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1vj4

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[[Image:1vj4.png|left|200px]]
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==SEQUENCE-DEPENDENT CONFORMATION OF AN A-DNA DOUBLE HELIX: THE CRYSTAL STRUCTURE OF THE OCTAMER D(G-G-T-A-T-A-C-C)==
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<StructureSection load='1vj4' size='340' side='right' caption='[[1vj4]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1vj4]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VJ4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1VJ4 FirstGlance]. <br>
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</td></tr><tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1vj4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vj4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1vj4 RCSB], [http://www.ebi.ac.uk/pdbsum/1vj4 PDBsum]</span></td></tr>
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<table>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The crystal structures of the synthetic self-complementary octamer d(G-G-T-A-T-A-C-C) and its 5-bromouracil-containing analogue have been refined to R values of 20% and 14% at resolutions of 1.8 and 2.25 A, respectively. The molecules adopt and A-DNA type double-helical conformation, which is minimally affected by crystal forces. A detailed analysis of the structure shows a considerable influence of the nucleotide sequence on the base-pair stacking patterns. In particular, the electrostatic stacking interactions between adjacent guanine and thymine bases produce symmetric bending of the double helix and a major-groove widening. The sugar-phosphate backbone appears to be only slightly affected by the base sequence. The local variations in the base-pair orientation are brought about by correlated adjustments in the backbone torsion angles and the glycosidic orientation. Sequence-dependent conformational variations of the type observed here may contribute to the specificity of certain protein-DNA interactions.
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{{STRUCTURE_1vj4| PDB=1vj4 | SCENE= }}
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Sequence-dependent conformation of an A-DNA double helix. The crystal structure of the octamer d(G-G-T-A-T-A-C-C).,Shakked Z, Rabinovich D, Kennard O, Cruse WB, Salisbury SA, Viswamitra MA J Mol Biol. 1983 May 15;166(2):183-201. PMID:6854642<ref>PMID:6854642</ref>
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===SEQUENCE-DEPENDENT CONFORMATION OF AN A-DNA DOUBLE HELIX: THE CRYSTAL STRUCTURE OF THE OCTAMER D(G-G-T-A-T-A-C-C)===
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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{{ABSTRACT_PUBMED_6854642}}
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== References ==
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<references/>
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==About this Structure==
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__TOC__
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[[1vj4]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VJ4 OCA].
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</StructureSection>
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==Reference==
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<ref group="xtra">PMID:006854642</ref><references group="xtra"/>
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[[Category: Cruse, W B.]]
[[Category: Cruse, W B.]]
[[Category: Kennard, O.]]
[[Category: Kennard, O.]]

Revision as of 06:50, 9 June 2014

SEQUENCE-DEPENDENT CONFORMATION OF AN A-DNA DOUBLE HELIX: THE CRYSTAL STRUCTURE OF THE OCTAMER D(G-G-T-A-T-A-C-C)

1vj4, resolution 1.80Å

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