NMR characterization of long-range order in intrinsically disordered proteins

Journal of the American Chemical Society

Volumn 132, Issue 24, 2010, Pages 8407-8418

  Salmon, Loïc ^a   Nodet, Gabrielle ^a   Ozenne, Valéry ^a   Yin, Guowei ^b   Jensen, Malene Ringkjøbing ^a   Zweckstetter, Markus ^b   Blackledge, Martin ^a  

^a CEA GRENOBLE   (France)

^b MAX PLANCK INSTITUTE FOR BIOPHYSICAL CHEMISTRY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

COMBINED ANALYSIS; CONFORMATIONAL BEHAVIOR; DISORDERED PROTEINS; DISORDERED STATE; EXPERIMENTAL DATA; EXPLICIT MODELING; HUMAN GENOMES; INTRAMOLECULAR INTERACTIONS; LOCAL STRUCTURE; LONG RANGE ORDERS; MOLECULAR DESCRIPTIONS; MOLECULAR REPRESENTATIONS; NEURODEGENERATIVE DISEASE; PARAMAGNETIC RELAXATION ENHANCEMENTS; RESIDUAL DIPOLAR COUPLINGS; SELECTION ALGORITHM; STRUCTURAL BIOLOGY; STRUCTURAL DATA; STRUCTURAL FEATURE; SYNUCLEIN;

PROTEINS;

ALPHA SYNUCLEIN; INTRINSICALLY DISORDERED PROTEIN; PROTEIN; UNCLASSIFIED DRUG;

ALGORITHM; ARTICLE; CONTROLLED STUDY; CROSS COUPLING REACTION; DEGENERATIVE DISEASE; MAGNETISM; MOLECULAR INTERACTION; NUCLEAR MAGNETIC RESONANCE; PARAMAGNETIC RELAXATION ENHANCEMENT; PREDICTION; PROTEIN CONFORMATION; PROTEIN STRUCTURE; RESIDUAL DIPOLAR COUPLING; SPIN LABELING;

ALPHA-SYNUCLEIN; BIOPHYSICAL PROCESSES; MAGNETICS; MODELS, MOLECULAR; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN CONFORMATION; REPRODUCIBILITY OF RESULTS; SOLUTIONS;

EID: 77953627413     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja101645g     Document Type: Article

References (69)

