Selective characterization of microsecond motions in proteins by NMR relaxation

Journal of the American Chemical Society

Volumn 131, Issue 44, 2009, Pages 16257-16265

  Hansen, D Flemming ^a   Feng, Haniqiao ^b   Zhou, Zheng ^b   Bai, Yawen ^b   Kay, Lewis E ^a  

^a UNIVERSITY OF TORONTO   (Canada)

^b NATIONAL CANCER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL FUNCTIONS; CHEMICAL EXCHANGE; DYNAMIC PROCESS; FREE STATE; LOOP REGIONS; MICROSECOND DYNAMICS; NMR RELAXATION; PROTEIN MOTION; RADIO FREQUENCY FIELDS; RELAXATION RATES; STATIC MAGNETIC FIELDS; TERNARY COMPLEX; THREE-DIMENSIONAL STRUCTURE; TIME-SCALES; UBIQUITIN;

MAGNETIC FIELDS; NUCLEAR MAGNETIC RESONANCE; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; SUPRAMOLECULAR CHEMISTRY;

PROTEINS;

CHAPERONE; HISTONE H2A; HISTONE H2B; UBIQUITIN;

ARTICLE; BETA SHEET; CONTROLLED STUDY; MACROMOLECULE; MAGNETIC FIELD; MOTION; NANOTECHNOLOGY; NUCLEAR MAGNETIC RESONANCE; PROTEIN STRUCTURE; THERMOSTABILITY;

HISTONES; KINETICS; MAGNETIC RESONANCE SPECTROSCOPY; METHODS; MOLECULAR CHAPERONES; MOLECULAR DYNAMICS SIMULATION; MOTION; PROTEIN CONFORMATION; PROTEINS;

EID: 70450184385     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja906842s     Document Type: Article

References (62)

