Deconvoluting Chain Heterogeneity From Driven Translocation Through A Nanopore

Abstract

We study translocation dynamics of a driven compressible semi-flexible chain consistingof 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 thebending rigidity kb which controls the three-body interaction term, the elastic constant kF in theFENE (bond) potential between successive monomers, as well as the segmental lengths m and nand the repeat unit p (N = mpnp) and the solvent viscosity γ We demonstrate that due to thechange in entropic barrier and the inhomogeneous viscous drag on the chain backbone a varietyof scenarios are possible, amply manifested in the waiting time distribution of the translocatingchain. This information can be deconvoluted to extract the mechanical properties of the chain atvarious length scales and thus can be used to nanopore based methods to probe bio-molecules,such as DNA, RNA and proteins.

Publication Date

2-1-2015

Publication Title

EPL

Volume

109

Issue

3

Document Type

Article

Personal Identifier

scopus

DOI Link

https://doi.org/10.1209/0295-5075/109/38001

Socpus ID

84923306325 (Scopus)

Source API URL

https://api.elsevier.com/content/abstract/scopus_id/84923306325

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