DNA glycosylase

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</StructureSection>
</StructureSection>
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== 3D Structures of DNA glycosylase ==
 
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Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
 
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{{#tree:id=OrganizedByTopic|openlevels=0|
 
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*Adenine DG
 
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**[[3n5n]] – hADG catalytic domain – human<BR />
 
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**[[1x51]] – hADG NUDIX domain - NMR<BR />
 
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**[[1wef]], [[1weg]], [[1kg4]], [[1kg5]], [[1kg6]], [[1kg7]], [[1kqj]], [[1mun]] - EcADG catalytic domain (mutant) - ''Escherichia coli''<BR />
 
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**[[1kg2]], [[1kg3]], [[1muy]] - EcADG catalytic domain<BR />
 
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**[[1mun]] - EcADG catalytic domain (mutant) <BR />
 
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*Adenine DG complex
 
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**[[1wei]], [[1mud]] - EcADG catalytic domain (mutant) + adenine<br />
 
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**[[3fsp]], [[5dpk]] – GsADG + DNA – ''Geobacillus stearothermophilus''<BR />
 
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**[[3g0q]], [[1vrl]], [[1rrq]], [[1rrs]], [[5kn8]] - GsADG (mutant) + DNA <BR />
 
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**[[5dpk]], [[5kn9]] – GsADG + DNA with oxo-guanine<br />
 
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*A/G specific adenine DG complex
 
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**[[4ypr]], [[4yph]], [[4yoq]] – GsADG (mutant) + DNA<br />
 
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*Uracil DG
 
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**[[3a7n]], [[4wpk]], [[4wrw]], [[4wrx]] – MtUDG – ''Mycobacterium tuberculosis''<BR />
 
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**[[6ajs]] – MsUDG – ''Mycobacterium smegmatis''<br />
 
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**[[6ajq]] – MsUDG (mutant)<br />
 
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**[[6ail]] – MsUDG X<br />
 
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**[[3tr7]] – UDG – ''Coxiella burnetii''<br />
 
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**[[1akz]], [[3tkb]], [[1yuo]] - hUDG (mutant) <BR />
 
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**[[2jhq]] – UDG – ''Vibrio cholerae''<BR />
 
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**[[2owq]], [[3nt7]], [[4dof]], [[4dog]], [[4rib]], [[4lzb]], [[4qc9]], [[4qca]], [[5jx0]] – UDG (mutant) – Vaccinia virus<BR />
 
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**[[5jx3]], [[5jx8]] – VvUDG<br />
 
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**[[2d3y]], [[1ui0]], [[1ui1]] – TtUDG – ''Thermus thermophilus''<BR />
 
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**[[1lqj]] – EcUDG<BR />
 
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**[[1flz]] - EcUDG (mutant) <BR />
 
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**[[1udh]], [[1udg]], [[5nnh]], [[5nn7]] – HsUDG - Herpes simplex virus<BR />
 
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**[[2c2p]], [[2boo]] – DrUDG – ''Deinococcus radiodurans''<BR />
 
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**[[2c2q]] – DrUDG (mutant) <BR />
 
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**[[1vk2]], [[1l9g]] – TmUDG - ''Thermotoga maritima''<BR />
 
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**[[1okb]] – AcUDG catalytic domain – Atlantic cod<br />
 
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**[[3wdf]] – SaUDG - ''Staphylococcus aureus''<br />
 
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**[[3zor]] – BsUDG – ''Bacillus subtilis''<br />
 
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**[[4zbx]], [[4zbz]] – StUDG – ''Sulfolobus tokodaii'' <br />
 
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**[[5x3g]] – NsUDG – ''Nitratifactor salsuginis''<br />
 
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**[[5x3h]] – NsUDG (mutant)<br />
 
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*Uracil-DNA glycosylase complex with inhibitor protein
 
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**[[1udi]] – HsvUDG + UDG inhibitor protein<br />
 
