Topoisomerase

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{{#tree:id=OrganizedByTopic|openlevels=0|
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=== TOPI (ATP-independent)===
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*Topoisomerase I (ATP-independent)
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[[3igc]], [[2h7f]], [[2h7g]] – TOPI+DNA – ''Smallpox virus''<br />
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**[[3igc]], [[2h7f]], [[2h7g]] – TOPI+DNA – ''Smallpox virus''<br />
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[[2gai]], [[2gaj]] – TOPI – ''Thermotoga maritime''<br />
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**[[2gai]], [[2gaj]] – TOPI – ''Thermotoga maritime''<br />
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[[2f4q]] – TOPIB – ''Deinococcus radiodurans''<br />
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**[[2f4q]] – TOPIB – ''Deinococcus radiodurans''<br />
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[[1tl8]], [[1sc7]] – hTOPI+DNA+indenoisoquinoline – human<br />
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**[[1tl8]], [[1sc7]] – hTOPI+DNA+indenoisoquinoline – human<br />
-
[[1seu]] - hTOPI+DNA+indolocarbazole<br />
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**[[1seu]] - hTOPI+DNA+indolocarbazole<br />
-
[[1t8i]], [[1rr8]], [[1rrj]] - hTOPI+DNA+camptothesin<br />
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**[[1t8i]], [[1rr8]], [[1rrj]] - hTOPI+DNA+camptothesin<br />
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[[1r49]] – hTOPI (mutant)<br />
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**[[1r49]] – hTOPI (mutant)<br />
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[[1mw8]] – hTOPI (mutant) N-terminal+DNA<br />
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**[[1mw8]] – hTOPI (mutant) N-terminal+DNA<br />
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[[1mw9]] - hTOPI (mutant) N-terminal<br />
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**[[1mw9]] - hTOPI (mutant) N-terminal<br />
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[[1nh3]] – hTOPI C-terminal+DNA+Ara-C<br />
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**[[1nh3]] – hTOPI C-terminal+DNA+Ara-C<br />
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[[1k4s]], [[1lpq]], [[1ej9]], [[1a31]], [[1a35]], [[1a36]] – hTOPI+DNA<br />
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**[[1k4s]], [[1lpq]], [[1ej9]], [[1a31]], [[1a35]], [[1a36]] – hTOPI+DNA<br />
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[[1k4t]] - hTOPI+DNA+topotecan<br />
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**[[1k4t]] - hTOPI+DNA+topotecan<br />
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[[1cy0]] – EcTOPI+DNA - ''Escherichia coli''<br />
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**[[1cy0]] – EcTOPI+DNA - ''Escherichia coli''<br />
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[[3px7]] – EcTOPI (mutant) +DNA<br />
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**[[3px7]] – EcTOPI (mutant) +DNA<br />
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[[1cy2]], [[1cy1]] – EcTOPI+5’TPTPTP3’<br />
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**[[1cy2]], [[1cy1]] – EcTOPI+5’TPTPTP3’<br />
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[[1cy6]], [[1cy7]], [[1cy8]] – EcIOPI+TMP<br />
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**[[1cy6]], [[1cy7]], [[1cy8]] – EcIOPI+TMP<br />
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[[1cy9]], [[1cyy]] – EcTOPI domain II+III<br />
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**[[1cy9]], [[1cyy]] – EcTOPI domain II+III<br />
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[[1yua]] – EcTOPI C-terminal<br />
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**[[1yua]] – EcTOPI C-terminal<br />
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[[1ecl]], [[1cy4]] - EcTOPI N-terminal<br />
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**[[1ecl]], [[1cy4]] - EcTOPI N-terminal<br />
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[[3pwt]] - EcTOPIA N-terminal (mutant)<br />
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**[[3pwt]] - EcTOPIA N-terminal (mutant)<br />
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[[1a41]] – VvTOPI C-terminal – ''Vaccinia virus''<br />
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**[[1a41]] – VvTOPI C-terminal – ''Vaccinia virus''<br />
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[[1vcc]] – VvTOPI N-terminal<br />
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**[[1vcc]] – VvTOPI N-terminal<br />
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[[1ois]] – yTOPI N-terminal - yeast<br />
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**[[1ois]] – yTOPI N-terminal - yeast<br />
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===TOPI (ATP-dependent) – reverse gyrase===
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*Topoisomerase I (ATP-dependent) – reverse gyrase
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[[4ddt]], [[4ddu]], [[4ddv]], [[4ddw]], [[4ddx]] – TmTOPI <br />
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**[[4ddt]], [[4ddu]], [[4ddv]], [[4ddw]], [[4ddx]] – TmTOPI <br />
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=== TOPIIA ===
