Protein Conformation and Dynamics. Effects of Crankshaft Motions on 1H NMR Cross-Relaxation Effects

Journal of Physical Chemistry A

Volumn 103, Issue 24, 1999, Pages 4664-4672

  Déméné, Hélène ^b   Sugàr, Istvan P ^a  

^a MOUNT SINAI SCHOOL OF MEDICINE   (United States)

^b CENTRE DE BIOCHIMIE STRUCTURALE   (France)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 0041632120     PISSN: 10895639     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp990791v     Document Type: Article

References (57)

1. (a) Landry, S. J.; Taher, A: Georgopoulos, C.; van der Vies, S. M. Proc. Natl. Acad. Sci. U.S.A. 1996, 93, 11622-11627.
2. (b) Ye, X.; Gorin, A.; Elligton, A. D.; Patel, D. J. Nat. Struct. Biol. 1996, 96, 3, 1026-1033.
3. Koning, T. G. M.; Boelens, R.; Kaptein, R. J. Magn. Reson. 1990, 90, 111-123.
4. Kemming, J.; Scheek, R. M. J. Biomol. NMR 1995, 5, 33-40.
5. (a) Landis, C.; Allured, V. S. J. Am. Chem. Soc. 1991, 113, 9493-9499.
6. (b) Brüschweiler, R.; Blackledge, M.; Ernst, R. R. J. Biomol. NMR 1991, 1, 3-11.
7. (c) Blackledge, M. J.; Bruschweiler, R.; Griesinger, C.; Xu, P.; Ernst, R. R. J. Am. Chem. Soc. 1993, 32, 10960-10974.
8. (d) Cicero, D. O.; Barbato, G.; Bazzo, R. J. Am. Chem. Soc. 1995, 117, 1027-1033.
9. (e) Ulyanov, N. B.; Schmitz, U.; Kumar, A.; James, T. L. Biophys. J. 1995, 68, 13-24.
10. Lipari, G.; Szabo, A. J. A. J. Am. Chem. Soc. 1982, 104, 4546-4559.
11. (a) Koenig, T. M. G.; Boelens, R.; van der Marel, G. A.; van Boom, J. H.; Kaptein, R. Biochemistry 1991, 30, 3787-3797.
12. (b) Lommerse, J. P. M.; Kroon-Batenburg, L. M. J.; Kroon, J.; Kamerling, J. P.; Vliegenthart, J. F. G J. Biomol. NMR 1995, 5, 79-94.
13. (a) Torda, A. E.; Scheek, R. M.; van Gunsteren, W. F. Chem. Phys. Lett. 1989, 157, 289-294.
14. (b) Torda, A. E.; Scheek, R. M.; van Gunsteren, W. F. J. Mol. Biol. 1990, 214, 223-235.
15. (c) Pearlman, D. A.; Kollman, P. A. J. Mol. Biol. 1991, 220, 457-479.
16. (d) Kemming, J.; Scheek, R. M. J. Biomol. NMR 1995, 5, 33-40.
17. (e) Cuniasse, P.; Raynal, I.; Yiotakis, A.; Dive, V. J. Am. Chem. Soc. 1997, 119, 5239-5248.
18. (f) Schneider, T. R.; Brünger, A. T.; Nilges, M. J. Mol. Biol. 1998, 285, 727-740.
19. (a) Chandrasekhar, I.; Clore, G. M.; Szabo, A.; Gronenborn, A. M.; Brooks, B. R. J. Mol. Biol. 1992, 226, 239-250.
20. (b) Eriksson, M. A. L.; Berglund, H.; Härd, T.; Nilsson, L. Proteins: Struct. Funct. Genet. 1993, 17, 375-390.
21. (c) Fushman, D.; Ohlenschläger, O.; Rüterjans, H. J. Biomol. Struct. Dyn. 1994, 11, 1377-1402.
22. (d) Lienin, S. F., Bremi, T.; Brutscher, B.; Brüschweiler, R.; Ersnt, R. R. J. Am. Chem. Soc. 1998, 120, 9870-9879.
23. (e) Smith, L. J.; Mark, A. E.; Dobson, C. M.; Van Gunsteren, W. F. Biochemistry 1995, 34, 10918-10931.
24. (f) Yamasaki, K.; Saito, M.; Oobatake, M.; Kanaya, S. Biochemistry 1995, 34, 6587-6601.
25. Smith, P. E.; van Scheik, R. C.; Szyperski, T.; Wutherich, K.; van Gunsteren, W. F. J. Mol. Biol. 1995, 246, 356-365.
