Backbone dynamics of plastocyanin in both oxidation states: Solution structure of the reduced form and comparison with the oxidized state

Journal of Biological Chemistry

Volumn 276, Issue 50, 2001, Pages 47217-47226

  Bertini, Ivano ^a   Bryant, Donald A ^b   Ciurli, Stefano ^c   Dikiy, Alexander ^c   Fernández, Claudio O ^a,d   Luchinat, Claudio ^a   Safarov, Niyaz ^c   Vila, Alejandro J ^e   Zhao, Jindong ^b,f  

^a UNIVERSITY OF FLORENCE   (Italy)

^b PENNSYLVANIA STATE UNIVERSITY   (United States)

^c UNIVERSITY OF BOLOGNA   (Italy)

^d Facultad de Ciencias Naturales e Instituto M Lillo   (Argentina)

^e UNIVERSIDAD NACIONAL DE ROSARIO   (Argentina)

^f PEKING UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

COPPER; MOLECULAR DYNAMICS; OXIDATION; PROTEINS;

CHEMICAL SHIFTS;

BIOCHEMISTRY;

COPPER; NITROGEN 15; NITROGEN DERIVATIVE; OXYGEN; PLASTOCYANIN; PROTON; WATER; ION;

ANIMAL CELL; ARTICLE; CYANOBACTERIUM; ELECTRON TRANSPORT; MAGNETISM; MATHEMATICAL ANALYSIS; METAL BINDING; MOLECULAR DYNAMICS; NONHUMAN; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEAR OVERHAUSER EFFECT; OXIDATION; OXIDATION REDUCTION REACTION; PRIORITY JOURNAL; PROCESS MONITORING; PROTEIN STRUCTURE; PROTON NUCLEAR MAGNETIC RESONANCE; PROTON TRANSPORT; RIGIDITY; SPECIES IDENTIFICATION; STATISTICAL SIGNIFICANCE; STRUCTURE ANALYSIS; TIME; TRANSPORT KINETICS; AMINO ACID SEQUENCE; CHEMICAL STRUCTURE; CHEMISTRY; ESCHERICHIA COLI; GENETICS; METABOLISM; MOLECULAR CLONING; MOLECULAR GENETICS; PROTEIN CONFORMATION;

ANIMALIA; NEGIBACTERIA; SYNECHOCYSTIS; SYNECHOCYSTIS SP.;

AMINO ACID SEQUENCE; CLONING, MOLECULAR; COPPER; ELECTRON TRANSPORT; ESCHERICHIA COLI; IONS; MAGNETIC RESONANCE SPECTROSCOPY; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; OXIDATION-REDUCTION; OXYGEN; PLASTOCYANIN; PROTEIN CONFORMATION; SUPPORT, NON-U.S. GOV'T; SUPPORT, U.S. GOV'T, NON-P.H.S.; SYNECHOCYSTIS GROUP; TIME FACTORS;

EID: 0035861754     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.M100304200     Document Type: Article

References (94)

