Abstract
We have studied the interaction between synthetic DNA molecules containing pyrophosphate (PP) groups in various positions, which makes it possible to control the charge distribution along the DNA chain. The PP groups were either symmetrically arranged at the ends or at the center of DNA molecules or uniformly distributed along these molecules. It is shown that, similar to nonmodified DNA, the synthetic PP-modified DNA molecules can form cholesteric liquid crystals. Minima of the pair interaction potential are found, conditions of the symmetry of this potential are formulated, and the dependence of conformation angles on the effective charge is determined. The results of calculations show that the system exhibits polymorphism (i.e., several phases of cholesteric liquid crystals can exist in DNA solutions).
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References
L. Onsager, Ann. N. Y. Acad. Sci. 51, 621 (1999).
S. Chandrasekhar, Liquid Crystals (Cambridge University Press, Cambridge, 1977).
C. Robinson, Tetrahedron 13, 219 (1961).
F. Livolant, J. Phys. (Paris) 47, 1605 (1986).
E. Raspaud, D. Durand, and F. Livolant, Biophys. J. 88, 392 (2004).
E. Raspaud, J. Pelta, M. de Fruttos, and F. Livolant, Phys. Rev. Lett. 97, 068103-1 (2006).
Y. H. Kim, J. Phys. (Paris) 43, 559 (1982).
B. Samoroe, M. Osipov, I. Domini, and A. Bartolini, Int. J. Macromol. 15, 353 (1993).
V. L. Golo, E. I. Kats, and I. P. Kikot’, Pis’ma Zh. Éksp. Teor. Fiz. 84(5), 334 (2006) [JETP Lett. 84 (5), 275 (2006)].
A. A. Kornyshev and S. Leikin, J. Chem. Phys. 107, 3656 (1997).
V. L. Golo, E. I. Kats, and Yu. S. Volkov, Pis’ma Zh. Éksp. Teor. Fiz. 86(4), 311 (2007) [JETP Lett. 86 (4), 278 (278)].
S. A. Kuznetsova, M. G. Ivanovskaya, and Z. A. Shabarova, Bioorg. Khim. 16, 219 (1990).
S. A. Kuznetsova, I. É. Kanevskiĭ, V. A. Florent’ev, A. D. Mirzabekov, and Z. A. Shabarova, Mol. Biol. (Moscow) 28, 290 (1994).
S. A. Kuznetsova, M. Blumenfeld, M. Vasseur, and Z. A. Shabarova, Nucleosides Nucleotides 18, 1237 (1996).
S. A. Kuznetsova, I. E. Kanevskii, T. S. Oretskaya, and Z. A. Shabarova, Bioorg. Khim. 22(7), 532 (1996) [Russ. J. Bioorg. Chem. 22 (7), 455 (1996)].
A. A. Purmal’, V. L. Drutsa, and Z. A. Shabarova, Bioorg. Khim. 10, 394 (1984).
M. V. Rogacheva, A. V. Bochenkova, S. A. Kuznetsova, M. K. Saparbaev, and A. V. Nemukhin, J. Phys. Chem. B. 111, 432 (2007).
Z. A. Shabarova, G. Ya. Sheflyan, S. A. Kuznetsova, E. A. Kubareva, O. N. Sysoev, M. G. Ivanovskaya, and E. S. Gromova, Bioorg. Khim. 20, 413 (1994).
M. V. Rogacheva, M. K. Saparbaev, I. M. Afanasov, and S. A. Kuznetsova, Biochimie 87, 1079 (2005).
M. Rogacheva, A. Ishchenko, M. Saparbaev, S. Kuznetsova, and V. Ogryzko, J. Biol. Chem. 281,32 353 (2006).
S. A. Kuznetsova, C. Clusel, E. Ugarte, I. Elias, M. Vasseur, M. Blumenfeld, and Z. A. Shabarova, Nucleic Acids Res. 24, 4783 (1996).
A. A. Purmal, Z. A. Shabarova, and R. I. Gumport, Nucleic Acids Res. 20, 3713 (1992).
G. Ya. Sheflyan, E. A. Kubareva, S. A. Kuznetsova, A. S. Karyagina, I. I. Nikol’skaya, E. S. Gromova, and Z. A. Shabarova, FEBS Lett. 390, 307 (1996).
E. A. Kubareva, O. A. Fedorova, M. B. Gottikh, H. Tanaka, C. Malvy, and Z. A. Shabarova, FEBS Lett. 381, 35 (1996).
L. Berti, A. Alessandrini, C. Menozzi, and P. Facci, J. Nanosci. Nanotechnol. 6(8), 2382 (2006).
J. Sponer, J. Leszcynski, and P. Hobza, Biopolymers 61, 3 (2002).
O. Punkkinen, A. Naji, R. Podgornik, I. Vattulainen, and P.-L. Hansen, Europhys. Lett. 82, 48001 (2008).
J. S. Schwinger, L. L. Deraad, K. A. Milton, and W. Y. Tsai, Classical Electrodynamics (Perseus, London, 1998).
Yu. M. Evdokimov, Zhidk. Krist. 3, 10 (2003).
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Original Russian Text © Yu.S. Volkov, V.L. Golo, E.I. Kats, S.A. Kuznetsova, 2009, published in Zhurnal Éksperimental’noĭ i Teoreticheskoĭ Fiziki, 2009, Vol. 135, No. 3, pp. 559–566.
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Volkov, Y.S., Golo, V.L., Kats, E.I. et al. Liquid-crystalline phases formed by DNA duplexes containing pyrophosphate groups. J. Exp. Theor. Phys. 108, 490–496 (2009). https://doi.org/10.1134/S1063776109030133
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DOI: https://doi.org/10.1134/S1063776109030133