Solution structure of the oxidized Fe7S8 ferredoxin from the thermophilic bacterium bacillus schlegelii by 1H NMR spectroscopy

Biochemistry

Volumn 37, Issue 27, 1998, Pages 9812-9826

  Aono, Shigetoshi ^a   Bentrop, Detlef ^b   Bertini, Ivano ^b   Donaire, Antonio ^b,c   Luchinat, Claudio ^b   Niikura, Yohei ^b   Rosato, Antonio ^b  

^a JAPAN ADVANCED INSTITUTE OF SCIENCE AND TECHNOLOGY   (Japan)

^b UNIVERSITY OF FLORENCE   (Italy)

^c UNIVERSITY OF VALENCIA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

FERREDOXIN; FERREDOXIN I; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ANIMAL CELL; ARTICLE; AZOTOBACTER VINELANDII; BACILLUS SCHLEGELII; COMPUTER PROGRAM; CRYSTAL STRUCTURE; HYDROGEN BOND; HYDROPHOBICITY; NONHUMAN; OXIDATION; PRIORITY JOURNAL; PROTEIN STRUCTURE; PROTON NUCLEAR MAGNETIC RESONANCE; SEQUENCE HOMOLOGY; STRUCTURE ANALYSIS; THERMOPHILIC BACTERIUM;

AMINO ACID SEQUENCE; BACILLUS; CRYSTALLOGRAPHY, X-RAY; FERREDOXINS; IRON; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; OXIDATION-REDUCTION; PROTEIN CONFORMATION; PROTONS; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID; SOLUTIONS; SULFUR; THERMODYNAMICS;

ANIMALIA; AZOTOBACTER VINELANDII; BACILLUS SCHLEGELII; BACTERIA (MICROORGANISMS); NEGIBACTERIA;

EID: 0032493473     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi972818b     Document Type: Article

References (85)

