DNA glycosylase 3D structures
From Proteopedia
(Difference between revisions)
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{{#tree:id=OrganizedByTopic|openlevels=0| | {{#tree:id=OrganizedByTopic|openlevels=0| | ||
| - | *Adenine DG | + | *Adenine DG or MutY |
**[[3n5n]] – hADG catalytic domain – human<BR /> | **[[3n5n]] – hADG catalytic domain – human<BR /> | ||
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*Adenine DG complex | *Adenine DG complex | ||
| + | **[[9lnp]], [[9lnq]] – hADG + DNA <br /> | ||
| + | **[[8fay]] – hADG + DNA with oxo-guanine <br /> | ||
**[[7ef8]], [[7ef9]] – mADG + DNA with oxo-guanine - mouse<br /> | **[[7ef8]], [[7ef9]] – mADG + DNA with oxo-guanine - mouse<br /> | ||
| + | **[[7z3y]], [[7z5r]] – mADG + inhibitor<br /> | ||
**[[7efa]] – mADG C-terminal + PCNA<br /> | **[[7efa]] – mADG C-terminal + PCNA<br /> | ||
**[[1wei]], [[1mud]] - EcADG catalytic domain (mutant) + adenine<br /> | **[[1wei]], [[1mud]] - EcADG catalytic domain (mutant) + adenine<br /> | ||
**[[6q0c]], [[6u7t]] - GsADG + DNA – ''Geobacillus stearothermophilus''<br /> | **[[6q0c]], [[6u7t]] - GsADG + DNA – ''Geobacillus stearothermophilus''<br /> | ||
| - | **[[ | + | **[[3g0q]], [[1vrl]], [[1rrq]], [[1rrs]], [[5kn8]], [[8dvy]], [[8dw0]], [[8dw4]], [[8dw7]], [[8dwd]], [[8dwe]], [[8dwf]] - GsADG (mutant) + DNA <BR /> |
| - | + | **[[6u7t]], [[5kn9]], [[8dvp]] – GsADG + DNA with oxo-guanine<br /> | |
| - | **[[6u7t]], [[5kn9]] – GsADG + DNA with oxo-guanine<br /> | + | **[[9bs2]] – GsADG (mutant) + DNA with oxo-guanine<br /> |
*A/G specific adenine DG complex | *A/G specific adenine DG complex | ||
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**[[3a7n]], [[4wpk]], [[4wrw]], [[4wrx]] – MtUDG – ''Mycobacterium tuberculosis''<BR /> | **[[3a7n]], [[4wpk]], [[4wrw]], [[4wrx]] – MtUDG – ''Mycobacterium tuberculosis''<BR /> | ||
**[[6ail]], [[6ajs]], [[6io9]] – MsUDG X – ''Mycobacterium smegmatis''<br /> | **[[6ail]], [[6ajs]], [[6io9]] – MsUDG X – ''Mycobacterium smegmatis''<br /> | ||
| - | **[[6ajq]], [[6l5a]], [[6l5b]] – MsUDG X (mutant)<br /> | + | **[[6ajq]], [[6l5a]], [[6l5b]], [[8iif]], [[8iih]], [[8iij]], [[8iim]], [[8iio]], [[8iiq]], [[8iir]], [[8iis]] – MsUDG X (mutant)<br /> |
**[[3tr7]] – UDG – ''Coxiella burnetii''<br /> | **[[3tr7]] – UDG – ''Coxiella burnetii''<br /> | ||
**[[2jhq]] – UDG – ''Vibrio cholerae''<BR /> | **[[2jhq]] – UDG – ''Vibrio cholerae''<BR /> | ||
| - | **[[2owq]], [[3nt7]], [[4dof]], [[4dog]], [[4rib]], [[4lzb]], [[4qc9]], [[4qca]], [[5jx0]] – | + | **[[2owq]], [[3nt7]], [[4dof]], [[4dog]], [[4rib]], [[4lzb]], [[4qc9]], [[4qca]], [[5jx0]], [[8qam]] – VvUDG (mutant) – Vaccinia virus<BR /> |
**[[5jx3]], [[5jx8]] – VvUDG<br /> | **[[5jx3]], [[5jx8]] – VvUDG<br /> | ||
**[[2d3y]], [[1ui0]], [[1ui1]] – TtUDG – ''Thermus thermophilus''<BR /> | **[[2d3y]], [[1ui0]], [[1ui1]] – TtUDG – ''Thermus thermophilus''<BR /> | ||
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**[[2j8x]] – EBvUDG + UDG inhibitor protein – Epstein-Barr virus<br /> | **[[2j8x]] – EBvUDG + UDG inhibitor protein – Epstein-Barr virus<br /> | ||
