Literature DB >> 22260614

Exploring the dynamics of dimer crossing over a Kramers type potential.

Mesfin Asfaw1, Yohannes Shiferaw.   

Abstract

We explore the escape rate of a dimer crossing a potential barrier using both analytical and numerical approaches. We find that for small coupling strength k, the barrier hopping can be well approximated by a two step reaction scheme where one monomer hops over the barrier and is then followed by the other. In this regime the escape rate increases with k showing that the cooperativity between monomers enhances the crossing rate. However, in the limit of large coupling strength, applying the method of adiabatic elimination, we find that the escape rate is a decreasing function of k. Thus, we find that the escape rate is a non-monotonic function of the spring constant which is peaked at an optimal coupling strength. Furthermore, in the presence of a weak periodic signal, we show that the system response to the periodic signal is pronounced at a particular spring constant showing the dimer can be transported rapidly across the reaction coordinate in a half period.

Mesh:

Year:  2012        PMID: 22260614      PMCID: PMC4108677          DOI: 10.1063/1.3675920

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  22 in total

1.  Coil-to-stretch transition, kink formation, and efficient barrier crossing of a flexible chain.

Authors:  S Lee; W Sung
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2001-01-26

2.  Side-chain flexibility in proteins upon ligand binding.

Authors:  R Najmanovich; J Kuttner; V Sobolev; M Edelman
Journal:  Proteins       Date:  2000-05-15

3.  Spatiotemporal stochastic resonance in a phi4 model of kink-antikink nucleation.

Authors: 
Journal:  Phys Rev Lett       Date:  1996-04-08       Impact factor: 9.161

4.  Identifying protein folding cores from the evolution of flexible regions during unfolding.

Authors:  Brandon M Hespenheide; A J Rader; M F Thorpe; Leslie A Kuhn
Journal:  J Mol Graph Model       Date:  2002-12       Impact factor: 2.518

5.  Stochastic resonance for motion of flexible macromolecules in solution.

Authors:  Igor E Dikshtein; Dmitri V Kuznetsov; Lutz Schimansky-Geier
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2002-06-10

6.  Ratcheting of neutral elastic dimers on a charged filament.

Authors:  Andrey Pototsky; Fabio Marchesoni; Sergey E Savel'ev
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2010-03-16

7.  Thermally activated barrier crossing and stochastic resonance of a flexible polymer chain in a piecewise linear bistable potential.

Authors:  Mesfin Asfaw
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2010-08-11

8.  Analytic method for calculating properties of random walks on networks.

Authors: 
Journal:  Phys Rev A Gen Phys       Date:  1986-04

9.  Collective response in globally coupled bistable systems.

Authors: 
Journal:  Phys Rev A       Date:  1992-08-15       Impact factor: 3.140

10.  Controlling kinesin by reversible disulfide cross-linking. Identifying the motility-producing conformational change.

Authors:  M Tomishige; R D Vale
Journal:  J Cell Biol       Date:  2000-11-27       Impact factor: 10.539

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.