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*Topoisomerase IIA
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[[3l4j]] – yTOPII apo+DNA <br />
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**[[3l4j]] – yTOPII apo+DNA <br />
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[[3l4k]] - yTOPII+DNA+Zn<br />
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**[[3l4k]] - yTOPII+DNA+Zn<br />
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[[2rgr]] - yTOPIIA+DNA<br />
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**[[2rgr]] - yTOPIIA+DNA<br />
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[[4gfh]] - yTOPIIA+DNA + ANPPNP<br />
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**[[4gfh]] - yTOPIIA+DNA + ANPPNP<br />
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[[1qzr]] – yTOPII N-terminal+dexrazoxane<br />
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**[[1qzr]] – yTOPII N-terminal+dexrazoxane<br />
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[[1pvg]] – yTOPII N-terminal<br />
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**[[1pvg]] – yTOPII N-terminal<br />
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[[1bjt]], [[1bgw]] – yTOPII core<br />
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**[[1bjt]], [[1bgw]] – yTOPII core<br />
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[[3ksa]], [[2ksb]] – SpTOPIIA+DNA – ''Streptococcus pneumoniae''<br />
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**[[3ksa]], [[2ksb]] – SpTOPIIA+DNA – ''Streptococcus pneumoniae''<br />
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[[1zxm]] – hTOPIIA+AMP-PNP <br />
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**[[1zxm]] – hTOPIIA+AMP-PNP <br />
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[[1zxn]] - hTOPIIA+ADP<br />
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**[[1zxn]] - hTOPIIA+ADP<br />
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[[4fm9]] - hTOPIIA+DNA<br />
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**[[4fm9]] - hTOPIIA+DNA<br />
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[[3kua]] – TOPII residues 362-493 + CCDB – ''Vibrio fischeri''<br />
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**[[3kua]] – TOPII residues 362-493 + CCDB – ''Vibrio fischeri''<br />
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=== TOPIIB topo VI ===
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*Topoisomerase IIB topo VI
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[[2zbk]] – SsTOPIIB subunit A+B – ''Sulfolobus shibatae''<br />
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**[[2zbk]] – SsTOPIIB subunit A+B – ''Sulfolobus shibatae''<br />
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[[2hkj]], [[1mu5]], [[1mx0]] - SsTOPIIB subunit B<br />
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**[[2hkj]], [[1mu5]], [[1mx0]] - SsTOPIIB subunit B<br />
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[[1z59]], [[1z5a]] - SsTOPIIB subunit B+ADP<br />
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**[[1z59]], [[1z5a]] - SsTOPIIB subunit B+ADP<br />
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[[1z5b]] - SsTOPIIB subunit B+ADP+AlF4<br />
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**[[1z5b]] - SsTOPIIB subunit B+ADP+AlF4<br />
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[[1z5c]] - SsTOPIIB subunit B+ADP+Pi<br />
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**[[1z5c]] - SsTOPIIB subunit B+ADP+Pi<br />
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[[2q2e]] - TOPIIB subunit A+B – ''Methanosarcina mazei''<br />
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**[[2q2e]] - TOPIIB subunit A+B – ''Methanosarcina mazei''<br />
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[[1d3y]] - TOPIIB subunit A - ''Methanocaldococcus janaschii''<br />
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**[[1d3y]] - TOPIIB subunit A - ''Methanocaldococcus janaschii''<br />
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[[4j3n]] - hTOPIIB subunit A+B + DNA <br />
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**[[4j3n]] - hTOPIIB subunit A+B + DNA <br />
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[[4g0w]], [[3qx3]], [[4g0v]], [[4g0u]] - hTOPIIB + DNA + anti-cancer drug<br />
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**[[4g0w]], [[3qx3]], [[4g0v]], [[4g0u]] - hTOPIIB + DNA + anti-cancer drug<br />
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=== TOPIII ===
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*Topoisomerase III
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[[2o19]], [[2o54]], [[2o59]], [[2o5c]], [[2o5e]], [[1i7d]] – EcTOPIII+DNA <br />
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**[[2o19]], [[2o54]], [[2o59]], [[2o5c]], [[2o5e]], [[1i7d]] – EcTOPIII+DNA <br />
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[[1d6m]] - EcTOPIII<br />
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**[[1d6m]] - EcTOPIII<br />
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[[4cgy]], [[4cht]] – hTOPIIIα + RecQ-mediated genome instability protein<br />
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**[[4cgy]], [[4cht]] – hTOPIIIα + RecQ-mediated genome instability protein<br />
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=== TOPIV ===
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*Topoisomerase IV
