Equalities for the Nonequilibrium Work Transferred from an External Potential to a Molecular System. Analysis of Single-Molecule Extension Experiments

Journal of Physical Chemistry B

Volumn 107, Issue 50, 2003, Pages 14007-14019

  Schurr, J Michael ^a   Fujimoto, Bryant S ^a  

^a UNIVERSITY OF WASHINGTON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ENTROPY; ERROR ANALYSIS; FORCE MEASUREMENT; FREE ENERGY; HYSTERESIS; INTEGRATION; ISOTHERMS; PARAMETER ESTIMATION; PERTURBATION TECHNIQUES; POTENTIAL ENERGY; PROBABILITY DENSITY FUNCTION; RANDOM PROCESSES; SUBSTITUTION REACTIONS; THERMAL EFFECTS; THERMODYNAMICS; TRAJECTORIES;

MOLECULAR EXTENSIONS; MOLECULAR FLUCTUATIONS; THERMAL BATH;

MOLECULAR DYNAMICS;

EID: 0347568172     PISSN: 15206106     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp0306803     Document Type: Article

References (45)

1. Chandler, D. Introduction to Modern Statistical Mechanics; Oxford University Press: New York, 1987; sect. 5.5.
2. Reinhardt, W. P.; Miller, M.; Amon, L. M. Acc. Chem. Res. 2001, 34, 607.
3. Straatsma, T. P.; McCammon, J. A. Annu. Rev. Phys. Chem. 1992, 43, 407.
4. Karplus, M.; Petsko, G. A. Nature (London) 1990, 347, 631.
5. Beveridge, D. L.; Di Capua, F. M. Annu. Rev. Biophys. Biophys. Chem. 1989, 18, 431.
6. Brooks, C. L., III; Karplus, M.; Pettit, B. M. Adv. Chem. Phys. 1988, 71 1.
7. Gebe, J. A.; Allison, S. A.; Clendenning, J. B.; Schurr, J. M. Biophys. J. 1995, 68, 619.
8. Smith, S. B.; Finzi, L.; Bustamante, C. Science 1992, 258, 1122.
9. Smith, S. B., Cui, Y. J.; Bustamante, C. Science 1996, 271, 795.
10. Cluzel, P.; Lebrun, A.; Heller, C.; Lavery, R.; Viovy, J. L.; Chatenay, D.; Caron, F. Science 1996, 271, 792-794.
11. Strick, T. R.; Allemand, J. F.; Bensimon, D.; Bensimon, A.; Croquette, V. Science 1996, 271, 1835.
12. Wang, M. D.; Yin, H.; Landick, R.; Gelles, J.; Block, S. M. Biophys. J. 1997, 72, 1335.
13. Florin, E. L.; Moy, V. T.; Gaub, H. E. Science 1994 264, 415.
14. Kellermayer, M. S. Z.; Smith, S. B.; Granzier, H. L.; Bustamante, C. Science 1997, 276, 1112.
15. Tskhovrebova, L.; Trinick, J.; Sleep, J. A.; Simmons, R. B. Nature (London) 1997, 387, 308.
16. Rief, M.; Gautel, M., Oesterhelt, F.; Fernandez, J. M.; Gaub, H. E. Science 1997, 276, 1109.
17. Rief, M.; Oesterhelt, F.; Heymann, B.; Gaub, H. E. Science 1997, 275, 1295.
18. Oberhauser, A. F.; Marszalek, P. E.; Erickson, H. P.; Fernandez, J. M. Nature (London) 1998, 393, 181.
19. Markel, R.; Nassoy, P.; Leung, A.; Ritchie, K.; Evans, E. Nature (London) 1999, 397, 50.
20. Oberhauser, A. F.; Marszalek, P. E.; Erickson, H. P.; Fernandez, J. M. Nature (London) 1998, 393, 181.
21. Hegner, M.; Smith, S. B.; Bustamante, C. Proc. Natl. Acad. Sci. U. S. A. 1999, 96, 10109.
22. Rief, M.; Clausen-Schaumann, H.; Gaub, H. E. Nat. Struct. Biol. 1999, 6, 346.
23. Rief, M.; Pascual, J.; Sarasate, M.; Gaub, H. E. J. Mol. Biol. 1999, 256, 553.
24. Clausen-Schaumann, H.; Rief, M.; Tolksdorf, C.; Gaub, H. E. Biophys. J. 2000, 78, 1997.
25. Oesterhelt, F.; Oesterhelt, D.; Pfeiffer, M.; Engel, A.; Gaub, H. E.; Müller, D. J. Science 2000, 288, 143.
26. Cui, Y.; Bustamante, C. Proc. Natl. Acad. Sci. U. S. A. 2000, 97, 127.
27. Rief, M.; Gautel, M.; Gaub, H. E. Adv. Exp. Med. Biol. 2000, 481, 129.
28. Yang, G.; Ceconi, C.; Baase, W. A.; Vetter, I. R.; Breyer, W. A.; Haack, J. A.; Mathews, B. W.; Dahlquist, F. W.; Bustamante, C. Proc. Natl. Acad. Sci. U. S. A. 2000, 97, 139.
29. Liphardt, J.; Onoa, B.; Smith, S. B.; Tinoco, I., Jr.; Bustamante, C. Science 2000, 292, 5517.
30. Liphardt, J.; Dumont, S.; Smith, S. B.; Tinoco, I., Jr.; Bustamante, C. Science 2002, 296, 1832.
31. Williams, M. C.; Wenner, J. I.; Rouzina, I.; Bloomfield, V. A. Biophys. J. 2001, 80, 874.
32. Williams, M. C.; Rouzina, I.; Bloomfield, V. A. Acc. Chem. Res. 2002, 35, 159.
33. Williams, M. C.; Rouzina, I.; Wenner, J. R.; Gorelick, R. J.; Musier-Forsyth, K.; Bloomfield, V. A. Proc. Natl. Acad. Sci. U. S. A. 2001, 35, 159.
34. Wenner, J. R.; Williams, M. C.; Rouzina, I.; Bloomfield, V. A. Biophys. J. 2002, 82, 2002.
35. Urry, D. W.; Hugel, T.; Seitz, M.; Gaub, H. E.; Sheiba, L.; Dea, J.; Xu, J.; Parker, T. Philos. Trans. R. Soc. London, Ser. B 2002, 357, 169.
36. Hummer, G.; Szabo, A. Proc. Natl. Acad. Sci. U. S. A. 2001, 98, 3659.
37. Ritort, F.; Bustamante, C.; Tinoco, I., Jr. Proc. Natl. Acad. Sci. U. S. A 2002, 99, 13544.
38. Jarzynski, C. Phys. Rev. Lett. 1997, 78, 2690.
39. Jarzynski, C. Phys. Rev. E 1997, 56, 5018.
40. Crooks, G. Phys. Rev. E 2000, 61, 2361.
41. Ermak, D.; McCammon, J. A. J. Chem. Phys. 1978, 69, 1352.
42. Allison, S. A.; McCammon, J. A. Biopolymers 1983, 22, 167.
43. Heath, P. J.; Gebe, J. A.; Allison, S. A.; Schurr, J. M. Macromolecules 1996, 29, 3583.
44. Metropolis, N.; Rosenbluth, A. W.; Rosenbluth, A. H.; Teller, A. H.; Teller, E. J. Chem. Phys. 1953, 21, 1087.
45. Berne, B. J.; Pecora, R. Dynamic Light Scattering with Applications to Biology, Chemistry, and Physics; Wiley: New York, 1976.