DNA glycosylase
From Proteopedia
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[[1yuo]] - hADG catalytic domain (mutant) <BR /> | [[1yuo]] - hADG catalytic domain (mutant) <BR /> | ||
[[1x51]] – hADG NUDIX domain]] - NMR<BR /> | [[1x51]] – hADG NUDIX domain]] - NMR<BR /> | ||
| - | [[3fsp]], [[3fsq]] – GsADG + DNA– Geobacillus stearothermophilus<BR /> | + | [[3fsp]], [[3fsq]] – GsADG + DNA– ''Geobacillus stearothermophilus''<BR /> |
| - | [[3g0q]], [[1vrl]], [[1rrq]], [[1rrs]] - GsADG (mutant) + DNA – Bacillus stearothermophilus<BR /> | + | [[3g0q]], [[1vrl]], [[1rrq]], [[1rrs]] - GsADG (mutant) + DNA – ''Bacillus stearothermophilus''<BR /> |
| - | [[1wef]], [[1weg]], [[1kg4]], [[1kg5]], [[1kg6]], [[1kg7]], [[1kqj]] - EcADG catalytic domain (mutant) | + | [[1wef]], [[1weg]], [[1kg4]], [[1kg5]], [[1kg6]], [[1kg7]], [[1kqj]] - EcADG catalytic domain (mutant) - ''Escherichia coli''<BR /> |
[[1kg2]], [[1kg3]], [[1muy]] - EcADG catalytic domain<BR /> | [[1kg2]], [[1kg3]], [[1muy]] - EcADG catalytic domain<BR /> | ||
[[1mun]] - EcADG catalytic domain (mutant) <BR /> | [[1mun]] - EcADG catalytic domain (mutant) <BR /> | ||
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===Uracil DG=== | ===Uracil DG=== | ||
| - | [[3a7n]] – MtUDG – Mycobacterium tuberculosis<BR /> | + | [[3a7n]] – MtUDG – ''Mycobacterium tuberculosis''<BR /> |
[[2zhx]] – MtDG + protein inhibitor<BR /> | [[2zhx]] – MtDG + protein inhibitor<BR /> | ||
[[1akz]] - hUDG (mutant) <BR /> | [[1akz]] - hUDG (mutant) <BR /> | ||
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[[3fcf]], [[3fci]], [[3fck]], [[3fcl]], [[2hxm]] – hUDG + inhibitor<BR /> | [[3fcf]], [[3fci]], [[3fck]], [[3fcl]], [[2hxm]] – hUDG + inhibitor<BR /> | ||
[[1ugh]] - hUDG (mutant) + protein inhibitor<BR /> | [[1ugh]] - hUDG (mutant) + protein inhibitor<BR /> | ||
| - | [[2jhq]] – UDG – Vibrio cholerae<BR /> | + | [[2jhq]] – UDG – ''Vibrio cholerae''<BR /> |
[[3cxm]] – UDG residues 129-373 + 5-bromo-uracil<BR /> | [[3cxm]] – UDG residues 129-373 + 5-bromo-uracil<BR /> | ||
[[2owq]], [[2owr]] – UDG (mutant) – Vaccinia virus<BR /> | [[2owq]], [[2owr]] – UDG (mutant) – Vaccinia virus<BR /> | ||
| - | [[2d3y]], [[1ui0]], [[1ui1]] – TtUDG – Thermus thermophilus<BR /> | + | [[2d3y]], [[1ui0]], [[1ui1]] – TtUDG – ''Thermus thermophilus''<BR /> |
[[2dp6]], [[2dem]], [[2ddg]] – TtUDG + DNA<BR /> | [[2dp6]], [[2dem]], [[2ddg]] – TtUDG + DNA<BR /> | ||
[[2j8x]] – UDG glycosylase domain + protein inhibitor – Epstein-Barr virus<BR /> | [[2j8x]] – UDG glycosylase domain + protein inhibitor – Epstein-Barr virus<BR /> | ||