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**[[1ugh]] – hUDG + UDG inhibitor protein<br />
 
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**[[1uug]], [[1eui]], [[1lqg]], [[1lqm]] – EcUDG + UDG inhibitor protein <br />
 
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**[[2uug]] – EcUDG (mutant) + UDG inhibitor protein <br />
 
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**[[2j8x]] – UDG + UDG inhibitor protein – Epstein-Barr virus<br />
 
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**[[2zhx]] – MtUDG + UDG inhibitor protein <br />
 
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**[[3wdg]] – SaUDG + UDG inhibitor protein <br />
 
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**[[4lyl]] – acUDG catalytic domain + UDG inhibitor protein <br />
 
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**[[4l5n]] – HsvUDG + PZA inhibitor protein <br />
 
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*Uracil-DNA glycosylase complex with DNA
 
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**[[1lau]] – HsvUDG + DNA <br />
 
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**[[4skn]] – hUDG (mutant) + DNA<br />
 
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**[[2oxm]] – hUDG + DNA<br />
 
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**[[4uqm]] – DrUDG + DNA<br />
 
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**[[1ssp]], [[1q3f]] – hUDG + DNA + uracil<br />
 
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**[[1emh]] – hUDG + DNA + deoxy pseudo-UMP<br />
 
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**[[2oyt]] – hUDG + DNA + abasic deoxyribose<br />
 
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**[[2ssp]] – hUDG (mutant) + DNA + abasic deoxyribose<br />
 
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**[[1emj]] – hUDG (mutant) + DNA + uracil + deoxyuridine analog<br />
 
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**[[4qcb]] – VvUDG (mutant) + DNA<br />
 
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**[[2ddg]], [[2dem]], [[2dp6]] – TtUDG + DNA + deoxyphosphono ribose<br />
 
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**[[5nnu]] – HhUDG + DNA <br />
 
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**[[6ajo]] – MsUDG + DNA<br />
 
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*Uracil-DNA glycosylase complex with uracil derivatives
 
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**[[5eug]], [[2eug]], [[1flz]] – EcUDG (mutant) + uracil<br />
 
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**[[1ui0]] – TtUDG + Fe4S4 + uracil <br />
 
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**[[4lzb]] – VvUDG (mutant) + uracil<br />
 
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**[[4zby]] – StUDG + uracil<br />
 
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**[[4wpl]], [[4wru]], [[4wrv]] – MtUDG + uracil<br />
 
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**[[4wry]], [[4wrz]], [[4ws0]], [[4ws1]], [[4ws2]], [[4ws3]], [[4ws4]], [[4ws5]], [[4ws6]], [[4ws7]], [[4ws8]] – MtUDG + uracil derivative<br />
 
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**[[6ajr]] – MsUDG + uracil<br />
 
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**[[6ajp]] – MsUDG + deoxy-UMP <br />
 
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**[[2d3y]] – TtUDG + Fe4S4 + deoxy-UMP <br />
 
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**[[2c53]] – HsvUDG (mutant) + deoxyuridine<br />
 
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**[[3cxm]] – UDG + Br-uracil – ''Leishmania naiffi''<br />
 
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*Uracil-DNA glycosylase other complexes
 
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**[[2hxm]], [[3fcf]], [[3fci]], [[3fck]], [[3fcl]] – hUDG + inhibitor<br />
 
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**[[5jk7]] – hUDG + DNA damage-binding protein + VPRBP + VPR <br />
 
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**[[5ayr]], [[5ays]] – hUDG + protein<br />
 
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**[[3uf7]] – EcUDG + single-stranded DNA-binding protein C terminal<br />
 
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**[[3ufm]] – DrUDG + single-stranded DNA-binding protein C terminal<br />
 
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**[[3zoq]] – BsUDG + p56 <br />
 
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**[[4od8]], [[4oda]], [[4ygm]], [[5jkr]] – VvUDG + DNA polymerase processivity factor component A20 N terminal<br />
 
