1da5
From Proteopedia
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|PDB= 1da5 |SIZE=350|CAPTION= <scene name='initialview01'>1da5</scene> | |PDB= 1da5 |SIZE=350|CAPTION= <scene name='initialview01'>1da5</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=CPT:CIS-PLATINUM-(NH3)2'>CPT</scene> | + | |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> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |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> | ||
}} | }} | ||
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[[Category: Garderen, C J.Van.]] | [[Category: Garderen, C J.Van.]] | ||
[[Category: Houte, L P.A Van.]] | [[Category: Houte, L P.A Van.]] | ||
| - | [[Category: CPT]] | ||
[[Category: dna]] | [[Category: dna]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 19:37:37 2008'' |
Revision as of 16:37, 30 March 2008
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| Ligands: | , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
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
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.
About this Structure
1DA5 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
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:7957208
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