Quantum dynamics of the femtosecond photoisomerization of retinal in bacteriorhodopsin

Faraday Discussions

Volumn 110, Issue , 1998, Pages 447-462

  Ben Nun, M ^a   Molnar, Ferenc ^a   Lu, Hui ^a,b   Phillips, James C ^a   Martínez, Todd J ^a   Schulten, Klaus ^a  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

^b University of Illinois at Urbana Champaign   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; BACTERIORHODOPSIN; PROTON; RETINAL;

ARTICLE; CHEMISTRY; ISOMERISM; PROTEIN CONFORMATION;

BACTERIAL PROTEINS; BACTERIORHODOPSINS; ISOMERISM; PROTEIN CONFORMATION; PROTONS; RETINALDEHYDE;

EID: 0032228252     PISSN: 13596640     EISSN: None     Source Type: Journal    
DOI: 10.1039/a801310a     Document Type: Article

References (58)

1. R. H. Lozier, R. A. Bogomolni and W. Stoeckenius, Biophys. J., 1975, 15, 955.
2. R. A. Mathies, S. W. Lin, J. B. Ames and W. T. Pollard, Annu. Rev. Biochem. Bioeng., 1991, 20, 491.
3. J. K. Lanyi, J. Bioenerg. Biomemb., 1992, 24, 169.
4. D. Oesterhelt, J. Tittor and E. Bamberg, J. Bioenerg. Biomemb., 1992, 24, 181.
5. T. Ebrey, in Thermodynamics of Membranes, Receptors and Channels, ed. M. Jacobson, CRC Press, New York, 1993, p. 353.
6. K. Schulten, W. Humphrey, I. Logunov, M. Sheves and D. Xu, Israel J. Chem., 1995, 35, 447.
7. R. Henderson, J. M. Baldwin, T. A. Ceska, F. Zemlin, E. Beckmann and K. H. Downing, J. Mol. Biol., 1990, 213, 899.
8. N. Grigorieff, T. Ceska, D. Downing, J. Baldwin and R Henderson, J. Mol. Biol., 1996, 259, 393.
9. E. Pebay-Peyroula, G. Rummel, J. Rosenbusch and E. Landau, Science, 1997, 277, 1676.
10. Y. Kimura, D. Vassylyev, A. Miyazawa, A. Kidera, M. Matsushima, K. Mitsuoka, K. Murata, T. Hirai and Y. Fujiyoshi, Nature (London), 1997, 389, 206.
11. W. Humphrey, I. Logunov, K Schulten and M. Sheves, Biochemistry, 1994, 33, 3668.
12. D. Xu, C. Martin and K. Schulten, Biophys. J., 1996, 70, 453.
13. S. J. Doig, P. J. Reid and R. A. Mathies, J. Phys. Chem., 1991, 95, 6372.
14. B. S. Hudson, B. E. Kohler and K. Schulten, in Excited States, ed. E. C. Lim, Academic Press, New York, 1982, vol. 6, p.1.
15. P. Tavan and K. Schulten, Phys. Rev. B, 1987, 36, 4337.
16. K. Schulten, U. Dinur, and B. Honig, J. Chem. Phys., 1980, 73, 3927.
17. J. Mavri, H. J. C. Berendsen and W. F. V. Gunsteren, J. Phys. Chem., 1993, 97, 13469.
18. W. Humphrey, H. Lu, I. Logunov, H. J. Werner and K. Schulten, to be published.
19. U. Genick, G. Borgstahl, K. Ng, Z. Ren, C. Pradervand, P. Burke, V. Srajer, T-T. Teng, W. Schildkamp, D. McRee, K. Moffat and E. Getzoff, Science, 1997, 275, 1471.
20. R. Kosloff, Annu. Rev. Phys. Chem., 1994, 45, 145.
21. T. J. Martínez, M. Ben-Nun and G. J. Ashkenazi, J. Chem. Phys., 1996, 104, 2847.
22. T. J. Martínez, M. Ben-Nun and R. D. Levine, J. Phys. Chem., 1996, 100, 7884.
23. M. Ben-Nun, T. J. Martínez and R. D. Levine, J. Phys. Chem. A, 1997, 101, 7522.
