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| - | [[Image:178d.gif|left|200px]] | |
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| - | {{Structure
| + | ==CRYSTAL STRUCTURE OF A DNA DUPLEX CONTAINING 8-HYDROXYDEOXYGUANINE.ADENINE BASE-PAIRS== |
| - | |PDB= 178d |SIZE=350|CAPTION= <scene name='initialview01'>178d</scene>, resolution 2.500Å
| + | <StructureSection load='178d' size='340' side='right'caption='[[178d]], [[Resolution|resolution]] 2.50Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=8OG:8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE'>8OG</scene>, <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>
| + | <table><tr><td colspan='2'>[[178d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=178D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=178D FirstGlance]. <br> |
| - | |ACTIVITY=
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8OG:8-OXO-2-DEOXY-GUANOSINE-5-MONOPHOSPHATE'>8OG</scene></td></tr> |
| - | |DOMAIN=
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=178d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=178d OCA], [https://pdbe.org/178d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=178d RCSB], [https://www.ebi.ac.uk/pdbsum/178d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=178d ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=178d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=178d OCA], [http://www.ebi.ac.uk/pdbsum/178d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=178d RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''CRYSTAL STRUCTURE OF A DNA DUPLEX CONTAINING 8-HYDROXYDEOXYGUANINE.ADENINE BASE-PAIRS'''
| + | [[Category: Brown T]] |
| - | | + | [[Category: Gibson NJ]] |
| - | | + | [[Category: Hunter WN]] |
| - | ==Overview==
| + | [[Category: Leonard GA]] |
| - | The crystal structure of the oligonucleotide d(CGCAAATTO8GGCG), containing the chemically modified base 8-hydroxydeoxyguanine (O8G), has been determined at 2.5-A resolution and refined to a crystallographic R-factor of 16.8%. The B-type DNA helix contains standard Watson-Crick base pairs except at the mismatch sites, where O8G adopts a syn conformation and forms hydrogen bonds to adenine in the anti conformation. The thermodynamic stability of the duplex was found by UV melting techniques to be intermediate between the native oligonucleotide d(CGCAAATTTGCG) and an oligonucleotide containing A.G mispairs d(CGCAAATTGGCG). Comparison of the structure of the O8G(syn).A(anti) base pair with those of Watson-Crick base pairs has given a reason why O8G.A base pairs are not well repaired by DNA proofreading enzymes.
| + | [[Category: McAuley-Hecht KE]] |
| - | | + | [[Category: Thomson JB]] |
| - | ==About this Structure==
| + | [[Category: Watson WP]] |
| - | 178D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=178D OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Crystal structure of a DNA duplex containing 8-hydroxydeoxyguanine-adenine base pairs., McAuley-Hecht KE, Leonard GA, Gibson NJ, Thomson JB, Watson WP, Hunter WN, Brown T, Biochemistry. 1994 Aug 30;33(34):10266-70. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8068665 8068665]
| + | |
| - | [[Category: Protein complex]] | + | |
| - | [[Category: Brown, T.]] | + | |
| - | [[Category: Gibson, N J.]] | + | |
| - | [[Category: Hunter, W N.]] | + | |
| - | [[Category: Leonard, G A.]] | + | |
| - | [[Category: McAuley-Hecht, K E.]] | + | |
| - | [[Category: Thomson, J B.]] | + | |
| - | [[Category: Watson, W P.]] | + | |
| - | [[Category: b-dna]]
| + | |
| - | [[Category: double helix]]
| + | |
| - | [[Category: mismatched]]
| + | |
| - | [[Category: modified]]
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| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 18:29:17 2008''
| + | |
