Differences in the folding transition state of ubiquitin indicated by φ and ψ analyses

Proceedings of the National Academy of Sciences of the United States of America

Volumn 101, Issue 50, 2004, Pages 17377-17382

  Sosnick, Tobin R ^a,b   Dothager, Robin S ^a   Krantz, Bryan A ^a,b,c  

^a UNIVERSITY OF CHICAGO   (United States)

^b UNIVERSITY OF CHICAGO   (United States)

^c HARVARD MEDICAL SCHOOL   (United States)

Author keywords

Multiple pathways; Phi analysis; Protein folding; Transition state

Indexed keywords

UBIQUITIN;

ARTICLE; POLARIZATION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FOLDING; PROTEIN INTERACTION; PROTEIN STRUCTURE;

COMPUTER SIMULATION; MODELS, MOLECULAR; MUTAGENESIS, SITE-DIRECTED; MUTATION; PROTEIN DENATURATION; PROTEIN FOLDING; PROTEIN STRUCTURE, TERTIARY; THERMODYNAMICS; UBIQUITIN;

EID: 10644261303     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.0407683101     Document Type: Article

References (32)

1. Matthews, C. R. (1987) Methods Enzymol. 154, 498-511.
2. Fersht, A. R., Matouschek, A. & Serrano, L. (1992) J. Mol. Biol. 224, 771-782.
3. Fersht, A. R., Leatherbarrow, R. J. & Wells, T. N. C. (1986) Nature 322, 284-286.
4. Leatherbarrow, R. J., Fersht, A. R. & Winter, G. (1985) Proc. Natl. Acad. Sci. USA 82, 7840-7844.
5. Fersht, A. R., Itzhaki, L. S., ElMasry, N. F., Matthews, J. M. & Otzen, D. E. (1994) Proc. Natl. Acad. Sci. USA 91, 10426-10429.
6. Kim, D. E., Yi, Q., Gladwin, S. T., Goldberg, J. M. & Baker, D. (1998) J. Mol. Biol. 284, 807-815.
7. Martinez, J. C., Pisabarro, M. T. & Serrano, L. (1998) Nat. Struct. Biol. 5, 721-729.
8. Moran, L. B., Schneider, J. P., Kentsis, A., Reddy, G. A. & Sosnick, T. R. (1999) Proc. Natl. Acad. Sci. USA 96, 10699-10704.
9. Ozkan, S. B., Bahar, I. & Dill, K. A. (2001) Nat. Struct. Biol. 8, 765-769.
10. Bulaj, G. & Goldenberg, D. P. (2001) Nat. Struct. Biol. 5, 326-330.
11. Krantz, B. A. & Sosnick, T. R. (2001) Nat. Struct. Biol. 5, 1042-1047.
12. Northey, J. G., Maxwell, K. L. & Davidson, A. R. (2002) J. Mol. Biol. 320, 389-402.
13. Khorasanizadeh, S., Peters, I. D. & Roder, H. (1996) Nat. Struct. Biol. 3, 193-205.
14. Krantz, B. A., Dothager, R. S. & Sosnick, T. R. (2004) J. Mol. Biol. 337, 463-475.
15. Fersht, A. R. & Sato, S. (2004) Proc. Natl. Acad. Sci. USA 101, 7976-7981.
16. Sosnick, T. R., Jackson, S., Wilk, R. M., Englander, S. W. & DeGrado, W. F. (1996) Proteins 24, 427-432.
17. Vijay-Kumar, S., Bugg, C. E., Wilkinson, K. D., Vierstra, R. D., Hatfield, P. M. & Cook, W. J. (1987) J. Biol. Chem. 262, 6396-6399.
18. Jacob, J., Krantz, B., Dothager, R. S., Thiyagarajan, P. & Sosnick, T. R. (2004) J. Mol. Biol. 338, 369-382.
19. Krantz, B. A. & Sosnick, T. R. (2000) Biochemistry 39, 11696-11701.
20. Went, H. M., Benitez-Cardoza, C. G. & Jackson, S. E. (2004) FEBS Lett. 567, 333-338.
21. Krantz, B. A., Mayne, L., Rumbley, J., Englander, S. W. & Sosnick, T. R. (2002) J. Mol. Biol. 324, 359-371.
22. Benitez-Cardoza, C. G., Stott, K., Hirshberg, M., Went, H. M., Woolfson, D. N. & Jackson, S. E. (2004) Biochemistry 43, 5195-5203.
23. Kay, M. S. & Baldwin, R. L. (1996) Nat. Struct. Biol. 3, 439-445.
24. Feng, H., Takei, J., Lipsitz, R., Tjandra, N. & Bai, Y. (2003) Biochemistry 42, 12461-12465.
25. McCallister, E. L., Alm, E. & Baker, D. (2000) Nat. Struct. Biol. 7, 669-673.
26. Deechongkit, S., Nguyen, H., Powers, E. T., Dawson, P. E., Gruebele, M. & Kelly, J. W. (2004) Nature 430, 101-105.
27. Sanchez, I. E. & Kiefhaber, T. (2003) J. Mol. Biol. 334, 1077-1085.
28. Plaxco, K. W., Simons, K. T. & Baker, D. (1998) J. Mol. Biol. 277, 985-994.
29. Myers, J. K., Pace, C. N. & Scholtz, J. M. (1995) Protein Sci. 4, 2138-2148.
30. Ding, F., Dokholyan, N. V., Buldyrev, S. V., Stanley, H. E. & Shakhnovich, E. I. (2002) Biophys. J. 83, 3525-3532.
31. Shea, J. E., Onuchic, J. N. & Brooks, C. L., III (2002) Proc. Natl. Acad. Sci. USA 99, 16064-16068.
32. Fraczkiewicz, R. & Braun, W. (1998) J. Comp. Chem. 19, 319-333.