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Translocation of a protein-like chain through an interacting channel

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Abstract

The effect of channel-protein interaction on the translocation of a protein-like chain through a finite channel under certain electric field was studied by using dynamical Monte Carlo simulations. The interior behavior of chain conformation under different interactions was investigated, such as the number of monomers outside of channel n out, monomers inside of channel n m, mean-square radius of gyration 〈 S 2 〉 and the average energy 〈 U 〉. It shows that with strong attractive interaction, the translocation is more difficult than moderate interaction. At the same time, the dependence of translocation time with different interactions shows that moderate repulsive interaction (ɛcp = 0.5) accelerates the translocation. Although the waiting time for successful translocation of ɛcp = 1.0 is the longest, the average translocation time is not very large. It is far smaller than that of ɛcp=−1.0. The probability distributions of translocation time p(t′) and the probability distributions of three duration times p(t 1′), p(t 2′) and p(t 3′) were all discussed. Log-normal distributions are found. All these findings will strengthen the understanding of protein translocation.

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Authors and Affiliations

  1. School of Information and Electronic Engineering, Zhejiang Gongshang University, Hangzhou, 310018, China

    Ting-ting Sun  (孙婷婷) & Hai-zhu Ma

  2. School of Food Science and Biotechnology, Zhejiang Gongshang University, Hangzhou, 310035, China

    Shao-ping Deng

Authors
  1. Ting-ting Sun  (孙婷婷)
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  2. Hai-zhu Ma
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  3. Shao-ping Deng
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Corresponding author

Correspondence to Ting-ting Sun  (孙婷婷).

Additional information

This work was supported by the National Natural Science Foundation of China (No. 20904047).

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Sun, Tt., Ma, Hz. & Deng, Sp. Translocation of a protein-like chain through an interacting channel. Chin J Polym Sci 29, 520–531 (2011). https://doi.org/10.1007/s10118-011-1067-1

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  • DOI: https://doi.org/10.1007/s10118-011-1067-1

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