26. (a) Wittebort, R. J.; Szabo, A. J. Chem. Phys. 1977, 69, 1722-1736.
27. (b) Sugàr, I. P. J. Phys. Chem. 1992, 96, 10719-10724.
28. LeMaster, D. M. J. Biomol. NMR 1997, 9, 79-93.
29. Clore, G. M.; Szabo, A.; Bax, A.; Kay, L. E.; Driscoll, P.; Gronenborn, A. M. J. Am. Chem. Soc. 1990, 112, 4989-4991.
30. (a) MacCammon, J. A.; Gelin, B. R.; Karplus, M. Nature 1977, 267, 585-590.
31. (b) Levitt, M. J. Mol. Biol. 1983, 168, 621-657.
32. (c) Wasserman, Z. R.; Salemme, F. R. Biopolymers 1990, 29, 1613-1631.
33. (d) Fadel, A. R.; Jin, D. Q.; Montelione, G. T.; Levy, R. M. J. Biomol. NMR 1995, 6, 221-226.
34. Abragam, A. The Principles of Nuclear Magnetic Resonance; Clarendon Press: Oxford, England, 1961; pp 289-316.
35. Hiyami, Y.; Niu, C. H.; Silverton, J. V.; Bavoso, A.; Torchia, D. A. J. Am. Chem. Soc. 1988, 110, 2378-2383.
36. Tropp, J. J. Chem. Phys. 1980, 72, 6035-6043.
37. Rose, M. E. The Elementary theory of Angular Momentum; Wiley: New York, 1957; Chapter 4.
38. Clore, G. M.; Driscoll, P. C.; Wingfield, P. T.; Gronenborn, A. M. Biochemistry 1990, 29, 7387-7401.
39. Kordel, J.; Skelton, N. J.; Akke, M.; Palmer, A. G.; Chazin, W. J. Biochemistry 1992, 31, 4856-4866.
40. (a) Clore, G. M.; Wingfield, P. T.; Gronenborn, A. M. Biochemistry 1991, 30, 2315.
41. (b) Kördel, J.; Skelton, N. J.; Akke, M.; Chazin, W. J. J. Mol. Biol. 1993, 231, 711-734.
42. Driscoll, P. C.; Gronenborn, A. M.; Wingfield, P. T.; Clore, G. M. Biochemistry 1990, 29, 4668-4682.
43. Bremi, T.; Bruschweiler, R.; Ernst, R. R. J. Am. Chem. Soc. 1997, 119, 6672.
44. (a) Dayie, K. T.; Wagner, G. J. Magn. Reson. 1995, 109B, 105-108.
45. (b) Cordier, F.; Brutscher, B.; Marion, D. J. Biomol. NMR 1996, 7, 163-168.
46. (c) Tjandra, N.; Szabo, A.; Bax, A. J. Am. Chem. Soc. 1996, 118, 6986-6991.
47. (d) Zeng, L.; Fischer, M.; Zuiderweg, E. R. P. J. Biomol. NMR 1996, 7, 157-162.
48. (e) Fischer, M. W. F.; Zeng, L.; Pang, Y.; Hu, W.; Majumdar, A.; Zuiderweg, E. R. P. J. Am. Chem. Soc. 1997, 119, 12629-12642.
49. Bremi, T.; Bruschweiler, R.; Ernst, R. R. J. Am. Chem. Soc. 1997, 119, 4272-4284.
50. Bruschweiler, R.; Case, D. A. Phys. Rev. Letts. 1994, 72, 940-943.
51. (a) Thomas, P. D.; Basus, V. J.; James, T. L. Proc. Natl. Acad. Sci. U.S.A. 1991, 88, 1237-1241.
52. (b) Clore, G. M.; Robien, M. A.; Gronenborn, A. M. J. Mol. Biol. 1993, 231, 82-102.
53. (c) Zhao, D.; Jardetzky, O. J. Mol. Biol. 1994, 239, 601-607.
54. (d) Hoogstraten, C. G.; Markley, J. L. J. Mol. Biol. 1996, 258, 334-348.
55. Kay L. E.; Torchia, D. A.; Marion, D. Biochemistry 1989, 28, 8972-8979.
56. Skelton, N. J.; Palmer, A. G.; Akke, M.; Kördel, J.; Chazin, W. J. J. Magn. Reson., Ser. B 1993, 102, 253-264.
57. To derive a distance from a NOE, one has to calibrate it to a reference NOE corresponding to a known distance. By external theroretical peak reference, we mean the theoritical NOE by contrast to a NOE taken from the spectra (either simulated or experimental).