Hydration sphere structure of proteins: A theoretical study

被引:13
|
作者
Labas, Aniko [1 ]
Bako, Imre [2 ]
Olah, Julianna [1 ]
机构
[1] Budapest Univ Technol & Econ, Dept Inorgan & Analyt Chem, Szent Gellert Ter 4, H-1111 Budapest, Hungary
[2] Hungarian Acad Sci, Inst Organ Chem, Res Ctr Nat Sci, Magyar Tudosok Korutja 2,POB 286, H-1519 Budapest, Hungary
关键词
Hydrogen-bond network; Salvation layers; Insulin; MD simulations; MOLECULAR-DYNAMICS; AQUEOUS-SOLUTION; WATER-MOLECULES; NETWORK; SIMULATION; MACROMOLECULES; INTERFACE; STABILITY; MYOGLOBIN; PEPTIDES;
D O I
10.1016/j.molliq.2017.05.038
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
Hydration is essential for the proper biological activity of biomolecules. We studied the water network around insulin (as a model protein) in aqueous NaCl solutions using molecular dynamics simulations and statistical analysis of the topological properties (hydrogen bond neighbor number and the interaction energy between hydrogen-bonded water molecules) of the water network. We propose a simple method to define the hydration layers around proteins. Water molecules in the first and second layers form significantly less, but stronger hydrogen bonds with each other than in the bulk phase. Furthermore, water molecules over the hydrophilic and hydrophobic surface of the protein possess slightly different H-bonding properties, supporting the hypothesis of structural and dynamical heterogeneity of the water molecules over protein surface. The protein molecule perturbs the solvent structure at least up to the fourth-fifth hydration layer. Our data suggest the peculiar role of the second hydration shell. (C) 2017 Elsevier B.V. All rights reserved.
引用
收藏
页码:462 / 469
页数:8
相关论文
共 50 条
  • [1] THEORETICAL STUDY ON HYDRATION OF PEPTIDES AND PROTEINS
    PULLMAN, A
    PORT, J
    COMPTES RENDUS HEBDOMADAIRES DES SEANCES DE L ACADEMIE DES SCIENCES SERIE D, 1973, 277 (20): : 2269 - 2271
  • [2] THEORETICAL-STUDY OF THE SPACE STRUCTURE AND VALINOMYCINE HYDRATION
    KHUTORSKY, VE
    KAMENCHUK, AA
    SHCHECHKIN, IE
    TEORETICHESKAYA I EKSPERIMENTALNAYA KHIMIYA, 1987, 23 (03): : 360 - 365
  • [3] A theoretical analysis on hydration thermodynamics of proteins
    Imai, Takashi
    Harano, Yuichi
    Kinoshita, Masahiro
    Kovalenko, Andriy
    Hirata, Fumio
    JOURNAL OF CHEMICAL PHYSICS, 2006, 125 (02):
  • [4] Theoretical description of the hydration shell of proteins
    不详
    EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS, 2005, 34 (06): : 733 - 733
  • [5] Amides as models to study the hydration of proteins and peptides - spectroscopic and theoretical approach on hydration in various temperatures
    Panuszko, A.
    Nowak, M. G.
    Bruzdziak, P.
    Stasiulewicz, M.
    Stangret, J.
    JOURNAL OF MOLECULAR LIQUIDS, 2019, 278 : 706 - 715
  • [6] A theoretical study of uranyl solvation: Explicit modelling of the second hydration sphere by quantum mechanical methods
    Siboulet, B.
    Marsden, C. J.
    Vitorge, P.
    CHEMICAL PHYSICS, 2006, 326 (2-3) : 289 - 296
  • [7] Hydrophobic Hydration: A Theoretical Investigation of Structure and Dynamics
    Reddy, Kambham Devendra
    Biswas, Rajib
    JOURNAL OF CHEMICAL SCIENCES, 2023, 135 (01)
  • [8] Hydrophobic Hydration: A Theoretical Investigation of Structure and Dynamics
    Kambham Devendra Reddy
    Rajib Biswas
    Journal of Chemical Sciences, 135
  • [9] A theoretical study on hydration of alanine zwitterions
    Sagarik, K
    Dokmaisrijan, S
    JOURNAL OF MOLECULAR STRUCTURE-THEOCHEM, 2005, 718 (1-3): : 31 - 47
  • [10] THEORETICAL-STUDY OF HYDRATION OF RNA
    KIM, K
    JHON, MS
    BIOCHIMICA ET BIOPHYSICA ACTA, 1979, 565 (01) : 131 - 147