Modeling the effects of mutations on the free energy of the first electron transfer from Q(A)- to Q(B) in photosynthetic reaction centers

Biochemistry

Volumn 39, Issue 20, 2000, Pages 5940-5952

  Alexov, E ^a   Miksovska, J ^b   Baciou, L ^b   Schiffer, M ^c   Hanson, D K ^c   Sebban, P ^b   Gunner, M R ^a  

^a CITY COLLEGE OF NEW YORK   (United States)

^b CNRS   (France)

^c ARGONNE NATIONAL LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; ASPARTIC ACID; BACTERIAL PROTEIN; HYDROXYL GROUP; POLYPEPTIDE; WATER;

ARTICLE; CHEMICAL MUTAGENESIS; CHEMICAL REACTION KINETICS; DNA MODIFICATION; ELECTRON TRANSPORT; ENERGY; IONIZATION; MATHEMATICAL ANALYSIS; NONHUMAN; PH; PHOTOSYNTHESIS; PRIORITY JOURNAL; RHODOBACTER CAPSULATUS; RHODOBACTER SPHAEROIDES;

ALANINE; ARGININE; ASPARAGINE; ASPARTIC ACID; ELECTRON TRANSPORT; ELECTROSTATICS; ENERGY TRANSFER; GLUTAMIC ACID; GLUTAMINE; LEUCINE; MODELS, CHEMICAL; MUTAGENESIS, SITE-DIRECTED; PHOTOSYNTHETIC REACTION CENTER COMPLEX PROTEINS; QUINONES; RHODOBACTER CAPSULATUS; RHODOBACTER SPHAEROIDES; THERMODYNAMICS; WATER;

EID: 0034705023     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi9929498     Document Type: Article

References (72)