1. Stout, G. H., Turley, S., Sieker, L. C., and Jensen, L. H. (1988) Proc. Natl. Acad. Sci. U.S.A. 85, 1020-1022.
2. Stout, C. D. (1989) J. Mol. Biol. 205, 545-555.
3. Shen, B., Jollie, D. R., Diller, T. C., Stout, C. D., Stephens, P. J., and Burgess, B. K. (1995) Proc. Natl. Acad. Sci. U.S.A. 92, 10064-10068.
4. Kemper, M. A., Stout, C. D., Lloyd, S. E. J., Prasad, G. S., Fawcett, S., Armstrong, F. A., Shen, B., and Burgess, B. K. (1997) J. Biol. Chem. 272, 15620-15627.
5. Fujii, T., Hata, Y., Oozeki, M., Moriyama, H., Wakagi, T., Tanaka, N., and Oshima, T. (1997) Biochemistry 36, 1505-1513.
6. Saeki, K., Suetsugu, K., Miyake, Y., Young, D. A., Marrs, B. L., and Matsubara, H. (1991) J. Biol. Chem. 266, 12889-12895.
7. Isas, J. M., Yannone, S. M., and Burgess, B. K. (1995) J. Biol. Chem. 270, 21258-21263.
8. Yannone, S. M., and Burgess, B. K. (1997) J. Biol. Chem. 272, 14454-14458.
9. Isas, J. M., and Burgess, B. K. (1994) J. Biol. Chem. 269, 19404-19409.
10. Morgan, T. V., Lundell, D. J., and Burgess, B. K. (1988) J. Biol. Chem. 263, 1370-1375.
11. Aono, S., Fukuda, N., and Okura, I. (1995) J. Mol. Catal. A: Chemical 95, 173-178.
12. Macedo, A. L., Moura, I., Moura, J. J. G., LeGall, J., and Huynh, B. H. (1993) Inorg. Chem. 32, 1101-1105.
13. Macedo, A. L., Palma, P. N., Moura, I., LeGall, J., Wray, V., and Moura, J. J. G. (1993) Magn. Reson. Chem. 31, S59-S67.
14. Busse, S. C., La Mar, G. N., Yu, L. P., Howard, J. B., Smith, E. T., Zhou, Z. H., and Adams, M. W. W. (1992) Biochemistry 31, 11952-11962.
15. Donaire, A., Gorst, C. M., Zhou, Z. H., Adams, M. W. W., and La Mar, G. N. (1994) J. Am. Chem. Soc. 116, 6841-6849.
16. Calzolai, L., Gorst, C. M., Zhao, Z. H., Teng, Q., Adams, M. W. W., and La Mar, G. N. (1995) Biochemistry 34, 11373-11384.
17. Calzolai, L., Gorst, C. M., Bren, K. L., Zhou, Z.-H., Adams, M. W. W., and La Mar, G. N. (1997) J. Am. Chem. Soc. 119, 9341-9350.
18. Banci, L., Bertini, I., and Luchinat, C. (1990) Struct. Bonding 72, 113-135.
19. Banci, L., Bertini, I., Briganti, F., and Luchinat, C. (1991) New J. Chem. 15, 467-477.
20. Bertini, I., Ciurli, S., and Luchinat, C. (1995) Struct. Bonding 83, 1-54.
21. Capozzi, F., Ciurli, S., and Luchinat, C. (1998) Struct. Bonding 90, 127-160.
22. Bertini, I., Luchinat, C., and Rosato, A. (1996) Prog. Biophys. Mol. Biol. 66, 43-80.
23. Wang, P. L., Donaire, A., Zhou, Z. H., Adams, M. W. W., and La Mar, G. N. (1996) Biochemistry 35, 11319-11328.
24. Hatanaka, H., Tanimura, R., Katoh, S., and Inagaki, F. (1997) J. Mol. Biol. 268, 922-933.
25. Nagayama, K., Ohmori, D., Imai, Y., and Oshima, T. (1983) FEBS Lett. 158, 208-212.
26. Nagayama, K., Imai, Y., Ohmori, D., and Oshima, T. (1984) FEBS Lett. 169, 79-84.
27. Nagayama, K., Ohmori, D., Imai, Y., and Oshima, T. (1986) in Iron-Sulfur Protein Research (Matsubara, H., Ed.) pp 125-138, Springer-Verlag, Berlin.
28. Sweeney, W. V. (1981) J. Biol. Chem. 256, 12222-12227.
29. Cheng, H., Grohmann, K., and Sweeney, W. V. (1992) J. Biol. Chem. 267, 8073-8080.
30. Cheng, H., Grohmann, K., and Sweeney, W. V. (1990) J. Biol. Chem. 265, 12388-12392.
31. Bentrop, D., Bertini, I., Luchinat, C., Mendes, J., Piccioli, M., and Teixeira, M. (1996) Eur. J. Biochem. 236, 92-99.
32. Aono, S., Bertini, I., Cowan, J. A., Luchinat, C., Rosato, A., and Viezzoli, M. S. (1996) JBIC, J. Biol. Inorg. Chem. 1, 523-528.
33. Bertini, I., Dikiy, A., Luchinat, C., Macinai, R., Viezzoli, M. S., and Vincenzini, M. (1997) Biochemistry 36, 3570-3579.
34. Bertini, I., Donaire, A., Feinberg, B. A., Luchinat, C., Piccioli, M., and Yuan, H. (1995) Eur. J. Biochem. 232, 192-205.
35. Aono, S., Nakamura, S., Aono, R., and Okura, I. (1994) Biochem. Biophys. Res. Commun. 201, 938-942.
36. Johnson, R. D., Ramaprasad, S., and La Mar, G. N. (1983) J. Am. Chem. Soc. 105, 7205-7206.
37. Banci, L., Bertini, I., Luchinat, C., Piccioli, M., Scozzafava, A., and Turano, P. (1989) Inorg. Chem. 28, 4650-4656.
38. Bax, A., and Davis, D. G. (1985) J. Magn. Reson. 65, 355-360.
39. Griesinger, C., Otting, G., Wüthrich, K., and Ernst, R. R. (1988) J. Am. Chem. Soc. 110, 7870-7872.
40. Wider, G., Macura, S., Kumar, A., Ernst, R. R., and Wüthrich, K. (1984) J. Magn. Reson. 56, 207-234.
41. Rance, M., Sørensen, O. W., Bodenhausen, G., Wagner, G., Ernst, R. R., and Wüthrich, K. (1983) Biochem. Biophys. Res. Commun. 117, 479.
42. Marion, D., and Wüthrich, K. (1983) Biochem. Biophys. Res. Commun. 113, 967-974.
