Extended Brownian dynamics of diffusion controlled reactions
J. Chem. Phys. 83, 2894 (1985); doi:10.1063/1.449242
Issue Date: 15 September 1985
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The Brownian dynamics simulation method of Northrup et al. is extended so that dynamical trajectories can be initiated with the reactants in close proximity to one another. A more general analysis is presented which shows that this procedure is exact in cases where the first-time encounter flux to the more proximal starting surface is isotropic, such as cases where interparticle forces are centrosymmetric, but is approximate otherwise. Diffusion controlled rate constants for three model systems obtained by this procedure are compared with analytic results or with exact rate constants derived from simulations following the original Northrup procedure. Agreement is good to excellent in all cases considered. The extended method is expected to be of considerable practical importance in systems with highly anisotropic reactivity where it is computationally inefficient to obtain rate constants by the original method.
The Journal of Chemical Physics is copyrighted by The American Institute of Physics.
| History: | Received 11 March 1985; accepted 6 June 1985 |
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REFERENCES (38)
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- H. L. Friedman,
J. Phys. Chem. 70, 3931 (1966 ). - J. M. Deutch and B. U. Felderhof, J. Phys. Chem. 59, 1669 (1973).
- P. G. Wolynes and J. M. Deutch, J. Chem. Phys. 65, 450 (1976).
- P. G. Wolynes and J. A. McCammon,
Macromolecules 10, 86 (1977 ). - S. H. Northrup and J. T. Hynes, J. Phys. Chem. 71, 871 (1979).
- J. T. Hynes, R. Kapral, and G. M. Torrie, J. Chem. Phys. 72, 177 (1980).
- K. Sole and W. H. Stockmayer,
Int. J. Chem. Kinet. 5, 733 (1973 ). - J. M. Schurr and K. S. Schmitz,
J. Phys. Chem. 80, 1934 (1976 ). - R. Samson and J. M. Deutch, J. Phys. Chem. 68, 285 (1978).
- D. Shoup, G. Lipari, and A. Szabo,
Biophys. J. 36, 697 (1981 ). - J. A. McCammon and S. H. Northrup,
Nature 293, 316 (1981 ). - S. H. Northrup, F. Zarrin, and J. A. McCammon,
J. Phys. Chem. 86, 2314 (1982 ). - A. Szabo, D. Shoup, S. H. Northrup, and J. A. McCammon, J. Chem. Phys. 77, 4484 (1982).
- J. A. McCammon,
Rep. Prog. Phys. 47, 1 (1984 ). - K. C. Chou and G. P. Zhou,
J. Am. Chem. Soc. 104, 1409 (1982 ). - J. W. van Leeuwen,
FEBS Lett. 156, 262 (1983 ). - R. M. Noyes, Prog. React. Kinet. 1, 128 (1961).
- D. F. Calef and J. M. Deutch,
Annu. Rev. Phys. Chem. 34, 493 (1983 ). - E. Neumann, in Structural and Functional Aspects of Enzyme Catalysis, edited by H. Eggerer and R. Huber (Springer, Berlin, 1981), pp. 45–58.
- O. G. Berg and P. H. von Hippel, Annu. Rev. Biophys. Biophys. Chem. (in press).
- G. Wilemski and M. Fixman, J. Phys. Chem. 58, 4009 (1973).
- G. Wilemski and M. Fixman, J. Phys. Chem. 60, 866, 878 (1974).
- M. Doi,
Chem. Phys. 11, 107, 115 (1975 ). - S. H. Northrup and J. T. Hynes,
Chem. Phys. Lett. 54, 244 (1978 ). - C. James and G. T. Evans, J. Chem. Phys. 76, 2680 (1982).
- G. H. Weiss, J. Chem. Phys. 80, 102 (1984).
- S. I. Temkin and B. I. Yakobson,
J. Phys. Chem. 88, 2679 (1984 ). - G. P. Zientra, J. A. Nagy, and J. H. Freed, J. Chem. Phys. 73, 5092 (1980).
- S. H. Northrup, S. A. Allison, and J. A. McCammon, J. Chem. Phys. 80, 1517 (1984).
- S. A. Allison, N. Srinivasan, J. A. McCammon, and S. H. Northrup,
J. Phys. Chem. 88, 6152 (1984 ). - S. A. Allison and J. A. McCammon,
J. Phys. Chem. 89, 1072 (1985 ). - S. A. Allison, G. Ganti, and J. A. McCammon, Biopolymers (in press).
- G. Ganti, J. A. McCammon, and S. A. Allison, J. Phys. Chem. (in press).
- D. L. Ermak and J. A. McCammon, J. Chem. Phys. 69, 1352 (1978).
- IMSL Library 7 Reference Manual (IMSL International and Statistical Libraries, Houston, Texas, 1975).
- E. D. Getzoff, J. A. Tainer, P. K. Weiner, P. A. Kollman, J. S. Richardson, and D. C. Richardson,
Nature 306, 287 (1983 ). - A. Cudd and I. Fridovich,
J. Biol. Chem. 257, 11443 (1982 ). - J. A. Tainer, E. D. Getzoff, K. M. Beem, J. S. Richardson, and D. C. Richardson,
J. Mol. Biol. 160, 181 (1982 ).



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