Nonlinear mechanical response of DNA due to anisotropic bending elasticity

European Physical Journal E

Volumn 12, Issue 4, 2003, Pages 599-604

  Mohammad Rafiee, F ^a   Golestanian, R ^a  

^a INSTITUTE FOR ADVANCED STUDIES IN BASIC SCIENCES IASBS   (Iran)

Author keywords

[No Author keywords available]

Indexed keywords

ANISOTROPY; BENDING (DEFORMATION); BIOMECHANICS; ELASTICITY; MOLECULAR STRUCTURE; RNA;

ANISOTROPIC BENDING ELASTICITY; BIOMOLECULES; DEFLECTION ANGLE; ELASTIC CONSTANTS; NONLINEAR MECHANICAL RESPONSE;

DNA;

DNA;

ANISOTROPY; ARTICLE; CHEMICAL STRUCTURE; CHEMISTRY; COMPARATIVE STUDY; COMPUTER SIMULATION; CONFORMATION; ELASTICITY; EVALUATION; MECHANICAL STRESS; METHODOLOGY; MICROMANIPULATION; NONLINEAR SYSTEM; STIMULATION; TORQUE; VALIDATION STUDY;

ANISOTROPY; COMPUTER SIMULATION; DNA; ELASTICITY; MICROMANIPULATION; MODELS, MOLECULAR; NONLINEAR DYNAMICS; NUCLEIC ACID CONFORMATION; PHYSICAL STIMULATION; STRESS, MECHANICAL; TORQUE;

EID: 1542375817     PISSN: 12928941     EISSN: None     Source Type: Journal    
DOI: 10.1140/epje/e2004-00032-5     Document Type: Article

References (39)

1. B. Alberts, A. Johnson, J. Lewis, M. Raff, K. Roberts, P. Walter, Molecular Biology of the Cell, 4th edn. (Garland, New York, 2002)
2. L. Stryer, Biochemistry, 4th edn. (Freeman, 1995)
3. S.A. Darst, E.W. Kubalek, R.D. Kornberg, Nature 340, 730 (1989)
4. A. Polyakov, E. Severinova, S.A. Darst, Cell 83, 365 (1995)
5. T.H. Tahirov, D. Temiakov, M. Anikin, V. Patlan, W.T. McAllister, D.G. Vassylyev, S. Yokoyama, Nature 420, 43 (2002)
6. L.S. Beese, V. Derbyshire, T.A. Steitz, Science 260, 352 (1993)
7. J.R. Kiefer, C. Mao, J.C. Braman, L.S. Beese, Nature 391, 304 (1998)
8. K. Luger, A.W. Mader, R.K. Richmond, D.F. Sargent, T.J. Richmond, Nature 389, 251 (1997)
9. T.J. Richmond, C.A. Davey, Nature 423, 145 (2003)
10. C.J. Benham, Biopolymers 22, 2477 (1983)
11. M. Le Bret, Biopolymers 23, 1835 (1984)
12. F. Tanaka, H. Takahash, J. Chem. Phys. 83, 6017 (1985)
13. H. Tsuru, M. Wadati, Biopolymers 25, 2083 (1986)
14. B. Fain, J. Rudnick, S. Östlund, Phys. Rev. E 55, 7364 (1997)
15. B. Fain, J. Rudnick, Phys. Rev. E 60, 7239 (1999)
16. R. Zandi, J. Rudnick, Phys. Rev. E 64, 051918 (2001)
17. J.F. Marko, E.D. Siggia, Phys. Rev. E 52, 2912 (1995)
18. C. Bouchiat, M. Mézard, Phys. Rev. Lett. 80, 1556 (1998)
19. C. Bouchiat, M. Mézard, Eur. Phys. J. E 2, 377 (2000)
20. S. Panyukov, Y. Rabin, Phys. Rev. Lett. 85, 2404 (2000)
21. S. Panyukov, Y. Rabin, Phys. Rev. E 62, 7135 (2000)
22. S. Panyukov, Y. Rabin, Europhys. Lett. 57, 512 (2002)
23. T. Schlick, W.K. Olson, Science 257, 1110 (1992)
24. W.K. Olson, Curr. Opin. Struc. Biol. 6, 242 (1996)
25. P. Auffinger, E. Westhof, Curr. Opin. Struct. Biol. 8, 227 (1998)
26. A. Balaeff, L. Mahadevan, K. Schulten, Phys. Rev. Lett. 83, 4900 (1999)
27. J.F. Marko, E.D. Siggia, Macromolecules 27, 981 (1994)
28. J.F. Marko, E.D. Siggia, Macromolecules 29, 4820(E) (1996)
29. R.D. Kamien, T.C. Lubensky, P. Nelson, C.S. O'Hern, Europhys. Lett. 38, 237 (1997)
30. T.B. Liverpool, R. Golestanian, K. Kremer, Phys. Rev. Lett. 80, 405 (1998)
31. R. Golestanian, T.B. Liverpool, Phys. Rev. E 62, 5488 (2000)
32. A. de Col, T.B. Liverpool, e-print cond-mat/0203561
33. L. Landau, E. Lifshitz, Theory of elasticity, 3rd edn. (Pergamon, 1986)
34. A.V. Vologodskii, S.D. Levene, K.V. Klenin, M. Frankkamenetskii, N.R. Cozzarelli, J. Mol. Biol. 227, 1224 (1992)
35. W.K. Olson, N.L. Marky, R.L. Jernigan, V.B. Zhurkin, J. Mol. Biol. 232, 530 (1993)
36. F. Mohammad-Rafiee, R. Golestanian, work in progress
37. For a similar argument in the case of force-extension curve for inhomogeneous DNA see: D. Bensimon, D. Dohm, M. Mezard, Europhys. Lett. 42, 97 (1998)
38. P. Nelson, Phys. Rev. Lett. 80, 5810 (1998)
39. C.S. O'Hern, R.D. Kamien, T.C. Lubensky, P. Nelson, Eur. Phys. J. B 1, 95 (1998)