Function of the hydration layer around an antifreeze protein revealed by atomistic molecular dynamics simulations

被引:193
|
作者
Nutt, David R. [1 ]
Smith, Jeremy C. [1 ,2 ]
机构
[1] Heidelberg Univ, IWR, D-69120 Heidelberg, Germany
[2] Univ Tennessee, Oak Ridge Natl Lab, Ctr Biophys Mol, Oak Ridge, TN 37831 USA
基金
瑞士国家科学基金会;
关键词
D O I
10.1021/ja8034027
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
Atomistic molecular dynamics simulations are used to investigate the mechanism by which the antifreeze protein from the spruce budworm, Choristoneura fumiferana, binds to ice. Comparison of structural and dynamic properties of the water around the three faces of the triangular prism-shaped protein in aqueous solution reveals that at low temperature the water structure is ordered and the dynamics slowed down around the ice-binding face of the protein, with a disordering effect observed around the other two faces. These results suggest a dual role for the solvation water around the protein. The preconfigured solvation shell around the ice-binding face is involved in the initial recognition and binding of the antifreeze protein to ice by lowering the barrier for binding and consolidation of the protein:ice interaction surface. Thus, the antifreeze protein can bind to the molecularly rough ice surface by becoming actively involved in the formation of its own binding site. Also, the disruption of water structure around the rest of the protein helps prevent the adsorbed protein becoming covered by further ice growth.
引用
收藏
页码:13066 / 13073
页数:8
相关论文
共 50 条
  • [1] Dual function of the hydration layer around an antifreeze protein revealed by atomistic molecular dynamics simulations
    Nutt, David R.
    Smith, Jeremy C.
    Journal of the American Chemical Society, 2008, 130 (39): : 13066 - 13073
  • [2] Comparative study of hydration shell dynamics around a hyperactive antifreeze protein and around ubiquitin
    Duboue-Dijon, Elise
    Laage, Damien
    JOURNAL OF CHEMICAL PHYSICS, 2014, 141 (22):
  • [3] Thermodynamics of Hydration Water around an Antifreeze Protein: A Molecular Simulation Study
    Pandey, Hari Datt
    Leitner, David M.
    JOURNAL OF PHYSICAL CHEMISTRY B, 2017, 121 (41): : 9498 - 9507
  • [4] Molecular dynamics simulations of an antifreeze protein at the lipid/water interface
    Smith, E. J.
    Haymet, A. D. J.
    JOURNAL OF MOLECULAR LIQUIDS, 2023, 390
  • [5] Fully Atomistic Molecular Dynamics Simulation of Ice Nucleation Near an Antifreeze Protein
    Zhang, Yue
    Wei, Ning
    Li, Liwen
    Liu, Yuan
    Huang, Changxiong
    Li, Zhen
    Huang, Yujie
    Zhang, Dengsong
    Francisco, Joseph S.
    Zhao, Junhua
    Wang, Chunlei
    Zeng, Xiao Cheng
    JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2025, 147 (05) : 4411 - 4418
  • [6] Atomistic Details of the Dynein Motor Mechanism Revealed by Molecular Dynamics Simulations
    Hadden, Jodi A.
    Goldman, Yale E.
    BIOPHYSICAL JOURNAL, 2019, 116 (03) : 408A - 409A
  • [7] The biophysical properties of ethanolamine plasmalogens revealed by atomistic molecular dynamics simulations
    Rog, Tomasz
    Koivuniemi, Artturi
    BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES, 2016, 1858 (01): : 97 - 103
  • [8] Molecular dynamics simulations of atomistic hydration structures of poly(vinyl methyl ether)
    Rong-liang Wu
    Xin-long Qiu
    Xiao-zhen Yang
    Chinese Journal of Polymer Science, 2016, 34 : 1396 - 1410
  • [9] Molecular Dynamics Simulations of Atomistic Hydration Structures of Poly(vinyl methyl ether)
    Wu, Rong-liang
    Qiu, Xin-long
    Yang, Xiao-zhen
    CHINESE JOURNAL OF POLYMER SCIENCE, 2016, 34 (11) : 1396 - 1410
  • [10] Molecular Dynamics Simulations of Atomistic Hydration Structures of Poly(vinyl methyl ether)
    吴荣亮
    Xin-long Qiu
    Xiao-zhen Yang
    Chinese Journal of Polymer Science, 2016, 34 (11) : 1396 - 1410