Translocation Dynamics with Attractive Nanopore-Polymer Interactions

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Translocation Dynamics with Attractive Nanopore-Polymer Interactions. / Luo, Kaifu; Ala-Nissila, Tapio; Ying, Chen; Bhattacharya, Aniket.

In: Physical Review E, Vol. 78, No. 6, 061918, 2008, p. 1-8.

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Luo, Kaifu ; Ala-Nissila, Tapio ; Ying, Chen ; Bhattacharya, Aniket. / Translocation Dynamics with Attractive Nanopore-Polymer Interactions. In: Physical Review E. 2008 ; Vol. 78, No. 6. pp. 1-8.

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@article{cfbb8144af8c46b3b1e46bcefa47a85e,
title = "Translocation Dynamics with Attractive Nanopore-Polymer Interactions",
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.",
keywords = "Interaction, Polymer, Translocation, Interaction, Polymer, Translocation, Interaction, Polymer, Translocation",
author = "Kaifu Luo and Tapio Ala-Nissila and Chen Ying and Aniket Bhattacharya",
year = "2008",
doi = "10.1103/PhysRevE.78.061918",
language = "English",
volume = "78",
pages = "1--8",
journal = "Physical Review E",
issn = "2470-0045",
publisher = "American Physical Society",
number = "6",

}

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TY - JOUR

T1 - Translocation Dynamics with Attractive Nanopore-Polymer Interactions

AU - Luo, Kaifu

AU - Ala-Nissila, Tapio

AU - Ying, Chen

AU - Bhattacharya, Aniket

PY - 2008

Y1 - 2008

N2 - 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.

AB - 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.

KW - Interaction

KW - Polymer

KW - Translocation

KW - Interaction

KW - Polymer

KW - Translocation

KW - Interaction

KW - Polymer

KW - Translocation

U2 - 10.1103/PhysRevE.78.061918

DO - 10.1103/PhysRevE.78.061918

M3 - Article

VL - 78

SP - 1

EP - 8

JO - Physical Review E

JF - Physical Review E

SN - 2470-0045

IS - 6

M1 - 061918

ER -

ID: 3420307