**[[2zhx]] – MtUDG + UDG inhibitor protein <br /> | **[[2zhx]] – MtUDG + UDG inhibitor protein <br /> | ||
| - | **[[3wdg]] – SaUDG + UDG inhibitor protein <br /> | + | **[[3wdg]], [[8aim]], [[8ain]] – SaUDG + UDG inhibitor protein <br /> |
**[[4lyl]] – acUDG catalytic domain + UDG inhibitor protein <br /> | **[[4lyl]] – acUDG catalytic domain + UDG inhibitor protein <br /> | ||
**[[4l5n]] – HsvUDG + PZA inhibitor protein <br /> | **[[4l5n]] – HsvUDG + PZA inhibitor protein <br /> | ||
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*Uracil-DNA glycosylase complex with uracil derivatives | *Uracil-DNA glycosylase complex with uracil derivatives | ||
| - | **[[5eug]], [[2eug]], [[1flz]] – EcUDG (mutant) + uracil<br /> | + | **[[5eug]], [[2eug]], [[1flz]] , [[3eug]]– EcUDG (mutant) + uracil<br /> |
**[[1ui0]] – TtUDG + Fe4S4 + uracil <br /> | **[[1ui0]] – TtUDG + Fe4S4 + uracil <br /> | ||
**[[4lzb]] – VvUDG (mutant) + uracil<br /> | **[[4lzb]] – VvUDG (mutant) + uracil<br /> | ||
**[[4zby]] – StUDG + uracil<br /> | **[[4zby]] – StUDG + uracil<br /> | ||
| + | **[[5gnw]] – BdUDG + uracil <br /> | ||
**[[4wpl]], [[4wru]], [[4wrv]] – MtUDG + uracil<br /> | **[[4wpl]], [[4wru]], [[4wrv]] – MtUDG + uracil<br /> | ||
**[[4wry]], [[4wrz]], [[4ws0]], [[4ws1]], [[4ws2]], [[4ws3]], [[4ws4]], [[4ws5]], [[4ws6]], [[4ws7]], [[4ws8]] – MtUDG + uracil derivative<br /> | **[[4wry]], [[4wrz]], [[4ws0]], [[4ws1]], [[4ws2]], [[4ws3]], [[4ws4]], [[4ws5]], [[4ws6]], [[4ws7]], [[4ws8]] – MtUDG + uracil derivative<br /> | ||
| - | **[[6ajr]], [[6ioa]] – MsUDG X + uracil<br /> | + | **[[6ajr]], [[6ioa]], [[8iie]] – MsUDG X + uracil<br /> |
| - | **[[6iob]], [[6ioc]] – MsUDG X (mutant) + uracil<br /> | + | **[[6iob]], [[6ioc]], [[8iig]], [[8iil]], [[8iin]], [[8iip]], [[8iit]] – MsUDG X (mutant) + uracil<br /> |
**[[6ajp]] – MsUDG X + deoxy-UMP <br /> | **[[6ajp]] – MsUDG X + deoxy-UMP <br /> | ||
**[[2d3y]] – TtUDG + Fe4S4 + deoxy-UMP <br /> | **[[2d3y]] – TtUDG + Fe4S4 + deoxy-UMP <br /> | ||
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**[[2hxm]], [[3fcf]], [[3fci]], [[3fck]], [[3fcl]], [[6vba]] – hUDG + inhibitor<br /> | **[[2hxm]], [[3fcf]], [[3fci]], [[3fck]], [[3fcl]], [[6vba]] – hUDG + inhibitor<br /> | ||
**[[5jk7]] – hUDG + DNA damage-binding protein + VPRBP + VPR <br /> | **[[5jk7]] – hUDG + DNA damage-binding protein + VPRBP + VPR <br /> | ||
| + | **[[7v7c]] – hUDG + DNA damage-binding protein + VPRBP + VPR – Cryo EM<br /> | ||
**[[5ayr]], [[5ays]] – hUDG + protein<br /> | **[[5ayr]], [[5ays]] – hUDG + protein<br /> | ||
**[[3uf7]] – EcUDG + single-stranded DNA-binding protein C terminal<br /> | **[[3uf7]] – EcUDG + single-stranded DNA-binding protein C terminal<br /> | ||
**[[3ufm]] – DrUDG + single-stranded DNA-binding protein C terminal<br /> | **[[3ufm]] – DrUDG + single-stranded DNA-binding protein C terminal<br /> | ||
| - | **[[3zoq]] – BsUDG + p56 <br /> | + | **[[3zoq]] – BsUDG + phage p56 <br /> |