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**[[5jks]], [[5jkt]] – VvUDG (mutant) + DNA polymerase processivity factor component A20 N terminal<br />
 
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**[[4yig]] – VvUDG + DNA polymerase processivity factor component A20 N terminal + DNA<br />
 
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*Smug1 Uracil DG
 
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**[[1oe4]], [[1oe5]], [[1oe6]] – UDG Smug1 + DNA– ''Xenopus laevis''
 
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*Thymine DG
 
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**[[2rba]] – hTDG core domain + DNA<BR />
 
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**[[2d07]], [[1wyw]] – hTDG central region + SUMO-3<BR />
 
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**[[1kea]] – TDG – ''Methanothermobacter thermautotrophicus''<BR />
 
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**[[1mug]] – EcTDG
 
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*G/T mismatch-specific thymine DG
 
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**[[3uo7]], [[4jgc]], [[5t2w]] - hTDG + DNA + carboxylcytosine<br />
 
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**[[3uob]] - hTDG + DNA + fluoro-cytidine<br />
 
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**[[3ufj]] – hTDG core domain + DNA + fluoroluridine<br />
 
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**[[4fnc]], [[5hf7]] - hTDG + DNA + uridine derivative <br />
 
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**[[5jxy]], [[4z3a]], [[4xeg]] - hTDG + DNA + G/U analog<br />
 
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**[[5ff8]], [[5cys]], [[4z7z]], [[4z7b]], [[4z47]] - hTDG + DNA + deoxyribose<br />
 
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*Human 8-oxoguanine DG
 
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**[[1ko9]], [[5an4]] – hOgg1<BR />
 
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**[[2xhi]], [[3ktu]], [[1hu0]], [[1fn7]] - hOgg1 + DNA<BR />
 
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**[[1lwv]], [[1lww]], [[1lwy]] - hOgg1 + DNA<BR /> + guanine derivative<BR />
 
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**[[2nob]], [[2noe]], [[2nof]], [[2noh]], [[2noi]], [[2nol]], [[2noz]], [[2i5w]], [[1yqk]], [[1yql]], [[1yqm]], [[1yqr]], [[1n39]], [[1n3a]], [[1n3c]] - hOgg1 (mutant) + DNA<BR />
 
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**[[1m3h]], [[3ih7]] - hOgg1 core fragment (mutant) + DNA<BR />
 
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**[[1m3q]], [[1ebm]] - hOgg1 core fragment (mutant) + DNA + guanine derivative
 
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*8-oxoguanine (oxoG) DG
 
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**[[6g3x]] – mOgg1 – mouse<br />
 
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**[[6g40]], [[6g3y]] – mOgg1 + inhibitor<br />
 
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**[[3n0u]] – TmOxDG<BR />
 
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**[[3knt]] - MjOxDG (mutant) + DNA – ''Methanocaldococcus jannaschii''<BR />
 
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**[[3fhf]] - MjOxDG<BR />
 
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**[[3go8]], [[3gp1]], [[3gpp]], [[3gpu]], [[3gpx]], [[3gpy]], [[3gq3]], [[3gq4]], [[3gq5]] – GsOxDG (mutant) + DNA<BR />
 
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**[[3f0z]] - CaOxDG – ''Clostridium acetobutylicum''<BR />
 
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**[[3f10]] – CaOxDG + oxoG<BR />
 
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**[[3i0w]], [[3i0x]] - CaOxDG (mutant) + DNA<BR />
 
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**[[3fhg]] - OxDG (mutant) – ''Sulfolobus solfataricus''<BR />
 
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**[[1xqo]], [[1xqp]] – OxDG – ''Pyrobaculum aerophilum''<br />
 
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**[[4ejy]], [[4ejz]] – OxDG + DNA – ''Thermoanaerobacter tengcongensis''<br />
 
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**[[4pii]] – OxDG – ''Pyrococcus furiosus''<br />
 