1. Li, J., Gilroy, D., Tiede, D. M., and Gunner, M. R. (1998) Biochemistry 37, 2818-2829.
2. Tiede, D. M., Vazquez, J., Cordova, J., and Marone, A. P. (1996) Biochemistry 35, 10763-10775.
3. Graige, M. S., Feher, G., and Okamura, M. Y. (1998) Proc. Natl. Acad. Sci. U.S.A. 95, 11679-11684.
4. Lavergne, J., Matthews, C., and Ginet, N. (1999) Biochemistry 38, 4542-4552.
5. Maroti, P., and Wraight, C. A. (1988) Biochim. Biophys. Acta 934, 329-347.
6. McPherson, P. H., Okamura, M. Y., and Feher, G. (1988) Biochim. Biophys. Acta 934, 348-368.
7. Wraight, C. A. (1979) Photochem. Photobiol. 30, 767-776.
8. Wraight, C. A. (1998) in Proceedings of the XIth International Photosynthesis Congress (Garab, G., Ed.) pp 693-698, Kluwer, Dordrecht.
9. Stowell, M. H. B., McPhillips, T. M., Rees, D. C., Soltis, S. M., Abresch, E., and Feher, G. (1997) Science 276, 812-816.
10. Lancaster, R., and Michel, H. (1997) Structure 5, 1339-1359.
11. Deisenhofer, J., and Michel, H. (1991) Annu. Rev. Biophys. Chem. 20, 247-266.
12. Ermler, U., Fritzsch, G., Buchanan, S. K., and Michel, H. (1994) Structure 2, 925-936.
13. Deisenhofer, J., and Michel, H. (1989) EMBO J. 8, 2149-2170.
14. Williams, J. C., Steiner, L. A., and Feher, G. (1986) Proteins 1, 312-325.
15. El-Kabbani, O., Chang, C.-H., Tiede, D., Norris, J., and Schiffer, M. (1990) Biochemistry 30, 5361-5369.
16. Foloppe, N., Ferrand, M., Breton, J., and Smith, J. C. (1995) Proteins: Struct., Funct., Genet. 22, 226-244.
17. Gunner, M. R. (1991) Curr. Top. Bioenerg. 16, 319-367.
18. Okamura, M. Y., and Feher, G. (1992) Annu. Rev. Biochem. 61, 861-896.
19. Takahashi, E., and Wraight, C. A. (1994) Adv. Mol. Cell Biol. 10, 197-251.
20. Sebban, P., Maroti, P., and Hanson, D. K. (1995) Biochimie 77, 677-694.
21. Blankenship, R. E., Madigan, M. T., and Bauer, C. E. (1995) Anoxygenic Photosynthetic Bacteria, Vol. 2, Kluwer Academic Publishers.
22. Sham, Y. Y., Muegge, I., and Warshel, A. (1999) Proteins: Struct., Funct., Genet. 36, 484-500.
23. Beroza, P., Fredkin, D. R., Okamura, M. Y., and Feher, R. (1995) Biophys. J. 68, 2233-2250.
24. Lancaster, C. R. D., Michel, H., Honig, B., and Gunner, M. R. (1996) Biophys. J. 70, 2469-2492.
25. Alexov, E., and Gunner, M. (1999) Biochemistry 38, 8253-8270.
26. Gunner, M. R., and Honig, B. (1992) in The Photosynthetic Bacterial Reaction Center: Structure, Spectroscopy and Dynamics II (Breton, J., and Vermeglio, A., Eds.) pp 403-410, Plenum, New York.
27. Rabenstein, B., Ullmann, G. M., and Knapp, E.-W. (1998) Eur. Biophys. J. 27, 626-637.
28. Baptista, A. M., Martel, P. J., and Peterson, S. B. (1997) Proteins: Struct., Funct., Genet. 27, 523-544.
29. Spassov, V. Z., and Bashford, D. (1999) J. Comput. Chem. 20, 1091-1111.
30. Alexov, E. G., and Gunner, M. R. (1997) Biophys. J. 72, 2075-2093.
31. Maroti, P., Hanson, D. K., Baciou, L., Schiffer, M., and Sebban, P. (1994) Proc. Natl. Acac. Sci. USA 91, 5617-5621.
32. Paddock, M. L., Feher, G., and Okamura, M. Y. (1997) Biochemistry 36, 14238-14249.
33. Takahashi, E., and Wraight, C. A. (1992) Biochemistry 31, 855-866.
34. Takahashi, E., and Wraight, C. A. (1990) Biochim. Biophys. Acta 1020, 107-111.
35. Paddock, M. L., Rongey, S. H., McPherson, P. H., Juth, A., Feher, G., and Okamura, M. Y. (1994) Biochemistry 33, 734-745.
36. McPherson, P. H., Schonfeld, M., Paddock, M. L., Okamura, M. Y., and Feher, G. (1994) Biochemistry 33, 1181-1193.
