Literature DB >> 20419072

Free Energies of Solvation with Surface, Volume, and Local Electrostatic Effects and Atomic Surface Tensions to Represent the First Solvation Shell.

Junjun Liu1, Casey P Kelly, Alan C Goren, Aleksandr V Marenich, Christopher J Cramer, Donald G Truhlar, Chang-Guo Zhan.   

Abstract

Building on the SVPE (surface and volume polarization for electrostatics) model for electrostatic contributions to the free energy of solvation with explicit consideration of both surface and volume polarization effects, on the SMx approach to including first-solvation-shell contributions, and on the linear relationship between the electric field and short-range electrostatic contributions found by Chipman, we have developed a new method for computing absolute aqueous solvation free energies by combining the SVPE method with semiempirical terms that account for effects beyond bulk electrostatics. The new method is called SMVLE, and the elements it contains are denoted by SVPE-CDSL where SVPE denotes accounting for bulk electrostatic interactions between solute and solvent with both surface and volume contributions, CDS denotes the inclusion of solvent cavitation, changes in dispersion energy, and possible changes in local solvent structure by a semiempirical term utilizing geometry-dependent atomic surface tensions as implemented in SMx models, and L represents the local electrostatic effect derived from the outward-directed normal electric field on the cavity surface. The semiempirical CDS and L terms together represent the deviation of short-range contributions to the free energy of solvation from those accounted for by the SVPE term based on the bulk solvent dielectric constant. A solute training set containing a broad range of molecules used previously in the development of SM6 is used here for SMVLE model calibration. The aqueous solvation free energies predicted by the parameterized SMVLE model correlate exceedingly well with experimental values. The square of the correlation coefficient is 0.9949 and the slope is 1.0079. Comparison of the final SMVLE model against the earlier SMx solvation model shows that the parameterized SMVLE model not only yields good accuracy for neutrals but also significantly increases the accuracy for ions, making it the best implicit solvation model to date for aqueous solvation free energies of ions. The semiempirical terms associated with the outward-directed electric field account in a physical way for the improvement in the predictive accuracy for ions. The SMVLE method greatly decreases the need to include explicit water molecules for accurate modeling of solvation free energies of ions.

Entities:  

Year:  2010        PMID: 20419072      PMCID: PMC2856966          DOI: 10.1021/ct100025j

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  16 in total

Review 1.  Generalized born models of macromolecular solvation effects.

Authors:  D Bashford; D A Case
Journal:  Annu Rev Phys Chem       Date:  2000       Impact factor: 12.703

2.  Implicit Solvation Models: Equilibria, Structure, Spectra, and Dynamics.

Authors:  Christopher J. Cramer; Donald G. Truhlar
Journal:  Chem Rev       Date:  1999-08-11       Impact factor: 60.622

3.  Quantum mechanical continuum solvation models.

Authors:  Jacopo Tomasi; Benedetta Mennucci; Roberto Cammi
Journal:  Chem Rev       Date:  2005-08       Impact factor: 60.622

4.  First-principles calculation of pKa for cocaine, nicotine, neurotransmitters, and anilines in aqueous solution.

Authors:  Haiting Lu; Xi Chen; Chang-Guo Zhan
Journal:  J Phys Chem B       Date:  2007-08-11       Impact factor: 2.991

5.  An SCF Solvation Model for the Hydrophobic Effect and Absolute Free Energies of Aqueous Solvation.

Authors:  C J Cramer; D G Truhlar
Journal:  Science       Date:  1992-04-10       Impact factor: 47.728

6.  Steric effects and solvent effects on SN2 reactions.

Authors:  Yongho Kim; Christopher J Cramer; Donald G Truhlar
Journal:  J Phys Chem A       Date:  2009-08-13       Impact factor: 2.781

7.  Theoretical studies of the transition-state structures and free energy barriers for base-catalyzed hydrolysis of amides.

Authors:  Ying Xiong; Chang-Guo Zhan
Journal:  J Phys Chem A       Date:  2006-11-23       Impact factor: 2.781

8.  Mechanistic Analysis of the Base-Catalyzed HF Elimination from 4-Fluoro-4-(4'-nitrophenyl)butane-2-one Based on Liquid-Phase Kinetic Isotope Effects Calculated by Dynamics Modeling with Multidimensional Tunneling.

Authors:  Yongho Kim; Aleksandr V Marenich; Jingjing Zheng; Kyung Hyun Kim; Magdalena Kołodziejska-Huben; Michał Rostkowski; Piotr Paneth; Donald G Truhlar
Journal:  J Chem Theory Comput       Date:  2009-01-13       Impact factor: 6.006

9.  An efficient implementation for determining volume polarization in self-consistent reaction field theory.

Authors:  Marius J Vilkas; Chang-Guo Zhan
Journal:  J Chem Phys       Date:  2008-11-21       Impact factor: 3.488

10.  Reaction pathways and free energy barriers for alkaline hydrolysis of insecticide 2-trimethylammonioethyl methylphosphonofluoridate and related organophosphorus compounds: electrostatic and steric effects.

Authors:  Ying Xiong; Chang-Guo Zhan
Journal:  J Org Chem       Date:  2004-11-26       Impact factor: 4.354

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  6 in total

1.  Reaction Pathway and Free Energy Barrier for Urea Elimination in Aqueous Solution.

Authors:  Min Yao; Xi Chen; Chang-Guo Zhan
Journal:  Chem Phys Lett       Date:  2015-04-01       Impact factor: 2.328

2.  Reaction pathways and free energy profiles for spontaneous hydrolysis of urea and tetramethylurea: unexpected substituent effects.

Authors:  Min Yao; Wenlong Tu; Xi Chen; Chang-Guo Zhan
Journal:  Org Biomol Chem       Date:  2013-11-21       Impact factor: 3.876

3.  Membrane-mediated protein-protein interactions and connection to elastic models: a coarse-grained simulation analysis of gramicidin A association.

Authors:  Jejoong Yoo; Qiang Cui
Journal:  Biophys J       Date:  2013-01-08       Impact factor: 4.033

4.  KECSA-Movable Type Implicit Solvation Model (KMTISM).

Authors:  Zheng Zheng; Ting Wang; Pengfei Li; Kenneth M Merz
Journal:  J Chem Theory Comput       Date:  2015-02-10       Impact factor: 6.006

5.  Determination of the Bridging Ligand in the Active Site of Tyrosinase.

Authors:  Congming Zou; Wei Huang; Gaokun Zhao; Xiao Wan; Xiaodong Hu; Yan Jin; Junying Li; Junjun Liu
Journal:  Molecules       Date:  2017-10-28       Impact factor: 4.411

6.  Simulating metabolism with statistical thermodynamics.

Authors:  William R Cannon
Journal:  PLoS One       Date:  2014-08-04       Impact factor: 3.240

  6 in total

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