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[[3fv5]] – EcTOPIV subunit B <br />
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**[[3fv5]] – EcTOPIV subunit B <br />
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[[4hz0]] - EcTOPIV subunit B + inhibitor<br />
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**[[4hz0]] - EcTOPIV subunit B + inhibitor<br />
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[[1zvt]], [[1zvu]] - EcTOPIV subunit A<br />
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**[[1zvt]], [[1zvu]] - EcTOPIV subunit A<br />
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[[4mn4]] - EcTOPIV subunit A + MukB<br />
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**[[4mn4]] - EcTOPIV subunit A + MukB<br />
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[[1s14]] – EcTOPIV ParE<br />
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**[[1s14]] – EcTOPIV ParE<br />
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[[1s16]] - EcTOPIV ParE+ADPNP<br />
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**[[1s16]] - EcTOPIV ParE+ADPNP<br />
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[[3ltn]], [[3k9f]], [[3ksb]], [[3rad]], [[3rae]], [[3raf]], [[4i3h]], [[4juo]] - SpTOPIV subunit A+B+DNA<br />
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**[[3ltn]], [[3k9f]], [[3ksb]], [[3rad]], [[3rae]], [[3raf]], [[4i3h]], [[4juo]] - SpTOPIV subunit A+B+DNA<br />
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[[3foe]], [[3fof]] - SpTOPIV subunit A+B+DNA+quinolone<br />
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**[[3foe]], [[3fof]] - SpTOPIV subunit A+B+DNA+quinolone<br />
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[[2nov]] - SpTOPIV subunit A<br />
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**[[2nov]] - SpTOPIV subunit A<br />
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[[4em7]], [[4emv]], [[4lp0]], [[4lpb]], [[4mb9]], [[4mbc]], [[4mot]] - SpTOPIV subunit B + inhibitor<br />
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**[[4em7]], [[4emv]], [[4lp0]], [[4lpb]], [[4mb9]], [[4mbc]], [[4mot]] - SpTOPIV subunit B + inhibitor<br />
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[[2inr]] - TOPIV subunit A – ''Staphylococcus aureus''<br />
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**[[2inr]] - TOPIV subunit A – ''Staphylococcus aureus''<br />
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[[1wp5]] – TOPIV C-terminal – ''Geobacillus stearothermophilus''<br />
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**[[1wp5]] – TOPIV C-terminal – ''Geobacillus stearothermophilus''<br />
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[[2xkj]] – AbTOPIV pare+parc subunits – ''Acinetobacter baumannii''<br />
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**[[2xkj]] – AbTOPIV pare+parc subunits – ''Acinetobacter baumannii''<br />
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[[2xkk]] - AbTOPIV pare+parc subunits+DNA<br />
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**[[2xkk]] - AbTOPIV pare+parc subunits+DNA<br />
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[[3lnu]], [[3lps]] - TOPIV subunit B N-terminal – ''Xanthomonas oryzae''<br />
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**[[3lnu]], [[3lps]] - TOPIV subunit B N-terminal – ''Xanthomonas oryzae''<br />
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[[4hxz]], [[4hy1]] - hTOPIV subunit B + inhibitor<br />
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**[[4hxz]], [[4hy1]] - hTOPIV subunit B + inhibitor<br />
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[[4hym]], [[4kqv]] - TOPIV subunit B + inhibitor – ''Francisella tularensis''<br />
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**[[4hym]], [[4kqv]] - TOPIV subunit B + inhibitor – ''Francisella tularensis''<br />
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[[4hz5]] - TOPIV subunit B + inhibitor – ''Enterococcus faecalis''<br />
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**[[4hz5]] - TOPIV subunit B + inhibitor – ''Enterococcus faecalis''<br />
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=== TOPV ===
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*Topoisomerase V
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+
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[[2csb]], [[2csd]], [[4gfj]] – TOPV – ''Methanopyrus kandleri''<br />
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[[3m6k]], [[3m7g]] – MkTOPV N-terminal<br />
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[[3m6z]] - MkTOPV N-terminal+guanidine<br />
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[[3m7d]] - MkTOPV N-terminal+dioxane
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**[[2csb]], [[2csd]], [[4gfj]] – TOPV – ''Methanopyrus kandleri''<br />
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**[[3m6k]], [[3m7g]] – MkTOPV N-terminal<br />
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**[[3m6z]] - MkTOPV N-terminal+guanidine<br />
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**[[3m7d]] - MkTOPV N-terminal+dioxane
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}}
[[Category:Topic Page]]
[[Category:Topic Page]]
<br />
<br />
Created with the participation of [[User:Sonny Zhao|Sonny Zhao]].
Created with the participation of [[User:Sonny Zhao|Sonny Zhao]].

