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| - | [[Image:1da5.gif|left|200px]] | |
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| - | {{Structure
| + | ==Solution structure of a DNA Duplex containing the CIS-PT(NH3)2[D(-GTG-)-N7-(G)-N7(G)N7(G)]Adduct as determined with high field NMR And molecular mechanics/dynamics== |
| - | |PDB= 1da5 |SIZE=350|CAPTION= <scene name='initialview01'>1da5</scene>
| + | <StructureSection load='1da5' size='340' side='right'caption='[[1da5]]' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=CPT:CIS-PLATINUM-(NH3)2'>CPT</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'>[[1da5]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DA5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DA5 FirstGlance]. <br> |
| - | |ACTIVITY=
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CPT:CISPLATIN'>CPT</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=1da5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1da5 OCA], [https://pdbe.org/1da5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1da5 RCSB], [https://www.ebi.ac.uk/pdbsum/1da5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1da5 ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1da5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1da5 OCA], [http://www.ebi.ac.uk/pdbsum/1da5 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1da5 RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''SOLUTION STRUCTURE OF A DNA DUPLEX CONTAINING THE CIS-PT(NH3)2[D(-GTG-)-N7-(G)-N7(G)N7(G)]ADDUCT AS DETERMINED WITH HIGH FIELD NMR AND MOLECULAR MECHANICS/DYNAMICS'''
| + | [[Category: Van Garderen CJ]] |
| - | | + | [[Category: Van Houte LPA]] |
| - | | + | |
| - | ==Overview==
| + | |
| - | The solution structure of the cis-Pt-GTG adduct in the double-stranded oligomer d(CTCTAGTGCTCAC).td(GTGAGCACTAGAG) was studied with high-resolution NMR techniques. For model building, the distance information obtained from two-dimensional NOE experiments was used in molecular mechanic computations and molecular dynamic structure refinements. The structural distortion upon platination appears to be restricted to the base pairs Pt-G6.C21 and T7.A20; Pt-G8.C19 forms a normal Watson-Crick base pair. T7 is positioned in the minor groove and stacks with the highly propeller-twisted Pt-G6. There is no hydrogen bonding between T7 and A20. The complementary strand is undistorted; A20 stacks with its flanking cytidines (C19 and C21) as in regular B-DNA. The duplex is locally unwound (from base pair A5.T22 to G8.C19: 19 degrees) and is slightly kinked (20 degrees) at the platination site. The platinum coordination distorts the DNA structure at the 5' side of the platinated-GTG-sequence and changes the minor groove face.
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| - | | + | |
| - | ==About this Structure==
| + | |
| - | 1DA5 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=1DA5 OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | The solution structure of a DNA duplex containing the cis-Pt(NH3)2[d(-GTG-)-N7(G),N7(G)] adduct, as determined with high-field NMR and molecular mechanics/dynamics., van Garderen CJ, van Houte LP, Eur J Biochem. 1994 Nov 1;225(3):1169-79. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7957208 7957208]
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| - | [[Category: Protein complex]] | + | |
| - | [[Category: Garderen, C J.Van.]] | + | |
| - | [[Category: Houte, L P.A Van.]] | + | |
| - | [[Category: dna]]
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| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 19:37:37 2008''
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