24. T. J. Martínez, M. Ben-Nun and R. D. Levine, J. Phys. Chem. A, 1997, 101, 6389.
25. M. Ben-Nun and T. J. Martínez, J. Chem. Phys., 1998, 108, 7244.
26. J. C. Tully and R. K. Preston, J. Chem. Phys., 1971, 55, 562.
27. J. C. Tully, J. Chem. Phys., 1990, 93, 1061.
28. N. C. Biais and D. G. Truhlar, J. Chem. Phys., 1983, 79, 1334.
29. P. Pechukas, Phys. Rev., 1969, 181, 174.
30. F. J. Webster, P. J. Rossky and R. A. Friesner, Comput. Phys. Commun., 1991, 63, 494.
31. F. J. Webster, E. T. Wang, P. J. Rossky and R. A. Friesner, J. Phys. Chem., 1994, 104, 4835.
32. G. D. Billing, Int. Rev. Phys. Chem., 1994, 13, 309.
33. H. D. Meyer and W. H. Miller, J. Chem. Phys., 1979, 70, 3214.
34. H. D. Meyer and W. H. Miller, J. Chem. Phys., 1980, 72, 2272.
35. M. Ben-Nun, T. J. Martínez and R. D. Levine, Chem. Phys. Lett., 1997, 279, 319.
36. T. J. Martínez, Chem. Phys. Lett., 1997, 272, 139.
37. T. J. Martínez and R. D. Levine, J. Chem. Phys., 1996, 105, 6334.
38. T. J. Martínez and R. D. Levine, Chem. Phys. Lett., 1996, 259, 252.
39. M. Ben-Nun and R. D. Levine, Chem. Phys., 1995, 201, 163.
40. M. Ben-Nun, R. D. Levine and G. R. Fleming, J. Chem. Phys., 1996, 105, 3035.
41. E. J. Heller, J. Chem. Phys., 1975, 62, 1544.
42. M. Klessinger and J. Michl, Excited States and Photochemistry of Organic Molecules, VCH, New York, 1995.
43. D. R. Yarkony, J. Chem. Phys., 1996, 100, 18612.
44. M. F. Herman, J. Chem. Phys., 1984, 81, 754.
45. V. Bonacic-Koutecky, K. Schoffel and J. Michl, Theoret. Chim. Acta, 1987, 72, 459.
46. M. Garavelli, P. Celani, F. Bernardi, M. A. Robb and M. J. Olivucci, J. Am. Chem. Soc., 1997, 119, 6891.
47. G. Schneider, R. Diller and M. Stockburger, Chem. Phys., 1989, 131, 17.
48. R. Govindjee, S. P. Balashov and T. G. Ebrey, Biophys. J., 1990, 58, 597.
49. S. Logunov, M. El-Sayed and L. Song, J. Phys. Chem., 1996, 100, 2391.
50. S. Logunov, M. El-Sayed and J. Lanyi, Biophys. J., 1996, 70, 2875.
51. W. C. Swope, H C. Andersen, P. H. Berens and K. R. Wilson, J. Chem. Phys., 1982, 76, 637.
52. B. R. Brooks, R. E. Bruccoleri, B. D. Olafson, D. J. States, S. Swaminathan and M. Karplus, J. Comput. Chem., 1983, 4, 187.
53. T. J. Martinez and R. D. Levine, J. Chem. Soc., Faraday Trans., 1997, 93, 940.
54. M. Nelson, W. Humphrey, A. Gursoy, A. Dalke, L. Kalé, R. D. Skeel and K. Schulten, J. Super-computing App., 1996, 10, 251.
55. J. C. Phillips, R. Brunner, A. Shinozaki, M. Bhandarkar, N. Krawetz, L. Kalé, R. D. Skeel and K. Schulten, in Algorithms for Macromolecular Modelling, ed. P. Deuflhard, J. Hermans, B. Leimkuhler, A. Mark, R. D. Skeel and S. Reich, Lecture Notes in Computational Science and Engineering, Springer-Verlag, in press.
56. W. Humphrey, E. Bamberg and K. Schulten, Biophys. J., 1997, 72, 1347
57. G. Nagel, B. Kelety, B. Mockel, G. Buldt and E. Bomberg, Biophys. J., 1998, 74, 403.
58. W. F. Humphrey, A. Dalke and K. Schulten, J. Mol. Graphics, 1996, 14, 33.