Thermodynamic analysis of conformational transitions in double- and three-stranded helices formed by poly dA and poly dT molecules in solutions with Na+ and Mg2+ ions, using the "staggering zipper" model

  • Yu.P. Blagoi B.I. Verkin Institute for Low Temperature Physics and Engineering, NASU
  • V.N. Zozulya B.I. Verkin Institute for Low Temperature Physics and Engineering, NASU
  • S.A. Egupov B.I. Verkin Institute for Low Temperature Physics and Engineering, NASU
  • V.V. Onyshchenko B.I. Verkin Institute for Low Temperature Physics and Engineering, NASU
Keywords: polynucleotides, Na and Mg2 ions, model , conformational transitions

Abstract

The present work considers the possibility of applying the "staggering zipper" model to describe conformational transitions in oligomer complexes dAn·and dTn and dAn·2Tn in the presence of Mg2+ ions. With the experimental data obtained earlier for the phase diagram of poly dA·poly dT in the presence of Mg2+ theoretical constants characterizing macromolecule interactions are determined. On the basis of these data and experimental values of transition enthalpy, curves of conformational transformations 3 —> 2 and 2 —> 1 are calculated and the dependences of the transition temperature Tm and width of transition interval ΔT on the molecule length N, polymer concentration and Mg ion content in solution are evaluated. It is shown that the transition temperature Tm increases sharply with the molecule length in the range N~10-20 and changes slightly at N>100. The value of Tm depends linearly on lg[Mg2+] and the polymer concentration.

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Author Biographies

Yu.P. Blagoi, B.I. Verkin Institute for Low Temperature Physics and Engineering, NASU

47 Lenin Ave, Kharkov, 61103, Ukraine

V.N. Zozulya, B.I. Verkin Institute for Low Temperature Physics and Engineering, NASU

47 Lenin Ave, Kharkov, 61103, Ukraine

S.A. Egupov, B.I. Verkin Institute for Low Temperature Physics and Engineering, NASU

47 Lenin Ave, Kharkov, 61103, Ukraine

V.V. Onyshchenko, B.I. Verkin Institute for Low Temperature Physics and Engineering, NASU

47 Lenin Ave, Kharkov, 61103, Ukraine

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Published
2005-06-06
Cited
How to Cite
Blagoi, Y., Zozulya, V., Egupov, S., & Onyshchenko, V. (2005). Thermodynamic analysis of conformational transitions in double- and three-stranded helices formed by poly dA and poly dT molecules in solutions with Na+ and Mg2+ ions, using the "staggering zipper" model. Biophysical Bulletin, 1(15), 24-28. Retrieved from https://periodicals.karazin.ua/biophysvisnyk/article/view/17999
Issue
Vol. 1 No. 15 (2005): Біофізичний вісник
Section
Molecular biophysics
Copyright (c) 2005 Biophysical visnik

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