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[[1udh]], [[1udg]] – HsUDG _ Herpes simplex virus<BR /> | [[1udh]], [[1udg]] – HsUDG _ Herpes simplex virus<BR /> | ||
[[1udi]] - HsUDG + protein inhibitor<BR /> | [[1udi]] - HsUDG + protein inhibitor<BR /> | ||
| - | [[2c2p]], [[2boo]] – DrUDG – Deinococcus radiodurans<BR /> | + | [[2c2p]], [[2boo]] – DrUDG – ''Deinococcus radiodurans''<BR /> |
[[2c2q]] – DrUDG (mutant) <BR /> | [[2c2q]] – DrUDG (mutant) <BR /> | ||
| - | [[1vk2]], [[1l9g]] – TmUDG - Thermotoga maritime<BR /> | + | [[1vk2]], [[1l9g]] – TmUDG - ''Thermotoga maritime''<BR /> |
[[1okb]] – UDG catalytic domain – Atlantic cod | [[1okb]] – UDG catalytic domain – Atlantic cod | ||
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[[2rba]] – hTDG core domain + DNA<BR /> | [[2rba]] – hTDG core domain + DNA<BR /> | ||
[[2d07]], [[1wyw]] – hTDG central region + SUMO-3<BR /> | [[2d07]], [[1wyw]] – hTDG central region + SUMO-3<BR /> | ||
| - | [[1kea]] – TDG – Methanothermobacter thermautotrophicus<BR /> | + | [[1kea]] – TDG – ''Methanothermobacter thermautotrophicus''<BR /> |
[[1mug]] – EcTDG | [[1mug]] – EcTDG | ||
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[[3n0u]] – TmOxDG<BR /> | [[3n0u]] – TmOxDG<BR /> | ||
| - | [[3knt]] - MjOxDG (mutant) + DNA – Methanocaldococcus jannaschii<BR /> | + | [[3knt]] - MjOxDG (mutant) + DNA – ''Methanocaldococcus jannaschii''<BR /> |
[[3fhf]] - MjOxDG<BR /> | [[3fhf]] - MjOxDG<BR /> | ||
[[3go8]], [[3gp1]], [[3gpp]], [[3gpu]], [[3gpx]], [[3gpy]], [[3gq3]], [[3gq4]], [[3gq5]] – GsOxDG (mutant) + DNA<BR /> | [[3go8]], [[3gp1]], [[3gpp]], [[3gpu]], [[3gpx]], [[3gpy]], [[3gq3]], [[3gq4]], [[3gq5]] – GsOxDG (mutant) + DNA<BR /> | ||
| - | [[3f0z]] - CaOxDG – Clostridium acetobutylicum<BR /> | + | [[3f0z]] - CaOxDG – ''Clostridium acetobutylicum''<BR /> |
[[3f10]] – CaOxDG + 8-oxoguanosine<BR /> | [[3f10]] – CaOxDG + 8-oxoguanosine<BR /> | ||
[[3i0w]], [[3i0x]] - CaOxDG (mutant) + DNA<BR /> | [[3i0w]], [[3i0x]] - CaOxDG (mutant) + DNA<BR /> | ||
| - | [[3fhg]] - OxDG (mutant) – Sulfolobus solfataricus<BR /> | + | [[3fhg]] - OxDG (mutant) – ''Sulfolobus solfataricus''<BR /> |
| - | [[1xqo]], [[1xqp]] – OxDG – Pyrobaculum aerophilum | + | [[1xqo]], [[1xqp]] – OxDG – ''Pyrobaculum aerophilum'' |
===Methyladenine DG=== | ===Methyladenine DG=== | ||
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[[3ogd]], [[3oh6]], [[3oh9]] - EcAlkDG (mutant) + DNA<BR /> | [[3ogd]], [[3oh6]], [[3oh9]] - EcAlkDG (mutant) + DNA<BR /> | ||
[[3d4v]], [[3cvs]], [[3cvt]], [[3cw7]], [[3cwa]], [[3cws]], [[3cwt]], [[3cwu]], [[1diz]] - EcAlkDG + DNA<BR /> | [[3d4v]], [[3cvs]], [[3cvt]], [[3cw7]], [[3cwa]], [[3cws]], [[3cwt]], [[3cwu]], [[1diz]] - EcAlkDG + DNA<BR /> | ||