43. Sklenar, V., Piotto, M., Leppik, R., and Saudek, V. (1993) J. Magn. Reson., Ser. A 102, 241-245.
44. Eccles, C., Güntert, P., Billeter, M., and Wüthrich, K. (1991) J. Biomol. NMR 1, 111-130.
45. Güntert, P., Mumenthaler, C, and Wüthrich, K. (1997) J. Mol. Biol. 273, 283-298.
46. Güntert, P., Braun, W., and Wüthrich, K. (1991) J. Mol. Biol. 217, 517-530.
47. Wüthrich, K. (1986) NMR of Proteins and Nucleic Acids, Wiley, New York.
48. Bertini, I., and Luchinat, C. (1996) Coord. Chem. Rev. 150, 1-300.
49. Stokes, G. (1956) Trans. Cambridge Philos. Soc. 9, 5.
50. Einstein, A. (1956) Investigations on the Theory of the Brownian Movement, Dover, New York.
51. Borgias, B., Thomas, P. D., and James, T. L. (1989) Complete Relaxation Matrix Analysis (CORMA), University of California, San Francisco.
52. Banci, L., Bertini, I., Eltis, L. D., Felli, I. C., Kastrau, D. H. W., Luchinat, C., Piccioli, M., Pierattelli, R., and Smith, M. (1994) Eur. J. Biochem. 225, 715-725.
53. Kissinger, C. R., Sicker, L. C., Adman, E. T., and Jensen, L. H. (1991) J. Mol. Biol. 219, 693-715.
54. Stout, C. D. (1993) J. Biol. Chem. 268, 25920-25927.
55. Bertini, I., Capozzi, F., Luchinat, C., Piccioli, M., and Vila, A. J. (1994) J. Am. Chem. Soc. 116, 651-660.
56. Davy, S. L., Osborne, J. M., Breton, J., Moore, G. R., Thomson, A. J., Bertini, I., and Luchinat, C. (1995) FEBS Lett. 363, 199-204.
57. Pearlman, D. A., and Case, D. A. (1991) SANDER, University of California, San Francisco.
58. 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. (1995) AMBER 4.1, University of California, San Francisco.
59. Mouesca, J.-M., Chen, J. L., Noodleman, L., Bashford, D., and Case, D. A. (1994) J. Am. Chem. Soc. 116, 11898-11914.
60. Berendsen, H. J. C., Postma, J. P. M., van Gunsteren, W. F., DiNola, A., and Haak, J. R. (1984) J. Chem. Phys. 81, 3684-3690.
61. van Gunsteren, W. F., and Berendsen, H. J. C. (1977) Mol. Phys. 34, 1311-1327.
62. Koradi, R., Billeter, M., and Wüthrich, K. (1996) J. Mol. Graphics 14, 51-55.
63. Huber, J. G., Gaillard, J., and Moulis, J.-M. (1995) Biochemistry 34, 194-205.
64. Laskowski, R. A., Rullmann, J. A. C., MacArthur, M. W., Kaptein, R., and Thornton, J. M. (1996) J. Biomol. NMR 8, 477-486.
65. Moulis, J.-M., Sicker, L. C., Wilson, K. S., and Dauter, Z. (1996) Protein Sci. 5, 1765-1775.
66. Shen, B., Martin, L. L., Butt, J. N., Armstrong, F. A., Stout, C. D., Jensen, G. M., Stephens, P. J., La Mar, G. N., Gorst, C. M., and Burgess, B. K. (1993) J. Biol. Chem. 268, 25928-25939.
67. Haney, P., Konisky, J., Koretke, K. K., Luthey-Schulten, Z., and Wolynes, P. G. (1997) Proteins: Struct., Funct., Genet. 28, 117-130.
68. Matthews, B. W., Nicholson, H., and Becktel, W. J. (1987) Proc. Natl. Acad. Sci. U.S.A. 84, 6663-6667.
69. Watanabe, K., Chishiro, K., Kitamura, K., and Suzuki, Y. (1991) J. Biol. Chem. 266, 24287-24294.
70. Mrabet, N. T., Van de Broeck, A., Van den Brande, I., Stanssens, P., Laroche, Y., Lambeir, A. M., Matthijssens, G., Jenkins, J., Chiadmi, M., Van Tilbeurgh, H., Rey, F., Janin, J., Quax, W. J., Lasters, I., Maeyer, M. D., and Wodak, S. J. (1992) Biochemistry 31, 2253.
71. Ahern, T. J., and Klibanov. A. M. (1985) Science 228, 1280-1284.
72. Perutz, M. F., and Raidt, H. (1975) Nature 255, 256-259.
73. Querol, E., Perez-Pons, J. A., and Mozo-Villarias, A. (1996) Protein Eng. 9, 265-271.
74. Vogt, G., Woell, S., and Argos, P. (1997) J. Mol. Biol. 269, 631-643.
75. Vogt, G., and Argos, P. (1997) Folding Des. 2, S40-S46.
76. Chan, M. K., Mukund, S., Kletzin, A., Adams, M. W. W., and Rees, D. C. (1995) Science 267, 1463-1469.
77. Macedo-Ribeiro, S., Darimont, B., Sterner, R., and Huber, R. (1996) Structure 4, 1291-1301.
78. Angstrom, J., Moore, G. M., and Williams, R. J. P. (1982) Biochim. Biophys. Acta 703, 87-94.
79. Serrano, L., Sancho, J., Hirshberg, M., and Fersht, A. R. (1992) J. Mol. Biol. 227, 544-559.
80. Menéndez-Arias, L., and Argos, P. (1989) J. Mol. Biol. 206, 397-406.
81. Kelly, C. A., Nishiyama, M., Ohnishi, Y., Beppu, T., and Birktoft, J. J. (1993) Biochemistry 32, 3913-3922.
82. Bian, S., Hille, C. R., Hemman, C., and Cowan, J. A. (1996) Biochemistry 35, 14544-14552.
83. Agarwal, A., Li, D., and Cowan, J. A. (1995) Proc. Natl. Acad. Sci. U.S.A. 92, 9440-9444.
84. Thompson, J. D., Higgins, D. G., and Gibson, T. J. (1994) Nucleic Acids Res. 22, 4673-4680.
85. Sato, S., Nakazawa, K., Honnami, K., and Oshima, T. (1981) Biochim. Biophys. Acta 668, 277-289.