1. Redinbo, M. R., Yeates, T. O., and Merchant, S. (1994) J. Bioenerg. Biomembr. 26, 49-66
2. Navarro, J. A., Hervàs, M., and De la Rosa, M. A. (1997) J. Biol. Inorg. Chem. 2, 11-22
3. Sigfridsson, K. (1998) Photosynth. Res. 57, 1-28
4. Hope, A. B. (2000) Biochim. Biophys. Acta 1456, 5-26
5. Adman, E. T. (1991) Adv. Protein Chem. 42, 144-197
6. Sykes, A. G. (1991) Struct. Bonding 75, 175-224
7. Malmstrom, B. G. (1994) Eur. J. Biochem. 223, 711-718
8. Gray, H. B., Malmstrom, B. G., and Williams, R. J. P. (2000) J. Biol. Inorg. Chem. 5, 551-559
9. Sandman, G. (1986) Arch. Microbiol. 145, 76-79
10. Bryant, D. A. (1994) The Molecular Biology of Cyanobacteria, Kluwer Academic Publishers Group, Dordrecht, Netherlands
11. Guss, J. M., and Freeman, H. C. (1983) J. Mol. Biol. 169, 521-563
12. Badsberg, U., Jorgensen, A. M. M., Gesmar, H., Led, J. J., Hammerstad, J. M., Jespersen, L. L., and Ulstrup, J. (1996) Biochemistry 35, 7021-7031
13. Romero, A., De la Cerda, B., Vareda, P. F., Navarro, J. A., Hervas, M., and De la Rosa, M. A. (1998) J. Mol. Biol. 275, 327-336
14. Ma, L., Jorgensen, A.-M. M., Sorensen, G. O., Ulstrup, J., and Led, J. J. (2000) J. Am. Chem. Soc. 122, 9473-9485
15. Sun, J., Xu, W., Hervas, M., Navarro, J. A., De la Rosa, M. A., and Chitnis, P. R. (1999) J. Biol. Chem. 274, 19048-19054
16. Guss, J. M., Harrowell, P. R., Murata, M., Norris, V. A., and Freeman, H. C. (1986) J. Mol. Biol. 192, 361-387
17. Guss, J. M., Bartunik, H. D., and H. C., F. (1992) Acta Crystallogr. Sect. B Struct. Sci. 48, 790-811
18. Collyer, C. A., Guss, J. M., Sugimura, Y., Yoshizaki, F., and Freeman, H. C. (1990) J. Mol. Biol. 211, 617-632
19. Redinbo, M. R., Cascio, D., Choukair, M. K., Rice, D., Merchant, S., and Yeates, T. O. (1993) Biochemistry 32, 10560-10567
20. Shibata, N., Inoue, T., Nagano, C., Nishio, N., Kohzuma, T., Onodera, K., Yoshizaki, F., Sugimura, Y., and Kai, Y. (1999) J. Biol. Chem. 274, 4225-4230
21. Xue, Y., Okvist, M., Hansson, O., and Young, S. (1998) Protein Sci. 7, 2099-2105
22. Bond, C. S., Bendall, D. S., Freeman, H. C., Guss, J. M., Howe, C. J., Wagner, M. J., and Wilce, M. C. (1999) Acta Crystallogr. Sect. D Biol. Crystallogr. 55, 414-421
23. Inoue, T., Gotowda, M., Sugawara, H., Kohzuma, T., Yoshizaki, F., Sugimura, Y., and Kai, Y. (1999) Biochemistry 38, 13853-13861
24. Inoue, T., Sugawara, H., Hamanaka, S., Tsukui, H., Suzuki, E., Kohzuma, T., and Kai, Y. (1999) Biochemistry 38, 6063-6069
25. Sugawara, H., Inoue, T., Li, C., Gotowda, M., Hibino, T., Takabe, T., and Kai, Y. (1999) J. Biochem. (Tokyo) 125, 899-903
26. Babu, C. R., Volkman, B. F., and Bullerjahn, G. S. (1999) Biochemistry 38, 4988-4995
27. Moore, J. M., Lepre, C. A., Gippert, J. P., Chazin, W. J., Case, D. A., and Wright, P. E. (1991) J. Mol. Biol. 221, 533-555
28. Bagby, S., Driscoll, P. C., Harvey, T. S., and Hill, H. A. O. (1994) Biochemistry 33, 6611-6622
29. Bertini, I., Ciurli, S., Dikiy, A., Fernandez, C., Luchinat, C., Safarov, N., Shumilin, S., and Vila, A. (2001) J. Am. Chem. Soc. 123, 2405-2413
30. Kalverda, A. P., Ubbink, M., Gilardi, G., Wijmenga, S. S., Crawford, A., Jeuken, L. J. C., and Canters, G. W. (1999) Biochemistry 38, 12690-12697
31. Thompson, G. S., Leung, Y.-C., Ferguson, S. J., Radford, S. E., and Redfield, C. (2000) Protein Sci. 9, 846-858
