2idn: Difference between revisions

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[[Image:2idn.gif|left|200px]]
{{Seed}}
[[Image:2idn.png|left|200px]]


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{{STRUCTURE_2idn|  PDB=2idn  |  SCENE=  }}  
{{STRUCTURE_2idn|  PDB=2idn  |  SCENE=  }}  


'''NMR structure of a new modified Thrombin Binding Aptamer containing a 5'-5' inversion of polarity site'''
===NMR structure of a new modified Thrombin Binding Aptamer containing a 5'-5' inversion of polarity site===




==Overview==
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The solution structure of a new modified thrombin binding aptamer (TBA) containing a 5'-5' inversion of polarity site, namely d(3'GGT5'-5'TGGTGTGGTTGG3'), is reported. NMR and CD spectroscopy, as well as molecular dynamic and mechanic calculations, have been used to characterize the 3D structure. The modified oligonucleotide is characterized by a chair-like structure consisting of two G-tetrads connected by three edge-wise TT, TGT and TT loops. d(3'GGT5'-5'TGGTGTGGTTGG3') is characterized by an unusual folding, being three strands parallel to each other and only one strand oriented in opposite manner. This led to an anti-anti-anti-syn and syn-syn-syn-anti arrangement of the Gs in the two tetrads. The thermal stability of the modified oligonucleotide is 4 degrees C higher than the corresponding unmodified TBA. d(3'GGT5'-5'TGGTGTGGTTGG3') continues to display an anticoagulant activity, even if decreased with respect to the TBA.
The line below this paragraph, {{ABSTRACT_PUBMED_17145716}}, adds the Publication Abstract to the page
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{{ABSTRACT_PUBMED_17145716}}


==About this Structure==
==About this Structure==
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IDN OCA].  
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IDN OCA].  


==Reference==
==Reference==
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[[Category: Quadruplex]]
[[Category: Quadruplex]]
[[Category: Tba]]
[[Category: Tba]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 07:22:35 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 09:34:28 2008''

Revision as of 06:34, 29 July 2008

File:2idn.png

Template:STRUCTURE 2idn

NMR structure of a new modified Thrombin Binding Aptamer containing a 5'-5' inversion of polarity site

Template:ABSTRACT PUBMED 17145716

About this Structure

Full experimental information is available from OCA.

Reference

A new modified thrombin binding aptamer containing a 5'-5' inversion of polarity site., Martino L, Virno A, Randazzo A, Virgilio A, Esposito V, Giancola C, Bucci M, Cirino G, Mayol L, Nucleic Acids Res. 2006;34(22):6653-62. Epub 2006 Dec 1. PMID:17145716

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