Translocation dynamics with attractive nanopore-polymer interactions

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Journal Title
Journal ISSN
Volume Title
School of Science | A1 Alkuperäisartikkeli tieteellisessä aikakauslehdessä
Date
2008
Major/Subject
Mcode
Degree programme
Language
en
Pages
061918/1-8
Series
Physical Review E, Volume 78, Issue 6
Abstract
Using Langevin dynamics simulations, we investigate the influence of polymer-pore interactions on the dynamics of biopolymer translocation through nanopores. We find that an attractive interaction can significantly change the translocation dynamics. This can be understood by examining the three components of the total translocation time τ≈τ1+τ2+τ3 corresponding to the initial filling of the pore, transfer of polymer from the cis side to the trans side, and emptying of the pore, respectively. We find that the dynamics for the last process of emptying of the pore changes from nonactivated to activated in nature as the strength of the attractive interaction increases, and τ3 becomes the dominant contribution to the total translocation time for strong attraction. This leads to nonuniversal dependence of τ as a function of driving force and chain length. Our results are in good agreement with recent experimental findings, and provide a plausible explanation for the different scaling behavior observed in solid state nanopores vs that for the natural α-hemolysin channel.
Description
Keywords
polymers, nanopores, translocation, interaction, Langevin dynamics simulations
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Citation
Luo, Kaifu & Ala-Nissilä, Tapio & Ying, See-Chen & Bhattacharya, Aniket. 2008. Translocation dynamics with attractive nanopore-polymer interactions. Physical Review E. Volume 78, Issue 6. P. 061918/1-8. ISSN 1539-3755 (printed). DOI: 10.1103/physreve.78.061918.