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2idn

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[[Image:2idn.gif|left|200px]]<br /><applet load="2idn" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:2idn.gif|left|200px]]
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caption="2idn" />
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'''NMR structure of a new modified Thrombin Binding Aptamer containing a 5'-5' inversion of polarity site'''<br />
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{{Structure
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|PDB= 2idn |SIZE=350|CAPTION= <scene name='initialview01'>2idn</scene>
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|SITE=
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|LIGAND=
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|ACTIVITY=
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|GENE=
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}}
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'''NMR structure of a new modified Thrombin Binding Aptamer containing a 5'-5' inversion of polarity site'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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2IDN is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IDN OCA].
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2IDN is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IDN OCA].
==Reference==
==Reference==
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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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17145716 17145716]
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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:[http://www.ncbi.nlm.nih.gov/pubmed/17145716 17145716]
[[Category: Protein complex]]
[[Category: Protein complex]]
[[Category: Giancola, C.]]
[[Category: Giancola, C.]]
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[[Category: Randazzo, A.]]
[[Category: Randazzo, A.]]
[[Category: Virno, A.]]
[[Category: Virno, A.]]
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[[Category: 5'-5']]
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[[Category: 5'-5s']]
[[Category: anticoagulant]]
[[Category: anticoagulant]]
[[Category: dna]]
[[Category: dna]]
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[[Category: tba]]
[[Category: tba]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:51:42 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 17:28:14 2008''

Revision as of 15:28, 20 March 2008

Image:2idn.gif


PDB ID 2idn

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Coordinates: save as pdb, mmCIF, xml



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

Page seeded by OCA on Thu Mar 20 17:28:14 2008

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