Calculations of Electrostatic Energies in Photosynthetic Reaction Centers

Journal of the American Chemical Society

Volumn 117, Issue 49, 1995, Pages 12284-12298

  Alden, Rhett G ^a   Parson, William W ^a   Chu, Zhen Tao ^b   Warshel, Arieh ^b  

^a UNIVERSITY OF WASHINGTON   (United States)

^b UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 0029188718     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja00154a031     Document Type: Article

References (74)

1. Deisenhofer, J.; Michel, H. Science 1989, 245, 1463–1473.
2. Allen, J. P.; Feher, G.; Yeates, T. O.; Komiya, H.; Rees, D. C. Proc. Natl. Acad. Sci. U.S.A. 1987, 84, 6162–6166.
3. El-Kabbani, O.; Chang, C.-H.; Tiede, D.; Norris, J.; Schiffer, M. Biochemistry 1991, 30, 5361–5369.
4. Michel-Beyerle, M. E., Ed. Reaction Centers of Photosynthetic Bacteria; Springer-Verlag: New York, 1990; 469 pp.
5. Breton, J., Verméglio, A., Eds. The Photosynthetic Bacterial Reaction Center. II. Structure, Spectroscopy and Dynamics; Plenum Press: New York, 1992; 429 pp.
6. Deisenhofer, J., Norris, J. R., Eds. The Photosynthetic Reaction Center; Academic Press: New York, 1993; Vol. I, 432 pp.
7. Deisenhofer, J., Norris, J. R., Eds. The Photosynthetic Reaction Center; Academic Press: New York, 1993; Vol. II, 574 pp.
8. Creighton, S.; Hwang, J.-K.; Warshel, A.; Parson, W. W.; Norris, J. Biochemistry 1988, 27, 774–781.
9. Parson, W. W.; Chu, Z. T.; Warshel, A. Biochim. Biophys. Acta 1990, 1017, 251–272.
10. Warshel, A.; Chu, Z. T.; Parson, W. W. J. Photochem. Photobiol., A 1994, 82, 123–128.
11. Parson, W. W.; Warshel, A. In Anoxygenic Photosynthetic Bacteria; Blankenship, R. E., Madigan, M. T., Bauer, C. E., Eds.; Kluyer Academic Publishers: Amsterdam, 1994; pp 559–575.
12. Alden, R. G.; Parson, W. W.; Chu, Z. T.; Warshel, A. In Reaction Centers of Photosynthetic Bacteria. Structure and Dynamics; Michel-Beyerle, M. E., Ed.; Springer-Verlag: Berlin, 1995; in press.
13. Marchi, M.; Gehlen, J. N.; Chandler, D.; Newton, M. J. J. Am. Chem. Soc. 1993, 115, 4178–4190.
14. Woodbury, N. W. T.: Parson, W. W. Biochim. Biophys. Acta 1984, 767, 345–361.
15. Chidsey, C. E. D.; Takif, L.; Boxer, S. G. Proc. Natl. Acad. Sci. U.S.A. 1985, 82, 6850–6854.
16. Horber, J. K. H.; Gobel, W.: Ogrodnik, A.; Michel-Beyerle, M. E.; Cogdel, R. J. FEBS Lett. 1986, 198, 273–278.
17. Williams, J. C.; Alden, R. G.: Murchison, H. A.: Peloquin, J. M.; Woodbury, N. W.; Allen, J. P. Biochemistry 1992, 31, 11029–11037.
18. Woodbury, N. W. T.; Parson, W. W.; Gunner, M. R.; Prince, R. C.; Dutton, P. L. Biochim. Biophys. Acta 1986, 851, 6–22.
