2dem: Difference between revisions
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==Crystal structure of Uracil-DNA glycosylase in complex with AP:A containing DNA== | ==Crystal structure of Uracil-DNA glycosylase in complex with AP:A containing DNA== | ||
<StructureSection load='2dem' size='340' side='right' caption='[[2dem]], [[Resolution|resolution]] 1.95Å' scene=''> | <StructureSection load='2dem' size='340' side='right' caption='[[2dem]], [[Resolution|resolution]] 1.95Å' scene=''> | ||
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2d3y|2d3y]], [[2ddg|2ddg]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2d3y|2d3y]], [[2ddg|2ddg]]</td></tr> | ||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ttUDGB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr> | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ttUDGB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=300852 THET8])</td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2dem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dem OCA], [http://pdbe.org/2dem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2dem RCSB], [http://www.ebi.ac.uk/pdbsum/2dem PDBsum], [http://www.topsan.org/Proteins/RSGI/2dem TOPSAN]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2dem FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dem OCA], [http://pdbe.org/2dem PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2dem RCSB], [http://www.ebi.ac.uk/pdbsum/2dem PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2dem ProSAT], [http://www.topsan.org/Proteins/RSGI/2dem TOPSAN]</span></td></tr> | ||
</table> | </table> | ||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
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==See Also== | ==See Also== | ||
*[[DNA glycosylase|DNA glycosylase]] | *[[DNA glycosylase|DNA glycosylase]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
Revision as of 11:34, 12 October 2017
Crystal structure of Uracil-DNA glycosylase in complex with AP:A containing DNACrystal structure of Uracil-DNA glycosylase in complex with AP:A containing DNA
Structural highlights
Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedUracil-DNA glycosylase (UDG) removes uracil generated by the deamination of cytosine or misincorporation of deoxyuridine monophosphate. Within the UDG superfamily, a fifth UDG family lacks a polar residue in the active-site motif, which mediates the hydrolysis of the glycosidic bond by activation of a water molecule in UDG families 1-4. We have determined the crystal structure of a novel family 5 UDG from Thermus thermophilus HB8 complexed with DNA containing an abasic site. The active-site structure suggests this enzyme uses both steric force and water activation for its excision reaction. A conserved asparagine residue acts as a ligand to the catalytic water molecule. The structure also implies that another water molecule acts as a barrier during substrate recognition. Based on no significant open-closed conformational change upon binding to DNA, we propose a "slide-in" mechanism for initial damage recognition. Crystal structure of family 5 uracil-DNA glycosylase bound to DNA.,Kosaka H, Hoseki J, Nakagawa N, Kuramitsu S, Masui R J Mol Biol. 2007 Nov 2;373(4):839-50. Epub 2007 Aug 21. PMID:17870091[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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