Literature DB >> 16512740

Coupling nonpolar and polar solvation free energies in implicit solvent models.

J Dzubiella1, J M J Swanson, J A McCammon.   

Abstract

Recent studies on the solvation of atomistic and nanoscale solutes indicate that a strong coupling exists between the hydrophobic, dispersion, and electrostatic contributions to the solvation free energy, a facet not considered in current implicit solvent models. We suggest a theoretical formalism which accounts for coupling by minimizing the Gibbs free energy of the solvent with respect to a solvent volume exclusion function. The resulting differential equation is similar to the Laplace-Young equation for the geometrical description of capillary interfaces but is extended to microscopic scales by explicitly considering curvature corrections as well as dispersion and electrostatic contributions. Unlike existing implicit solvent approaches, the solvent accessible surface is an output of our model. The presented formalism is illustrated on spherically or cylindrically symmetrical systems of neutral or charged solutes on different length scales. The results are in agreement with computer simulations and, most importantly, demonstrate that our method captures the strong sensitivity of solvent expulsion and dewetting to the particular form of the solvent-solute interactions.

Mesh:

Substances:

Year:  2006        PMID: 16512740     DOI: 10.1063/1.2171192

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  58 in total

1.  Differential geometry based solvation model II: Lagrangian formulation.

Authors:  Zhan Chen; Nathan A Baker; G W Wei
Journal:  J Math Biol       Date:  2011-01-30       Impact factor: 2.259

2.  Level-Set Minimization of Potential Controlled Hadwiger Valuations for Molecular Solvation.

Authors:  Li-Tien Cheng; Bo Li; Zhongming Wang
Journal:  J Comput Phys       Date:  2010-11-01       Impact factor: 3.553

3.  A self-consistent phase-field approach to implicit solvation of charged molecules with Poisson-Boltzmann electrostatics.

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

4.  Assessing implicit models for nonpolar mean solvation forces: the importance of dispersion and volume terms.

Authors:  Jason A Wagoner; Nathan A Baker
Journal:  Proc Natl Acad Sci U S A       Date:  2006-05-18       Impact factor: 11.205

5.  Geometric and potential driving formation and evolution of biomolecular surfaces.

Authors:  P W Bates; Zhan Chen; Yuhui Sun; Guo-Wei Wei; Shan Zhao
Journal:  J Math Biol       Date:  2008-10-22       Impact factor: 2.259

6.  Phase-field approach to implicit solvation of biomolecules with Coulomb-field approximation.

Authors:  Yanxiang Zhao; Yuen-Yick Kwan; Jianwei Che; Bo Li; J Andrew McCammon
Journal:  J Chem Phys       Date:  2013-07-14       Impact factor: 3.488

7.  Origin of parameter degeneracy and molecular shape relationships in geometric-flow calculations of solvation free energies.

Authors:  Michael D Daily; Jaehun Chun; Alejandro Heredia-Langner; Guowei Wei; Nathan A Baker
Journal:  J Chem Phys       Date:  2013-11-28       Impact factor: 3.488

8.  Variational Implicit Solvation with Solute Molecular Mechanics: From Diffuse-Interface to Sharp-Interface Models.

Authors:  Bo Li; Yanxiang Zhao
Journal:  SIAM J Appl Math       Date:  2013       Impact factor: 2.080

9.  Continuum polarizable force field within the Poisson-Boltzmann framework.

Authors:  Yu-Hong Tan; Chunhu Tan; Junmei Wang; Ray Luo
Journal:  J Phys Chem B       Date:  2008-05-29       Impact factor: 2.991

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

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.