32. Hervas, M., Navarro, F., Navarro, J. A., Chavez, S., Diaz, A., Florencio, F. J., and De la Rosa, M. A. (1993) FEBS Lett. 319, 257-260
33. Studier, F. W., Rosenberg, A. H., Dunn, J. J., and Dubendorff, J. W. (1990) Methods Enzymol. 185, 66-89
34. Kato, S., Shiratori, I., and Takamiya, A. (1962) J. Biochem. (Tokyo) 51, 32-40
35. Bradford, M. M. (1976) Anal. Biochem. 72, 248-254
36. Bartels, C., Xia, T., Billeter, M., Guntert, P., and Wuthrich, K. (1995) J. Biomol. NMR 6, 1-10
37. Wuthrich, K. (1986) NMR of Proteins and Nucleic Acids, John Wiley & Sons, Inc., New York
38. Arseniev, A., Schultze, P., Worgotter, E., Braun, W., Wagner, G., Vasak, M., Kagi, J. H., and Wuthrich, K. (1988) J. Mol. Biol. 201, 637-657
39. Vuister, G. W., and Bax, A. (1993) J. Am. Chem. Soc. 115, 7772-7777
40. Guntert, P., Mumenthaler, C., and Wuthrich, K. (1997) J. Mol. Biol. 273, 283-298
41. Gagné, S. M., Tsuda, S., Lee, M. X., Chandra, M., Smillie, L. B., and Sykes, B. D. (1994) Protein Sci. 3, 1961-1974
42. Guntert, P., Braun, W., and Wuthrich, K. (1991) J. Mol. Biol. 217, 517-530
43. Koradi, R., Billeter, M., and Wuthrich, K. (1996) J. Mol. Graphics 14, 51-55
44. Pearlman, D. A., Case, D. A., Caldwell, J. W., Ross, W. S., Cheatham, T. E., Ferguson, D. M., Seibel, G. L., Singh, U. C., Weiner, P. K., and Kollman, P. A. (1997) Amber 5.0, University of California, San Francisco
45. Laskowski, R. A., MacArthur, M. W., Moss, D. S., and Thornton, J. M. (1993) J. Appl. Crystallogr. 26, 283-291
46. Marion, D., and Wuthrich, K. (1983) Biochem. Biophys. Res. Commun. 113, 967-974
47. Sklenar, V., Piotto, M., Leppik, R., and Saudek, V. (1993) J. Magn. Reson. 102, 241-245
48. Grzesiek, S., and Bax, A. (1993) J. Am. Chem. Soc. 115, 12593-12594
49. Peng, J. W., and Wagner, G. (1994) Methods Enzymol. 239, 563-595
50. Kay, L. E., Nicholson, L. K., Delaglio, F., Bax, A., and Torchia, D. A. (1992) J. Magn. Reson. 97, 359-375
51. Marquardt, D. W. (1963) J. Soc. Ind. Appl. Math. 11, 431-441
52. Press, W. H., Flannery, B. P., Teukolsky, S. A., and Vetterling, W. T. (1988) Numerical Recipes in C: The Art of Scientific Computing, Cambridge University Press, New York
53. Zinn-Justin, S., Berthault, P., Guenneugues, M., and Desvaux, H. (1997) J. Biomol. NMR 10, 363-372
54. Palmer, A. G. I., Rance, M., and Wright, P. E. (1991) J. Am. Chem. Soc. 113, 4371-4380
55. Peng, J. W., and Wagner, G. (1992) Biochemistry 31, 8571-8586
56. Lee, L. K., Rance, M., Chazin, W. J., and Palmer, A. G. I. (1997) J. Biomol. NMR 9, 287-298
57. Mandel, M. A., Akke, M., and Palmer, A. G. I. (1995) J. Mol. Biol. 246, 144-163
58. Lipari, G., and Szabo, A. (1982) J. Am. Chem. Soc. 104, 4546-4559
59. Lipari, G., and Szabo, A. (1982) J. Am. Chem. Soc. 104, 4559-4570
60. Ishima, R., and Torchia, D. A. (2000) Nat. Struct. Biol. 7, 740-743
61. Solomon, I. (1955) Phys. Rev. 99, 559-565
62. Arnesano, F., Banci, L., Bertini, I., Koulougliotis, D., and Monti, A. (2000) Biochemistry 39, 7117-7130
63. Bertini, I., Luchinat, C., and Niikura, Y. (2000) Proteins Struct. Funct. Genet. 41, 75-85
64. Ma, L., and Led, J. J. (2000) J. Am. Chem. Soc. 122, 7823-7824
65. Bertini, I., Fernandez, C. O., Karlsson, B. G., Leckner, J., Luchinat, C., Malmstrom, B. G., Nersissian, A. M., Pierattelli, R., Shipp, E., Valentine, J. S., and Vila, A. J. (2000) J. Am. Chem. Soc. 122, 3701-3707
