Literature DB >> 20161648

Revised Charge Equilibration Parameters for More Accurate Hydration Free Energies of Alkanes.

Joseph E Davis1, Sandeep Patel.   

Abstract

We present a refined alkane charge equilibration (CHEQ) force field, improving our previously reported CHEQ alkane force field[1] to better reproduce experimental hydration free energies. Experimental hydration free energies of ethane, propane, butane, pentane, hexane, and heptane are reproduced to within 3.6% on average. We demonstrate that explicit polarization results in a shift in molecular dipole moment for water molecules associated with the alkane molecule. We also show that our new parameters do not have a significant effect on the alkane-water interactions as measured by the radial distribution function (RDF).

Entities:  

Year:  2010        PMID: 20161648      PMCID: PMC2818315          DOI: 10.1016/j.cplett.2009.09.061

Source DB:  PubMed          Journal:  Chem Phys Lett        ISSN: 0009-2614            Impact factor:   2.328


  10 in total

1.  Energetics of ion conduction through the gramicidin channel.

Authors:  Toby W Allen; Olaf S Andersen; Benoît Roux
Journal:  Proc Natl Acad Sci U S A       Date:  2003-12-22       Impact factor: 11.205

Review 2.  Theoretical and computational models of biological ion channels.

Authors:  Benoît Roux; Toby Allen; Simon Bernèche; Wonpil Im
Journal:  Q Rev Biophys       Date:  2004-02       Impact factor: 5.318

3.  Hydration free energies of monovalent ions in transferable intermolecular potential four point fluctuating charge water: an assessment of simulation methodology and force field performance and transferability.

Authors:  G Lee Warren; Sandeep Patel
Journal:  J Chem Phys       Date:  2007-08-14       Impact factor: 3.488

4.  Properties of water along the liquid-vapor coexistence curve via molecular dynamics simulations using the polarizable TIP4P-QDP-LJ water model.

Authors:  Brad A Bauer; Sandeep Patel
Journal:  J Chem Phys       Date:  2009-08-28       Impact factor: 3.488

5.  Polarizable empirical force field for the primary and secondary alcohol series based on the classical Drude model.

Authors:  Victor M Anisimov; Igor V Vorobyov; Benoît Roux; Alexander D Mackerell
Journal:  J Chem Theory Comput       Date:  2007       Impact factor: 6.006

6.  Revisiting the hexane-water interface via molecular dynamics simulations using nonadditive alkane-water potentials.

Authors:  Sandeep A Patel; Charles L Brooks
Journal:  J Chem Phys       Date:  2006-05-28       Impact factor: 3.488

7.  Polarizable empirical force field for alkanes based on the classical Drude oscillator model.

Authors:  Igor V Vorobyov; Victor M Anisimov; Alexander D MacKerell
Journal:  J Phys Chem B       Date:  2005-10-13       Impact factor: 2.991

8.  Revised charge equilibration potential for liquid alkanes.

Authors:  Joseph E Davis; G Lee Warren; Sandeep Patel
Journal:  J Phys Chem B       Date:  2008-06-21       Impact factor: 2.991

9.  CHARMM fluctuating charge force field for proteins: I parameterization and application to bulk organic liquid simulations.

Authors:  Sandeep Patel; Charles L Brooks
Journal:  J Comput Chem       Date:  2004-01-15       Impact factor: 3.376

10.  Molecular dynamics simulations of a DMPC bilayer using nonadditive interaction models.

Authors:  Joseph E Davis; Obaidur Rahaman; Sandeep Patel
Journal:  Biophys J       Date:  2009-01       Impact factor: 4.033

  10 in total
  4 in total

1.  Water Permeation Through DMPC Lipid Bilayers using Polarizable Charge Equilibration Force Fields.

Authors:  Brad A Bauer; Timothy R Lucas; David J Meninger; Sandeep Patel
Journal:  Chem Phys Lett       Date:  2011-05-27       Impact factor: 2.328

Review 2.  Charge equilibration force fields for molecular dynamics simulations of lipids, bilayers, and integral membrane protein systems.

Authors:  Timothy R Lucas; Brad A Bauer; Sandeep Patel
Journal:  Biochim Biophys Acta       Date:  2011-09-24

3.  Molecular dynamics simulation of hydrated DPPC monolayers using charge equilibration force fields.

Authors:  Timothy R Lucas; Brad A Bauer; Joseph E Davis; Sandeep Patel
Journal:  J Comput Chem       Date:  2011-10-14       Impact factor: 3.376

Review 4.  Could Quantum Mechanical Properties Be Reflected on Classical Molecular Dynamics? The Case of Halogenated Organic Compounds of Biological Interest.

Authors:  Lucas de Azevedo Santos; Ingrid G Prandi; Teodorico C Ramalho
Journal:  Front Chem       Date:  2019-12-13       Impact factor: 5.221

  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.