| + | **[[8ail]] – UDG + phage p56 – Bacillus weidemannii<br /> | ||
| + | **[[5gn2]], [[5gn3]] – BdUDG – ''Bradyrhizobium diazoefficiens'' <br /> | ||
| + | **[[5grk]] – BdUDG + xanthine <br /> | ||
| + | **[[8i61]], [[8i62]], [[8i63]], [[8i64]], [[8i65]], [[8i66]], [[8i67]], [[8i68]], [[8i69]], [[8i6a]], [[8i6b]], [[8i6c]], [[8i6d]] – MtUDG + inhibitor<br /> | ||
**[[4od8]], [[4oda]], [[4ygm]], [[5jkr]] – VvUDG + DNA polymerase processivity factor component A20 N terminal<br /> | **[[4od8]], [[4oda]], [[4ygm]], [[5jkr]] – VvUDG + DNA polymerase processivity factor component A20 N terminal<br /> | ||
**[[5jks]], [[5jkt]] – VvUDG (mutant) + DNA polymerase processivity factor component A20 N terminal<br /> | **[[5jks]], [[5jkt]] – VvUDG (mutant) + DNA polymerase processivity factor component A20 N terminal<br /> | ||
**[[4yig]] – VvUDG + DNA polymerase processivity factor component A20 N terminal + DNA<br /> | **[[4yig]] – VvUDG + DNA polymerase processivity factor component A20 N terminal + DNA<br /> | ||
| + | **[[8q3r]] – VvUDG + DNA polymerase + DNA polymerase processivity factor – Cryo EM<br /> | ||
| + | **[[8hdz]], [[8hlz]] – mpvUDG + DNA polymerase + DNA polymerase processivity factor – monkeypox virus – Cryo EM<br /> | ||
| + | **[[8hg1]], [[8hm0]], [[8k8s]], [[8wpe]], [[8wpk]], [[8wpp]], [[9k9r]], [[9k9s]], [[9k9t]], [[9k9u]], [[9k9v]] – mpvUDG + DNA polymerase + DNA polymerase processivity factor + DNA –Cryo EM<br /> | ||
| + | **[[8k8u]] – mpvUDG + DNA polymerase + DNA polymerase processivity factor + DNA + CTP – Cryo EM<br /> | ||
**[[6lyj]] – EBvUDG + SAUGI <br /> | **[[6lyj]] – EBvUDG + SAUGI <br /> | ||
**[[6lyv]] – HhvUDG + SAUGI <br /> | **[[6lyv]] – HhvUDG + SAUGI <br /> | ||
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**[[2nob]], [[2noe]], [[2nof]], [[2noh]], [[2noi]], [[2nol]], [[2noz]], [[2i5w]], [[1yqk]], [[1yql]], [[1yqm]], [[1yqr]], [[1n39]], [[1n3a]], [[1n3c]] - hOgg1 (mutant) + DNA<BR /> | **[[2nob]], [[2noe]], [[2nof]], [[2noh]], [[2noi]], [[2nol]], [[2noz]], [[2i5w]], [[1yqk]], [[1yql]], [[1yqm]], [[1yqr]], [[1n39]], [[1n3a]], [[1n3c]] - hOgg1 (mutant) + DNA<BR /> | ||
**[[6rlw]] - hOgg1 + inhibitor<br /> | **[[6rlw]] - hOgg1 + inhibitor<br /> | ||
| + | **[[7cfa]] - hOgg1 + activator<br /> | ||
**[[1lwv]], [[1lww]], [[1lwy]] - hOgg1 + DNA<BR /> + guanine derivative<BR /> | **[[1lwv]], [[1lww]], [[1lwy]] - hOgg1 + DNA<BR /> + guanine derivative<BR /> | ||
**[[1m3h]], [[3ih7]] - hOgg1 core fragment (mutant) + DNA<BR /> | **[[1m3h]], [[3ih7]] - hOgg1 core fragment (mutant) + DNA<BR /> | ||
**[[1m3q]], [[1ebm]] - hOgg1 core fragment (mutant) + DNA + guanine derivative | **[[1m3q]], [[1ebm]] - hOgg1 core fragment (mutant) + DNA + guanine derivative | ||
| - | *8-oxoguanine (oxoG) DG | + | *8-oxoguanine (oxoG) DG or N-glycosylase/DNA ligase |
