylase	K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31] 
E        IDM48_05440 DNA-3-methyladenine glycosylase I	K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20] 
E        IDM48_07450 DNA-3-methyladenine glycosylase I	K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20] 
E        IDM48_05205 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] 
E        IDM48_09655 Fpg/Nei family DNA glycosylase	K05522 nei; endonuclease VIII [EC:3.2.2.- 4.2.99.18] 
E        IDM48_05480 Fpg/Nei family DNA glycosylase	K05522 nei; endonuclease VIII [EC:3.2.2.- 4.2.99.18] 
E        IDM48_02480 nth; endonuclease III	K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18] 
D      AP endonucleases
E        IDM48_05245 exodeoxyribonuclease III	K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2] 
D      RecJ
D      DNA ligase
E        IDM48_08315 ligA; NAD-dependent DNA ligase LigA	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        IDM48_02220 uvrA; excinuclease ABC subunit UvrA	K03701 uvrA; excinuclease ABC subunit A 
E        IDM48_06540 uvrA; excinuclease ABC subunit UvrA	K03701 uvrA; excinuclease ABC subunit A 
E        IDM48_06595 uvrB; excinuclease ABC subunit B	K03702 uvrB; excinuclease ABC subunit B 
E        IDM48_06525 uvrC; excinuclease ABC subunit UvrC	K03703 uvrC; excinuclease ABC subunit C 
E        IDM48_02165 pcrA; DNA helicase PcrA	K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4] 
E        IDM48_03935 ATP-dependent helicase	K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4] 
E        IDM48_03950 ATP-dependent helicase	K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4] 
E        IDM48_08315 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          IDM48_03075 DNA-directed RNA polymerase subunit beta	K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6] 
F          IDM48_03080 DNA-directed RNA polymerase subunit beta'	K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6] 
F          IDM48_03245 DNA-directed RNA polymerase subunit alpha	K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6] 
F          IDM48_05990 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          IDM48_08555 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
D      Molecular matchmaker
D      Strand discrimination factor
D      DNA exonucleases
E        IDM48_03535 exodeoxyribonuclease VII large subunit	K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6] 
E        IDM48_03530 exodeoxyribonuclease VII small subunit	K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6] 
D      DNA polymerase III holoenzyme
E        IDM48_07155 dnaE; DNA polymerase III subunit alpha	K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7] 
E        IDM48_00110 dnaN; DNA polymerase III subunit beta	K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7] 
E        IDM48_06045 holA; DNA polymerase III subunit delta	K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7] 
E        IDM48_09555 DNA polymerase III subunit delta'	K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7] 
E        IDM48_03925 3'-5' exonuclease	K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7] 
E        IDM48_09835 DNA polymerase III subunit gamma and tau	K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7] 
D      DNA ligase
E        IDM48_08315 ligA; NAD-dependent DNA ligase LigA	K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2] 
D      Other MMR factors
E        IDM48_02165 pcrA; DNA helicase PcrA	K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4] 
E        IDM48_03935 ATP-dependent helicase	K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4] 
E        IDM48_03950 ATP-dependent helicase	K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4] 
E        IDM48_11170 single-stranded DNA-binding protein	K03111 ssb; single-strand DNA-binding protein 
E        IDM48_04375 single-stranded DNA-binding protein	K03111 ssb; single-strand DNA-binding protein 
E        IDM48_05445 single-stranded DNA-binding protein	K03111 ssb; single-strand DNA-binding protein 
B  DSBR (double strand breaks repair)
C    HR (homologous recombination)
D      RecBC pathway proteins
E        IDM48_07930 recA; recombinase RecA	K03553 recA; recombination protein RecA 
E        IDM48_05825 ruvA; Holliday junction branch migration protein RuvA	K03550 ruvA; holliday junction DNA helicase RuvA 
E        IDM48_05830 ruvB; Holliday junction branch migration DNA helicase RuvB	K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4] 
E        IDM48_05820 ruvC; crossover junction endodeoxyribonuclease RuvC	K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10] 
E        IDM48_06005 primosomal protein N'	K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4] 
E        IDM48_04910 SMC family ATPase	K03546 sbcC; DNA repair protein SbcC/Rad50 
E        IDM48_04905 sbcD; exonuclease subunit SbcD	K03547 sbcD; DNA repair protein SbcD/Mre11 
D      RecFOR pathway proteins
E        IDM48_07930 recA; recombinase RecA	K03553 recA; recombination protein RecA 
E        IDM48_01565 radA; DNA repair protein RadA	K04485 radA; DNA repair protein RadA/Sms 
