1bd1: Difference between revisions
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[[ | ==CRYSTALLOGRAPHIC STUDY OF ONE TURN OF G/C-RICH B-DNA== | ||
<StructureSection load='1bd1' size='340' side='right' caption='[[1bd1]], [[Resolution|resolution]] 1.60Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[1bd1]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BD1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1BD1 FirstGlance]. <br> | |||
</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=TEA:TRIETHYLAMMONIUM+ION'>TEA</scene><br> | |||
<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=1bd1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bd1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1bd1 RCSB], [http://www.ebi.ac.uk/pdbsum/1bd1 PDBsum]</span></td></tr> | |||
<table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
The DNA decamer d(CCAGGCCTGG) has been studied by X-ray crystallography. At a nominal resolution of 1.6 A, the structure was refined to R = 16.9% using stereochemical restraints. The oligodeoxyribonucleotide forms a straight B-DNA double helix with crystallographic dyad symmetry and ten base-pairs per turn. In the crystal lattice, DNA fragments stack end-to-end along the c-axis to form continuous double helices. The overall helical structure and, notably, the groove dimensions of the decamer are more similar to standard, fiber diffraction-determined B-DNA than A-tract DNA. A unique stacking geometry is observed at the CA/TG base-pair step, where an increased rotation about the helix axis and a sliding motion of the base-pairs along their long axes leads to a superposition of the base rings with neighboring carbonyl and amino functions. Three-center (bifurcated) hydrogen bonds are possible at the CC/GG base-pair steps of the decamer. In their common sequence elements, d(CCAGGCCTGG) and the related G.A mismatch decamer d(CCAAGATTGG) show very similar three-dimensional structures, except that d(CCAGGCCTGG) appears to have a less regularly hydrated minor groove. The paucity of minor groove hydration in the center of the decamer may be a general feature of G/C-rich DNA and explain its relative instability in the B-form of DNA. | |||
Crystallographic study of one turn of G/C-rich B-DNA.,Heinemann U, Alings C J Mol Biol. 1989 Nov 20;210(2):369-81. PMID:2600970<ref>PMID:2600970</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
== | |||
< | |||
[[Category: Heinemann, U.]] | [[Category: Heinemann, U.]] | ||
[[Category: B-dna]] | [[Category: B-dna]] | ||
[[Category: Dna]] | [[Category: Dna]] | ||
[[Category: Double helix]] | [[Category: Double helix]] | ||
Revision as of 05:56, 8 June 2014
CRYSTALLOGRAPHIC STUDY OF ONE TURN OF G/C-RICH B-DNA
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