What is the effective dielectric constant in a β-cyclodextrin cavity? Insights from Molecular Dynamics simulations and QM/MM calculations

被引:9
|
作者
Lambert, Alexandrine [1 ]
Yeguas, Violeta [1 ]
Monard, Gerald [1 ]
Ruiz-Lopez, Manuel F. [1 ]
机构
[1] Nancy Univ, SRSMC, Equipe Chim & Biochim Theor, CNRS, F-54506 Vandoeuvre Les Nancy, France
关键词
Cyclodextrins; Dielectric constant; Molecular Dynamics; QM/MM calculations; Medium effects; INCLUSION COMPLEXES; LIQUID WATER; THERMODYNAMICS; BROMIDE; FIELD;
D O I
10.1016/j.comptc.2011.05.008
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
We report a theoretical study on polarization effects induced by the environment on a solute placed inside a beta-cyclodextrin macrocycle in aqueous solution. Calculations are carried out for a simple guest molecule p-nitrochlorobenzene using a combined Molecular Dynamics and QM/MM approach. The results have allowed us to derive an effective dielectric constant for the CD-water environment in the range 3-8 that agrees well with several experimental estimations reported in the literature. The investigation emphasizes the fact that the polarization effect is practically the same for the two possible relative orientations of the host-guest complex. For substrates able to form strong specific interactions with either the CD or the water solvent, the medium effects could be different for different orientations, however. In addition, in those cases, specific medium effect would add to the purely dielectric one. This last fact can explain why experimental studies have led to a very large range of values for the effective dielectric constant of beta-CDs cavities. (C) 2011 Elsevier B.V. All rights reserved.
引用
收藏
页码:71 / 76
页数:6
相关论文
共 50 条
  • [1] Insights into Intrastrand Cross-Link Lesions of DNA from QM/MM Molecular Dynamics Simulations
    Garrec, Julian
    Patel, Chandan
    Rothlisberger, Ursula
    Dumont, Elise
    [J]. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2012, 134 (04) : 2111 - 2119
  • [2] In silico insights into the dimer structure and deiodinase activity of type III iodothyronine deiodinase from bioinformatics, molecular dynamics simulations, and QM/MM calculations
    Marsan, Eric S.
    Dreab, Ana
    Bayse, Craig A.
    [J]. JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 2023, 41 (11): : 4819 - 4829
  • [3] Mechanistic Insights into Radical-Mediated Oxidation of Tryptophan from ab Initio Quantum Chemistry Calculations and QM/MM Molecular Dynamics Simulations
    Wood, Geoffrey P. F.
    Sreedhara, Alavattam
    Moore, Jamie M.
    Wang, John
    Trout, Bernhardt L.
    [J]. JOURNAL OF PHYSICAL CHEMISTRY A, 2016, 120 (18): : 2926 - 2939
  • [4] Insights into Docking and Scoring Neuronal α4β2 Nicotinic Receptor Agonists Using Molecular Dynamics Simulations and QM/MM Calculations
    Sgrignani, Jacopo
    Bonaccini, Claudia
    Grazioso, Giovanni
    Chioccioli, Matteo
    Cavalli, Andrea
    Gratteri, Paola
    [J]. JOURNAL OF COMPUTATIONAL CHEMISTRY, 2009, 30 (15) : 2443 - 2454
  • [5] Implementation of the IMOMM methodology for performing combined QM/MM molecular dynamics simulations and frequency calculations
    Woo, TK
    Cavallo, L
    Ziegler, T
    [J]. THEORETICAL CHEMISTRY ACCOUNTS, 1998, 100 (5-6) : 307 - 313
  • [6] Implementation of the IMOMM methodology for performing combined QM/MM molecular dynamics simulations and frequency calculations
    Tom K. Woo
    Luigi Cavallo
    Tom Ziegler
    [J]. Theoretical Chemistry Accounts, 1998, 100 : 307 - 313
  • [7] CHARMM-GUI QM/MM interfacer for the hybrid QM/MM molecular dynamics simulations
    Suh, Donghyuk
    Nam, Kwangho
    Im, Wonpil
    [J]. BIOPHYSICAL JOURNAL, 2023, 122 (03) : 424A - 424A
  • [8] A QM/MM/continuum model for computations in solution:: Comparison with QM/MM molecular dynamics simulations
    Chalmet, S
    Rinaldi, D
    Ruiz-López, MF
    [J]. INTERNATIONAL JOURNAL OF QUANTUM CHEMISTRY, 2001, 84 (05) : 559 - 564
  • [9] How Photoisomerization Drives Peptide Folding and Unfolding: Insights from QM/MM and MM Dynamics Simulations
    Xia, Shu-Hua
    Cui, Ganglong
    Fang, Wei-Hai
    Thiel, Walter
    [J]. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION, 2016, 55 (06) : 2067 - 2072
  • [10] Adaptive solvent QM/MM molecular dynamics simulations with AMBER
    Goetz, Andreas W.
    Bulo, Rosa E.
    Walker, Ross C.
    [J]. ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2011, 241