期刊
NUCLEIC ACIDS RESEARCH
卷 34, 期 22, 页码 6653-6662出版社
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkl915
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The solution structure of a new modified thrombin binding aptamer (TBA) containing a 5'-5' inversion of polarity site, namely d((3')GGT(5')-(5')TGGTGTGGTTGG(3)'), 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')GGT(5')-(5')TGGTGTGGTTGG(3')) 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')GGT(5')-(5')TGGTGTGGTTGG(3')) continues to display an anticoagulant activity, even if decreased with respect to the TBA.
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