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1bd1

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{{STRUCTURE_1bd1| PDB=1bd1 | SCENE= }}
{{STRUCTURE_1bd1| PDB=1bd1 | SCENE= }}
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'''CRYSTALLOGRAPHIC STUDY OF ONE TURN OF G/C-RICH B-DNA'''
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===CRYSTALLOGRAPHIC STUDY OF ONE TURN OF G/C-RICH B-DNA===
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==Overview==
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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.
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(as it appears on PubMed at http://www.pubmed.gov), where 2600970 is the PubMed ID number.
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{{ABSTRACT_PUBMED_2600970}}
==About this Structure==
==About this Structure==
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[[Category: B-dna]]
[[Category: B-dna]]
[[Category: Double helix]]
[[Category: Double helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 11:21:25 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 18:51:59 2008''

Revision as of 15:52, 30 June 2008

Image:1bd1.png

Template:STRUCTURE 1bd1

CRYSTALLOGRAPHIC STUDY OF ONE TURN OF G/C-RICH B-DNA

Template:ABSTRACT PUBMED 2600970

About this Structure

Full crystallographic information is available from OCA.

Reference

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

Page seeded by OCA on Mon Jun 30 18:51:59 2008

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