Counterion vibrations in the DNA low-frequency spectra

European Physical Journal E

Volumn 24, Issue 3, 2007, Pages 261-269

  Perepelytsya, S M ^a   Volkov, S N ^b  

^a TARAS SHEVCHENKO NATIONAL UNIVERSITY OF KYIV   (Ukraine)

^b BOGOLYUBOV INSTITUTE FOR THEORETICAL PHYSICS   (Ukraine)

Author keywords

87.14.Gg DNA, RNA; 87.15. v Biomolecules: structure and physical properties; 87.15.He Dynamics and conformational changes

Indexed keywords

COUNTERION VIBRATIONS; ION-PHOSPHATE LATTICES; LIGHT COUNTERIONS; MADELUNG CONSTANT; METAL CATIONS;

CONFORMATIONS; METAL IONS; NUCLEOTIDES; POSITIVE IONS; SODIUM CHLORIDE;

DNA;

CATION; DNA; PHOSPHATE; WATER;

ARTICLE; CHEMICAL STRUCTURE; CHEMISTRY; CONFORMATION; DRUG EFFECT; SPECTROSCOPY; VIBRATION;

CATIONS; DNA; MODELS, MOLECULAR; NUCLEIC ACID CONFORMATION; PHOSPHATES; SPECTRUM ANALYSIS; VIBRATION; WATER;

EID: 37449010252     PISSN: 12928941     EISSN: 1292895X     Source Type: Journal    
DOI: 10.1140/epje/i2007-10236-x     Document Type: Article

References (43)

1. W. Saenger, Principles of Nucleic Acid Structure (Springer, New York, 1984).
2. Yu.P. Blagoi, V.L. Galkin, G.O. Gladchenko, The Complexes of Nucleic Acids and Metals in the Solutions (Naukova Dumka, Kiev, 1991).
3. Y. Levin, Rep. Prog. Phys. 65, 1577 (2002).
4. A.A. Kornyshev, D.J. Lee, S. Leikin, A. Wynveen, Rev. Mod. Phys. 79, 943 (2007).
5. V.I. Ivanov, Biopolymers 12, 89 (1973).
6. C.G. Baumann, Proc. Natl. Acad. Sci. U.S.A. 94, 6185 (1997).
7. L.D. Williams, L.J. Maher, Annu. Rev. Biophys. Biomol. Struct. 29, 497 (2000).
8. I.Ya. Skuratovskii, L.I. Volkova, K. Kapitonova, V.N. Bartenev, J. Mol. Biol. 134, 369 (1979).
9. V. Tereshko, G. Minasov, M. Egli, Nucl. Acids Res. 29, 1208 (2001).
10. V. Tereshko, G. Minasov, M. Egli, J. Am. Chem. Soc. 121, 3590 (1999).
11. R. Das, T.T. Mills, L.W. Kwok, Phys. Rev. Lett. 90, 188103 (2003).
12. G.S. Manning, Q. Rev. Biophys. 11, 179 (1978).
13. M.D. Frank-Kamenetskii, V.V. Anshelevich, A.V. Lukashin, Sov. Phys. Usp. 151, 595 (1987).
14. P. Varnai, K. Zakrzewska, Nucl. Acids Res. 32, 4269 (2004).
15. S.Y. Ponomarev, K.M. Thayer, D.L. Beveridge, Proc. Natl. Acad. Sci. U.S.A. 101, 14771 (2004).
16. C. Kittel, Introduction to Solid State Physics (John Wiley and Sons, Inc., New York, 1954).
17. L. Young, V.V. Prabhu, E.W. Prohofsky, Phys. Rev. A 39, 3173 (1989).
18. S.N. Volkov, A.M. Kosevich, Mol. Biol. 21, 797 (1987) (Moscow).
19. S.N. Volkov, A.M. Kosevich, G.E. Weinreb, Biopolimery i Kletka 5, 32 (1989) (Kiev).
20. S.N. Volkov, A.M. Kosevich, J. Biomol. Struct. Dyn. 8, 1069 (1991).
21. A.M. Kosevich, S.N. Volkov, in Nonlinear Excitations in Biomolecules, edited by M. Peyrard (Springer, 1995).
22. S. Cocco, R. Monasson, J. Chem. Phys. 112, 10017 (2000).
23. A. Wittlin, Phys. Rev. A 34, 493 (1986).
24. J.W. Powell, Phys. Rev. A 35, 3929 (1987).
25. T. Weidlich, S.M. Lindsay, A. Rupprecht, Phys. Rev. Lett. 61, 1674 (1988).
26. Om P. Lamba, A.H.-J. Wang, G.J. Thomas jr., Biopolymers 28, 667 (1989).
27. H. Urabe, J. Chem. Phys. 92, 768 (1990).
28. T. Weidlich, J. Biomol. Struct. Dyn. 8, 139 (1990).
29. T. Weidlich, Biopolymers 30, 477 (1990).
30. L. Genzel, T.P. Martin, Surf. Sci. 34, 33 (1973).
31. S.M. Perepelytsya, S.N. Volkov, Ukr. J. Phys. 49, 1072 (2004) arXiv: q-bio.BM/0412022.
32. B.E Hingerty, Biopolymers 24, 427 (1985).
33. J. Ramstein, R. Lavery, Proc. Natl. Acad. Sci. U.S.A. 85, 7231 (1988).
34. A.K. Mazur, L. Jernigan, Biopolymers 31, 1615 (1991).
35. T. Schlick, Molecular Modeling and Simulation (Springer, New York, 2002).
36. S. Arnott, D.W.I. Hukins, Biochem. Biophys. Res. Commun. 47, 1504 (1972).
37. B. Schnider, M. Kabelac, J. Am. Chem. Soc. 120, 161 (1998).
38. M. Born, K. Huang, Dynamical Theory of Crystal Lattices (Clarendon Press, Oxford, 1954).
39. V.Ya. Maleev, M.A. Semenov, A.I. Gasan, V.A. Kashpur, Biophysics 38, 768 (1993) (Moscow).
40. H. Urabe, Biophys. J. 74, 1533 (1998).
41. T. Weidlich, S.M. Lidsay, A. Rupprecht, Biopolymers 26, 439 (1987).
42. P.J. Adams, M.L. VanSteenberg, S.A. Lee, A. Rupprecht, J. Biomol. Struct. Dyn. 11, 1277 (1994).
43. N. Lavalle, S.A. Lee, A. Rupprecht, Biopolymers 30, 877 (1990).