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2idn

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(New page: 200px<br /><applet load="2idn" size="350" color="white" frame="true" align="right" spinBox="true" caption="2idn" /> '''NMR structure of a new modified Thrombin Bin...)
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Revision as of 18:39, 29 January 2008

Image:2idn.gif

2idn

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

Overview

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.

About this Structure

2IDN is a Protein complex structure of sequences from [1]. Full crystallographic 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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