Noise driven translocation of short polymers in crowded solutions
arXiv:0810.1699 · doi:10.1088/1742-5468/2009/01/P01011
Abstract
In this work we study the noise induced effects on the dynamics of short polymers crossing a potential barrier, in the presence of a metastable state. An improved version of the Rouse model for a flexible polymer has been adopted to mimic the molecular dynamics by taking into account both the interactions between adjacent monomers and introducing a Lennard-Jones potential between all beads. A bending recoil torque has also been included in our model. The polymer dynamics is simulated in a two-dimensional domain by numerically solving the Langevin equations of motion with a Gaussian uncorrelated noise. We find a nonmonotonic behaviour of the mean first passage time and the most probable translocation time, of the polymer centre of inertia, as a function of the polymer length at low noise intensity. We show how thermal fluctuations influence the motion of short polymers, by inducing two different regimes of translocation in the molecule transport dynamics. In this context, the role played by the length of the molecule in the translocation time is investigated.
11 pages, 3 figures, to appear in J. Stat. Mechanics: Theory and Experiment, 2008
References in corpus (11)
- Fast DNA translocation through a solid-state nanopore
- Polymer Translocation througha Pore in a Membrane
- Driven Polymer Translocation Through a Narrow Pore
- Influence of polymer-pore interactions on translocation
- Sequence dependence of DNA translocation through a nanopore
- Signatures of Noise Enhanced Stability in Metastable States
- Polymer translocation through a nanopore: a two-dimensional Monte Carlo simulation
- Polymer translocation induced by adsorption
- Role of the initial conditions on the enhancement of the escape time in static and fluctuating potentials
- Polymer translocation through a nanopore under a pulling force
- Noise effects in polymer dynamics