Internal motion time scales of a small, highly stable and disulfide- rich protein: A 15N, 13C NMR and molecular dynamics study

Journal of Biomolecular NMR

Volumn 14, Issue 1, 1999, Pages 47-66

  Guenneugues, Marc ^a,b   Gilquin, Bernard ^a   Wolff, Nicolas ^a   Ménez, André ^a   Zinn Justin, Sophie ^a  

^a DIF   (France)

^b UTRECHT UNIVERSITY   (Netherlands)

Author keywords

Dynamics; Natural abundance 13C NMR; Relaxation; Simulation; Toxin

Indexed keywords

ALPHA TOXIN; THREONINE;

ARTICLE; CARBON NUCLEAR MAGNETIC RESONANCE; MOLECULAR DYNAMICS; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUCLEAR OVERHAUSER EFFECT; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN INTERACTION; PROTEIN STABILITY; PROTEIN STRUCTURE; STRUCTURE ANALYSIS;

APROTININ; CARBON ISOTOPES; COBRA NEUROTOXINS; COMPUTER GRAPHICS; COMPUTER SIMULATION; DISULFIDES; NITROGEN ISOTOPES; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN CONFORMATION; PROTEIN STRUCTURE, SECONDARY; REPRODUCIBILITY OF RESULTS; SOFTWARE; THREONINE;

MUS;

EID: 0033136823     PISSN: 09252738     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1008306602553     Document Type: Article

References (77)

