Literature DB >> 26328814

A new approach to the problem of bulk-mediated surface diffusion.

Alexander M Berezhkovskii1, Leonardo Dagdug1, Sergey M Bezrukov1.   

Abstract

This paper is devoted to bulk-mediated surface diffusion of a particle which can diffuse both on a flat surface and in the bulk layer above the surface. It is assumed that the particle is on the surface initially (at t = 0) and at time t, while in between it may escape from the surface and come back any number of times. We propose a new approach to the problem, which reduces its solution to that of a two-state problem of the particle transitions between the surface and the bulk layer, focusing on the cumulative residence times spent by the particle in the two states. These times are random variables, the sum of which is equal to the total observation time t. The advantage of the proposed approach is that it allows for a simple exact analytical solution for the double Laplace transform of the conditional probability density of the cumulative residence time spent on the surface by the particle observed for time t. This solution is used to find the Laplace transform of the particle mean square displacement and to analyze the peculiarities of its time behavior over the entire range of time. We also establish a relation between the double Laplace transform of the conditional probability density and the Fourier-Laplace transform of the particle propagator over the surface. The proposed approach treats the cases of both finite and infinite bulk layer thicknesses (where bulk-mediated surface diffusion is normal and anomalous at asymptotically long times, respectively) on equal footing.

Mesh:

Year:  2015        PMID: 26328814      PMCID: PMC4552701          DOI: 10.1063/1.4928741

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


  29 in total

Review 1.  Facilitated target location in biological systems.

Authors:  P H von Hippel; O G Berg
Journal:  J Biol Chem       Date:  1989-01-15       Impact factor: 5.157

Review 2.  The kinetics of interfacial catalysis by phospholipase A2 and regulation of interfacial activation: hopping versus scooting.

Authors:  M K Jain; O G Berg
Journal:  Biochim Biophys Acta       Date:  1989-04-03

3.  Target search of N sliding proteins on a DNA.

Authors:  Igor M Sokolov; Ralf Metzler; Kiran Pant; Mark C Williams
Journal:  Biophys J       Date:  2005-05-20       Impact factor: 4.033

4.  Single molecule measurements of repressor protein 1D diffusion on DNA.

Authors:  Y M Wang; Robert H Austin; Edward C Cox
Journal:  Phys Rev Lett       Date:  2006-07-27       Impact factor: 9.161

5.  How DNA coiling enhances target localization by proteins.

Authors:  B van den Broek; M A Lomholt; S-M J Kalisch; R Metzler; G J L Wuite
Journal:  Proc Natl Acad Sci U S A       Date:  2008-10-06       Impact factor: 11.205

6.  Bulk-mediated surface diffusion along a cylinder: Propagators and crossovers.

Authors:  Aleksei V Chechkin; Irwin M Zaid; Michael A Lomholt; Igor M Sokolov; Ralf Metzler
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2009-04-27

7.  Quantifying hopping and jumping in facilitated diffusion of DNA-binding proteins.

Authors:  C Loverdo; O Bénichou; R Voituriez; A Biebricher; I Bonnet; P Desbiolles
Journal:  Phys Rev Lett       Date:  2009-05-04       Impact factor: 9.161

8.  Biased diffusion in three-dimensional comb-like structures.

Authors:  Alexander M Berezhkovskii; Leonardo Dagdug; Sergey M Bezrukov
Journal:  J Chem Phys       Date:  2015-04-07       Impact factor: 3.488

9.  Rate enhancement by guided diffusion. Chain length dependence of repressor-operator association rates.

Authors:  R Schranner; P H Richter
Journal:  Biophys Chem       Date:  1978-05       Impact factor: 2.352

10.  Probing tubulin-blocked state of VDAC by varying membrane surface charge.

Authors:  Philip A Gurnev; Maria Queralt-Martin; Vicente M Aguilella; Tatiana K Rostovtseva; Sergey M Bezrukov
Journal:  Biophys J       Date:  2012-05-02       Impact factor: 4.033

View more
  2 in total

1.  Bulk-mediated surface transport in the presence of bias.

Authors:  Alexander M Berezhkovskii; Leonardo Dagdug; Sergey M Bezrukov
Journal:  J Chem Phys       Date:  2017-07-07       Impact factor: 3.488

2.  Slip of fluid molecules on solid surfaces by surface diffusion.

Authors:  Jian-Jun Shu; Ji Bin Melvin Teo; Weng Kong Chan
Journal:  PLoS One       Date:  2018-10-11       Impact factor: 3.240

  2 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.