1db6: Difference between revisions

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[[Image:1db6.gif|left|200px]]
{{Seed}}
[[Image:1db6.png|left|200px]]


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{{STRUCTURE_1db6|  PDB=1db6  |  SCENE=  }}  
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'''SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE'''
===SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE===




==Overview==
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The structure of a DNA aptamer, which was selected for specific binding to arginine, was determined using NMR spectroscopy. The sequence forms a hairpin loop, with residues important for binding occurring in the loop region. Binding of argininamide induces formation of one Watson-Crick and two non-Watson-Crick base pairs, which facilitate generation of a binding pocket. The specificity for arginine seems to arise from contacts between the guanidino end of the arginine and phosphates, with atoms positioned by the shape of the pocket. Complex binding kinetics are observed suggesting that there is a slow interconversion of two forms of the DNA, which have different binding affinities. These data provide information on the process of adaptive recognition of a ligand by an aptamer.
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{{ABSTRACT_PUBMED_10653638}}


==About this Structure==
==About this Structure==
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DB6 OCA].  
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DB6 OCA].  


==Reference==
==Reference==
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[[Category: Selex]]
[[Category: Selex]]
[[Category: Single-strand]]
[[Category: Single-strand]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 13:39:08 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jun 30 22:46:23 2008''

Revision as of 19:46, 30 June 2008

File:1db6.png

Template:STRUCTURE 1db6

SOLUTION STRUCTURE OF THE DNA APTAMER 5'-CGACCAACGTGTCGCCTGGTCG-3' COMPLEXED WITH ARGININAMIDE

Template:ABSTRACT PUBMED 10653638

About this Structure

Full experimental information is available from OCA.

Reference

Structure determination and binding kinetics of a DNA aptamer-argininamide complex., Robertson SA, Harada K, Frankel AD, Wemmer DE, Biochemistry. 2000 Feb 8;39(5):946-54. PMID:10653638

Page seeded by OCA on Mon Jun 30 22:46:23 2008

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