E        IDM48_00115 recF; DNA replication/repair protein RecF	K03629 recF; DNA replication and repair protein RecF 
E        IDM48_05170 ATP-dependent DNA helicase RecG	K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4] 
E        IDM48_06125 recO; DNA repair protein RecO	K03584 recO; DNA repair protein RecO (recombination protein O) 
E        IDM48_09840 recR; recombination protein RecR	K06187 recR; recombination protein RecR 
E        IDM48_07615 recN; DNA repair protein RecN	K03631 recN; DNA repair protein RecN (Recombination protein N) 
E        IDM48_05825 ruvA; Holliday junction branch migration protein RuvA	K03550 ruvA; holliday junction DNA helicase RuvA 
E        IDM48_05830 ruvB; Holliday junction branch migration DNA helicase RuvB	K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4] 
E        IDM48_05820 ruvC; 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        IDM48_04910 SMC family ATPase	K03546 sbcC; DNA repair protein SbcC/Rad50 
E        IDM48_04905 sbcD; exonuclease subunit SbcD	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          IDM48_00130 gyrA; DNA gyrase subunit A	K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2] 
F          IDM48_06985 DNA topoisomerase IV subunit A	K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2] 
F          IDM48_00125 gyrB; DNA topoisomerase (ATP-hydrolyzing) subunit B	K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2] 
F          IDM48_07010 type IIA DNA topoisomerase subunit B	K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2] 
F          IDM48_02585 topA; type I DNA topoisomerase	K03168 topA; DNA topoisomerase I [EC:5.6.2.1] 
E        Supressor
F          IDM48_09375 HU family DNA-binding protein	K03530 hupB; DNA-binding protein HU-beta 
D      SHDIR (short-homology-dependent illegitimate recombination)
E        RecET pathway
F          IDM48_06125 recO; DNA repair protein RecO	K03584 recO; DNA repair protein RecO (recombination protein O) 
F          IDM48_09840 recR; recombination protein RecR	K06187 recR; recombination protein RecR 
F          IDM48_08315 ligA; NAD-dependent DNA ligase LigA	K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2] 
E        Facilitator
E        Supressor
F          IDM48_01700 ATP-dependent DNA helicase RecQ	K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4] 
F          IDM48_02220 uvrA; excinuclease ABC subunit UvrA	K03701 uvrA; excinuclease ABC subunit A 
F          IDM48_06540 uvrA; excinuclease ABC subunit UvrA	K03701 uvrA; excinuclease ABC subunit A 
F          IDM48_06595 uvrB; excinuclease ABC subunit B	K03702 uvrB; excinuclease ABC subunit B 
B  TLS (translesion DNA synthesis) factors
C    Y-family DNA polymerases
D      IDM48_07265 dinB; DNA polymerase IV	K02346 dinB; DNA polymerase IV [EC:2.7.7.7] 
D      IDM48_01895 Y-family DNA polymerase	K03502 umuC; DNA polymerase V 
D      IDM48_01900 umuD; translesion error-prone DNA polymerase V autoproteolytic subunit	K03503 umuD; DNA polymerase V [EC:3.4.21.-] 
D      IDM48_07365 hypothetical protein	K03503 umuD; DNA polymerase V [EC:3.4.21.-] 
C    Other SOS response factors
D      IDM48_07930 recA; recombinase RecA	K03553 recA; recombination protein RecA 
D      IDM48_07880 lexA; transcriptional repressor LexA	K01356 lexA; repressor LexA [EC:3.4.21.88] 
D      IDM48_07615 recN; DNA repair protein RecN	K03631 recN; DNA repair protein RecN (Recombination protein N) 
D      IDM48_11170 single-stranded DNA-binding protein	K03111 ssb; single-strand DNA-binding protein 
D      IDM48_04375 single-stranded DNA-binding protein	K03111 ssb; single-strand DNA-binding protein 
D      IDM48_05445 single-stranded DNA-binding protein	K03111 ssb; single-strand DNA-binding protein 
D      IDM48_07925 regulatory protein RecX	K03565 recX; regulatory protein 
B  Other factors with a suspected DNA repair function
C    DNA polymerase
C    DNA helicases
D      IDM48_07885 ATP-dependent DNA helicase	K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3] 
D      IDM48_09650 ATP-dependent helicase	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      IDM48_07810 (deoxy)nucleoside triphosphate pyrophosphohydrolase	K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55] 
D      IDM48_10630 NUDIX hydrolase	K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55] 
D      IDM48_00835 (deoxy)nucleoside triphosphate pyrophosphohydrolase	K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55] 
D      IDM48_03515 NUDIX domain-containing protein	K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55] 
D      IDM48_02865 NUDIX hydrolase	K23258 mutT1; 8-oxo-(d)GTP phosphatase [EC:3.6.1.69] 
D      IDM48_07610 NUDIX hydrolase	K01554 K01554; 8-oxo-dGDP phosphatase [EC:3.6.1.58] 
D      IDM48_06940 dut; dUTP diphosphatase	K01520 dut; dUTP diphosphatase [EC:3.6.1.23] 
D      IDM48_05730 nrdE; class 1b ribonucleoside-diphosphate reductase subunit alpha	K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1] 
D      IDM48_05740 nrdF; class 1b ribonucleoside-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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#Last updated: March 29, 2024