The thrombin binding aptamer GGTTGGTGTGGTTGG forms a bimolecular guanine tetraplex

In the literature, the thrombin binding aptamer GGTTGGTGTGGTTGG is generally taken as a prototype of an intramolecular guanine tetraplex of DNA. Our results, however, show that this notion is not true in aqueous solutions. This conclusion is based on a dependence of the CD spectra on aptamer concent...

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Bibliographic Details
Published in:Biochemical and biophysical research communications 2006-05, Vol.344 (1), p.50-54
Main Authors: Fialová, Markéta, Kypr, Jaroslav, Vorlíčková, Michaela
Format: Article
Language:English
Subjects:
Aptamers, Nucleotide - chemistry
CD spectroscopy
Circular Dichroism
DNA - chemistry
DNA tetraplex
G-Quadruplexes
Gel electrophoresis
Guanine - chemistry
Thrombin binding aptamer
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Summary:In the literature, the thrombin binding aptamer GGTTGGTGTGGTTGG is generally taken as a prototype of an intramolecular guanine tetraplex of DNA. Our results, however, show that this notion is not true in aqueous solutions. This conclusion is based on a dependence of the CD spectra on aptamer concentration, migration of the aptamer in polyacrylamide gels, and the Ferguson analysis of the gel migration data. The presented data document that the aptamer forms a bimolecular tetraplex. We furthermore show that only an extension of the aptamer by a sequence containing further guanines, or an elongation of loop regions, causes that its tetraplex folding is intramolecular.
ISSN:0006-291X
1090-2104
DOI:10.1016/j.bbrc.2006.03.144