Characterization of the overall and local dynamics of a protein with intermediate rotational anisotropy: Differentiating between conformational exchange and anisotropic diffusion in the B3 domain of protein G

Journal of Biomolecular NMR

Volumn 27, Issue 3, 2003, Pages 261-275

  Hall, Jennifer B ^a   Fushman, David ^a  

^a UNIVERSITY OF MARYLAND   (United States)

Author keywords

Anisotropic rotational diffusion; Conformational exchange; CSA dipolar cross correlation; Hydro dynamic calculations; Immunoglobulin binding domain; Protein dynamics; Protein G

Indexed keywords

NITROGEN 15; PROTEIN G;

ACCURACY; ALPHA HELIX; ANISOTROPY; ARTICLE; CALCULATION; CONFORMATIONAL TRANSITION; CONTROLLED STUDY; DENSITY; DIFFUSION TENSOR IMAGING; HYDRODYNAMICS; MOLECULAR DYNAMICS; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN STRUCTURE; PROTEIN TRANSPORT; RELAXATION TIME; SENSITIVITY ANALYSIS;

ANISOTROPY; DIFFUSION; HYDROGEN BONDING; MODELS, MOLECULAR; NERVE TISSUE PROTEINS; NITROGEN ISOTOPES; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN CONFORMATION; PROTEIN STRUCTURE, TERTIARY; PROTEINS;

EID: 0141502348     PISSN: 09252738     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1025467918856     Document Type: Article

References (57)