1. Akke, M., Skelton, N.J., Kordel, J., Palmer, A.G. III and Chazin, W.J. (1993) Biochemistry, 32, 9832-9844.
2. Akke, M., Liu, J., Cavanagh, J., Erickson, H.P. and Palmer, A.G. (1998) Nat. Struct. Biol., 5, 55-59.
3. Arnoux, B., Ménez, R., Drevet, P., Boulain, J.-C., Ducruix, A. and Ménez, A. (1994) FEBS Lett., 342, 12-14.
4. Banci, L., Bertini, I., Cavazza, C., Felli, I.C. and Koulougliotis, D. (1998) Biochemistry, 37, 12320-12330.
5. Barbato, G., Ikura, M., Kay, L.E., Pastor, R.W. and Bax, A. (1992) Biochemistry, 31, 5269-5278.
6. Beeser, S.A., Goldenberg, D.P. and Oas, T.G. (1997) J. Mol. Biol., 269, 154-164.
7. Bodenhausen, G. and Ruben, D. (1980) Chem. Phys. Lett., 69, 185-189.
8. Bodenhausen, G. and Ernst, R.R. (1981) J. Magn. Reson., 45, 367-373.
9. Brooks, B.R., Bruccoleri, R.D., Olafson, B.O., States, D.J., Swaminathan, S. and Karplus, M. (1983) J. Comput. Chem., 4, 187-217.
10. Brooks III, C.L., Karplus, M. and Pettit, B.M. (1988) Proteins: A theoretical Perspective of Dynamics, Structure and Thermodynamics, Adv. in Chem. Phys. LXXI, Wiley, New York, NY.
11. Cavanagh, J., Palmer III, A.G., Wright, P. and Rance, M. (1991) J. Magn. Reson., 91, 429-436. 7
12. Cavanagh, J. and Rance, M. (1993) Annu. Rep. NMR Spectrosc., 27, 1-58 .
13. Clore, G.M., Szabo, A., Bax, A., Kay, L.E., Driscoll, P.C. and Gronenborn, A.M. (1990) J. Am. Chem. Soc., 112, 4989-4991.
14. Corfield, P.W.R., Lee, T.-J. and Low, B.W. (1989) J. Biol. Chem., 264, 9239-9242.
15. Davis, A.L., Keeler, J., Laue, E.D. and Moskau, D. (1992) J. Magn. Reson., 98, 207-216.
16. Denisov, V.P. and Halle, B. (1995) J. Mol. Biol., 245, 682-697.
17. Desvaux, H., Birlirakis, N., Wary, C. and Berthault, P. (1995) Mol. Phys., 86, 1059-1073.
18. Deverell, C., Morgan, R.E. and Strange, J.H. (1970) Mol. Phys., 18, 553-559.
19. Engelke, J. and Rüterjans, H. (1998) J. Biomol. NMR, 11, 165-183.
20. Fadel, A.R., Jin, D.Q., Montelione, G.T. and Levy, R.M. (1995) J. Biomol. NMR, 6, 221-226.
21. Farrow, N.A., Zhang, O., Szabo, A., Torchia, A. and Kay, L.E. (1995) J. Biomol. NMR, 6, 153-162.
22. Fischer, M.W.F., Zeng, L., Pang, Y., Hu, W., Majumdar, A. and Zuiderweg, E.R.P. (1997) J. Am. Chem. Soc., 119, 12629-12642.
23. Fryklund, L. and Eaker, D. (1975) Biochemistry, 14, 2865-2871.
24. Fushman, D., Ohlenschläger, O. and Rüterjans, H. (1994) J. Biomol. Struct. Dyn., 11, 1377-1402.
25. Garcia de la Torre, J. and Bloomfield, V.A. (1981) Q. Rev. Biophys., 14, 81-139.
26. Gesmar, H., Led, J.J. and Abilgaard, F. (1990) Prog. NMR Spectrosc., 22, 255-288.
27. Guenneugues, M., Drevet, P., Pinkasfeld, S., Gilquin, B., Ménez, A. and Zinn-Justin, S. (1997) Biochemistry, 36, 16097-16108.
28. Ishima, R., Yamasaki, K., Saito, M. and Nagayama, K. (1995) J. Biomol. NMR, 6, 217-220.
29. Jorgensen, W.L. (1981) J. Am. Chem. Soc., 103, 335-340.
30. Low, B.W., Preston, H.S., Sato, A., Rosen, L.S., Searl, J.E., Rudko, A.D. and Richardson, J.S. (1976) Proc. Natl. Acad. Sci. USA, 73, 2991-2994.
31. Kay, L.E., Keifer, P. and Saarinen, T. (1992) J. Am. Chem. Soc., 114, 10663-10665.
32. Kay, L.E. (1998) Nat. Struct. Biol., 5, 513-517.
33. Kay, L.E., Muhandiram, D.R., Wolf, G., Shoelson, S.E. and Forman-Kay, J.D. (1998) Nat. Struct. Biol., 5, 156-163.
34. Lee, L.K., Rance, M., Chazin, W.J. and Palmer, A.G. (1997) J. Biomol. NMR, 9, 287-298.
35. Lefèvre, J.-F., Dayie, K.T., Peng, J.W. and Wagner, G. (1996) Biochemistry, 35, 2674-2686.
36. LeMaster, D.M. and Kushlan, D.M. (1996) J. Am. Chem. Soc., 118, 9255-9264.
37. Lienin, S.F., Bremi, T., Brutscher, B., Bruschweiler, R. and Ernst, R.R. (1998) J. Am. Chem. Soc., 120, 9870-9879.
38. Lipari, G. and Szabo, A. (1982a) J. Am. Chem. Soc., 104, 4546-4559.
39. Lipari, G. and Szabo, A. (1982b) J. Am. Chem. Soc., 104, 4559-4570.
40. Loncharich, R.J. and Brooks, B.R. (1989) Proteins Struct. Funct. Genet., 6, 32-45.
