Title

Scaling Exponents Of Forced Polymer Translocation Through A Nanopore

Abstract

We investigate several properties of a translocating homopolymer through a thin pore driven by an external field present inside the pore only using Langevin Dynamics (LD) simulations in three dimensions (3D). Motivated by several recent theoretical and numerical studies that are apparently at odds with each other, we estimate the exponents describing the scaling with chain length (Nof the average translocation time (tau;), the average velocity of the center of mass vCM, and the effective radius of gyration R g during the translocation process defined as (tau;) ∼ N α {vcm}∼ N -δ}, and {R g ∼ N nu; respectively, and the exponent of the translocation coordinate (s -coordinate) as a function of the translocation time {S 2(t)}∼T β. We find α=1.36 ±0.01 β=1.60 ± 0.01 (S 2(t)) τ β and β}=1.44 ± 0.02 for (\%delta;s 2(t) ∼τ β, delta=0.81 ± 0.04, and ̄ν ≃ ν=0.59 ± 0.01, where %nu; is the equilibrium Flory exponent in 3D. Therefore, we find that (τ)∼ N 1.36 is consistent with the estimate of (τ)∼ (R 9/(νCM). However, as observed previously in Monte Carlo (MC) calculations by Kantor and Kardar (Y. Kantor, M. Kardar, Phys. Rev. E 69, 021806 (2004)) we also find the exponent α = 1.36 ± 0.01 < 1 + ν. Further, we find that the parallel and perpendicular components of the gyration radii, where one considers the "cis" and "trans" parts of the chain separately, exhibit distinct out-of-equilibrium effects. We also discuss the dependence of the effective exponents on the pore geometry for the range of N studied here. © 2009 EDP Sciences, SIF, Springer-Verlag Berlin Heidelberg.

Publication Date

8-1-2009

Publication Title

European Physical Journal E

Volume

29

Issue

4

Number of Pages

423-429

Document Type

Article

Personal Identifier

scopus

DOI Link

https://doi.org/10.1140/epje/i2009-10495-5

Socpus ID

70349309335 (Scopus)

Source API URL

https://api.elsevier.com/content/abstract/scopus_id/70349309335

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