1. Uversky, V. N. Protein Sci. 2002, 11, 739-756
2. Dunker, A. K., Brown, C. J., Lawson, J. D., Iakoucheva, L. M., and Obradovic, Z. Biochemistry 2002, 41, 6573-6582
3. Tompa, P. Trends. Biochem. Sci. 2002, 27, 527-533
4. Dyson, H. J. and Wright, P. E. Curr. Opin. Struct. Biol. 2002, 12, 54-60
5. Mittag, T. and Forman-Kay, J. D. Curr. Opin. Struct. Biol. 2007, 17, 3-14
6. Eliezer, D. Curr. Opin. Struct. Biol. 2009, 19, 23-30
7. Dyson, H. J. and Wright, P. E. Chem. Rev. 2004, 104, 3607-3622
8. Mukrasch, M. D., Bibow, S., Korukottu, J., Jeganathan, S., Biernat, J., Griesinger, C., Mandelkow, E. M., and Zweckstetter, M. PLoS Biol. 2009, 7, 399-414
9. Meier, S., Blackledge, M., and Grzesiek, S. J. Chem. Phys. 2008, 128 052204
10. Wright, P. E. and Dyson, H. J. Curr. Opin. Struct. Biol. 2009, 19, 31-38
11. Jensen, M. R., Markwick, P., Griesinger, C., Zweckstetter, M., Meier, S., Grzesiek, S., Bernado, P., and Blackledge, M. Structure 2009, 17, 1169-1185
12. Shoemaker, B. A., Portman, J. J., and Wolynes, P. G. Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 8868-8873
13. Gillespie, J. R. and Shortle, D. J. Mol. Biol. 1997, 268, 158-169
14. Clore, G. M., Tang, C., and Iwahara, J. Curr. Opin. Struct. Biol. 2007, 17, 603-616
15. Battiste, J. L. and Wagner, G. Biochemistry 2000, 39, 5355-5365
16. Iwahara, J., Schwieters, C. D., and Clore, G. M. J. Am. Chem. Soc. 2004, 126, 5879-5896
17. Tang, C., Schwieters, C. D., and Clore, G. M. Nature 2007, 449, 1078-1082
18. Volkov, A. N., Worrall, J. A., Holtzmann, E., and Ubbink, M. Proc. Natl. Acad. Sci. U.S.A. 2006, 103, 18945-18950
19. Bashir, Q., Volkov, A. N., Ullmann, G. M., and Ubbink, M. J. Am. Chem. Soc. 2010, 132, 241-247
20. Gillespie, J. R. and Shortle, D. J. Mol. Biol. 1997, 268, 170-184
21. Lindorff-Larsen, K., Kristjansdottir, S., Teilum, K., Fieber, W., Dobson, C. M., Poulsen, F. M., and Vendruscolo, M. J. Am. Chem. Soc. 2004, 126, 3291-3299
22. Dedmon, M. M., Lindorff-Larsen, K., Christodoulou, J., Vendruscolo, M., and Dobson, C. M. J. Am. Chem. Soc. 2005, 127, 476-477
23. Bertoncini, C. W., Jung, Y. S., Fernandez, C. O., Hoyer, W., Griesinger, C., Jovin, T. M., and Zweckstetter, M. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 1430-1435
24. Kristjansdottir, S., Lindorff-Larsen, K., Fieber, W., Dobson, C. M., Vendruscolo, M., and Poulsen, F. M. J. Mol. Biol. 2005, 347, 1053-1062
25. Song, J., Guo, L. W., Muradov, H., Artemyev, N. O., Ruoho, A. E., and Markley, J. L. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 1505-1510
26. Allison, J. R., Varnai, P., Dobson, C. M., and Vendruscolo, M. J. Am. Chem. Soc. 2009, 131, 18314-18326
27. Ganguly, D. and Chen, J. J. Mol. Biol. 2009, 390, 467-477
28. Huang, J.-R. and Grzesiek, S. J. Am. Chem. Soc. 2010, 132, 694-705
29. Felitsky, D. J., Lietzow, M. A., Dyson, H. J., and Wright, P. E. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 6278-6283
30. Xue, Y., Podkorytov, I. S., Rao, D. K., Benjamin, N., Sun, H., and Skrynnikov, N. R. Protein Sci. 2009, 18, 1401-1424
31. Marsh, J. A., Neale, C., Jack, F. E., Choy, W.-Y., Lee, A. Y., Crowhurst, K. A., and Forman-Kay, J. D. J. Mol. Biol. 2007, 367, 1494-1510
32. Marsh, J. A. and Forman-Kay, J. D. J. Mol. Biol. 2009, 391, 359-374
33. Cho, M. K., Nodet, G., Kim, H. Y., Jensen, M. R., Bernado, P., Fernandez, C. O., Becker, S., Blackledge, M., and Zweckstetter, M. Protein Sci. 2009, 18, 1840-1846
34. Bernado, P., Blanchard, L., Timmins, P., Marion, D., Ruigrok, R. W. H., and Blackledge, M. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 17002-17007