**[[6g3x]] – mOgg1 – mouse<br /> | **[[6g3x]] – mOgg1 – mouse<br /> | ||
| - | **[[6g40]], [[6g3y]] – mOgg1 + | + | **[[6g40]], [[6g3y]], [[7pz1]], [[7qel]], [[7z5b]], [[7zc7]], [[7zg3]], [[8bq7]], [[8bvx]], [[8cex]], [[8cey]] – mOgg1 + ligand<br /> |
| + | **[[7ayz]], [[7az0]] - mOgg1 + activator<br /> | ||
**[[3n0u]] – TmOxDG<BR /> | **[[3n0u]] – TmOxDG<BR /> | ||
**[[3knt]] - MjOxDG (mutant) + DNA – ''Methanocaldococcus jannaschii''<BR /> | **[[3knt]] - MjOxDG (mutant) + DNA – ''Methanocaldococcus jannaschii''<BR /> | ||
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**[[4ejy]], [[4ejz]] – OxDG + DNA – ''Thermoanaerobacter tengcongensis''<br /> | **[[4ejy]], [[4ejz]] – OxDG + DNA – ''Thermoanaerobacter tengcongensis''<br /> | ||
**[[4pii]] – OxDG – ''Pyrococcus furiosus''<br /> | **[[4pii]] – OxDG – ''Pyrococcus furiosus''<br /> | ||
| + | **[[7ou3]] – OxDG – ''Thermococcus gammatolerans''<br /> | ||
| + | **[[7olb]], [[7oli]] – PaOxDG – ''Pyrococcus abyssi''<br /> | ||
| + | **[[7oue]], [[7oy7]], [[7p0w]], [[7p8l]], [[7p9z]] – PaOxDG + DNA <br /> | ||
*Methyladenine DG | *Methyladenine DG | ||
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**[[1pu6]] – HpAlkDG – ''Helicobacter pylori''<BR /> | **[[1pu6]] – HpAlkDG – ''Helicobacter pylori''<BR /> | ||
**[[4ai4]] – SaAlkDG (mutant)<br /> | **[[4ai4]] – SaAlkDG (mutant)<br /> | ||
| + | **[[2yg8]] – DrAlkDG<br /> | ||
*Methyladenine DG complex | *Methyladenine DG complex | ||
**[[3qi5]], [[1ewn]], [[1f4r]], [[1f6o]], [[1bnk]], [[3uby]] – hAlkDG + DNA<BR /> | **[[3qi5]], [[1ewn]], [[1f4r]], [[1f6o]], [[1bnk]], [[3uby]] – hAlkDG + DNA<BR /> | ||
| + | **[[7xfh]], [[7xfj]], [[7xfm]] – hAlkDG in nucleosome – Cryo EM<BR /> | ||
**[[3jx7]], [[3jxy]], [[3jxz]], [[3jy1]] - BcAlkDG + DNA<BR /> | **[[3jx7]], [[3jxy]], [[3jxz]], [[3jy1]] - BcAlkDG + DNA<BR /> | ||
| + | **[[7lxh]], [[7lxj]] - BcAlkDG + DNA + ribose derivative + inhibitor<br /> | ||
**[[5uuh]], [[5uug]], [[5uuf]], [[5kub]] – BcAlkDG + damaged DNA <br /> | **[[5uuh]], [[5uug]], [[5uuf]], [[5kub]] – BcAlkDG + damaged DNA <br /> | ||
**[[3ogd]], [[3oh6]], [[3oh9]] - EcAlkDG (mutant) + DNA<BR /> | **[[3ogd]], [[3oh6]], [[3oh9]] - EcAlkDG (mutant) + DNA<BR /> | ||
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**[[5vi0]] – PfAlkCDG + DNA – ''Pseudomonas fluorescens''<br /> | **[[5vi0]] – PfAlkCDG + DNA – ''Pseudomonas fluorescens''<br /> | ||
**[[5vhv]] – PfAlkCDG + damaged DNA <br /> | **[[5vhv]] – PfAlkCDG + damaged DNA <br /> | ||
| + | **[[5cl3]], [[5cl4]], [[5cl5]], [[5cl6]], [[5cl7]], [[5cl8]], [[5cl9]], [[5cla]], [[5clb]], [[5clc]], [[5cld]], [[5cle]] – BcAlkCDG + DNA <br /> | ||
*Formamidopyrimidine DG | *Formamidopyrimidine DG | ||
Current revision
3D Structures of DNA glycosylase
Updated on 17-April-2025