37. Paddock, M. L., Rongey, S. H., Feher, G., and Okamura, M. Y. (1989) Proc. Natl. Acad. Sci. U.S.A. 86, 6602-6606.
38. Miksovska, J., Kalman, L., Schiffer, M., Maroti, P., Sebban, P., and Hanson, K. (1997) Biochemistry 36, 12216-12226.
39. Hienerwadel, R., Grzybek, S., Fogel, C., Kreutz, W., Okamura, M. Y., Paddock, M. L., and Breton, J. (1995) Biochemistry 34, 2832-2843.
40. Miksovska, J., Maroti, P., Tandori, J., Schiffer, M., Hanson, D. K., and Sebban, P. (1996) Biochemistry 35, 15411-15417.
41. Maroti, P., Hanson, D. K., Schiffer, M., and Sebban, P. (1995) Nat. Struct. Biol. 2, 1057-1059.
42. Nabedryk, E., Brenton, J., Hienderwadel, R., Fogel, C., Mantele, W., Paddock, M. L., and Okamura, M. Y. (1995) Biochemistry 34, 14722-14732.
43. Nabedryck, E. (1999) Biochimic. Biophys. Acta 1411, 206-213.
44. Sebban, P., Maroti, P., Schiffer, M., and Hanson, D. K. (1995) Biochemistry 34, 8390-8397.
45. Hanson, D. K., Tiede, D. M., Nance, S. L., Chang, C., and Schiffer, M. (1993) Proc. Natl. Acad. Sci. U.S.A. 90, 8929-8933.
46. Takahashi, E., and Wraight, C. A. (1996) Proc. Natl. Acad. Sci. USA 93, 2640-2645.
47. Roussel, A., and Cambillan, C. (1991) Turbo-Frodo, Vol. 86, Mountain View, CA.
48. Dunbrack, R. L., and Karplus, M. (1994) Nat. Struct. Biol. 1, 334-340.
49. Dunbrack, R. L., and Cohen, F. E. (1997) Protein Sci. 6, 1661-1681.
50. Bharadwaj, R., Windemuth, A., Sridharan, S., Honig, B., and Nicholls, A. (1995) J. Comput. Chem. 16, 898-913.
51. Nicholls, A., and Honig, B. (1991) J. Comput. Chem. 12, 435-445.
52. Sitkoff, D., Sharp, K. A., and Honig, B. (1994) J. Phys. Chem. 98, 1978-1988.
53. Parson, W. W., Chu, Z.-T., and Warshel, A. (1990) Biochim. Biophys. Acta 1017, 251-272.
54. Wolfenden, R., and Radzicka, A. (1994) Science 265, 936-937.
55. Kleinfeld, D., Okamura, M. Y., and Feher, G. (1982) Biophys. J. 37, 110a.
56. Hanson, D. K., Baciou, L., Tiede, D. M., Nance, M., Schiffer, M., and Sebban, P. (1992) Biochim. Biophys. Acta 1102, 260-265.
57. Wraight, C. A. (1979) Biochim. Biophys. Acta 548, 309-327.
58. Kleinfeld, D., Okamura, M. Y., and Feher, G. (1984) Biochim. Biophys. Acta 766, 126-140.
59. Labahn, A., Bruce, J. M., Okamura, M. Y., and Feher, G. (1995) Chem. Phys. 97, 355-366.
60. Labahn, A., Paddok, M. L., McPherson, P. H., Okamura, M. Y., and Feher, G. (1994) J. Phys. Chem. 98, 3417-3423.
61. Paddock, M. L., Axelrod, H. L., Abresch, E. C., Yeh, A. P., Rees, D. C., Feher, D. C., and Okamura, M. Y. (1999) Biophysical 76, A141.
62. Abresch, E. C., Paddock, M. L., Stowell, M. H. B., McPhillips, T. M., Axelrod, H. L., Soltis, S. M., Rees, D. C., Okamura, M. Y., and Feher, G. (1998) Photosynth. Res. 55, 119-125.
63. Paddock, M. L., Graige, M. S., Feher, G., and Okamura, M. Y. (1999) Proc. Natl. Acad. Sci. U.S.A. 96, 6183-6188.
64. Tandori, J., Sebban, P., Michel, U., and Baciou, L. (1999) Biochemistry 38, 13179-13187.
65. Paddock, M. L., Feher, G., and Okamura, M. Y. (1995) Biochemistry 34, 15742-15750.
66. Warshel, A., and Papazyan, A. (1998) Current Opinion in Structural Biology 8, 211-217.
67. Honig, B., and Nicholls, A. (1995) Science 268, 1144-1149.
68. Nakamura, H. (1996) Quart. Rev. Biophys. 29, 1-90.
69. You, T. J., and Bashford, D. (1995) Biophys. J. 69, 1721-1733.
70. Ripoll, D. R., Vorobjev, Y. N., Liwo, A., Vila, J. A., and Scheraga, H. A. (1996) J. Mol. Biol. 264, 770-783.
71. Zhou, H., and Vijayakumar, M. (1997) J. Mol. Biol. 267, 1002-1011.
72. Beroza, P., and Case, D. (1996) J. Phys. Chem. 100, 20156-20163.