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| - | [[Image:153d.gif|left|200px]] | |
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| - | {{Structure
| + | ==CRYSTAL STRUCTURE OF A MISPAIRED DODECAMER, D(CGAGAATTC(O6ME)GCG)2, CONTAINING A CARCINOGENIC O6-METHYLGUANINE== |
| - | |PDB= 153d |SIZE=350|CAPTION= <scene name='initialview01'>153d</scene>, resolution 2.900Å
| + | <StructureSection load='153d' size='340' side='right'caption='[[153d]], [[Resolution|resolution]] 2.90Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=6OG:6-O-METHYL+GUANOSINE-5'-MONOPHOSPHATE'>6OG</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'>[[153d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=153D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=153D 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]] 2.9Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=6OG:6-O-METHYL+GUANOSINE-5-MONOPHOSPHATE'>6OG</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=153d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=153d OCA], [https://pdbe.org/153d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=153d RCSB], [https://www.ebi.ac.uk/pdbsum/153d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=153d ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=153d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=153d OCA], [http://www.ebi.ac.uk/pdbsum/153d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=153d RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''CRYSTAL STRUCTURE OF A MISPAIRED DODECAMER, D(CGAGAATTC(O6ME)GCG)2, CONTAINING A CARCINOGENIC O6-METHYLGUANINE'''
| + | [[Category: Berman HM]] |
| - | | + | [[Category: Gaffney B]] |
| - | | + | [[Category: Ginell SL]] |
| - | ==Overview==
| + | [[Category: Jones R]] |
| - | The crystal structure of the synthetic deoxydodecamer d(CGAGAATTC(O6Me)GCG)2 has been determined and refined to an R-factor of 16.9% with data up to 2.9-A resolution. This sequence contains two mismatched base pairs between O6-methylguanine and adenine with the arrangement A(syn).(O6-Me)G(anti) which differs from the geometry observed in solution by NMR. The intermolecular arrangement is equivalent to the other isomorphous deoxydodecamers. However, the weakening of some significant crystal packing contacts was observed and related to the effect of stacking between the mispaired adenine and the adjacent guanine in the sequence. The structure is highly hydrated, with a total of 49 solvent molecules located. The methyl group and the mismatched base-pair geometry locally disrupt the B-DNA-type solvent network with two solvent molecules found close to the N1 and N6 of the mispaired adenine.
| + | [[Category: Vojtechovsky J]] |
| - | | + | |
| - | ==About this Structure==
| + | |
| - | 153D 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=153D OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Crystal structure of a mispaired dodecamer, d(CGAGAATTC(O6Me)GCG)2, containing a carcinogenic O6-methylguanine., Ginell SL, Vojtechovsky J, Gaffney B, Jones R, Berman HM, Biochemistry. 1994 Mar 29;33(12):3487-93. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8142345 8142345]
| + | |
| - | [[Category: Protein complex]] | + | |
| - | [[Category: Berman, H M.]] | + | |
| - | [[Category: Gaffney, B.]] | + | |
| - | [[Category: Ginell, S L.]] | + | |
| - | [[Category: Jones, R.]] | + | |
| - | [[Category: Vojtechovsky, J.]] | + | |
| - | [[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 18:28:39 2008''
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