19. Scherer, P. O. J.; Fischer, S. F. Chem. Phys. 1989, 131, 115–127.
20. Thompson, M. A.; Zerner, M. C. J. Am. Chem. Soc. 1991, 113, 8210–8215.
21. Warshel, A.; Russell, S. T. Q. Rev. Biophys. 1984, 17, 283–422.
22. Russell, S. T.; Warshel, A. J. Mol. Biol. 1985, 185, 389–404.
23. Warshel, A.; Aqvist, J. Annu. Rev. Biophys. Biophys. Chem. 1991, 20, 267–298.
24. King, G.; Lee, F. S.; Warshel, A. J. Chem. Phys. 1991, 95, 4366–4377.
25. Luzhkov, V.; Warshel, A. J. Comput. Chem. 1991, 13, 199–213.
26. Lee, F. S.; Chu, Z.-T.; Warshel, A. J. Comput. Chem. 1993, 14, 161–185.
27. Warshel, A.; Sussman, F.; King, G. Biochemistry 1986, 25, 8368–8372.
28. Warshel, A.; Parson, W. W. Annu. Rev. Phys. Chem. 1991, 42, 279–309.
29. Langen, R.; Brayer, G. D.; Berghuis, A. M.; McLendon, G.; Sherman, F.; Warshel, A. J. Mol. Biol. 1992, 224, 589–600.
30. Beveridge, D. L.; DiCapua, M. M. Annu. Rev. Biophys. Biophys. Chem. 1989, 18, 431–492.
31. Smith, P. E.; Pettit, B. M. J. Phys. Chem. 1994, 98, 9700–9711.
32. Sharp, K.; Honig, B. Annu. Rev. Biophys. Biophys. Chem. 1990, 19, 301–332.
33. Sharp, K. J. Comput. Chem. 1991, 12, 454–468.
34. You, T. J.; Harvey, S. C. J. Comput. Chem. 1993, 14, 484–501.
35. Roth, M.; Lewit-Bentley, A.; Michel, H.; Deisenhofer, J.; Huber, R. Nature 1989, 340, 659–662.
36. Yeates, T. O.; Komiya, H.; Rees, D.; Allen, J. P.; Feher, G. Proc. Natl. Acad. Sci. U.S.A. 1987, 84, 6438–6442.
37. Lee, F. S.; Warshel, A. J. Chem. Phys. 1992, 97, 3100–3107.
38. Klein, B. J.; Pack, G. R. Biopolymers 1983, 22, 2331–2352.
39. Warshel, A. J. Phys. Chem. 1982, 86, 2218–2224.
40. Warshel, A.; Hwang, J.-K. J. Chem. Phys. 1986, 84, 4938–4957.
41. Hwang, J.-K.; Warshel, A. J. Am. Chem. Soc. 1987, 109, 715–720.
42. Hwang, J.-K.; King, G.; Creighton, S.; Warshel, A. J. Am. Chem. Soc. 1988, 110, 5297–5311.
43. King, G.; Warshel, A. J. Chem. Phys. 1990, 93, 8682–8692.
44. Beroza, P.; Fredkin, D. R.; Okamura, M. Y.; Feher, G. Proc. Natl. Acad. Sci. U.S.A. 1991, 88, 5804–5808.
45. Yang, A.-S.; Gunner, M. R.; Sampogna, R.; Sharp, K.; Honig, B. Proteins: Struct., Funct., Genet. 1993, 15, 252–265.
46. Gunner, M. R.; Honig, B. In The Photosynthetic Bacterial Reaction Center. II. Structure, Spectroscopy and Dynamics; Breton, J., Verméglio, A., Eds.; Plenum Press: New York, 1992; pp 403–410.
47. Vos, M. H.; Lambry, J.-C., Robles, S. J.; Youvan, D. C.; Breton, J.; Martin, J.-L. Proc. Natl. Acad. Sci. USA 1991, 88, 8885–8889.
48. Vos, M. H.; Jones, M. R.; Hunter, C. N.; Breton, J.; Lambry, J.-C.; Martin, J.-L. Biochemistry 1994, 33, 6750–6757.
