1da5
From Proteopedia
(New page: 200px<br /><applet load="1da5" size="450" color="white" frame="true" align="right" spinBox="true" caption="1da5" /> '''SOLUTION STRUCTURE OF A DNA DUPLEX CONTAININ...) |
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'''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'''<br /> | '''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'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The solution structure of the cis-Pt-GTG adduct in the double-stranded | + | 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== | ==About this Structure== | ||
| - | 1DA5 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with CPT as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 1DA5 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=CPT:'>CPT</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DA5 OCA]. |
==Reference== | ==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://ispc.weizmann.ac.il//pmbin/getpm?pmid=7957208 7957208] | 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://ispc.weizmann.ac.il//pmbin/getpm?pmid=7957208 7957208] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Garderen, C | + | [[Category: Garderen, C J.Van.]] |
| - | [[Category: Houte, L | + | [[Category: Houte, L P.A Van.]] |
[[Category: CPT]] | [[Category: CPT]] | ||
[[Category: dna]] | [[Category: dna]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:14:34 2008'' |
Revision as of 10:14, 21 February 2008
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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] with as ligand. 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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