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.

A New Modified Thrombin Binding Aptamer Containing a 5'-5' Inversion of Polarity site / Martino, Luigi; Virno, Ada; Randazzo, Antonio; Virgilio, Antonella; Esposito, Veronica; Giancola, Concetta; Bucci, Mariarosaria; Cirino, Giuseppe; Mayol, Luciano. - In: NUCLEIC ACIDS RESEARCH. - ISSN 0305-1048. - STAMPA. - 34:22(2006), pp. 6653-6662. [10.1093/nar/gkl915]

A New Modified Thrombin Binding Aptamer Containing a 5'-5' Inversion of Polarity site

MARTINO, LUIGI;VIRNO, ADA;RANDAZZO, ANTONIO;VIRGILIO, ANTONELLA;ESPOSITO, VERONICA;GIANCOLA, CONCETTA;BUCCI, MARIAROSARIA;CIRINO, GIUSEPPE;MAYOL, LUCIANO
2006

Abstract

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.
2006
A New Modified Thrombin Binding Aptamer Containing a 5'-5' Inversion of Polarity site / Martino, Luigi; Virno, Ada; Randazzo, Antonio; Virgilio, Antonella; Esposito, Veronica; Giancola, Concetta; Bucci, Mariarosaria; Cirino, Giuseppe; Mayol, Luciano. - In: NUCLEIC ACIDS RESEARCH. - ISSN 0305-1048. - STAMPA. - 34:22(2006), pp. 6653-6662. [10.1093/nar/gkl915]
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11588/200984
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