Effect of gatekeepers on the early folding kinetics of a model β-barrel protein

Journal of Chemical Physics

Volumn 119, Issue 11, 2003, Pages 5722-5729

  Stoycheva, Antitsa D ^a,b,c   Onuchic, José N ^b,c   Brooks III, Charles L ^a,b  

^a SCRIPPS RESEARCH INSTITUTE   (United States)

^b Center for Theoretical Biological Physics   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTER SIMULATION; GENES; MATRIX ALGEBRA; MUTAGENESIS; REACTION KINETICS;

GATEKEEPERS;

PROTEINS;

EID: 0141990950     PISSN: 00219606     EISSN: None     Source Type: Journal    
DOI: 10.1063/1.1599281     Document Type: Article

References (38)

1. D. Bentley, Drug. Discov. Today 6, 13 (2001).
2. E. S. Lander et al., Nature (London) 409, 860 (2001).
3. J. D. McPherson et al., Nature (London) 409, 934 (2001).
4. D. R. Bentley, Hum. Mol. Genet. 9, 2353 (2000).
5. J. D. Bryngelson and P. G. Wolynes, Proc. Natl. Acad. Sci. U.S.A. 84, 7524 (1987).
6. J. D. Bryngelson and P. G. Wolynes, J. Phys. Chem. 93, 6902 (1989).
7. P. E. Leopold, M. Montal, and J. N. Onuchic, Proc. Natl. Acad. Sci. U.S.A. 89, 8721 (1992).
8. A. Sali, E. Shakhnovich, and M. Karplus, Nature (London) 369, 248 (1994).
9. J. D. Bryngelson, J. N. Onuchic, N. D. Socci, and P. Wolynes, Proteins: Struct., Funct., Genet. 21, 167 (1995).
10. E. M. Boczko and C. L. Brooks III, Science 269, 393 (1995).
11. J. N. Onuchic. Z. Luthey-Schulten, and P. G. Wolynes, Annu. Rev. Phys. Chem. 48, 545 (1997).
12. J. N. Onuchic, P. Wolynes, Z. Luthey-Schulten, and N. D. Socci, Proc. Natl. Acad. Sci. U.S.A. 92, 3626 (1995).
13. G. S. Huang and T. G. Oas, Proc. Natl. Acad. Sci. U.S.A. 92, 6878 (1995).
14. Y. Feng, S. G. Siglar, and A. J. Wand, Nat. Struct. Biol. 1, 30 (1994).
15. T. R. Sosnick, R. Hiller, and S. W. Englander, Nat. Struct. Biol. 1, 149 (1994).
16. G. A. Elöve, A. K. Bhuyan, and H. Roder, Biochemistry 33, 6925 (1994).
17. P. A. Jennings and P. E. Wright, Science 262, 892 (1993).
18. J. Balbach, V. Forge, W. S. Lau, N. A. J. van Nuland, K. Brew, and C. M. Dobson, Science 274, 1161 (1996).
19. L. S. Itzhaki, D. E. Otzen, and A. R. Fersht, J. Mol. Biol. 254, 260 (1995).
20. E. López-Hernández and L. Serrano, Folding Des. 1, 43 (1996).
21. R. M. Ballew, J. Sabelko, and M. Gruebele, Proc. Natl. Acad. Sci. U.S.A. 93, 5759 (1996).
22. T. Pascher, J. P. Chesick, J. R. Winkler, and H. B. Gray, Science 271, 1558 (1996).
23. K. W. Plaxco and C. M. Dobson, Curr. Opin. Struct. Biol. 6, 630 (1996).
24. K. W. Plaxco, K. T. Simons, and D. Baker, J. Mol. Biol. 277, 985 (1998).
25. B. Schuler, E. A. Lipman, and W. A. Eaton, Nature (London) 419, 743 (2002).
26. W. A. Eaton et al., Annu. Rev. Biophys. Biomol. Struct. 29, 327 (2000).
27. D. E. Otzen and M. Oliveberg, Proc. Natl Acad. Sci. U.S.A. 96, 11746 (1999).
28. D. E. Otzen, O. Kristensen, and M. Oliveberg, Proc. Natl. Acad. Sci. U.S.A. 97, 9907 (2000).
29. J. D. Honeycutt and D. Thirumalai, Biopolymers 32, 695 (1992).
30. J. D. Honeycutt and D. Thirumalai, Proc. Natl. Acad. Sci. U.S.A. 87, 3526 (1990).
31. Z. Guo and D. Thirumalai, Biopolymers 36, 83 (1995).
32. Z. Guo and C. L. Brooks III, Biopolymers 42, 745 (1997).
33. J.-E. Shea, Y. D. Nochomovitz, Z. Guo, and C. L. Brooks III, J. Chem. Phys. 109, 2895 (1998).
34. H. Nymeyer, A. E. García, and J. N. Onuchic, Proc. Natl. Acad. Sci. U.S.A. 95, 5921 (1998).
35. J.-E. Shea, J. N. Onuchic, and C. L. Brooks III, J. Chem. Phys. 113. 7663 (2000).
36. J.-P. Ryckaert, G. Ciccotti, and H. J. C. Berendsen, J. Comput. Phys. 23, 327 (1977).
37. B. R. Brooks, R. E. Bruccoleri, B. D. Olafson, D. J. States, S. Swami-nathan, and M. Karplus, J. Comput. Chem. 4, 187 (1983).
38. B. Zagrovic, C. D. Snow, S. Khaliq, M. R. Shirts, and V. S. Pande, J. Mol. Biol. 323, 153 (2002).