Manuscript Number : GISRRJ19264

Polymer Translocation through a Nanopore under a Pulling Force - A 3D Langevin Dynamics Simulation Study

Authors(1) :-Fikre Jida

Employing, the Langevin dynamics simulations study method, we investigate the dynamics of linear chain polymers’ translocation into and out of a three-dimensional spherical cavity through a nanopore under a pulling force F .For the polymer translocations into the cavity, we observe different factors that influence on polymer translocation dynamics through a nanopore under a pulling force in Langevin dynamics simulations. Our focus on the influence of the chain length defined as N = Rg/R , Rgis the radius of gyration to the polymer and R is the cavity’s radius, thermostat Langevin temperature T , the cavity pore size η and the pulling force F on the average translocation time,. Thus, we obtain that the distribution of τ for the different chain lengths, it is symmetric and narrow for strong F .We also assure that τ ∼ N 2 and translocation velocity v ∼ N −1 for both moderate and strong F . Relatively for wide pore, three regimes are observed for τ as a function of F. τ is independent of F for weak F and lastly crosses over to τ ∼ F−1 for strong force even for a moderate force. Finally, the waiting time, for monomer n and monomer n+ 1 to exit the pore, has a maximum for n close to the end of the chain, in contrast to the case where the polymer is driven by an external force within the pore. We also here present a computer simulation study of polymer translocation out of the cavity in a situation where the chain is initially confined to a closed spherical cavity in order to reduce the impact of conformational diversity on the translocation times. In particular, we investigate how the coefficient of variation of the distribution of translocation times can be minimized by optimizing both the volume and the aspect ratio of the cavity.

Authors and Affiliations

Fikre Jida
Department of Physics, Bule Hora University, Ethiopia

Langevin Dynamics, ESPRESSO, translocation, coarse-grained, bead, linear polymer, scaling behavior, distribution of translocation time, thermostat Langevin.

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Publication Details

Published in : Volume 2 | Issue 6 | November-December 2019
Date of Publication : 2019-12-30
License:  This work is licensed under a Creative Commons Attribution 4.0 International License.
Page(s) : 34-47
Manuscript Number : GISRRJ19264
Publisher : Technoscience Academy

ISSN : 2582-0095

Cite This Article :

Fikre Jida, "Polymer Translocation through a Nanopore under a Pulling Force - A 3D Langevin Dynamics Simulation Study ", Gyanshauryam, International Scientific Refereed Research Journal (GISRRJ), ISSN : 2582-0095, Volume 2, Issue 6, pp.34-47, November-December.2019
URL : https://gisrrj.com/GISRRJ19264

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