Kinetic trapping of H-DNA by oligonucleotide binding

Boris P. Belotserkovskii, Maria Krasilnikova, Alexei G. Veselkov, Maxim D. Frank-kamenetskii

Research output: Contribution to journalArticle

18 Citations (Scopus)

Abstract

Homopurine-homopyrimidine mirror repeats are known to adopt the H form under acidic pH and/or negative supercolling. In H-DNA, one half of the purine strand enters the triplex whereas the second half Is unstructured and can form duplex with complementary oligonucleotide. However, because the same oligonucleotide can form triplex with the homopurine-homopyrimidine insert, one could expect that oligonucleotide would make H-DNA thermodynamically less favorable, as was claimed by Lyamlchev et al. Nucl. Acids Res. 16, 2165- 2178 (1988). Now we show that complex between oligonucleotide and H-DNA, formed under conditions favorable for the H-form extrusion, is kinetically trapped in superhelical DNA and remains stable up much higher pH values than H-DNA alone. Experiments on chemical probing show that such complex exists for a plasmid with native superhelical density at pH7. We have also used this approach to demonstrate a pH-dependent structural transition in yeast telomeric sequence, d(C-ACACCCA)16.

Original languageEnglish (US)
Pages (from-to)1903-1908
Number of pages6
JournalNucleic acids research
Volume20
Issue number8
DOIs
StatePublished - Apr 25 1992

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Oligonucleotides
Superhelical DNA
Dilatation and Curettage
Plasmids
Yeasts
Acids
triplex DNA

All Science Journal Classification (ASJC) codes

  • Genetics

Cite this

Belotserkovskii, B. P., Krasilnikova, M., Veselkov, A. G., & Frank-kamenetskii, M. D. (1992). Kinetic trapping of H-DNA by oligonucleotide binding. Nucleic acids research, 20(8), 1903-1908. https://doi.org/10.1093/nar/20.8.1903
Belotserkovskii, Boris P. ; Krasilnikova, Maria ; Veselkov, Alexei G. ; Frank-kamenetskii, Maxim D. / Kinetic trapping of H-DNA by oligonucleotide binding. In: Nucleic acids research. 1992 ; Vol. 20, No. 8. pp. 1903-1908.
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Belotserkovskii, BP, Krasilnikova, M, Veselkov, AG & Frank-kamenetskii, MD 1992, 'Kinetic trapping of H-DNA by oligonucleotide binding', Nucleic acids research, vol. 20, no. 8, pp. 1903-1908. https://doi.org/10.1093/nar/20.8.1903

Kinetic trapping of H-DNA by oligonucleotide binding. / Belotserkovskii, Boris P.; Krasilnikova, Maria; Veselkov, Alexei G.; Frank-kamenetskii, Maxim D.

In: Nucleic acids research, Vol. 20, No. 8, 25.04.1992, p. 1903-1908.

Research output: Contribution to journalArticle

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AU - Belotserkovskii, Boris P.

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Belotserkovskii BP, Krasilnikova M, Veselkov AG, Frank-kamenetskii MD. Kinetic trapping of H-DNA by oligonucleotide binding. Nucleic acids research. 1992 Apr 25;20(8):1903-1908. https://doi.org/10.1093/nar/20.8.1903