1. Karplus, M.; Kuriyan, J. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 6679-6685.
2. Lange, O. F.; Lakomek, N. A.; Farès, C.; Schröder, G. F.; Walter, K. F.; Becker, S.; Meiler, J.; Grubmüller, H.; Griesinger, C.; de Groot, B. L. Science 2008, 320, 1471-1475
3. Yang, H.; Luo, G.; Karnchanaphanurach, P.; Louie, T. M.; Rech, I.; Cova, S.; Xun, L.; Xie, X. S. Science 2003, 302, 262-266
4. Vallurupalli, P.; Kay, L. E. Proc. Natl. Acad. Sci. U.S.A. 2006, 103, 11910-11915
5. Boehr, D. D.; McElheny, D.; Dyson, H. J.; Wright, P. E. Science 2006, 313, 1638-1642
6. Wolf-Watz, M.; Thai, V.; Henzler-Wildman, K.; Hadjipavlou, G.; Eisenmesser, E. Z.; Kern, D. Nat. Struct. Mol. Biol. 2004, 11, 945-949
7. Brueschweiler, S.; Schanda, P.; Kloiber, K.; Brutscher, B.; Kontaxis, G.; Konrat, R.; Tollinger, M. J. Am. Chem. Soc. 2009, 131, 3063-3068.
8. Palmer, A. G.; Grey, M. J.; Wang, C. Y. Methods Enzymol. 2005, 394, 430-465.
9. Palmer, A. G. Curr. Opin. Struct. Biol. 1997, 7, 732-737.
10. Joo, C.; Balci, H.; Ishitsuka, Y.; Buranachai, C.; Ha, T. Annu. Rev. Biochem. 2008, 77, 51-76.
11. Xu, J.; Knutson, J. R. Methods Enzymol. 2008, 450, 159-183
12. Gurunathan, K.; Levitus, M. Prog. Nucleic Acid Res. Mol. Biol. 2008, 82, 33-69.
13. Xie, X. S. J. Chem. Phys. 2002, 117, p 11024-11032.
14. Fayer, M. D. Annu. Rev. Phys. Chem. 2009, 60, 21-38.
15. Kolano, C.; Helbing, J.; Kozinski, M.; Sander, W.; Hamm, P. Nature 2006, 444, 469-472
16. Kay, L. E.; Torchia, D. A.; Bax, A. Biochemistry 1989, 28, 8972-8979.
17. Kroenke, C. D.; Loria, J. P.; Lee, L. K.; Rance, M.; Palmer, A. G. J. Am. Chem. Soc. 1998, 120, 7905-7915.
18. Ghose, R.; Huang, K.; Prestegard, J. H. J. Magn. Reson. 1998, 135, 487-499
19. Pelupessy, P.; Ferrage, F.; Bodenhausen, G. J. Chem. Phys. 2007, 126, 134508.
20. Luk, E.; Vu, N. D.; Patteson, K.; Mizuguchi, G.; Wu, W. H.; Ranjan, A.; Backus, J.; Sen, S.; Lewis, M.; Bai, Y.; Wu, C. Mol. Cell 2007, 25, 357-368
21. Hansen, D. F.; Zhou, Z.; Fen, H.; Jenkins, L. M. M.; Bai, Y.; Kay, L. E. J. Mol. Biol. 2009, 387, 1-9.
22. Sorensen, O. W.; Eich, G. W.; Levitt, M. H.; Bodenhausen, G.; Ernst, R. R. Prog. Nucl. Magn. Reson. Spectrosc. 1983, 16, 163-192.
23. Hansen, D. F.; Yang, D.; Feng, H.; Zhou, Z.; Wiesner, S.; Bai, Y.; Kay, L. E. J. Am. Chem. Soc. 2007, 129, 11468-11479
24. Abragam, A. Principles of Nuclear Magnetism; Clerendon Press: Oxford, 1961.
25. Peng, J. W.; Wagner, G. J. Magn. Reson. 1992, 98, 308-332.
26. Allard, P.; Helgstrand, M.; Hard, T. J. Magn. Reson. 1998, 134, 7-16.
27. Cornilescu, G.; Bax, A. J. Am. Chem. Soc. 2000, 122, 10143-10154.
28. Lipari, G.; Szabo, A. J. Am. Chem. Soc. 1982, 104, 4546-4559.
29. Lipari, G.; Szabo, A. J. Am. Chem. Soc. 1982, 104, 4559-4570.
30. Farrow, N. A.; Zhang, O.; Szabo, A.; Torchia, D. A.; Kay, L. E. J. Biomol. NMR 1995, 6, 153-162.
31. Ishima, R.; Nagayama, K. J. Magn. Reson., Ser. B 1995, 108, 73-76.
32. Wang, L.; Pang, Y.; Holder, T.; Brender, J. R.; Kurochkin, A. V.; Zuiderweg, E. R. Proc. Natl. Acad. Sci. U.S.A. 2001, 98, 7684-7689
33. Evenäs, J.; Malmendal, A.; Akke, M. Structure 2001, 9, 185-195
34. Akke, M. Curr. Opin. Struct. Biol. 2002, 12, 642-647
35. Kroenke, C. D.; Rance, M.; Palmer, A. G. J. Am. Chem. Soc. 1999, 121, 10119-10125.
36. Hiyama, Y.; Niu, C. H.; Silverton, J. V.; Bavoso, A.; Torchia, D. A. J. Am. Chem. Soc. 1988, 110, 2378-2383.
37. Oas, T. G.; Hartzell, C. J.; Dahlquist, F. W.; Drobny, G. P. J. Am. Chem. Soc. 1987, 109, 5962-5966.
38. Tjandra, N.; Szabo, A.; Bax, A. J. Am. Chem. Soc. 1996, 118, 6986-6991.
39. Palmer, A. G., III; Massi, F. Chem. Rev. 2006, 106, 1700-1719.
40. Trott, O.; Palmer, A. G. J. Magn. Reson. 2002, 154, 157-160.
41. Palmer, A. G. Chem. Rev. 2004, 104, 3623-3640
42. Hansen, D. F.; Vallurupalli, P.; Kay, L. E. J. Biomol. NMR 2008, 41, 113-120
43. Lundström, P.; Akke, M. J. Biomol. NMR 2005, 32, 163-173
44. O'Connell, N. E.; Grey, M. J.; Tang, Y.; Kosuri, P.; Miloushev, V. Z.; Raleigh, D. P.; Palmer, A. G. J. Biomol. NMR 2009, 45, 85-98.
45. Massi, F.; Grey, M. J.; Palmer, A. G. Protein Sci. 2005, 14, 735-742.
46. Fushman, D.; Tjandra, N.; Cowburn, D. J. Am. Chem. Soc. 1998, 120, 10947-10952.
47. Hall, J. B.; Fushman, D. J. Am. Chem. Soc. 2006, 128, 7855-7870.
48. Burton, R. A.; Tjandra, N. J. Biomol. NMR 2006, 35, 249-259.
49. Cornilescu, G.; Marquardt, J. L.; Ottiger, M.; Bax, A. J. Am. Chem. Soc. 1998, 120, 6836-6837.
50. O'Neill, J. W.; Kim, D. E.; Baker, D.; Zhang, K. Y. J. Acta Crystallogr., Sect. D: Biol. Crystallogr. 2001, 57, 480-487.
51. Hicke, L.; Schubert, H. L.; Hill, C. P. Nat. Rev. Mol. Cell Biol. 2005, 6, 610-621
52. Wuthrich, K.; Wagner, G. Trends Biochem. Sci. 1978, 3, 227-230.
53. Campbell, I. D.; Dobson, C. M.; Williams, R. J. P. Proc. R. Soc. London, Ser. B 1975, 189, 503-509.
54. Snyder, G. H.; Rowan, R.; Sykes, B. D. Biochemistry 1976, 15, 2275-2283.
55. Zhou, Z.; Feng, H.; Hansen, D. F.; Kato, H.; Luk, E.; Freedberg, D. I.; Kay, L. E.; Wu, C.; Bai, Y. Nat. Struct. Mol. Biol. 2008, 15, 868-869
56. Distefano, D. L.; Wand, A. J. Biochemistry 1987, 26, 7272-7281.
57. Scalley, M. L.; Yi, Q.; Gu, H. D.; McCormack, A.; Yates, J. R.; Baker, D. Biochemistry 1997, 36, 3373-3382.
58. Hansen, D. F.; Kay, L. E. J. Biomol. NMR 2007, 37, 245-255.
59. 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.; Kay, L. E. Biochemistry 1994, 33, 5984-6003.
60. Delaglio, F.; Grzesiek, S.; Vuister, G. W.; Zhu, G.; Pfeifer, J.; Bax, A. J. Biomol. NMR 1995, 6, 277-293.
61. Kneller, D. G.; Kuntz, I. D. J. Cell. Biochem. 1993, 254-254
62. Press, W. H.; Flannery, B. P.; Teukolsky, S. A.; Vetterling, W. T. Numerical Recipes in C; Cambridge University Press: Cambridge, 1988.