Scrutinizing the squeezed exponential kinetics observed in the folding simulation of an off-lattice Go-like protein model

Chemical Physics

Volumn 307, Issue 2-3 SPEC.ISS., 2004, Pages 259-267

  Nakamura, Hironori K ^a   Sasai, Masaki ^b   Takano, Mitsunori ^a  

^a WASEDA UNIVERSITY   (Japan)

^b NAGOYA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; EXPERIMENT; KINETICS; MATHEMATICAL ANALYSIS; MOLECULAR DYNAMICS; MONITOR; MONTE CARLO METHOD; PROTEIN FOLDING; TIME;

EID: 8644274813     PISSN: 03010104     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.chemphys.2004.07.011     Document Type: Article

References (45)

1. C.M. Dobson, A. Sali, and M. Karplus Angew. Chem. Int. Ed. 37 1998 868
2. J.D. Bryngelson, J.N. Onuchic, N.D. Socci, and P.G. Wolynes Proteins: Struct. Funct. Genet. 21 1995 167
3. M. Oliveberg, Y.-J. Tan, and A.R. Fersht Proc. Natl. Acad. Sci. USA 92 1995 8926
4. U. Mayor, C.M. Johnson, V. Daggett, and A.R. Fersht Proc. Natl. Acad. Sci. USA 97 2000 13518
5. M. Scalley, and D. Baker Proc. Natl. Acad. Sci. USA 94 1997 10636
6. M. Oliveberg, Y.-J. Tan, M. Silow, and A.R. Fersht J. Mol. Biol. 277 1998 933
7. M. Oliveberg Curr. Opin. Struct. Biol. 11 2001 94
8. M.F. Shlesinger, G.M. Zaslavsky, and J. Klafter Nature 363 1993 31
9. S. Saigo, and N. Shibayama Biochemistry 42 2003 9669
10. W.Y. Yang, and M. Gruebele Nature 423 2003 193
11. J. Sabelko, J. Ervin, and M. Gruebele Proc. Natl. Acad. Sci. USA 96 1999 6031
12. C.-Y. Huang Proc. Natl. Acad. Sci. USA 99 2002 2788
13. D.T. Leeson Proc. Natl. Acad. Sci. USA 97 2000 2527
14. N.D. Socci, J.N. Onuchic, and P.G. Wolynes Proteins: Struct. Funct. Genet. 32 1998 136
15. N.D. Socci, H. Nymeyer, and J.N. Onuchic Physica D 107 1997 366
16. J. Chahine Phys. Rev. Lett. 88 2002 168101
17. H. Nymeyer, A.E. Garcia, and J.N. Onuchic Proc. Natl. Acad. Sci. USA 95 1998 5921
18. M. Skorobogatiy, H. Guo, and M. Zuckermann J. Chem. Phys. 109 1998 2528
19. H.K. Nakamura, and M. Sasai Proteins: Struct. Funct. Genet. 43 2001 280
20. H.K. Nakamura, T.N. Sasaki, and M. Sasai Chem. Phys. Lett. 347 2001 247
21. M. Takano, H.K. Nakamura, K. Nagayama, and A. Suyama J. Chem. Phys. 118 2003 10312
22. H.K. Nakamura, M. Sasai, and M. Takano Proteins: Struct. Funct. Bioinf. 55 2004 99
23. Y. Zhu Proc. Natl. Acad. Sci. USA 100 2003 15486
24. M. Gruebele Ann. Rev. Phys. Chem. 50 1999 485
25. W.A. Eaton Ann. Rev. Biophys. Biomol. Struct. 29 2000 327
26. W.A. Eaton Proc. Natl. Acad. Sci. USA 96 1999 5897
27. S.J. Hagen Proteins: Struct. Funct. Genet. 50 2003 1
28. B. Gillespie, and K.W. Plaxco Proc. Natl. Acad. Sci. USA 97 2000 12014
29. D. Hamada, and C.M. Dobson Protein Sci. 11 2002 2417
30. C. Hashimoto, and H. Ushiki Polym. J. 32 2000 807
31. C. Clementi, H. Nymeyer, and J.N. Onuchic J. Mol. Biol. 298 2000 937
32. C. Clementi, P.A. Jennings, and J.N. Onuchic Natl. Acad. Sci. USA 97 2000 5871
33. N. Koga, and S. Takada J. Mol. Biol. 313 2001 171
34. F. Takagi, N. Koga, and S. Takada Proc. Natl. Acad. Sci. USA 100 2003 11367
35. H. Kaya, and H.S. Chan J. Mol. Biol. 326 2003 911
36. N. Go Ann. Rev. Biophys. Bioeng. 12 1983 183
37. H.J. Berendsen, J.P.M. Postma, W.F. van Gunsteren, A. DiNola, and J.R. Haak J. Chem. Phys. 81 1984 3684
38. S. Kumar, D. Bouzida, R.H. Swendsen, P.A. Kollman, and J.M. Rosenberg J. Comp. Chem. 13 1992 1011
39. A. Matagne, S.E. Radford, and C.M. Dobson J. Mol. Biol. 267 1997 1068
40. D.J. Brockwell, D.A. Smith, and S.E. Radford Curr. Opin. Struct. Biol. 10 2000 16
41. B.A. Krantz, L. Mayne, J. Rumbley, S.W. Englander, and T.R. Sosnick J. Mol. Biol. 324 2002 359
42. S.Y. Lee, Y. Fujitsuka, D.H. Kim, and S. Takada Proteins: Struct. Funct. Bioinf. 55 2004 115
43. A.I. Jewett, V.S. Pande, and K.W. Plaxco J. Mol. Biol. 326 2003 247
44. D. Thirumalai, D.K. Klimov, and S.A. Woodson Theor. Chem. Acc. 96 1997 14
45. M.R. Betancourt, and J.N. Onuchic J. Chem. Phys. 103 1995 773