+F Repair protein KO
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DNA Repair and Recombination Proteins - Stenotrophomonas maltophilia D457
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AEukaryotic type
B SSBR (single strand breaks repair)
C Direct repair
D SMD_1288 ogt; Methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D SMD_1760 Deoxyribodipyrimidine photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E SMD_3851 ung; Uracil-DNA glycosylase, family 1 K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E SMD_2303 DNA-3-methyladenine glycosylase II K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E SMD_1742 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E SMD_1387 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
D SMD_3408 Endonuclease K05986 NUCS; nuclease S1 [EC:3.1.30.1]
C Helicases
C PSO4 complex
C Modulation of nucleotide pools
D SMD_0652 mutT; Mutator mutT protein (7,8-dihydro-8-oxoguanine-triphosphatase) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SMD_2610 mutX; Mutator mutT protein (7,8-dihydro-8-oxoguanine-triphosphatase) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SMD_4115 Nudix hydrolase family protein PA3470 K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SMD_0322 dut; 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 SMD_1288 ogt; Methylated-DNA--protein-cysteine methyltransferase K00567 ogt; methylated-DNA-[protein]-cysteine S-methyltransferase [EC:2.1.1.63]
D SMD_2914 ADA regulatory protein / Methylated-DNA--protein-cysteine methyltransferase K10778 ada; AraC family transcriptional regulator, regulatory protein of adaptative response / methylated-DNA-[protein]-cysteine methyltransferase [EC:2.1.1.63]
D SMD_1760 Deoxyribodipyrimidine photolyase K01669 phr; deoxyribodipyrimidine photo-lyase [EC:4.1.99.3]
C BER (base exicision repair)
D DNA glycosylases
E SMD_3851 ung; Uracil-DNA glycosylase, family 1 K03648 UNG; uracil-DNA glycosylase [EC:3.2.2.27]
E SMD_3710 G:T/U mismatch-specific uracil/thymine DNA-glycosylase K03649 mug; double-stranded uracil-DNA glycosylase [EC:3.2.2.28]
E SMD_0521 Domain often clustered or fused with uracil-DNA glycosylase / Uracil-DNA glycosylase, putative family 6 K21929 udg; uracil-DNA glycosylase [EC:3.2.2.27]
E SMD_1289 DNA methylation and regulatory protein Ada or K13529 ada-alkA; AraC family transcriptional regulator, regulatory protein of adaptative response / DNA-3-methyladenine glycosylase II [EC:3.2.2.21]
E SMD_2303 DNA-3-methyladenine glycosylase II K03652 MPG; DNA-3-methyladenine glycosylase [EC:3.2.2.21]
E SMD_1742 mutY; A/G-specific adenine glycosylase K03575 mutY; A/G-specific adenine glycosylase [EC:3.2.2.31]
E SMD_1019 tag; DNA-3-methyladenine glycosylase K01246 tag; DNA-3-methyladenine glycosylase I [EC:3.2.2.20]
E SMD_0041 fpg; Formamidopyrimidine-DNA glycosylase K10563 mutM; formamidopyrimidine-DNA glycosylase [EC:3.2.2.23 4.2.99.18]
E SMD_2202 endonuclease K05522 nei; endonuclease VIII [EC:3.2.2.- 4.2.99.18]
E SMD_1387 nth; Endonuclease III K10773 NTHL1; endonuclease III [EC:3.2.2.- 4.2.99.18]
D AP endonucleases
E SMD_0331 ampN; Exodeoxyribonuclease III protein AmpN K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E SMD_2306 xthA2; Exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E SMD_4151 xthA3; Exodeoxyribonuclease III K01142 E3.1.11.2; exodeoxyribonuclease III [EC:3.1.11.2]
E SMD_1267 nfi; Endonuclease V K05982 E3.1.21.7; deoxyribonuclease V [EC:3.1.21.7]
D RecJ
