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{{STRUCTURE_2idn| PDB=2idn | SCENE= }} | |||
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'''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''' | ||
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==About this Structure== | ==About this Structure== | ||
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IDN OCA]. | |||
==Reference== | ==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:[http://www.ncbi.nlm.nih.gov/pubmed/17145716 17145716] | 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: Giancola, C.]] | [[Category: Giancola, C.]] | ||
[[Category: Martino, L.]] | [[Category: Martino, L.]] | ||
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[[Category: Virno, A.]] | [[Category: Virno, A.]] | ||
[[Category: 5'-5s']] | [[Category: 5'-5s']] | ||
[[Category: | [[Category: Anticoagulant]] | ||
[[Category: | [[Category: Dna]] | ||
[[Category: | [[Category: Inversion of polarity]] | ||
[[Category: | [[Category: Quadruplex]] | ||
[[Category: | [[Category: Tba]] | ||
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Revision as of 04:22, 4 May 2008
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
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 Sun May 4 07:22:35 2008
