Electron Transfer from HiPIP to the Photooxidized Tetraheme Cytochrome Subunit of Allochromatium vinosum Reaction Center: New Insights from Site-Directed Mutagenesis and Computational Studies

Biochemistry

Volumn 43, Issue 2, 2004, Pages 437-445

  Venturoli, Giovanni ^a,b   Mamedov, Mahir D ^c   Mansy, Sheref S ^d   Musiani, Francesco ^a   Strocchi, Massimo ^a   Francia, Francesco ^a   Semenov, Alexey Yu ^c   Cowan, James A ^d   Ciurli, Stefano ^a  

^a UNIVERSITY OF BOLOGNA   (Italy)

^b UdR di Bologna   (Italy)

^c MOSCOW STATE UNIVERSITY   (Russian Federation)

^d OHIO STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ABSORPTION SPECTROSCOPY; BACTERIA; CHLOROPHYLL; COMPUTATIONAL METHODS; IONIC STRENGTH; RATE CONSTANTS; SUBSTITUTION REACTIONS;

REDOX POTENTIAL;

MUTAGENESIS;

ARGININE; AROMATIC AMINO ACID; ASPARTIC ACID; BACTERIOCHLOROPHYLL; CYTOCHROME C; HEME; HISTIDINE; IRON SULFUR PROTEIN; PHENYLALANINE DERIVATIVE; POTASSIUM CHLORIDE; PROTEIN SUBUNIT; TRYPTOPHAN; TYROSINE;

ABSORPTION SPECTROSCOPY; ALLOCHROMATIUM VINOSUM; AMINO ACID SUBSTITUTION; ANALYTIC METHOD; ARTICLE; BACTERIUM; CALCULATION; COMPLEX FORMATION; CONTROLLED STUDY; ELECTRON TRANSPORT; ENVIRONMENTAL TEMPERATURE; HYDROPHOBICITY; IONIC STRENGTH; KINETICS; MOLECULAR INTERACTION; MOLECULAR MODEL; NONHUMAN; OXIDATION REDUCTION REACTION; PHOTOOXIDATION; PHOTOSYNTHESIS; PRIORITY JOURNAL; PROTEIN DOCKING; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN STRUCTURE; SITE DIRECTED MUTAGENESIS;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; COMPUTATIONAL BIOLOGY; CONSERVED SEQUENCE; CYTOCHROME C GROUP; ELECTROCHEMISTRY; ELECTRON TRANSPORT; IRON-SULFUR PROTEINS; KINETICS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; OXIDATION-REDUCTION; PHENYLALANINE; PHOTOSYNTHETIC REACTION CENTER COMPLEX PROTEINS; PROTEIN INTERACTION MAPPING; PROTEIN SUBUNITS; PROTEOBACTERIA; SEQUENCE ALIGNMENT;

ALLOCHROMATIUM; ALLOCHROMATIUM VINOSUM; BACTERIA (MICROORGANISMS);

EID: 0347724025     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi035384v     Document Type: Article

References (75)