66. Donaire, A., Jimenez, H. R., Moratal, J. M., De la Rosa, M. A., Hervas, M., Navarro, J. A., Monleon, D., Tejero, R., and Celda, B. (1998) Inorg. Chim. Acta 275, 73-89
67. Bertini, I., Huber, J. G., Luchinat, C., and Piccioli, M. (2000) J. Magn. Reson. 147, 1-8
68. Bertini, I., and Luchinat, C. (1996) in NMR of Paramagnetic Substances (Lever, A. B. P., ed) Vol. 150, Elsevier Science Publishers B.V., Amsterdam
69. Guiles, R. D., Basus, V. J., Sarma, S., Malpure, S., Fox, K. M., Kuntz, I. D., and Waskell, L. (1993) Biochemistry 32, 8329-8340
70. Bertini, I., Eltis, L. D., Felli, I. C., Kastrau, D. H. W., Luchinat, C., and Piccioli, M. (1995) Chemistry 1, 598-607
71. Banci, L., Bertini, I., Dikiy, A., Kastrau, D. H. W., Luchinat, C., and Sompornpisut, P. (1995) Biochemistry 34, 9851-9858
72. Ubbink, M., Lian, L. Y., Modi, S., Evans, P. A., and Bendall, D. S. (1996) Eur. J. Biochem. 242, 132-147
73. Boyd, J., Dobson, C. M., Morar, A. S., Williams, R. J. P., and Pielak, G. J. (1999) J. Am. Chem. Soc. 121, 9247-9248
74. Tsan, P., Caffrey, M., Daku, M. L., Cusanovich, M., Marion, D., and Gans, P. (1999) J. Am. Chem. Soc. 121, 1795-1805
75. Bertini, I., Luchinat, C., and Turano, P. (2000) J. Biol. Inorg. Chem. 5, 761-764
76. Jeuken, L. J. C., Ubbink, M., Bitter, J. H., van Vliet, P., Meyer-Klaucke, W., and Canters, G. W. (2000) J. Mol. Biol. 299, 737-755
77. Buning, C., Canters, G. W., Comba, P., Dennison, C., Leuken, L., Melter, M., and Sanders-Loehr, J. (2000) J. Am. Chem. Soc. 122, 204-211
78. Vriend, G. (1990) J. Mol. Graph. 8, 52-56
79. Banci, L., Bertini, I., Bren, K. L., Gray, H. B., Sompornpisut, P., and Turano, P. (1997) Biochemistry 36, 8992-9001
80. Banci, L., Bertini, I., Gray, H. B., Luchinat, C., Reddig, T., Rosato, A., and Turano, P. (1997) Biochemistry 36, 9867-9877
81. Banci, L., Bertini, I., Huber, R., Spyroulias, G., and Turano, P. (1999) J. Biol. Inorg. Chem. 4, 21-31
82. Baistrocchi, P., Banci, L., Bertini, I., Turano, P., Bren, K. L., and Gray, H. B. (1996) Biochemistry 35, 13788-13796
83. Englander, S. W., and Kallenbach, N. R. (1983) Q. Rev. Biophys. 16, 521-655
84. Englander, S. W. (1992) Science 256, 1684-1687
85. Bai, Y. W., Sosnick, T. R., Mayne, L., and Englander, S. W. (1995) Science 269, 192-197
86. Milne, J. S., Mayne, L., Roder, H., Wand, A. J., and Englander, S. W. (1998) Protein Sci. 7, 739-745
87. Baxter, S. M., and Fetrow, J. S. (1999) Biochemistry 38, 4493-4503
88. Fetrow, J. S., and Baxter, S. M. (1999) Biochemistry 38, 4480-4492
89. Barker, P. D., Bertini, I., Del Conte, R., Ferguson, S. T., Hajieva, P., Tomlinson, E., Turano, P., and Viezzoli, M. S. (2001) Eur. J. Biochem. 2001, 268, 4468-4476
90. Dangi, B., Sarma, S., Yan, C., Banville, D. L., and Guiles, R. D. (1998) Biochemistry 37, 8289-8302
91. Banci, L., Bertini, I., Cavazza, C., Felli, I. C., and Koulougliotis, D. (1998) Biochemistry 37, 12320-12330
92. Arnesano, F., Banci, L., Bertini, I., and Felli, I. C. (1998) Biochemistry 37, 173-184
93. Sari, N., Holden, M. J., Mayhew, M. P., Vilker, V. L., and Coxon, B. (1999) Biochemistry 38, 9862-9871
94. Lyons, T. A., Ratnaswamy, G., and Pochapsky, T. C. (1996) Protein Sci. 5, 627-639