Revision as of 10:06, 15 December 2014

Image:2f4q.png
Crystal Structure of Topoisomerase 2f4q

Template:STRUCTURE 2h7f












Topoisomerase (TOP) winds and unwinds DNA double helix in order to enable DNA replication.

  • TOPI cuts one strand of the double helix. It has 3 subclasses: TOPIA which shares its mechanism with TOPII and TOPIB which uses rotary mechanism and includes topo I and topo III. TOPIC called TOPV shares its mechanism with TOPIB but is structurally unique.
  • TOPII cuts both strands of the double helix. Its subclasses are TOPIIA including topo II and TOPIIB which includes topo VI.
  • TOPIV is a type of TOPII, contains an ATP-binding domain ParE and a catalytic domain ParC.

See also Variola Topoisomerase 1B.


Function

The reaction catalyzed by topoisomerases leads to the conversion of one topological isomer of DNA to another. TOP3 is a potent decatenase.

GO Annotations

Database ID Symbol Qualifier GO Identifier GO Term Name Aspect Evidence Reference With Taxon Date Assigned by Product Form ID
UniProtKB P14294 topB GO:0006259 DNA metabolic process P IEA InterPro2GO InterPro:IPR006154 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006265 DNA topological change P IEA InterPro2GO InterPro:IPR000380 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006265 DNA topological change P IEA InterPro2GO InterPro:IPR003601 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006265 DNA topological change P IEA InterPro2GO InterPro:IPR003602 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006265 DNA topological change P IEA InterPro2GO InterPro:IPR005738 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006265 DNA topological change P IEA InterPro2GO InterPro:IPR013497 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006265 DNA topological change P IEA InterPro2GO InterPro:IPR013824 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006265 DNA topological change P IEA InterPro2GO InterPro:IPR013825 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006268 DNA unwinding involved in replication P IEA InterPro2GO InterPro:IPR013824 83333 20101127 InterPro
UniProtKB P14294 topB GO:0006268 DNA unwinding involved in replication P IEA InterPro2GO InterPro:IPR013825 83333 20101127 InterPro
UniProtKB P14294 topB GO:0000166 nucleotide binding F IEA Swiss-Prot Keywords2GO SP_KW:KW-0547 83333 20101127 UniProtKB
UniProtKB P14294 topB GO:0003676 nucleic acid binding F IEA InterPro2GO InterPro:IPR006154 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003677 DNA binding F IEA InterPro2GO InterPro:IPR000380 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003677 DNA binding F IEA InterPro2GO InterPro:IPR003601 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003677 DNA binding F IEA InterPro2GO InterPro:IPR003602 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003677 DNA binding F IEA InterPro2GO InterPro:IPR005738 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003677 DNA binding F IEA InterPro2GO InterPro:IPR013497 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003677 DNA binding F IEA InterPro2GO InterPro:IPR013824 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003677 DNA binding F IEA InterPro2GO InterPro:IPR013825 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003677 DNA binding F IEA Swiss-Prot Keywords2GO SP_KW:KW-0238 83333 20101127 UniProtKB