1. Axelrod, H. L., Abresch, E. C., Okamura, M. Y., Yeh, A. P., Rees, D., and Feher, G. (2002) J. Mol. Biol. 319, 501-515.
2. Deisenhofer, J., Epp, O., Miki, K., Huber, R., and Michel, H. (1984) J. Mol. Biol. 180, 385-398.
3. Deisenhofer, J., and Michel, H. (1989) Science 245, 1463-1473.
4. Dracheva, S. M., Drachev, L. A., Konstantinov, A. A., Semenov, A. Y., Skulachev, V. P., Arutjunjan, A. M., Shuvalov, V. A., and Zaberezhnaya, S. M. (1988) Eur. J. Biochem. 171, 253-264.
5. Nitschke, W., and Rutherford, A. W. (1989) Biochemistry 28, 3161-3168.
6. Nagashima, K. V. P., Sakuragi, Y., Shimada, K., and Matsuura, K. (1998) Photosynth. Res. 55, 349-355.
7. Dracheva, S. M., Drachev, L. A., Zaberezhnaya, S. M., Konstantinov, A. A., Semenov, A. Y., and Skulachev, V. P. (1986) FEBS Lett. 205, 41-46.
8. Ortega, J. M., and Mathis, P. (1993) Biochemistry 32, 1141-1151.
9. Meyer, T. E., and Donohue, T. J. (1995) in Anoxygenic Photosynthetic Bacteria (Blankenship, R. E., Madigan, M. T., and Bauer, C. E., Eds.) pp 725-745, Kluwer Academic Publishers, Dordrecht.
10. Carter, C. W., Jr. (2001) in Handbook of Metalloproteins (Messerschmidt, A., Huber, R., Wieghardt, K., and Poulos, T., Eds.) pp 602-609, John Wiley, Chichester, UK.
11. Luchinat, C., Capozzi, F., Borsari, M., Battistuzzi, G., and Sola, M. (1994) Biochem. Biophys. Res. Commun. 203, 436-442.
12. Banci, L., Bertini, I., Ciurli, S., Luchinat, C., and Pierattelli, R. (1995) Inorg. Chim. Acta 240, 251-256.
13. Heering, H. A., Bulsink, Y. B. M., Hagen, W. R., and Meyer, T. E. (1995) Biochemistry 34, 14675-14686.
14. Carter, C. W., Jr., Kraut, J., Freer, S. T., Alden, R. A., Sieker, L. C., Adman, E., and Jensen, L. H. (1972) Proc. Natl. Acad. Sci. U.S.A. 69, 3526-3529.
15. Carter, C. W., Jr., Kraut, J., Freer, S. T., and Alden, R. A. (1974) J. Biol. Chem. 249, 6339-6346.
16. Carter, C. W. J., Kraut, J., Freer, S. T., Xuong, N.-H., Alden, R. A., and Bartsch, R. G. (1974) J. Biol. Chem. 249, 4212-4215.
17. Freer, S. T., Alden, R. A., Carter, C. W., Jr., and Kraut, J. (1975) J. Biol. Chem. 250, 46-54.
18. Parisini, E., Capozzi, F., Lubini, P., Lamzin, V., Luchinat, C., and Sheldrick, G. M. (1999) Acta Crystallogr. D55, 1773-1784.
19. Breiter, D. R., Meyer, T. E., Rayment, I., and Holden, H. M. (1991) J. Biol. Chem. 266, 18660-18667.
20. Rayment, I., Wesemberg, G., Meyer, T. E., Cusanovich, M. A., and Holden, H. M. (1992) J. Mol. Biol. 228, 672-686.
21. Benning, M. M., Meyer, T. E., Rayment, I., and Holden, H. M. (1994) Biochemistry 33, 2476-2483.
22. Kerfeld, C. A., Salmeen, A. E., and Yeates, T. O. (1998) Biochemistry 37, 13911-13917.
23. Nogi, T., Fathir, I., Kobayashi, M., Nozawa, T., and Miki, K. (2000) Proc. Natl. Acad. Sci. U.S.A. 97, 13561-13566.
24. Liu, L., Nogi, T., Kobayashi, M., Nozawa, T., and Miki, K. (2002) Acta Crystallogr. D58, 1085-1091.
25. Gonzalez, A., Benini, S., and Ciurli, S. (2003) Acta Crystallogr. Sect. D 59, 1582-1588.
26. Bartsch, R. G. (1991) Biochim. Biophys. Acta 1058, 28-30.
27. Kennel, S. J., Bartsch, R. G., and Kamen, M. D. (1972) Biophys. J. 12, 882-896.
28. Evans, M. C. W., Lord, A. V., and Reeves, S. G. (1974) Biochem. J. 138, 177-183.
29. Hochkoeppler, A., Ciurli, S., Venturoli, G., and Zannoni, D. (1995) FEBS Lett. 357, 70-74.
30. Hochkoeppler, A., Kofod, P., Ferro, G., and Ciurli, S. (1995) Arch. Biochem. Biophys. 322, 313-318.
31. Schoepp, B., Parot, P., Menin, L., Gaillard, J., Richaud, P., and Vermeglio, A. (1995) Biochemistry 34, 11736-11742.
32. Hochkoeppler, A., Ciurli, S., Zannoni, D., Meyer, T. E., Cusanovich, M. A., and Tollin, G. (1996) Proc. Natl. Acad. Sci. U.S.A. 93, 6998-7002.
33. Menin, L., Schoepp, B., Parot, P., and Vermeglio, A. (1997) Biochemistry 36, 12183-12188.
34. Menin, L., Gaillard, J., Parot, P., Schoepp, B., Nitschke, W., and Vermeglio, A. (1998) Photosynth. Res. 55, 343-348.
35. Osyczka, A., Nagashima, K. V. P., Shimada, K., and Matsuura, K. (1999) Biochemistry 38, 2861-2865.
36. Osyczka, A., Nagashima, K. V. P., Sogabe, S., Miki, K., Shimada, K., and Matsuura, K. (1999) Biochemistry 38, 15779-15790.
