Protein folding dynamics: Application of the diffusion-collision model to the folding of a four-helix bundle

Journal of Physical Chemistry

Volumn 100, Issue 7, 1996, Pages 2498-2509

  Yapa, Kanthi K ^a   Weaver, David L ^b  

^a UNIVERSITY OF RUHUNA   (Sri Lanka)

^b TUFTS UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 0000179575     PISSN: 00223654     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp952543e     Document Type: Article

References (46)

1. Chan, H. S.; Dill, K. A. Proc. Natl. Acad. Sci. U.S.A. 1990, 87, 6388-6392.
2. Shakhnovich, E. I.; Gutin, A. M. Nature 1990, 346, 773-775.
3. Anfinsen, C. B. Science 1973, 181, 223-230.
4. Levinthal, C. J. Chim. Phys. 1968, 65, 44-45.
5. Levinthal, C. Sci. Am. 1966, 214, 42-52.
6. Karplus, M.; Weaver, D. L. Nature 1976, 260, 404-406.
7. Karplus, M.; Weaver, D. L. Protein Sci. 1994, 3, 650-668.
8. Sheriff, S.; Hendrickson, W. A.; Smith, J. L. J. Mol. Biol. 1987, 197, 273-296.
9. Stenkamp, R. E.; Sieker, L. C.; Jensen, L. H. Acta Crystallogr. 1983, B39, 697.
10. Regan, L.; DeGrado. Science 1988, 241, 976-978.
11. Hecht, M. H.; Richardson, J. S.; Richardson, D. C.; Ogden, R. C. Science 1990, 249, 884-891.
12. Yapa, K.; Weaver, D. L. Biophys. J. 1992, 63, 296-299.
13. Karplus, M.; Weaver, D. L. Biopolymers 1979, 18, 1421-1437.
14. Bashford, D. J. Chem. Phys. 1986, 85, 6999-7010.
15. Ohgushi, M.; Wada, A. FEBS Lett. 1983, 164, 21-24.
16. Ptitsyn, O. B. J. Protein Chem. 1987, 6, 272-293.
17. Kuwajima, K. Proteins 1989, 6, 87-103.
18. Weaver, D. L. Biopolymers 1984, 23, 675-694.
19. Richmond, T. J.; Richards, F. M. J. Mol. Biol. 1978, 119, 537-555.
20. Chothia, C. Nature 1974, 248, 338-339.
21. Weaver, D. L. J. Chem. Phys. 1980, 72, 3483-3485.
22. Weaver, D. L. Biopolymers 1982, 21, 1275-1300.
23. Bashford, D.; Weaver, D. L. J. Chem. Phys. 1986, 84, 2587-2592.
24. Bashford, D.; Cohen, F. E.; Karplus, M.; Kuntz, I. D.; Weaver, D. L. Proteins 1988, 4, 211-227.
25. Bashford, D.; Weaver, D. L.; Karplus, M. J. Biomol. Struct. Dynam. 1984, 1, 1243-1255.
26. Bashford, D.; Karplus, M.; Weaver, D. L. In Protein Folding: Deciphering the Second Half of the Genetic Code; Gierasch, L. M., King, J., Eds.; American Association for the Advancement of Science: Washington, D.C., 1990; pp 283-290.
27. Sutcliffe, M. J.; Haneef, I.; Carney, D.; Blundell, T. L. Protein Eng. 1987, 1, 377-384.
28. Lee, B.; Richards, F. M. J. Mol. Biol. 1971, 55, 379-400.
29. MATLAB Reference Guide; The Mathworks, Inc.: 1992.
30. Harrison, S. C.; Durban, R. Proc. Natl. Acad. Sci. U.S.A. 1985, 82, 4028-4030.
31. Levitt, M. J. Mol. Biol. 1976, 104, 59-107.
32. Flory, P. J. Statistical Mechanics of Chain Molecules; Wiley: New York, 1969.
33. McCammon, J. A.; Northrup, S. H.; Karplus, M.; Levy, R. M. Biopolymers 1980, 19, 2033-2045.
34. Ermak, D. L.; McCammon, J. A. J. Chem. Phys. 1978, 69, 1352-1361.
35. Dill, K. A. Biochemistry 1990, 29, 713-715.
36. Schneller, W.; Weaver, D. L. Biopolymers 1993, 33, 1519-1535.
37. Yapa, K.; Weaver, D. L.; Karplus, M. Proteins 1992, 12, 237-265.
38. Lee, S.; Karplus, M.; Bashford, D.; Weaver, D. L. Biopolymers 1987, 26, 481-506.
39. Pear, M. R.; Northrup, S. H.; McCammon, J. A.; Karplus, M.; Levy, R. M. Biopolymers 1981, 20, 629-632.
40. Pauling, L.; Corey, R. B.; Branson, H. R. Proc. Natl. Acad. Sci. U.S.A. 1951, 37, 205-211.
41. Roder, H.; Elove, G. A.; Englander, S. W. Nature 1988, 335, 700-704.
42. Hughson, F. M.; Wright, P. E.; Baldwin, R. L. Science 1990, 249, 1544-1548.
43. Hughson, F. M.; Barrick, D.; Baldwin, R. L. Biochemistry 1991, 30, 4113-4118.
44. Schneller, W.; Pappu, R. V.; Weaver, D. L. J. Comput. Chem., to be published.
45. Kraulis, P. J. J. Appl. Crystallogr. 1991, 24, 946-950.
46. Radford, S. A.; Dobson, C. M. Philos. Trans. R. Soc. London, B 1995, 348, 17-25.