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研究生: 楊依玲
Yang, Yi-Ling.
論文名稱: KcsA通道之泊松-費米分子模型
A Molecular Poission – Fermi Model for KcsA Channel
指導教授: 劉晉良
Liu, Jinn-Liang
口試委員: 陳人豪
Chen, Jen-Hao
陳仁純
Chen, Ren-Chuen
學位類別: 碩士
Master
系所名稱: 南大校區系所調整院務中心 - 應用數學系所
應用數學系所(English)
論文出版年: 2017
畢業學年度: 105
語文別: 英文
論文頁數: 15
中文關鍵詞: 鉀離子通道泊松-費米分子模擬
外文關鍵詞: KcsA, Poission – Fermi Model
相關次數: 點閱:2下載:0
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  • 我們使用 Liu 和 Eisenberg 在 2014 年開發的泊松-費米理論研究了鉀離子
    通道內的離子運輸機制 (KcsA)。我們提出了解釋 KcsA 的 K+ 運輸功能分
    子的結合和解綁定循環。該理論的輸出包括各種循環狀態下每個 K 離子的
    電和空間能。我們計算由軟體 PDB2PQR 提供的 KcsA 結構的七個結合位
    點處的電勢和空間勢。循環狀態的原子和數值結果可用於描述 KcsA 通道
    的 K 離子依序通過的傳輸機制。


    We used the Poisson-Fermi theory developed by Liu and Eisenberg in 2014
    to study the ion transport mechanism of potassium ion channels (KcsA).We
    propose a binding and de-binding cycle to explain KcsA’s K+ exchange function
    molecule. The output of the theory includes electric and steric energies
    of each K ion in various cyclic states. We calculate the electric and steric
    potentials at seven binding sites of the KcsA structure provided by the software
    PDB2PQR .The atomic and numerical results of the cyclic states can
    be used to describe the transport mechanism of a single file of K ions through
    the KcsA channel.

    致謝 1 1 Introduction 1 2 KcsA Structure 2 3 Theory 6 4 Results 8 5 Conclusion 14 References 15

    1] Berman, H. M., Battistuz, T., Bhat, T. N., Bluhm, W. F.,
    Bourne, P. E., Buckhardt, K., Feng, Z., Gilliland, G. L.,
    Iype, L., Jain, S., Fagan, P., Marvin, J., Padilla, D., Ravichandran,
    V., Schneider, B., Thanki, N., Weissig, H., Westbrook,
    J. D., and Zardecki, C. The Protein Data Bank. Acta crystallographica
    D 58 (2002), 899–907.

    [2] Liu, J. L., and Eisenberg, B. Poisson-Nernst-Planck-Fermi theory
    for modeling biological ion channels. The Journal of Chemical Physics
    141, 22 (2014), 22D532.

    [3] Liu, J. L., Eisenberg, B., and Hsieh, H. J. Poisson-Fermi Modeling
    of the Ion Exchange Mechanism of the Sodium / Calcium Exchanger
    (NCX). The Journal of Physical Chemistry B 120, 10 (2016), 2658–2669.

    [4] Todd J., D., Paul, C., Li, H., Nielsen, J. E., Jensen, J. H.,
    Klebe, G., and Baker, N. A. PDB2PQR: expanding and upgrading
    automated preparation of biomolecular structures for molecular simulations.
    Nucleic Acids Research 35, SUPPL.2 (2007), 522–525.

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