UniProtKB P14294 topB GO:0003916 DNA topoisomerase activity F IEA InterPro2GO InterPro:IPR003601 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003916 DNA topoisomerase activity F IEA InterPro2GO InterPro:IPR003602 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003916 DNA topoisomerase activity F IEA InterPro2GO InterPro:IPR005738 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003916 DNA topoisomerase activity F IEA InterPro2GO InterPro:IPR013497 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003916 DNA topoisomerase activity F IEA InterPro2GO InterPro:IPR013824 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003916 DNA topoisomerase activity F IEA InterPro2GO InterPro:IPR013825 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003916 DNA topoisomerase activity F IEA Swiss-Prot Keywords2GO SP_KW:KW-0799 83333 20101127 UniProtKB
UniProtKB P14294 topB GO:0003917 DNA topoisomerase type I activity F IDA PMID:6326814 83333 20100621 EcoliWiki
UniProtKB P14294 topB GO:0003917 DNA topoisomerase type I activity F IEA InterPro2GO InterPro:IPR000380 83333 20101127 InterPro
UniProtKB P14294 topB GO:0003917 DNA topoisomerase type I activity F IEA EC2GO EC:5.99.1.2 83333 20100703 UniProtKB
UniProtKB P14294 topB GO:0005515 protein binding F IPI PMID:15690043 frlR (FRLR_ECOLI) 83333 20101127 IntAct
UniProtKB P14294 topB GO:0005524 ATP binding F IEA Swiss-Prot Keywords2GO SP_KW:KW-0067 83333 20101127 UniProtKB
UniProtKB P14294 topB GO:0016853 isomerase activity F IEA Swiss-Prot Keywords2GO SP_KW:KW-0413 83333 20101127 UniProtKB
UniProtKB P14294 topB GO:0005694 chromosome C IEA InterPro2GO InterPro:IPR000380 83333 20101127 InterPro
UniProtKB P14294 topB GO:0005694 chromosome C IEA InterPro2GO InterPro:IPR003601 83333 20101127 InterPro
UniProtKB P14294 topB GO:0005694 chromosome C IEA InterPro2GO InterPro:IPR003602 83333 20101127 InterPro
UniProtKB P14294 topB GO:0005694 chromosome C IEA InterPro2GO InterPro:IPR005738 83333 20101127 InterPro
UniProtKB P14294 topB GO:0005694 chromosome C IEA InterPro2GO InterPro:IPR013497 83333 20101127 InterPro
UniProtKB P14294 topB GO:0005694 chromosome C IEA InterPro2GO InterPro:IPR013824 83333 20101127 InterPro
UniProtKB P14294 topB GO:0005694 chromosome C IEA InterPro2GO InterPro:IPR013825 83333 20101127 InterPro

Copied from [1] Last updated Dec 2 2010


3D Structures of Topoisomerase

Updated on 15-December-2014


Created with the participation of Sonny Zhao.

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Joel L. Sussman, Alexander Berchansky, Jaime Prilusky

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