| - | [[2ofk]] – StAlkDG – Salmonella typhi<BR /> | + | [[2ofk]] – StAlkDG – ''Salmonella typhi''<BR /> |
[[2ofi]] – StAlkDG + DNA<BR /> | [[2ofi]] – StAlkDG + DNA<BR /> | ||
| - | [[2jhj]], [[2jhn]] – AlkDG – Archaeoglobus fulgidus<BR /> | + | [[2jhj]], [[2jhn]] – AlkDG – ''Archaeoglobus fulgidus''<BR /> |
| - | [[2jg6]] – AlkDG – Staphylococcus aureus<BR /> | + | [[2jg6]] – AlkDG – ''Staphylococcus aureus''<BR /> |
| - | [[1pu6]] – HpAlkDG – Helicobacter pylori<BR /> | + | [[1pu6]] – HpAlkDG – ''Helicobacter pylori''<BR /> |
[[1pu7]], [[1pu8]] – HpAlkDG + adenine derivative | [[1pu7]], [[1pu8]] – HpAlkDG + adenine derivative | ||
===Formamidopyrimidine DG=== | ===Formamidopyrimidine DG=== | ||
| - | [[3c58]], [[1xc8]], [[1tdz]], [[1pji]], [[1pm5]], [[1nnj]] - LlFpg+ DNA – Lactococcus lactis<BR /> | + | [[3c58]], [[1xc8]], [[1tdz]], [[1pji]], [[1pm5]], [[1nnj]] - LlFpg+ DNA – ''Lactococcus lactis''<BR /> |
[[1pjj]], [[1kfv]] - LlFpg (mutant) + DNA<BR /> | [[1pjj]], [[1kfv]] - LlFpg (mutant) + DNA<BR /> | ||
[[1k82]] - EcFpg+ DNA<BR /> | [[1k82]] - EcFpg+ DNA<BR /> | ||
Revision as of 10:17, 17 April 2011
DNA glycosylase (DG) are enzymes which remove damaged DNA bases by flipping them out of the double helix followed by their cleavage. Monofunctional DG have only glycosylase activity; bifunctional DG also act as lysates; ADG, UDG, TDG remove adenine, uracil, thymine from DNA. ADG is also called MutY. Smug1 is a single-strand selective monofunctional UDG. OxDG recognize oxidized bases. The human 8-oxoguanine GD is named hOgg1. AlkDG recognize methylated adenine. Formamidopyrimidine DG (FPG) or MutM removes oxidized purines from damaged DNA.
Contents |
3D Structures of DNA glycosylate
Adenine DG
3n5n – hADG catalytic domain – human
1yuo - hADG catalytic domain (mutant)
1x51 – hADG NUDIX domain]] - NMR
3fsp, 3fsq – GsADG + DNA– Geobacillus stearothermophilus
3g0q, 1vrl, 1rrq, 1rrs - GsADG (mutant) + DNA – Bacillus stearothermophilus
1wef, 1weg, 1kg4, 1kg5, 1kg6, 1kg7, 1kqj - EcADG catalytic domain (mutant) - Escherichia coli
1kg2, 1kg3, 1muy - EcADG catalytic domain
1mun - EcADG catalytic domain (mutant)
1wei, 1mud - EcADG catalytic domain (mutant) + adenine
Uracil DG
3a7n – MtUDG – Mycobacterium tuberculosis
2zhx – MtDG + protein inhibitor
1akz - hUDG (mutant)
2oxm, 2oyt, 1q3f – hUDG + DNA
1ssp, 2ssp - hUDG + DNA+ uracil
1emh, 1emj, 4skn – hUDG (mutant) + DNA
3fcf, 3fci, 3fck, 3fcl, 2hxm – hUDG + inhibitor
1ugh - hUDG (mutant) + protein inhibitor
2jhq – UDG – Vibrio cholerae
3cxm – UDG residues 129-373 + 5-bromo-uracil
2owq, 2owr – UDG (mutant) – Vaccinia virus
