Literature DB >> 22762271

Charge hydration asymmetry: the basic principle and how to use it to test and improve water models.

Abhishek Mukhopadhyay1, Andrew T Fenley, Igor S Tolokh, Alexey V Onufriev.   

Abstract

Charge hydration asymmetry (CHA) manifests itself in the experimentally observed strong dependence of free energy of ion hydration on the sign of the ion charge. This asymmetry is not consistently accounted for by popular models of solvation; its magnitude varies greatly between the models. While it is clear that CHA is somehow related to charge distribution within a water molecule, the exact nature of this relationship is unknown. We propose a simple, yet general and rigorous criterion that relates rotational and charge inversion properties of a water molecule's charge distribution with its ability to cause CHA. We show which electric multipole components of a water molecule are key to explain its ability for asymmetric charge hydration. We then test several popular water models and explain why specific models show none, little, or strong CHA in simulations. We use the gained insight to derive an analogue of the Born equation that includes the missing physics necessary to account for CHA and does not rely on redefining the continuum dielectric boundary. The proposed formula is as simple as the original, does not contain any fitting parameters, and predicts hydration free energies and entropies of spherical cations and anions within experimental uncertainty. Our findings suggest that the gap between the practical continuum electrostatics framework and the more fundamental explicit solvent treatment may be reduced considerably by explicitly introducing CHA into the existing continuum framework.

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Year:  2012        PMID: 22762271      PMCID: PMC3482486          DOI: 10.1021/jp305226j

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  28 in total

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2.  Ion solvation thermodynamics from simulation with a polarizable force field.

Authors:  Alan Grossfield; Pengyu Ren; Jay W Ponder
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3.  Size dependent ion hydration, its asymmetry, and convergence to macroscopic behavior.

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4.  A reoptimization of the five-site water potential (TIP5P) for use with Ewald sums.

Authors:  Steven W Rick
Journal:  J Chem Phys       Date:  2004-04-01       Impact factor: 3.488

5.  Dependence of ion hydration on the sign of the ion's charge.

Authors:  Alan Grossfield
Journal:  J Chem Phys       Date:  2005-01-08       Impact factor: 3.488

6.  Charge asymmetries in hydration of polar solutes.

Authors:  David L Mobley; Janene R Baker; Alan E Barber; Christopher J Fennell; Ken A Dill
Journal:  J Phys Chem B       Date:  2008-02-06       Impact factor: 2.991

7.  Computation of methodology-independent single-ion solvation properties from molecular simulations. IV. Optimized Lennard-Jones interaction parameter sets for the alkali and halide ions in water.

Authors:  Maria M Reif; Philippe H Hünenberger
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Review 8.  Classical electrostatics in biology and chemistry.

Authors:  B Honig; A Nicholls
Journal:  Science       Date:  1995-05-26       Impact factor: 47.728

Review 9.  Calculations of electrostatic interactions in biological systems and in solutions.

Authors:  A Warshel; S T Russell
Journal:  Q Rev Biophys       Date:  1984-08       Impact factor: 5.318

10.  Determination of alkali and halide monovalent ion parameters for use in explicitly solvated biomolecular simulations.

Authors:  In Suk Joung; Thomas E Cheatham
Journal:  J Phys Chem B       Date:  2008-07-02       Impact factor: 2.991

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  27 in total

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Authors:  Hui Sun; Jiayi Wen; Yanxiang Zhao; Bo Li; J Andrew McCammon
Journal:  J Chem Phys       Date:  2015-12-28       Impact factor: 3.488

2.  Nonlocal Electrostatics in Spherical Geometries Using Eigenfunction Expansions of Boundary-Integral Operators.

Authors:  Jaydeep P Bardhan; Matthew G Knepley; Peter Brune
Journal:  Mol Based Math Biol       Date:  2015-01

3.  Incorporating excluded solvent volume and physical dipoles for computing solvation free energy.

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4.  The influence of hydrogen bonding on partition coefficients.

Authors:  Nádia Melo Borges; Peter W Kenny; Carlos A Montanari; Igor M Prokopczyk; Jean F R Ribeiro; Josmar R Rocha; Geraldo Rodrigues Sartori
Journal:  J Comput Aided Mol Des       Date:  2017-01-04       Impact factor: 3.686

5.  Explicit ions/implicit water generalized Born model for nucleic acids.

Authors:  Igor S Tolokh; Dennis G Thomas; Alexey V Onufriev
Journal:  J Chem Phys       Date:  2018-05-21       Impact factor: 3.488

6.  Affine-response model of molecular solvation of ions: Accurate predictions of asymmetric charging free energies.

Authors:  Jaydeep P Bardhan; Pavel Jungwirth; Lee Makowski
Journal:  J Chem Phys       Date:  2012-09-28       Impact factor: 3.488

7.  Communication: modeling charge-sign asymmetric solvation free energies with nonlinear boundary conditions.

Authors:  Jaydeep P Bardhan; Matthew G Knepley
Journal:  J Chem Phys       Date:  2014-10-07       Impact factor: 3.488

8.  Accuracy limit of rigid 3-point water models.

Authors:  Saeed Izadi; Alexey V Onufriev
Journal:  J Chem Phys       Date:  2016-08-21       Impact factor: 3.488

9.  Hexahydrated Mg2+ Binding and Outer-Shell Dehydration on RNA Surface.

Authors:  Tao Yu; Shi-Jie Chen
Journal:  Biophys J       Date:  2018-03-27       Impact factor: 4.033

10.  LS-VISM: A software package for analysis of biomolecular solvation.

Authors:  Shenggao Zhou; Li-Tien Cheng; Hui Sun; Jianwei Che; Joachim Dzubiella; Bo Li; J Andrew McCammon
Journal:  J Comput Chem       Date:  2015-03-12       Impact factor: 3.376

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