Literature DB >> 34293906

Diffusive barrier crossing rates from variationally determined eigenvalues.

Alexander M Berezhkovskii1, Irina V Gopich2, Attila Szabo2.   

Abstract

Kramers' procedure for calculating the rate of activated processes involves partitioning space into reactant, barrier, and product regions by introducing two dividing surfaces. Then, a nonequilibrium steady state is established by injecting particles on one surface and removing them when they reach the other. The rate is obtained as the ratio of the steady-state flux between the surfaces and the population of the initial well. An alternative procedure that seems less artificial is to estimate the first non-zero eigenvalue of the operator that describes the dynamics and then equate its magnitude to the sum of the forward and backward rate constants. Here, we establish the relationship between these approaches for diffusive dynamics, starting with the variational principle for the eigenvalue of interest and then using a trial function involving two adjustable surfaces. We show how Kramers' flux-over-population expression for the rate constant can be obtained from our variationally determined eigenvalue in the special case where the reactant and product regions are separated by a high barrier. This work exploits the modern theory of activated rate processes where the committor (the probability of reaching one dividing surface before the other) plays a central role. Surprisingly, our upper bound for the eigenvalue can be expressed solely in terms of mean first-passage times and the mean transition-path time between the two dividing surfaces.

Entities:  

Year:  2021        PMID: 34293906      PMCID: PMC8411888          DOI: 10.1063/5.0058066

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   4.304


  9 in total

1.  From transition paths to transition states and rate coefficients.

Authors:  Gerhard Hummer
Journal:  J Chem Phys       Date:  2004-01-08       Impact factor: 3.488

2.  Ensemble of transition states for two-state protein folding from the eigenvectors of rate matrices.

Authors:  Alexander Berezhkovskii; Attila Szabo
Journal:  J Chem Phys       Date:  2004-11-08       Impact factor: 3.488

3.  Perturbation theory of Phi-value analysis of two-state protein folding: relation between p fold and Phi values.

Authors:  Alexander Berezhkovskii; Attila Szabo
Journal:  J Chem Phys       Date:  2006-09-14       Impact factor: 3.488

4.  Transition-path theory and path-finding algorithms for the study of rare events.

Authors:  Weinan E; Eric Vanden-Eijnden
Journal:  Annu Rev Phys Chem       Date:  2010       Impact factor: 12.703

5.  Diffusion along the splitting/commitment probability reaction coordinate.

Authors:  Alexander M Berezhkovskii; Attila Szabo
Journal:  J Phys Chem B       Date:  2013-07-03       Impact factor: 2.991

6.  Exact rate calculations by trajectory parallelization and tilting.

Authors:  Eric Vanden-Eijnden; Maddalena Venturoli
Journal:  J Chem Phys       Date:  2009-07-28       Impact factor: 3.488

7.  Multidimensional reaction rate theory with anisotropic diffusion.

Authors:  Alexander M Berezhkovskii; Attila Szabo; Nicholas Greives; Huan-Xiang Zhou
Journal:  J Chem Phys       Date:  2014-11-28       Impact factor: 3.488

8.  Committors, first-passage times, fluxes, Markov states, milestones, and all that.

Authors:  Alexander M Berezhkovskii; Attila Szabo
Journal:  J Chem Phys       Date:  2019-02-07       Impact factor: 3.488

Review 9.  Rate theories for biologists.

Authors:  Huan-Xiang Zhou
Journal:  Q Rev Biophys       Date:  2010-08-09       Impact factor: 5.318

  9 in total

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