2d3y, 1ui0, 1ui1 – TtUDG – Thermus thermophilus
2dp6, 2dem, 2ddg – TtUDG + DNA
2j8x – UDG glycosylase domain + protein inhibitor – Epstein-Barr virus
1lqj – EcUDG
1flz - EcUDG (mutant)
2eug, 3eug, 1eug, 4eug, 5eug - EcUDG (mutant) + uracil
1mwj, 1mwi, 1mtl – EcUDG + DNA
1lqg, 1lqm, 1eui, 1uug - EcUDG + protein inhibitor
2uug - EcUDG (mutant) + protein inhibitor
2c53, 2c56 – HhUDG (mutant) – Human herpesvirus
1lau – HhUDG + DNA
1udh, 1udg – HsUDG _ Herpes simplex virus
1udi - HsUDG + protein inhibitor
2c2p, 2boo – DrUDG – Deinococcus radiodurans
2c2q – DrUDG (mutant)
1vk2, 1l9g – TmUDG - Thermotoga maritime
1okb – UDG catalytic domain – Atlantic cod
Smug1 Uracil DG
1oe4, 1oe5, 1oe6 – UDG Smug1 + DNA– Xenopus laevis
Thymine DG
2rba – hTDG core domain + DNA
2d07, 1wyw – hTDG central region + SUMO-3
1kea – TDG – Methanothermobacter thermautotrophicus
1mug – EcTDG
Human 8-oxoguanine DG
1ko9 – hOgg1
2xhi, 3ih7, 3ktu, 1hu0, 1fn7 - hOgg1 + DNA
1lwv, 1lww, 1lwy - hOgg1 + DNA
+ guanine derivative
2nob, 2noe, 2nof, 2noh, 2noi, 2nol, 2noz, 2i5w, 1yqk, 1yql, 1yqm, 1yqr, 1n39, 1n3a, 1n3c - hOgg1 (mutant) + DNA
1m3h - hOgg1 core fragment (mutant) + DNA
1m3q, 1ebm - hOgg1 core fragment (mutant) + DNA + guanine derivative
8-oxoguanine DG
3n0u – TmOxDG
3knt - MjOxDG (mutant) + DNA – Methanocaldococcus jannaschii
3fhf - MjOxDG
3go8, 3gp1, 3gpp, 3gpu, 3gpx, 3gpy, 3gq3, 3gq4, 3gq5 – GsOxDG (mutant) + DNA
3f0z - CaOxDG – Clostridium acetobutylicum
3f10 – CaOxDG + 8-oxoguanosine
3i0w, 3i0x - CaOxDG (mutant) + DNA
3fhg - OxDG (mutant) – Sulfolobus solfataricus
1xqo, 1xqp – OxDG – Pyrobaculum aerophilum
Methyladenine DG
3qi5, 1ewn, 1f4r, 1f6o, 1bnk – hAlkDG + DNA
3bvs – BcAlkDG – Bacillus cereus
3jx7, 3jxy, 3jxz, 3jy1 - BcAlkDG + DNA
1pvs, 1p7m, 1mpg – EcAlkDG
1nku, 1lmz – EcAlkDG]] - NMR
3ogd, 3oh6, 3oh9 - EcAlkDG (mutant) + DNA
3d4v, 3cvs, 3cvt, 3cw7, 3cwa, 3cws, 3cwt, 3cwu, 1diz - EcAlkDG + DNA
2ofk – StAlkDG – Salmonella typhi
2ofi – StAlkDG + DNA
2jhj, 2jhn – AlkDG – Archaeoglobus fulgidus
2jg6 – AlkDG – Staphylococcus aureus
1pu6 – HpAlkDG – Helicobacter pylori
1pu7, 1pu8 – HpAlkDG + adenine derivative
Formamidopyrimidine DG
3c58, 1xc8, 1tdz, 1pji, 1pm5, 1nnj - LlFpg+ DNA – Lactococcus lactis
1pjj, 1kfv - LlFpg (mutant) + DNA
1k82 - EcFpg+ DNA
3jr4, 3jr5, 2f5n, 2f5o, 2f5p, 2f5q, 2f5s, 1r2y, 1r2z – GsFpg (mutant) + DNA
1l1t, 1l1z, 1l2b, 1l2c, 1l2d - GsFpg + DNA
3a42, 3a45, 3a46 – Fpg – Acanthamoeba polyphaga minivirus
2ea0, 2opf, 2oq4 – EcGD NEI + DNA
2fcc – Pyrimidine GD + DNA – Enterobacteria phage T4
Proteopedia Page Contributors and Editors (what is this?)
Michal Harel, Alexander Berchansky, Joel L. Sussman, Jaime Prilusky