49. Peloquin, J. M.; Williams, J. C.; Lin, X.; Alden, R. G.; Taguchi, A. K.; Allen, J. P.; Woodbury, N. W. Biochemistry 1994, 33, 8089–8100.
50. Komiya, H.; Yeates, T. O.; Rees, D. C.; Allen, J. P.; Feher, G. Proc. Natl. Acad. Sci. U.S.A. 1988, 85, 9012–9016.
51. Fajer, J.; Borg, D. C.; Forman, A.; Dolphin, D.; Felton, R. H. J. Am. Chem. Soc. 1973, 95, 2739–2740.
52. Fajer, J.; Davis, M. S.; Brune, D. C.; Spaulding, L. D.; Borg, D. C.; Forman, A. Brookhaven Symp. Biol. 1976, 28, 74–103.
53. Beroza, P.; Fredkin, D. R.; Okamura, M. Y.; Feher, G. In The Photosynthetic Reaction Center II, Breton, J., Verméglio, A., Eds.; Plenum Press: New York, 1992; pp 363–374.
54. Parson, W. W.; Creighton, S.; Warshel, A. In Primary Processes in Photobiology; Kobayashi, T., Ed.; Springer-Verlag: Berlin, 1987; pp 43–51.
55. Warshel, A.; Creighton, S.; Parson, W. W. J. Phys. Chem. 1988, 92, 2696–2701.
56. Scherer, P. O. J.; Fischer, S. F. Chem. Phys. 1987, 115, 151–158.
57. Scherer, P. O. J.; Fischer, S. F. Chem. Phys. 1989, 131, 115–127.
58. Scherer, P. O. J.; Fischer, S. F. J. Phys. Chem. 1989, 93, 1633–1637.
59. Plato, M.; Winscom, C.J. In The Photosynthetic Reaction Center; Breton, J., Verméglio, A., Eds.; Plenum Press: New York, 1988; pp 421–424.
60. Gunner, M. R.; Nicholls, A.; Honig, B. Submitted for publication.
61. Russell, A. J.; Thomas, P. G.; Fersht, A. R. J. Mol. Biol. 1987, 193, 803–813.
62. Cutler, R. L.; Davies, A. M.; Creighton, S.; Warshel, A.; Moore, G. R.; Smith, M.; Mauk, A. G. Biochemistryy 1989, 28, 3188–3197.
63. Bashford, D.; Karplus, M. Biochemistry 1990, 29, 10219–10225.
64. Antosiewicz, J.; McCammon, A.; Gilson, M. K. J. Mol. Biol. 1994, 238, 415–436.
65. Woodbury, N. W.; Becker, M.; Middendorf, D.; Parson, W. W. Biochemistry 1985, 24, 7516–7521.
66. Woodbury, N. W.; Parson, W. W.; Gunner, M. R.; Prince, R. C.; Dutton, P. L. Biochim. Biophys. Acta 1986, 851, 6–22.
67. Martin, J.-L.; Breton, J.; Hoff, A. J.; Migus, A.; Antonetti, A. Proc. Natl. Acad. Sci. U.S.A. 1986, 83, 957–961.
68. Warshel, A.; Lappicirella, V. A. J. Am. Chem. Soc. 1981, 103, 4664–4673.
69. Steffen, M.; Lao, K.; Boxer, S. G. Science 1994, 264, 810–816.
70. Middendorf, T. R.; Mazzola, L. T.; Lao, K., Steffen, M. A.; Boxer, S. G. Biochim. Biophys. Acta 1993, 1143, 223–234.
71. Noyes, R. M. J. Am. Chem. Soc. 1962, 84, 513–522.
72. Rossinsky, D. R. Chem. Rev. 1965, 65, 467–490.
73. Miller, W. A.; Watts, D. W. J. Am. Chem. Soc. 1967, 89, 6051–6056.
74. Friedman, H. L.; Krishann, C. V. In Water- A Comprehensive Treatise; Franks, F., Ed.; Plenum Press: New York, 1973; Vol. 3, pp 1–118.