37. Nagashima, K. V., Matsuura, K., Shimada, K., and Vermeglio, A. (2002) Biochemistry 41, 14028-14032.
38. Thornber, J. P. (1970) Biochemistry 9, 2688-2698.
39. Lin, L., and Thornber, J. P. (1975) Photochem. Photobiol. 22, 37-40.
40. Bartsch, R. G. (1978) Methods Enzymol. 53, 329-340.
41. Agarwal, A., Tan, J., Eren, M., Tevelev, A., Lui, S. M., and Cowan, J. A. (1993) Biochem. Biophys. Res. Commun. 197, 1357-1362.
42. Sambrook, J., Fritisch, E. F., and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual, Laboratory Press, Cold Spring Harbor.
43. Venturoli, G., Fernandez-Velasco, J. G., Crofts, A. R., and Melandri, B. A. (1986) Biochim. Biophys. Acta 851, 340-352.
44. Thompson, J. D., Higgins, D. G., and Gibson, T. J. (1994) Nucleic Acid Res. 22, 4673-4680.
45. Cuff, J. A., Clamp, M. E., Siddiqui, A. S., Finlay, M., and Barton, G. J. (1998) Bioinformatics 14, 892-893.
46. Marti-Renom, M. A., Stuart, A. C., Fiser, A., Sanchez, R., Melo, F., and Sali, A. (2000) Annu. Rev. Biophys. Biomol. Struct. 29, 291-325.
47. Sippl, M. J. (1993) Proteins Struct. Funct. Genet. 17, 355-362.
48. Laskowski, R. A., MacArthur, M. W., Moss, D. S., and Thornton, J. M. (1993) J. Appl. Crystallogr. 26, 283-291.
49. Vriend, G. (1990) J. Mol. Graphics 8, 52-56.
50. Morris, G. M., Goodsell, D. S., Halliday, R. S., Huey, R., Hart, W. E., Belew, R. K., and Olson, A. J. (1998) J. Comp. Chem. 19, 1639-1662.
51. Mehler, E. L., and Solmajer, T. (1991) Protein Eng. 4, 903-910.
52. Case, D. A., Pearlman, D. A., Caldwell, J. W., Cheatham, T. E., III, Ross, W. S., Simmerling, C. L., Darden, T. A., Merz, K. M., Stanton, R. V., Cheng, A. L., Vincent, J. J., Crowley, M., Tsui, V., Radmer, R. J., Duan, Y., Pitera, J., Massova, I., Seibel, G. L., Singh, U. C., Weiner, P. K., and Kollman, P. A., 1999, University of California, San Francisco.
53. Banci, L., Bertini, I., Gray, H. B., Luchinat, C., Reddig, T., Rosato, A., and Turano, P. (1997) Biochemistry 36, 9867-9877.
54. Banci, L., Bertini, I., Carloni, P., Luchinat, C., and Orioli, P. L. (1992) J. Am. Chem. Soc. 114, 10682-10689.
55. Jones, S., and Thornton, J. M. (1995) Prog. Biophys. Mol. Biol. 63, 31-65.
56. Jones, S., and Thornton, J. M. (1996) Proc. Natl. Acad. Sci. U.S.A. 93, 13-20.
57. Nitschke, W., Jubault-Bregler, M., and Rutherford, A. W. (1993) Biochemistry 32, 8871-8879.
58. Parson, W. W. (1969) Biochim. Biophys. Acta 189, 397-403.
59. Cusanovich, M. A., and Kamen, M. D. (1968) Biochim. Biophys. Acta 153, 376-396.
60. Van Grondelle, R., Duysens, L. N., Van der Wel, J. A., and Van der Wal, H. N. (1977) Biochim. Biophys. Acta 461, 188-201.
61. Chen, I.-P., Mathis, P., Koepke, J., and Michel, H. (2000) Biochemistry 39, 3592-3602.
62. Ortega, J. M., Drepper, F., and Mathis, P. (1999) Photosynth. Res. 59, 147-157.
63. Lieutaud, C., Nitschke, W., Vermeglio, A., Parot, P., and Schoepp-Cothenet, B. (2003) Biochim. Biophys. Acta 1557, 83-90.
64. Page, C. C., Moser, C. C., Chen, X., and Dutton, P. L. (1999) Nature 402, 47-52.
65. Knaff, D. B., Willie, A., Long, J. E., Kriauciunas, A., Durham, B., and Millett, F. (1991) Biochemistry 30, 1303-1310.
66. Osyczka, A., Nagashima, K. V. P., Sogabe, S., Miki, K., Yoshida, M., Shimada, K., and Matsuura, K. (1998) Biochemistry 37, 11732-11744.
67. Van Driessche, G., Ciurli, S., Hochkoeppler, A., and Van Beeumen, J. J. (1997) Eur. J. Biochem. 244, 371-377.
68. Mizrahi, I. A., Meyer, T. E., and Cusanovich, M. A. (1980) Biochemistry 19, 4727-4732.
69. Bertini, I., Gaudemer, A., Luchinat, C., and Piccioli, M. (1993) Biochemistry 32, 12887-12893.
70. Soriano, A., Li, D., Bian, S., Agarwal, A., and Cowan, J. A. (1996) Biochemistry 35, 12479-12486.
71. Soriano, A., and Cowan, J. A. (1996) Inorg. Chim. Acta 251, 285-290.
72. Mansy, S. S., Xiong, Y., Hemann, C., Hille, R., Sundaralingam, M., and Cowan, J. A. (2002) Biochemistry 41, 1195-1201.
73. Marcus, R. A. and Sutin, N. (1985) Biochim. Biophys. Acta 811, 265-322.
74. Moser, C. C., Keske, J. M., Warmcke, K., Farid, R. S., and Dutton, P. L. (1992) Nature 355, 796-802.
75. Venturoli, G., Drepper, F., Williams, J. C., Allen, J. P., Lin, X., and Mathis, P. (1998) Biophys. J. 74, 3226-3240.