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*Methyladenine DG
 
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**[[3bvs]] – BcAlkDG – ''Bacillus cereus''<BR />
 
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**[[1pvs]], [[1p7m]], [[1mpg]] – EcAlkDG<BR />
 
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**[[1nku]], [[1lmz]] – EcAlkDG - NMR<BR />
 
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**[[2ofk]] – StAlkDG – ''Salmonella typhi''<BR />
 
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**[[2jhj]], [[2jhn]] – AlkDG – ''Archaeoglobus fulgidus''<BR />
 
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**[[2jg6]] – AlkDG – ''Staphylococcus aureus''<BR />
 
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**[[1pu6]] – HpAlkDG – ''Helicobacter pylori''<BR />
 
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**[[4ai4]] – SaAlkDG (mutant)<br />
 
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*Methyladenine DG complex
 
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**[[3qi5]], [[1ewn]], [[1f4r]], [[1f6o]], [[1bnk]], [[3uby]] – hAlkDG + DNA<BR />
 
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**[[3jx7]], [[3jxy]], [[3jxz]], [[3jy1]] - BcAlkDG + DNA<BR />
 
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**[[5uuh]], [[5uug]], [[5uuf]], [[5kub]] – BcAlkDG + damaged DNA <br />
 
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**[[3ogd]], [[3oh6]], [[3oh9]] - EcAlkDG (mutant) + DNA<BR />
 
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**[[3d4v]], [[3cvs]], [[3cvt]], [[3cw7]], [[3cwa]], [[3cws]], [[3cwt]], [[3cwu]], [[1diz]] - EcAlkDG + DNA<BR />
 
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**[[2ofi]] – StAlkDG + DNA<BR />
 
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**[[3s6i]] – AlkDG + DNA – fission yeast<br />
 
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**[[1pu7]], [[1pu8]] – HpAlkDG + adenine derivative<br />
 
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**[[4aia]] – SaAlkDG + methyladenine<br />
 
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**[[4ai5]] – SaAlkDG (mutant) + methyladenine<br />
 
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*Alkylpurine DG
 
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**[[5vi0]] – PfAlkCDG + DNA – ''Pseudomonas fluorescens''<br />
 
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**[[5vhv]] – PfAlkCDG + damaged DNA <br />
 
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*Formamidopyrimidine DG
 
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**[[1ee8]] – TtFpg <br />
 
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**[[3a42]], [[3a45]] – ApFpg – ''Acanthamoeba polyphaga'' minivirus<br />
 
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**[[3twk]], [[3twl]] – AtFpg - ''Arabidopsis thaliana''<br />
 
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*''Fpg complex with DNA''
 
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**[[1k82]] – EcFpg + DNA <br />
 
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**[[4pdi]], [[4pdg]], [[4pd2]], [[4pcz]] – LlFpg + damaged DNA – ''Lactococcus lactis''<br />
 
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**[[1kfv]], [[1nnj]] – LlFpg (mutant) + DNA <br />
 
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**[[1l1t]], [[1l1z]], [[1l2b]], [[1l2c]] – GsFpg + DNA <br />
 
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**[[2f5n]], [[2f5o]], [[2f5p]], [[3gpx]], [[3gq5]] – GsFpg (mutant) + DNA <br />
 
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*''Fpg complex with DNA containing a damaged base''
 
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**[[1r2y]], [[2f5q]], [[2f5s]], [[3jr5]], [[3gp1]], [[3gpp]], [[3gpu]], **[[3gpy]], [[3gq3]], [[3gq4]], [[3go8]], [[3u6c]], [[3u6d]] – GsFpg (mutant) + DNA containing oxoG<br />
 
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**[[3u6e]], [[4g4o]], [[4g4r]] – GsFpg (mutant) + DNA containing oxoG and thymidine derivative <br />
 