E SMD_2004 recJ; Single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
D DNA ligase
E SMD_2722 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D DNA polymerase I
E SMD_4122 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 SMD_2193 Excinuclease ABC subunit A paralog of unknown function K03701 uvrA; excinuclease ABC subunit A
E SMD_1190 uvrA; Excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
E SMD_1455 uvrB; Excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
E SMD_1471 uvrC; Excinuclease ABC subunit C K03703 uvrC; excinuclease ABC subunit C
E SMD_4127 uvrD; ATP-dependent DNA helicase UvrD/PcrA K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SMD_4122 polA; DNA polymerase I K02335 polA; DNA polymerase I [EC:2.7.7.7]
E SMD_2722 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 SMD_0778 rpoB; DNA-directed RNA polymerase beta subunit K03043 rpoB; DNA-directed RNA polymerase subunit beta [EC:2.7.7.6]
F SMD_0779 rpoC; DNA-directed RNA polymerase beta' subunit K03046 rpoC; DNA-directed RNA polymerase subunit beta' [EC:2.7.7.6]
F SMD_0809 rpoA; DNA-directed RNA polymerase alpha subunit K03040 rpoA; DNA-directed RNA polymerase subunit alpha [EC:2.7.7.6]
F SMD_3444 rpoZ; 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 SMD_1271 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
E SMD_1238 mutS; DNA mismatch repair protein MutS K03555 mutS; DNA mismatch repair protein MutS
D Molecular matchmaker
E SMD_2900 mutL; DNA mismatch repair protein MutL K03572 mutL; DNA mismatch repair protein MutL
D Strand discrimination factor
D DNA exonucleases
E SMD_2739 sbcB; Exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
E SMD_2905 ex7L; Exodeoxyribonuclease VII large subunit K03601 xseA; exodeoxyribonuclease VII large subunit [EC:3.1.11.6]
E SMD_3047 xseB; Exodeoxyribonuclease VII small subunit K03602 xseB; exodeoxyribonuclease VII small subunit [EC:3.1.11.6]
D DNA polymerase III holoenzyme
E SMD_1323 dnaE; DNA polymerase III alpha subunit K02337 dnaE; DNA polymerase III subunit alpha [EC:2.7.7.7]
E SMD_0002 dnaN; DNA polymerase III beta subunit K02338 dnaN; DNA polymerase III subunit beta [EC:2.7.7.7]
E SMD_0568 holC; DNA polymerase III chi subunit K02339 holC; DNA polymerase III subunit chi [EC:2.7.7.7]
E SMD_3064 holA; DNA polymerase III delta subunit K02340 holA; DNA polymerase III subunit delta [EC:2.7.7.7]
E SMD_0985 holB; DNA polymerase III delta prime subunit K02341 holB; DNA polymerase III subunit delta' [EC:2.7.7.7]
E SMD_0937 dnaQ; DNA polymerase III epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E SMD_4134 dnaQ2; DNA polymerase III epsilon subunit K02342 dnaQ; DNA polymerase III subunit epsilon [EC:2.7.7.7]
E SMD_0964 dnaX; DNA polymerase III subunits gamma and tau K02343 dnaX; DNA polymerase III subunit gamma/tau [EC:2.7.7.7]
D DNA ligase
E SMD_2722 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
D Other MMR factors
E SMD_4127 uvrD; ATP-dependent DNA helicase UvrD/PcrA K03657 uvrD; ATP-dependent DNA helicase UvrD/PcrA [EC:5.6.2.4]
E SMD_1108 ssb; Single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
E SMD_1568 Single-stranded DNA-binding protein in PFGI-1-like cluster K03111 ssb; single-strand DNA-binding protein
B DSBR (double strand breaks repair)
C HR (homologous recombination)
D RecBC pathway proteins
E SMD_4210 recB; Exodeoxyribonuclease V beta chain K03582 recB; exodeoxyribonuclease V beta subunit [EC:3.1.11.5]
