In this paper, we report the investigations, based on NMR, molecular modelling, CD measurements and electrophoresis, of thrombin binding aptamer (TBA) analogues containing an extra-residue at the 3’-end or at both the ends of the original TBA sequence, linked through 3’–3’ or 5’–5’ phosphodiester bonds. The data indicate that most of the modified aptamers investigated adopt chair-like G-quadruplex structures very similar to that of the TBA and that stacking interactions occur between the 3’–3’ or 5’–5’ extra residues and the deoxyguanosines of the upper G-tetrad. A comparison of the thermodynamic data of TBA-A and TBA-T containing a 3’–3’ extra residue and their canonical versions clearly indicates that the 3’–3’ phosphodiester bond is fundamental in endowing the modified aptamers with remarkably higher thermal stabilities than the original TBA.

Improved thrombin binding aptamer analogues containing inversion of polarity sites: structural effects of extra-residues at the ends / Virgilio, Antonella; Amato, Teresa; Petraccone, Luigi; Filosa, Rosanna; Varra, Michela; Mayol, Luciano; Esposito, Veronica; Galeone, Aldo. - In: ORGANIC & BIOMOLECULAR CHEMISTRY. - ISSN 1477-0520. - 14:32(2016), pp. 7707-7714. [10.1039/c6ob00931j]

Improved thrombin binding aptamer analogues containing inversion of polarity sites: structural effects of extra-residues at the ends

VIRGILIO, ANTONELLA
Primo
;
AMATO, TERESA;PETRACCONE, LUIGI;VARRA, MICHELA;MAYOL, LUCIANO;ESPOSITO, VERONICA
Penultimo
;
GALEONE, ALDO
Ultimo
2016

Abstract

In this paper, we report the investigations, based on NMR, molecular modelling, CD measurements and electrophoresis, of thrombin binding aptamer (TBA) analogues containing an extra-residue at the 3’-end or at both the ends of the original TBA sequence, linked through 3’–3’ or 5’–5’ phosphodiester bonds. The data indicate that most of the modified aptamers investigated adopt chair-like G-quadruplex structures very similar to that of the TBA and that stacking interactions occur between the 3’–3’ or 5’–5’ extra residues and the deoxyguanosines of the upper G-tetrad. A comparison of the thermodynamic data of TBA-A and TBA-T containing a 3’–3’ extra residue and their canonical versions clearly indicates that the 3’–3’ phosphodiester bond is fundamental in endowing the modified aptamers with remarkably higher thermal stabilities than the original TBA.
2016
Improved thrombin binding aptamer analogues containing inversion of polarity sites: structural effects of extra-residues at the ends / Virgilio, Antonella; Amato, Teresa; Petraccone, Luigi; Filosa, Rosanna; Varra, Michela; Mayol, Luciano; Esposito, Veronica; Galeone, Aldo. - In: ORGANIC & BIOMOLECULAR CHEMISTRY. - ISSN 1477-0520. - 14:32(2016), pp. 7707-7714. [10.1039/c6ob00931j]
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11588/637345
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