41. MacKerell, A.D., Bashford, D., Bellott, M., Dunbrack, R.L., Evanseck, J.D., Field, M.J., Fischer, S., Gao, J., Guo, H., Ha, S., Joseph-McCarthy, D., Kuchnir, L., Kuczera, K., Lau, F.T.K., Mattos, C., Michnick, S., Ngo, T., Nguyen, D.T., Prodhom, B., Reiher, W.E., Roux, B., Schlenkrich, M., Smith, J.C., Stole, R., Straub, J., Watanabe, M., Wiorkiewicz-Kuczera, J., Yin, D. and Karplus, M. (1998) J. Phys. Chem., B102, 3586-3616.
42. Mandel, A.M. and Palmer III, A.G. (1994) J. Magn. Reson., A110, 62-72.
43. Marion, D., Ikura, M., Tschudin, R. and Bax, A. (1989) J. Magn. Reson., 85, 393-399.
44. Muñoz, V., Thompson, P.A., Hofrichter, J. and Eaton, W.A. (1997) Nature, 390, 196-199.
45. Nastopoulos, V., Kanellopoulos, P.N. and Tsernoglou, D. (1998) Acta Crystallogr., D54, 964-974.
46. Nicholson, L.K., Kay, L.E., Baldisseri, D.M., Arango, J., Young, P.E., Bax, A. and Torchia, D.A. (1992) Biochemistry, 31, 5253-5263.
47. Otting, G. and Wüthrich, K. (1988) J. Magn. Reson., 76, 569-574.
48. Palmer III, A.G., Cavanagh, J., Wright, RE. and Rance, M. (1991a) J. Magn. Reson., 93, 151-170.
49. Palmer III, A.G., Rance, M. and Wright, RE. (1991b) J. Am. Chem. Soc., 113, 4371-4380.
50. Palmer III, A.G. (1993) Curr. Opin. Biotechnol., 4, 385-391.
51. Peng, J.W. and Wagner, G. (1992a) Biochemistry, 31, 8571-8586.
52. Peng, J.W. and Wagner, G. (1992b) J. Magn. Reson., 98, 308-332.
53. Philippopoulos, M., Mandel, A.M., Palmer III, A.G. and Lim, C. (1997) Proteins Struct. Funct. Genet., 28, 481-493.
54. Pillet, L., Trémeau, O., Ducancel, F., Drevet, R, Zinn-Justin, S., Pinkasfeld, S., Boulain, J.-C. and Ménez, A. (1993) J. Biol Chem., 268, 909-916.
55. Richarz, R., Nagayama, K. and Wüthrich, K. (1980) Biochemistry, 19, 5189-5196.
56. Rischel, C., Madsen, J.C., Andersen, K.V. and Poulsen, F.M. (1994) Biochemistry, 33, 13997-14002.
57. Ryckaert, J.-P., Ciccotti, G. and Berendsen, H.J.C. (1977) J. Comput. Phys., 23, 327-341.
58. Saludjian, R, Prangé, T., Navaza, J., Ménez, R., Guilloteau, J.P., Riès-Kautt, M. and Ducruix, A. (1992) Acta Crystallogr., B48, 520-531.
59. Schleucher, J., Schwendiger, M., Sattler, M., Schmidt, P., Schedletzky, O., Glaser, S.J., Sørensen, O.W. and Griesinger, C. (1994) J. Biomol. NMR, 4, 301-306.
60. Shaka, A.J., Keeler, J. and Freeman R. (1983) J. Magn. Reson., 53, 313-340.
61. Shaka, A.J., Barker, P.B. and Freeman, R. (1985) J. Magn. Reson., 64, 547-552.
62. Smith, J.L., Corfield, P.W.R., Hendrickson, W.A. and Low, B.W. (1988) Acta Crystallogr., A44, 357-368.
63. Smith, P.E., van Schaik, R.C., Szyperski, T., Wüthrich, K. and van Gunsteren, W.F. (1995) J. Mol. Biol., 246, 356-365.
64. Szyperski, T., Luginbühl, P., Otting, G., Güntert, P. and Wüthrich, K. (1993) J. Biomol. NMR, 3, 151-164.
65. Tjandra, N., Kuboniwa, H., Ren, H. and Bax, A. (1995a) Eur. J. Biochem., 15, 1014-1024.
66. Tjandra, N., Feller, S.E., Pastor, R.W. and Bax, A. (1995b) J. Am. Chem. Soc., 117, 12562-12566.
67. Tolman, J.R., Flanagan, J.M., Kennedy, M.A. and Prestegard, J.H. (1997) Nat. Struct. Biol., 4, 292-297.
68. Trémeau, O., Lemaire, C., Drevet, P., Pinkasfeld, S., Ducancel, F., Boulain, J.-C. and Ménez, A. (1995) J. Biol. Chem., 270, 9362-9369.
69. Tsernoglou, D. and Petsko, G. (1976) FEBS Lett., 68, 1-4.
70. van Heijenoort, C., Penin, F. and Guittet, E. (1998) Biochemistry, 37, 5060-5073.
71. Venable, R.M. and Pastor, R.W. (1988) Biopolymers, 27, 1001-1014.
72. Wand, A.J., Urbauer, J.L., McEvoy, R.P. and Bieber, R.J. (1996) Biochemistry, 35, 6116-6125.
73. Wong, K.-B. and Daggett, V. (1998) Biochemistry, 37, 11182-11192.
74. Wüthrich, K., Wagner, G., Richarz, R. and Braun, W. (1980) Biophys. J., 32, 549-560.
75. Zhu, L., Prendergast, F.G. and Kemple, M.D. (1998) J. Biomol. NMR, 12, 135-144.
76. Zinn-Justin, S., Roumestand, C., Gilquin, B., Bontems, F., Ménez, A. and Toma, F. (1992) Biochemistry, 31, 11335-11347.
77. Zinn-Justin, S., Berthault, P., Guenneugues, M. and Desvaux, H. (1997) J. Biomol. NMR, 10, 363-372.