Abstract
Two different kinds of dynamics simulation have been performed to investigate the rotation of the bases in DNA. A Brownian dynamics simulation using data from fluorescence experiments establishes a link between the rotation observed at the nanosecond time scale and the base pair opening reaction which is a process detected at the millisecond time scale. A 200 ps molecular dynamics simulation of an octanucleotide shows that rotational motions with frequencies lower than 1 ps-1 and characterized by a relaxation time of 17 ps are responsible for the fluorescence anisotropy decay observed in the supra nanosecond time domain. They correspond to collective motions of groups of atoms. Both simulations show that a continuity of the base rotation exists from ps to ms.
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References
Y. Z. Chen, W. Zhuang, and E. W. Prohofsky: J. Molec. Struct. Dynam. 10, 415 (1992).
J. G. Moe and I. M. Russu: Biochemistry 31, 8421 (1992).
M. Gueron, M. Kochoyan, and J. L. Leroy: Nature 382, 89 (1987).
D. Genest and P. Wahl: Biochim. Biophys. Acta 52, 502 (1978).
J. Thomas, S. Allison, C. Appeleof, and M. Schurr: Biophys. Chem. 12, 177 (1980).
D. Genest, P. Wahl, M. Erard, M. Champagne, and M. Daune: Biochimie 64, 419 (1982).
M. Collini, G. Chirico, and G. Baldini: Biopolymers 32, 3447 (1992).
D. L. Ermack and J. A. McCammon: J. Chem. Phys. 69, 1352 (1978).
J. Ramstein and R. Lavery: Proc. Natl. Acad. Sci. USA 85, 7231 (1988).
F. Briki, J. Ramstein, R. Lavery, and D. Genest: J. Am. Chem. Soc. 113, 2490 (1991).
F. Briki and D. Genest: J. Molec. Struct. Dynam. 11, 43 (1993).
F. Briki and D. Genest: J. Molec. Struct. Dynam. in press.
J. L. Leroy: Regard sur la Biochimie 5, 57 (1990).
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© 1995 Springer Science+Business Media Dordrecht
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Briki, F., Ramstein, J., Lavery, R., Genest, D. (1995). Rotational Motions of Bases in DNA. In: Pullman, A., Jortner, J., Pullman, B. (eds) Modelling of Biomolecular Structures and Mechanisms. The Jerusalem Symposia on Quantum Chemistry and Biochemistry, vol 27. Springer, Dordrecht. https://doi.org/10.1007/978-94-011-0497-5_19
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DOI: https://doi.org/10.1007/978-94-011-0497-5_19
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