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**[[3u6l]], [[3u6m]], [[3u6q]] – GsFpg (mutant) + DNA containing oxoG and cytidine derivative <br />
 
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**[[1r2z]] – GsFpg (mutant) + DNA containing 5,6-dihydrouracil<br />
 
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**[[3saw]] – GsFpg + DNA containing cytidine derivative<br />
 
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**[[3sar]], [[3sav]], [[3sbj]] – GsFpg (mutant) + DNA containing cytidine derivative<br />
 
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**[[1l2d]], [[3sau]], [[3u6o]], [[3u6p]], [[3u6s]], [[4g4n]], [[4g4q]] – GsFpg (mutant) + DNA containing thymidine derivative<br />
 
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**[[3sas]], [[3sat]] – GsFpg (mutant) + DNA containing open deoxy-ribofuranose phosphate <br />
 
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**[[1pm5]] – LlFpg + DNA containing abasic dideoxyribose<br />
 
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**[[1pjj]] – LlFpg (mutant) + DNA containing abasic dideoxyribose<br />
 
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**[[4cis]] – LlFpg + DNA containing oxoG derivative<br />
 
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**[[3twm]] – AtFpg + DNA containing abasic dideoxyribose<br />
 
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**[[1pji]] – LlFpg + DNA containing 1,3-propanediol<br />
 
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**[[2xzf]], [[2xzu]] – LlFpg + DNA containing oxidized pyrimidine<br />
 
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**[[1tdz]], [[1xc8]], [[3c58]] – LlFpg + DNA containing Fapy-dG derivative<br />
 
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**[[3a46]] – ApFpg + DNA containing abasic dideoxyribose<br />
 
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**[[4nrw]] – ApFpg (mutant) + DNA containing abasic dideoxyribose<br />
 
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**[[3vk7]] – ApFpg (mutant) + DNA containing 5-hydroxyuracil <br />
 
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**[[3vk8]] – ApFpg (mutant) + DNA containing thymine glycol<br />
 
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**[[3jr4]] – GsFpg (mutant) + DNA + guanosine derivative <br />
 
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*DNA glycosylase NEI
 
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**[[2ea0]], [[2opf]], [[2oq4]], [[1k3w]], [[1k3x]] – EcGD NEI + DNA<BR />
 
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**[[2fcc]] – Pyrimidine GD + DNA – Enterobacteria phage T4<br />
 
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**[[1q39]] – EcGD NEI<br />
 
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**[[1q3b]], [[1q3c]] – EcGD NEI (mutant)<br />
 
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**[[1tdh]] – hGD NEI
 
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}}
 
== References ==
== References ==
<references/>
<references/>
[[Category:Topic Page]]
[[Category:Topic Page]]

Revision as of 07:06, 12 June 2019

Structure of adenine DNA glycosylase containing Fe4S4 cluster complex with DNA containing an oxoG base, deoxy-ribofuranose phosphate and Ca+2 ion (green) (PDB code 1rrs).

Drag the structure with the mouse to rotate

References

  1. ↑ Fromme JC, Banerjee A, Verdine GL. DNA glycosylase recognition and catalysis. Curr Opin Struct Biol. 2004 Feb;14(1):43-9. PMID:15102448 doi:http://dx.doi.org/10.1016/j.sbi.2004.01.003
  2. ↑ Willetts KE, Rey F, Agostini I, Navarro JM, Baudat Y, Vigne R, Sire J. DNA repair enzyme uracil DNA glycosylase is specifically incorporated into human immunodeficiency virus type 1 viral particles through a Vpr-independent mechanism. J Virol. 1999 Feb;73(2):1682-8. PMID:9882380
  3. ↑ Fromme JC, Banerjee A, Huang SJ, Verdine GL. Structural basis for removal of adenine mispaired with 8-oxoguanine by MutY adenine DNA glycosylase. Nature. 2004 Feb 12;427(6975):652-6. PMID:14961129 doi:10.1038/nature02306

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