E SMD_4211 recC; Exodeoxyribonuclease V gamma chain K03583 recC; exodeoxyribonuclease V gamma subunit [EC:3.1.11.5]
E SMD_4209 recD; Exodeoxyribonuclease V alpha chain K03581 recD; exodeoxyribonuclease V alpha subunit [EC:3.1.11.5]
E SMD_1678 recA; RecA protein K03553 recA; recombination protein RecA
E SMD_3317 ruvA; Holliday junction DNA helicase RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E SMD_3315 ruvB; Holliday junction DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E SMD_3318 ruvC; Crossover junction endodeoxyribonuclease RuvC K01159 ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]
E SMD_3793 priA; Helicase PriA essential for oriC/DnaA-independent DNA replication K04066 priA; primosomal protein N' (replication factor Y) (superfamily II helicase) [EC:5.6.2.4]
E SMD_2739 sbcB; Exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
D RecFOR pathway proteins
E SMD_1678 recA; RecA protein K03553 recA; recombination protein RecA
E SMD_1218 radA; DNA repair protein RadA K04485 radA; DNA repair protein RadA/Sms
E SMD_0003 recF; DNA recombination and repair protein RecF K03629 recF; DNA replication and repair protein RecF
E SMD_3441 recG; ATP-dependent DNA helicase RecG K03655 recG; ATP-dependent DNA helicase RecG [EC:5.6.2.4]
E SMD_2004 recJ; Single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
E SMD_3124 recO; DNA recombination and repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
E SMD_0966 recR; Recombination protein RecR K06187 recR; recombination protein RecR
E SMD_1791 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
E SMD_0059 rdgC; DNA recombination-dependent growth factor C K03554 rdgC; recombination associated protein RdgC
E SMD_3317 ruvA; Holliday junction DNA helicase RuvA K03550 ruvA; holliday junction DNA helicase RuvA
E SMD_3315 ruvB; Holliday junction DNA helicase RuvB K03551 ruvB; holliday junction DNA helicase RuvB [EC:5.6.2.4]
E SMD_3318 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 SMD_3011 ATPase 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
E SMD_0022 ku; Ku domain protein K10979 ku; DNA end-binding protein Ku
E SMD_2199 ATP-dependent DNA ligase K01971 ligD; bifunctional non-homologous end joining protein LigD [EC:6.5.1.1]
E SMD_0023 ATP-dependent DNA ligase K01971 ligD; bifunctional non-homologous end joining protein LigD [EC:6.5.1.1]
D SHIIR (short-homology-independent illegitimate recombination)
E Facilitator
F SMD_2717 gyrA; DNA gyrase subunit A K02469 gyrA; DNA gyrase subunit A [EC:5.6.2.2]
F SMD_0004 gyrB; DNA gyrase subunit B K02470 gyrB; DNA gyrase subunit B [EC:5.6.2.2]
F SMD_3783 topA; DNA topoisomerase I K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
F SMD_0066 DNA topoisomerase IB (poxvirus type) K03168 topA; DNA topoisomerase I [EC:5.6.2.1]
E Supressor
F SMD_0873 hupB; DNA-binding protein HU-alpha K03530 hupB; DNA-binding protein HU-beta
D SHDIR (short-homology-dependent illegitimate recombination)
E RecET pathway
F SMD_2004 recJ; Single-stranded-DNA-specific exonuclease RecJ K07462 recJ; single-stranded-DNA-specific exonuclease [EC:3.1.-.-]
F SMD_3124 recO; DNA recombination and repair protein RecO K03584 recO; DNA repair protein RecO (recombination protein O)
F SMD_0966 recR; Recombination protein RecR K06187 recR; recombination protein RecR
F SMD_2722 ligA; DNA ligase K01972 E6.5.1.2; DNA ligase (NAD+) [EC:6.5.1.2]
E Facilitator
F SMD_3840 fis; DNA-binding protein Fis K03557 fis; Fis family transcriptional regulator, factor for inversion stimulation protein
