251d: Difference between revisions

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[[Image:251d.jpg|left|200px]]
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{{STRUCTURE_251d|  PDB=251d  |  SCENE=  }}  
{{STRUCTURE_251d|  PDB=251d  |  SCENE=  }}  


'''SINGLE CRYSTAL AND MOLECULAR STRUCTURE OF D(CTCGAG)'''
===SINGLE CRYSTAL AND MOLECULAR STRUCTURE OF D(CTCGAG)===




==Overview==
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The crystal structure of the B-DNA hexamer d(CTCGAG) has been solved at 1.9 A resolution by iterative single isomorphous replacement, using the brominated derivative d(CG5BrCGAG), and refined to an R-factor of 18.6% for 120 nonhydrogen nucleic acid atoms and 32 water molecules. Although the central four base pairs form a typical B-form helix, several parameters suggest a transition to an A-like conformation at the termini. Based on this observation, a B-to-A transition was modeled, maintaining efficient base stacking across the junction. The wide minor groove (approximately 6.9 A) is reminiscent of that in the side-by-side double drug-DNA complexes and hosts a double spine of hydration. The global helix axes of the pseudo-continuous helices are at an acute angle of 60 degrees. The pseudocontinuous stacking is reinforced by the minor groove water structure extending between the two duplexes. The crossover point of two pairs of stacked duplexes is at the stacking junction, unlike that observed in the B-DNA decamers and dodecamers. This arrangement may have implications for the structure of a four-way DNA junction. The duplexes are arranged around a large (approximately 20 A diameter) channel centered on a 6(2) screw axis.
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{{ABSTRACT_PUBMED_8744323}}


==About this Structure==
==About this Structure==
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[[Category: B-dna]]
[[Category: B-dna]]
[[Category: Double helix]]
[[Category: Double helix]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 18:23:09 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 05:24:46 2008''

Revision as of 02:24, 28 July 2008

File:251d.png

Template:STRUCTURE 251d

SINGLE CRYSTAL AND MOLECULAR STRUCTURE OF D(CTCGAG)

Template:ABSTRACT PUBMED 8744323

About this Structure

Full crystallographic information is available from OCA.

Reference

Crystal structure of the B-DNA hexamer d(CTCGAG): model for an A-to-B transition., Wahl MC, Rao ST, Sundaralingam M, Biophys J. 1996 Jun;70(6):2857-66. PMID:8744323

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