DNA glycosylase
From Proteopedia
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[[Image:1akz.png|left|200px|thumb|Crystal Structure of DNA glycosylate, [[1akz]]]] | [[Image:1akz.png|left|200px|thumb|Crystal Structure of DNA glycosylate, [[1akz]]]] | ||
{{STRUCTURE_3fsp| PDB=3fsp | SIZE=400| SCENE= |right|CAPTION=Adenine DNA glycosylate complex with DNA, Fe4-S4 cluster, phosphoric acid esther and Ca+2 ion [[3fsp]] }} | {{STRUCTURE_3fsp| PDB=3fsp | SIZE=400| SCENE= |right|CAPTION=Adenine DNA glycosylate complex with DNA, Fe4-S4 cluster, phosphoric acid esther and Ca+2 ion [[3fsp]] }} | ||
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Revision as of 11:35, 29 October 2012
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. More about FPG in Fpg Nei Protein Family and Fpg Nei Protein Superfamily.
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
Update June 2011
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, 3ih7 - 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, 1k3w, 1k3x – EcGD NEI + DNA
2fcc – Pyrimidine GD + DNA – Enterobacteria phage T4
1q39 – EcGD NEI
1q3b, 1q3c – EcGD NEI (mutant)
1tdh – hGD NEI
Proteopedia Page Contributors and Editors (what is this?)
Michal Harel, Alexander Berchansky, Joel L. Sussman, Jaime Prilusky
