1ue3: Difference between revisions

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[[Image:1ue3.gif|left|200px]]
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[[Image:1ue3.png|left|200px]]


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{{STRUCTURE_1ue3|  PDB=1ue3  |  SCENE=  }}  
{{STRUCTURE_1ue3|  PDB=1ue3  |  SCENE=  }}  


'''Crystal structure of d(GCGAAAGC) containing hexaamminecobalt'''
===Crystal structure of d(GCGAAAGC) containing hexaamminecobalt===




==Overview==
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A DNA fragment d(GCGAAAGC), postulated to adopt a stable mini-hairpin structure on the basis of its extraordinary properties, has been X-ray analyzed. Two octamers related by a crystallographic twofold symmetry are aligned in an antiparallel fashion and associate to form a duplex, which is maintained by two Watson-Crick G.C base pairs and a subsequent sheared G.A pair at both ends. The central two A residues are free from base-pair formation. The corresponding base moieties of the two strands are intercalated and stacked on each other, forming a long column of G(1)-C(2)-G(3)-A(4)-A(5)(*)-A(5)-A(4)(*)-G(3)(*)-C(2)(*)-G(1)(*) (asterisks indicate the counter-strand). The Watson-Crick and major-groove sites of the four stacked adenine bases are exposed to the solvent region, suggesting a functional role. Since this structural motif is similar to those found in the nonamers d(G(Br)CGAAAGCT) and d(G(I)CGAAAGCT), the base-intercalated duplex may be a stable form of the specific sequence. Electrophoresis results suggest that the octamer has two states, monomeric and dimeric, in solution depending on the Mg(2+) concentration. The present duplex is preferred under the crystallization conditions, which correspond to physiologically allowed conditions.
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{{ABSTRACT_PUBMED_14684897}}


==About this Structure==
==About this Structure==
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[[Category: Sheared g:a pair]]
[[Category: Sheared g:a pair]]
[[Category: Zipper-like duplex]]
[[Category: Zipper-like duplex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 19:49:05 2008''

Revision as of 16:49, 27 July 2008

File:1ue3.png

Template:STRUCTURE 1ue3

Crystal structure of d(GCGAAAGC) containing hexaamminecobalt

Template:ABSTRACT PUBMED 14684897

About this Structure

Full crystallographic information is available from OCA.

Reference

Structure of d(GCGAAAGC) (hexagonal form): a base-intercalated duplex as a stable structure., Sunami T, Kondo J, Hirao I, Watanabe K, Miura KI, Takenaka A, Acta Crystallogr D Biol Crystallogr. 2004 Jan;60(Pt 1):90-6. Epub 2003 Dec, 18. PMID:14684897

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