Novel chemical kinetics for a single enzyme reaction: Relationship between substrate concentration and the second moment of enzyme reaction time

Journal of Physical Chemistry B

Volumn 114, Issue 30, 2010, Pages 9840-9847

  Jung, Won ^a   Yang, Seongeun ^a   Sung, Jaeyoung ^a  

^a Chung Ang University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

CONCENTRATION (PROCESS); ENZYMES; QUANTUM CHEMISTRY; RANDOM PROCESSES; SUBSTRATES;

ANALYTIC EXPRESSIONS; CATALYTIC TURNOVER; CHEMICAL KINETICS; ENZYME REACTION; ENZYME SUBSTRATES; ENZYME SYSTEMS; ERGODICITY; ERGODICS; EXPERIMENTAL ANALYSIS; GALACTOSIDASES; HETEROGENEOUS REACTION SYSTEMS; QUADRATIC FUNCTION; RATE PROCESS; REACTION NETWORK; REACTION PROCESS; REACTION TIME; SECOND MOMENTS; SINGLE MOLECULE; SUBSTRATE COMPLEXES; SUBSTRATE CONCENTRATIONS;

REACTION KINETICS;

EID: 77955465709     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/jp1001868     Document Type: Article

References (45)

1. Velonia, K.; Flomenbom, O.; Loos, D.; Masuo, S.; Cotlet, M.; Engelborghs, Y.; Hofkens, J.; Rowan, A. E.; Klafter, J.; Nolte, R. J. M.; de Schryver, F. C. Angew. Chem., Int. Ed. 2005, 44, 560
2. Min, W.; English, B. P.; Luo, G.; Cherayil, B. J.; Kou, S. C.; Xie, X. S. Acc. Chem. Res. 2005, 38, 923
3. Kou, S. C.; Cherayil, B. J.; Min, W.; English, B. P.; Xie, X. S. J. Phys. Chem. B 2005, 109, 19068
4. Asbury, C. L.; Fehr, A. N.; Block, S. M. Science 2003, 302, 2130
5. Park, H.; Toprak, E.; Selvin, R. Q. Rev. Biophys. 2007, 40, 87
6. Flomenbom, O.; Silbey, R. J. Proc. Natl. Acad. Sci. U.S.A. 2006, 103, 10907
7. van Kampen, N. G. Stochastic Processes in Physics and Chemistry, 3rd ed.; Elsevier: Amsterdam, 2007.
8. Thattai, M.; van Oudenaarden, A. Proc. Natl. Acad. Sci. U.S.A. 2001, 98, 8614
9. Gillespie, D. T. J. Phys. Chem. 1977, 81, 2340
10. Salwinski, L.; Eisenberg, D. Nat. Biotechnol. 2004, 22, 1017
11. Cao, J. Chem. Phys. Lett. 2000, 327, 38
12. Gopich, I. V.; Szabo, A. J. Chem. Phys. 2006, 124, 154712
13. Smiley, R. D.; Hammes, G. G. Chem. Rev. 2006, 106, 3080
14. Qian, H. Biophys. J. 2008, 95, 10
15. Chemla, Y. R.; Moffitt, J. R.; Bustamante, C. J. Phys. Chem. B 2008, 112, 6025
16. Xu, W.; Kong, J. S.; Chen, P. J. Phys. Chem. C 2009, 113, 2393
17. Gershenson, A. Curr. Opin. Chem. Biol. 2009, 13, 436
18. English, B. P.; Min, W.; van Oijen, A. M.; Lee, K. T.; Luo, G.; Sun, H.; Cherayil, B. J.; Kou, S. C.; Xie, X. S. Nat. Chem. Biol. 2006, 2, 87
19. Wilemski, G.; Fixman, M. J. Chem. Phys. 1973, 58, 4009
20. Agmon, N.; Hopfield, J. J. J. Chem. Phys. 1983, 78, 6947
21. ibid. 1983, 79, 2042.
22. Weiss, G. H. J. Chem. Phys. 1984, 80, 2880
23. Zwanzig, R. Acc. Chem. Res. 1990, 23, 148
24. J. Chem. Phys. 1992, 97, 3587.
25. Sung, J.; Lee, S. J. Chem. Phys. 1999, 111, 796
26. Yang, S.; Cao, J. J. Chem. Phys. 2002, 117, 10996
27. Xue, X.; Liu, F.; Ou-Yang, Z. Phys. Rev. E 2006, 74, 030902(R)
28. Andrew, S. S.; Arkin, A. P. Curr. Biol. 2006, 16, R523
29. Sung, J.; Silbey, R. J. Phys. Rev. Lett. 2003, 91, 160601
30. Sung, J.; Silbey, R. J. Chem. Phys. Lett. 2005, 415, 10
31. Cao, J.; Silbey, R. J. J. Phys. Chem. B 2008, 112, 12867
32. Michaelis, L.; Menten, M. Biochem. Z. 1913, 49, 333
33. The channel-dependent transition time distributions of this type are first introduced in ref 26, which is necessary for a correct description of multichannel processes with arbitrary stochastic properties. See also: Flomenbom, O.; Klafter, J. Phys. Rev. Lett. 2005, 95, 098105 and ref 28
34. The derivation procedure is similar to that presented in ref 26, in which the authors present the generalized mater equation for a continuous time random walker undergoing either a reaction or a nonreactive reflection at a boundary of the one-dimensional lattice.
35. Sung, J.; Lee, S. J. Chem. Phys. 1999, 111, 10159
36. Agmon, N.; Edelstein, A. L. J. Chem. Phys. 1994, 100, 4181
37. Popov, A. V.; Agmon, N. J. Chem. Phys. 2001, 115, 8921
38. 2
39. 2(-'1).
40. Weiss, G. H. Aspects and applications of the random walk; North-Holland: Amsterdam, 1994.
41. j being equal to zero cannot contribute to our single molecule observable.
42. 2, which is the same as Q + 1 in the present work.
43. Xu, W.; Kong, J. S.; Chen, P. Phys. Chem. Chem. Phys. 2009, 11, 2767
44. Barkai, E.; Jung, Y.; Silbey, R. Annu. Rev. Phys. Chem. 2004, 55, 457
45. Cao, J. J. Phys. Chem. B 2006, 110, 19040