35. Bernado, P., Bertoncini, C., Griesinger, C., Zweckstetter, M., and Blackledge, M. J. Am. Chem. Soc. 2005, 127, 17968-17969
36. Dames, S. A., Aregger, R., Vajpai, N., Bernado, P., Blackledge, M., and Grzesiek, S. J. Am. Chem. Soc. 2006, 128, 13508-13514
37. Skora, L., Cho, M. K., Kim, H.-Y., Fernandez, C., Blackledge, M., and Zweckstetter, M. Angew. Chem., Int. Ed. 2006, 45, 7012-7015
38. Mukrasch, M. D., Markwick, P. R. L., Biernat, J., von Bergen, M., Bernado, P., Griesinger, C., Mandelkow, E., Zweckstetter, M., and Blackledge, M. J. Am. Chem. Soc. 2007, 129, 5235-5243
39. Meier, S., Grzesiek, S., and Blackledge, M. J. Am. Chem. Soc. 2007, 129, 9799-9807
40. Jensen, M. R., Houben, K., Lescop, E., Blanchard, L., Ruigrok, R. W. H., and Blackledge, M. J. Am. Chem. Soc. 2008, 130, 8055-8061
41. Wells, M., Tidow, H., Rutherford, T. J., Markwick, P., Jensen, M. R., Mylonas, E., Svergun, D. I., Blackledge, M., and Fersht, A. R. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 5762-5767
42. Bernado, P. and Blackledge, M. Biophys. J. 2009, 97, 2839-2845
43. Nodet, G., Salmon, L., Ozenne, V., Meier, S., Jensen, M. R., and Blackledge, M. J. Am. Chem. Soc. 2009, 131, 16968-16975
44. Jensen, M. R., Salmon, L., Nodet, G., and Blackledge, M. J. Am. Chem. Soc. 2010, 132, 1270-1272
45. Sezer, D., Freed, J. H., and Roux, B. J. Phys. Chem. B 2008, 112, 5755-5767
46. Brüschweiler, R., Roux, B., Blackledge, M., Griesinger, C., Karplus, M., and Ernst, R. R. J. Am. Chem. Soc. 1992, 114, 2289-2302
47. Shortle, D. and Ackerman, M. S. Science 2001, 293, 487-489
48. Alexandrescu, A. T. and Kammerer, R. A. Protein Sci. 2003, 12, 2132-2140
49. Mohana-Borges, R., Goto, N. K., Kroon, G. J. A., Dyson, H. J., and Wright, P. E. J. Mol. Biol. 2004, 340, 1131-1142
50. Fieber, W., Kristjansdottir, S., and Poulsen, F. M. J. Mol. Biol. 2004, 339, 1191-1199
51. Meier, S., Güthe, S., Kiefhaber, T., and Grzesiek, S. J. Mol. Biol. 2004, 344, 1051-1069
52. Ohnishi, S., Lee, A. L., Edgell, M. H., and Shortle, D. Biochemistry 2004, 43, 4064-4070
53. Sallum, C. O., Martel, D. M., Fournier, R. S., Matousek, W. M., and Alexandrescu, A. T. Biochemistry 2005, 44, 6392-6403
54. Ding, K., Louis, J. M., and Gronenborn, A. M. J. Mol. Biol. 2004, 335, 1299-1307
55. Louhivuori, M., Pääkkönen, K., Fredriksson, K., Permi, P., Lounila, J., and Annila, A. J. Am. Chem. Soc. 2003, 125, 15647-15650
56. Jha, A. K., Colubri, A., Freed, K., and Sosnick, T. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 13099-13105
57. Obolensky, O. I., Schlepckow, K., Schwalbe, H., and Solovyov, A. V. J. Biomol. NMR 2007, 39, 1-16
58. Betancourt, M. R. J. Phys. Chem. B 2008, 112, 5058-5069
59. Marsh, J. A., Baker, J. M. R., Tollinger, M., and Forman-Kay, J. D. J. Am. Chem. Soc. 2008, 130, 7804-7805
60. Jensen, M. R. and Blackledge, M. J. Am. Chem. Soc. 2008, 130, 11266-11267
61. Eliezer, D., Kutluay, E., Bussell, R., Jr., and Browne, G. J. Mol. Biol. 2001, 307, 1061-1073
62. Fernandez, C. O., Hoyer, W., Zweckstetter, M., Jares-Erijman, E. A., Subramaniam, V., Griesinger, C., and Jovin, T. M. EMBO J. 2004, 23, 2039-2046
63. Sung, Y.-h. and Eliezer, D. J. Mol. Biol. 2007, 372, 689-707
64. Wu, K. P., Kim, S., Fela, D. A., and Baum, J. J. Mol. Biol. 2008, 378, 1104-1115
65. Li, C., Lutz, E. A., Slade, K. M., Ruf, R. A., Wang, G. F., and Pielak, G. J. Biochemistry 2009, 48, 8578-8584
66. Lendel, C. and Damberg, P. J. Biomol. NMR 2009, 44, 35-42
67. Solomon, I. Phys. Rev. 1955, 99, 559-565
68. Sezer, D., Freed, J. H., and Roux, B. J. Chem. Phys. 2008, 128 165106
69. Zweckstetter, M. and Bax, A. J. Am. Chem. Soc. 2000, 122, 3791