1. Achari, A., Hale, S.P., Howard, A.J., Clore, G.M., Gronenborn, A.M., Hardman, K.D. and Whitlow, M. (1992) Biochemistry, 31, 10449-10457.
2. Akke, M. and Palmer, III, A.G. (1996) J. Am. Chem. Soc., 118, 911-912.
3. Barchi, Jr., J.J., Grasberger, B., Gronenborn, A.M. and Clore, G.M. (1994) Protein Sci., 3, 15-21.
4. Blackledge, M., Cordier, F., Dosset, P. and Marion, D. (1998) J. Am. Chem. Soc., 120, 4538-4539.
5. Bruschweiler, R., Blackledge, M. and Ernst, R.R. (1991) J. Biomol. NMR, 1, 3-11.
6. Camarero, J.A., Fushman, D., Sato, S., Giriat, I., Cowburn, D., Raleigh, D.P. and Muir, T.W. (2001) J. Mol. Biol., 308, 1045-1062.
7. Clore, G.M., Driscoll, P.C., Wingfield, P.T. and Gronenborn, A.M. (1990a) Biochemistry, 29, 7387-7401.
8. Clore, G.M., Szabo, A., Bax, A., Kay, L.E., Driscoll, P.C. and Gronenborn, A.M. (1990b) J. Am. Chem. Soc., 112, 4989-4936.
9. Copie, V., Tomita, Y., Akiyama, S.K., Aota, S., Yamada, K.M., Venable, R.M., Pastor, R.W., Krueger, S. and Torchia, D.A. (1998) J. Mol. Biol., 277, 663-682.
10. de la Torre, J.G., Navarro, S., Martinez, M.C.L., Diaz, F.G. and Cascales, J.J.L. (1994) Biophys. J., 67, 530-531.
11. Derrick, J.P. and Wigley, D.B. (1992) Nature, 359, 752-754.
12. Derrick, J.P. and Wigley, D.B. (1994) J. Mol. Biol., 243, 906-918.
13. Derrick, J.P., Wigley, D.B., Lian, L.Y., Sutcliffe, M.J., Yang, J.C., Dawson, P.D. and Roberts, G.C. (1993) Biochem. Soc. Trans., 21, 333S.
14. Dosset, P., Hus, J.C., Blackledge, M. and Marion, D. (2000) J. Biomol. NMR, 16, 23-28.
15. Eisenmesser, E.Z., Bosco, D.A., Akke, M. and Kern, D. (2002) Science, 295, 1520-1523.
16. Farrow, N.A., Muhandiram, R., Singer, A.U., Pascal, S.M., Kay, C.M., Gish, G., Shoelson, S.E., Pawson, T., Forman-Kay, J.D. and Kay, L.E. (1994) Biochemistry, 33, 5984-6003.
17. Fushman, D. (1990) J. Biomol. Struct. Dyn., 7, 1333-1344.
18. Fushman, D. (2002) In BioNMR in Drug Research, Zerbe, O. (Ed.), Wiley-VCH, New York, NY, pp. 283-308.
19. Fushman, D. and Cowburn, D. (1998a) J. Am. Chem. Soc., 120, 7109-7110.
20. Fushman, D. and Cowburn, D. (1998b) In Structure, Motion, Interaction and Expression of Biological Macromolecules, Sarma, R. and Sarma, M. (Eds.), Adenine Press, Albany, NY, pp. 63-77.
21. Fushman, D. and Cowburn, D. (2002) In Protein NMR for the Millenium (Biological Magnetic Resonance, Vol 20), Krishna N.R. and Berliner, L.J. (Eds.), Kluwer Academic Publishers, New York, NY, pp. 53-78.
22. Fushman, D., Cahill, S. and Cowburn, D. (1997) J. Mol. Biol., 266, 173-194.
23. Fushman, D., Tjandra, N. and Cowburn, D. (1998) J. Am. Chem. Soc., 120, 10947-10952.
24. Fushman, D., Tjandra, N. and Cowburn, D. (1999a) J. Am. Chem. Soc., 121, 8577-8582.
25. Fushman, D., Xu, R. and Cowburn, D. (1999b) Biochemistry, 38, 10225-10230.
26. Gallagher, T., Alexander, P., Bryan, P. and Gilliland, G.L. (1994) Biochemistry, 33, 4721-4729.
27. García de la Torre, J., Huertas, M.L. and Carrasco, B. (2000) J. Magn. Reson., B147, 138-146.
28. Ghose, R., Fushman, D. and Cowburn, D. (2001) J. Magn. Reson., 149, 214-217.
29. Gronenborn, A.M., Filpula, D.R., Essig, N.Z., Achari, A., Whitlow, M., Wingfield, P.T. and Clore, G.M. (1991) Science, 253, 657-661.
30. Grzesiek, S. and Bax, A. (1993) J. Am. Chem. Soc., 115, 12593-12594.
31. Hall, J.B., Dayie, K.T. and Fushman, D. (2003) J. Biomol. NMR, 26, 181-186.
32. Hiyama, Y., Niu, C., Silverton, J., Bavoso, A. and Torchia, D. (1988) J. Amer. Chem. Soc., 110, 2378-2383.
33. Ishima, R., Wingfield, P., Stahl, S., Kaufman, J. and Torchia, D.A. (1998) J. Am. Chem. Soc., 120, 10534-10542.
34. Jones, J.A. (1997) J. Magn. Reson., 126, 283-286.
35. Kay, L.E., Torchia, D.A. and Bax, A. (1989) Biochemistry, 28, 8972-8979.
36. Koradi, R., Billeter, M. and Wüthrich, K. (1996) J. Mol. Graph., 14, 51-55.
37. Kroenke, C.D., Loria, J.P., Lee, L.K., Rance, M. and Palmer, A.G.I. (1998) J. Am. Chem. Soc., 120, 7905-7915.
38. Lee, L.K., Rance, M., Chazin, W.J. and Palmer, III, A.G. (1997) J. Biomol. NMR, 9, 287-298.
39. Lian, L.Y., Derrick, J.P., Sutcliffe, M.J., Yang, J.C. and Roberts, G.C. (1992) J. Mol. Biol., 228, 1219-1234.
40. Lipari, G. and Szabo, A. (1982) J. Am. Chem. Soc., 104, 4559-4570.
41. Loria, J.P., Rance, M. and Palmer, A.G.I. (1999) J. Am. Chem. Soc., 121, 2331-2332.
42. Luginbuhl, P., Pervushin, K.V., Iwai, H. and Wüthrich, K. (1997) Biochemistry, 36, 7305-7312.
43. Mandel, A.M., Akke, M. and Palmer, III, A.G. (1995) J. Mol. Biol., 246, 144-163.
44. Oas, T.G., Hartzell, C.J., Dahlquist, F.W. and Drobny, G.P. (1987) J. Am. Chem. Soc., 109, 5962-5966.
45. Orekhov, V., Pervushin, K.V. and Arseniev, A.S. (1994) Eur. J. Biochem., 219, 887-896.
46. Ottiger, M., Delaglio, F. and Bax, A. (1998) J. Magn. Reson., 131, 373-378.
47. Palmer, III, A.G. (1997) Curr. Opin. Struct. Biol., 7, 732-737.
48. Palmer, A.G., Williams, J. and McDermott, A. (1996) J. Phys. Chem., 100, 13293-13310.
49. Schurr, J.M., Babcock, H.P. and Fujimoto, B.S. (1994) J. Magn. Reson., B105, 211-224.
50. Shoji, A., Ozaki, T., Fujito, T., Deguchi, K., Ando, S. and Ando, I. (1989) Macromolecules, 22, 2860-2863.
51. Szyperski, T., Luginbuhl, P., Otting, G., Guntert, P. and Wüthrich, K. (1993) J. Biomol. NMR, 3, 151-164.
52. Tillett, M.L., Blackledge, M.J., Derrick, J.P., Lian, L.Y. and Norwood, T.J. (2000) Prot. Sci., 9, 1210-1216.
53. Tirado, M.M. and de la Torre, J.G. (1980) J. Chem. Phys., 73, 1986-1993.
54. Tjandra, N., Feller, S.E., Pastor, R.W. and Bax, A. (1995) J. Am. Chem. Soc., 117, 12562-12566.
55. Tjandra, N., Szabo, A. and Bax, A. (1996a) J. Am. Chem. Soc., 118, 6986-6991.
56. Tjandra, N., Wingfield, P., Stahl, S. and Bax, A. (1996b) J. Biomol. NMR, 8, 273-284.
57. Wang, L., Kurochkin, A.V. and Zuiderweg, E.R. (2000) J. Magn. Reson., 144, 175-185.