F SMD_2946 himA; Integration host factor alpha subunit K04764 ihfA; integration host factor subunit alpha
F SMD_1840 ihfB; Integration host factor beta subunit K05788 ihfB; integration host factor subunit beta
E Supressor
F SMD_2739 sbcB; Exodeoxyribonuclease I K01141 sbcB; exodeoxyribonuclease I [EC:3.1.11.1]
F SMD_3255 recQ; ATP-dependent DNA helicase RecQ K03654 recQ; ATP-dependent DNA helicase RecQ [EC:5.6.2.4]
F SMD_2193 Excinuclease ABC subunit A paralog of unknown function K03701 uvrA; excinuclease ABC subunit A
F SMD_1190 uvrA; Excinuclease ABC subunit A K03701 uvrA; excinuclease ABC subunit A
F SMD_1455 uvrB; Excinuclease ABC subunit B K03702 uvrB; excinuclease ABC subunit B
F SMD_0558 hns; DNA-binding protein H-NS K03746 hns; DNA-binding protein H-NS
F SMD_3749 hnsB; histone-like nucleoid-structuring protein H-NS K03746 hns; DNA-binding protein H-NS
B TLS (translesion DNA synthesis) factors
C Y-family DNA polymerases
D SMD_0494 dinP; DNA polymerase IV K02346 dinB; DNA polymerase IV [EC:2.7.7.7]
C Other SOS response factors
D SMD_1678 recA; RecA protein K03553 recA; recombination protein RecA
D SMD_1677 lexA; SOS-response repressor and protease LexA K01356 lexA; repressor LexA [EC:3.4.21.88]
D SMD_1791 recN; DNA repair protein RecN K03631 recN; DNA repair protein RecN (Recombination protein N)
D SMD_2561 RecA/RadA recombinase K14160 imuA; protein ImuA
D SMD_2562 DNA polymerase-like protein PA0670 K14161 imuB; protein ImuB
D SMD_2563 dnaE2; DNA polymerase III alpha subunit K14162 dnaE2; error-prone DNA polymerase [EC:2.7.7.7]
D SMD_1108 ssb; Single-stranded DNA-binding protein K03111 ssb; single-strand DNA-binding protein
D SMD_1568 Single-stranded DNA-binding protein in PFGI-1-like cluster K03111 ssb; single-strand DNA-binding protein
D SMD_1679 recX; Regulatory protein RecX K03565 recX; regulatory protein
B Other factors with a suspected DNA repair function
C DNA polymerase
C DNA helicases
D SMD_0046 rep; ATP-dependent DNA helicase Rep K03656 rep; ATP-dependent DNA helicase Rep [EC:5.6.2.4]
D SMD_2671 DNA helicase IV K03658 helD; DNA helicase IV [EC:5.6.2.4]
D SMD_3245 yoaA; DinG family ATP-dependent helicase YoaA K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D SMD_4039 dinG; ATP-dependent helicase DinG/Rad3 K03722 dinG; ATP-dependent DNA helicase DinG [EC:5.6.2.3]
D SMD_3112 Helicase domain protein 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 SMD_0652 mutT; Mutator mutT protein (7,8-dihydro-8-oxoguanine-triphosphatase) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SMD_2610 mutX; Mutator mutT protein (7,8-dihydro-8-oxoguanine-triphosphatase) K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SMD_4115 Nudix hydrolase family protein PA3470 K03574 mutT; 8-oxo-dGTP diphosphatase [EC:3.6.1.55]
D SMD_0322 dut; Deoxyuridine 5'-triphosphate nucleotidohydrolase K01520 dut; dUTP diphosphatase [EC:3.6.1.23]
D SMD_2487 nrdE; Ribonucleotide reductase of class Ia (aerobic),alpha subunit K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D SMD_0215 RRM1; Ribonucleotide reductase of class Ia (aerobic),alpha subunit K00525 E1.17.4.1A; ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]
D SMD_2486 nrdF; Ribonucleotide reductase of class Ia (aerobic),beta subunit K00526 E1.17.4.1B; ribonucleoside-diphosphate reductase beta chain [EC:1.17.4.1]
D SMD_0216 RRM2; Ribonucleotide reductase of class Ia (aerobic),beta subunit 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