Deconvoluting chain heterogeneity from driven translocation through a nanopore

    Authors

    R. Adhikari;A. Bhattacharya

    Comments

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    Abbreviated Journal Title

    Epl

    Keywords

    POLYMER TRANSLOCATION; Physics, Multidisciplinary

    Abstract

    We study translocation dynamics of a driven compressible semi-flexible chain consisting of alternate blocks of stiff (S) and flexible (F) segments of size m and n, respectively, for different chain length N in two dimensions (2D). The free parameters in the model are the bending rigidity K-b which controls the three-body interaction term, the elastic constant k(F) in the FENE (bond) potential between successive monomers, as well as the segmental lengths m and n and the repeat unit p (N = m(p)n(p)) and the solvent viscosity gamma. We demonstrate that due to the change in entropic barrier and the inhomogeneous viscous drag on the chain backbone a variety of scenarios are possible, amply manifested in the waiting time distribution of the translocating chain. This information can be deconvoluted to extract the mechanical properties of the chain at various length scales and thus can be used to nanopore based methods to probe bio-molecules, such as DNA, RNA and proteins. Copyright (C) EPLA, 2015

    Journal Title

    Epl

    Volume

    109

    Issue/Number

    3

    Publication Date

    1-1-2015

    Document Type

    Article

    Language

    English

    First Page

    6

    WOS Identifier

    WOS:000351660100029

    ISSN

    0295-5075

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