Abstract
The structure of the 31-meric aptameric DNA oligonucleotide RA36 was studied. This aptamer inhibits the coagulant activity of thrombin more effectively compared with the widely known aptamer 15TGT (thrombin-binding aptamer). RA36 aptamer has a two-pattern structure, which includes two G-rich regions capable of forming a G-quadruplex. We showed by circular dichroism that the aptamer RA36 forms an anti-parallel G-quadruplex similar to the G-quadruplex of 15TGT. The thermal stability of G-quadruplex RA36 is significantly lower than that of 15TGT under physiological conditions (concentration of the stabilizing cation 5 mM). The double-quadruplex structure of RA36 is confirmed by the CD spectra of deletion mutants; i.e., G-quadruplex can be formed both by the first and the second G-rich site of aptamer RA36.
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Abbreviations
- CD:
-
circular dichroism
- PAAG:
-
polyacrylamide gel
- 15TGT:
-
a 15-meric thrombine-binding oligonucleotide
- RA36:
-
a 31-meric thrombine-binding oligonucleotide
- XRD analysis:
-
X-ray diffraction analysis
- NA:
-
nucleic acid
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Original Russian Text © A.V. Yuminova, I.G. Smirnova, A.M. Arutyunyan, A.M. Kopylov, A.V. Golovin, G.V. Pavlova, 2015, published in Vestnik Moskovskogo Universiteta. Khimiya, 2015, No. 1, pp. 51–55.
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Yuminova, A.V., Smirnova, I.G., Arutyunyan, A.M. et al. The structure of G-quadruplex thrombine-binding DNA aptamer RA36. Moscow Univ. Chem. Bull. 70, 43–46 (2015). https://doi.org/10.3103/S0027131415010095
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DOI: https://doi.org/10.3103/S0027131415010095