Literature DB >> 26589059

Generalized Born Solvation Model SM12.

Aleksandr V Marenich1, Christopher J Cramer1, Donald G Truhlar1.   

Abstract

We present a new self-consistent reaction-field implicit solvation model that employs the generalized Born approximation for the bulk electrostatic contribution to the free energy of solvation. The new solvation model (SM) is called SM12 (where ″12″ stands for 2012), and it is available with two sets of parameters, SM12CM5 and SM12ESP. The SM12CM5 parametrization is based on CM5 partial atomic charges, and the SM12ESP parametrization is based on charges derived from a quantum-mechanically calculated electrostatic potential (ESP) (in particular, we consider ChElPG and Merz-Kollman-Singh charges). The model was parametrized over 10 combinations of theoretical levels including the 6-31G(d) and MG3S basis sets and the B3LYP, mPW1PW, M06-L, M06, and M06-2X density functionals against 2979 reference experimental data. The reference data include 2503 solvation free energies and 144 transfer free energies of neutral solutes composed of H, C, N, O, F, Si, P, S, Cl, Br, and I in water and in 90 organic solvents as well as 332 solvation free energies of singly charged anions and cations in acetonitrile, dimethyl sulfoxide, methanol, and water. The advantages of the new solvation model over our previous generalized Born model (SM8) and all other previous generalized Born solvation models are (i) like the SMD model based on electron density distributions, it may be applied with a single set of parameters with arbitrary extended basis sets, whereas the SM8 model involves CM4 or CM4M charges that become unstable for extended basis sets, (ii) it is parametrized against a more diverse training sets than any previous solvation model, and (iii) it is defined for the entire periodic table.

Entities:  

Year:  2012        PMID: 26589059     DOI: 10.1021/ct300900e

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


  20 in total

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Authors:  Courtney E Cox; Jeremy R Phifer; Larissa Ferreira da Silva; Gabriel Gonçalves Nogueira; Ryan T Ley; Elizabeth J O'Loughlin; Ana Karolyne Pereira Barbosa; Brett T Rygelski; Andrew S Paluch
Journal:  J Comput Aided Mol Des       Date:  2017-01-28       Impact factor: 3.686

2.  Extended solvent-contact model approach to SAMPL4 blind prediction challenge for hydration free energies.

Authors:  Hwangseo Park
Journal:  J Comput Aided Mol Des       Date:  2014-02-20       Impact factor: 3.686

3.  The SAMPL5 challenge for embedded-cluster integral equation theory: solvation free energies, aqueous pK a, and cyclohexane-water log D.

Authors:  Nicolas Tielker; Daniel Tomazic; Jochen Heil; Thomas Kloss; Sebastian Ehrhart; Stefan Güssregen; K Friedemann Schmidt; Stefan M Kast
Journal:  J Comput Aided Mol Des       Date:  2016-08-23       Impact factor: 3.686

4.  Assessing the accuracy of octanol-water partition coefficient predictions in the SAMPL6 Part II log P Challenge.

Authors:  Mehtap Işık; Teresa Danielle Bergazin; Thomas Fox; Andrea Rizzi; John D Chodera; David L Mobley
Journal:  J Comput Aided Mol Des       Date:  2020-02-27       Impact factor: 3.686

5.  Infinite dilution activity coefficient from SMD calculations: accuracy and performance for predicting liquid-liquid equilibria.

Authors:  Fernando M Lisboa; Josefredo R Pliego
Journal:  J Mol Model       Date:  2018-02-14       Impact factor: 1.810

6.  Prediction of the n-octanol/water partition coefficients in the SAMPL6 blind challenge from MST continuum solvation calculations.

Authors:  William J Zamora; Silvana Pinheiro; Kilian German; Clara Ràfols; Carles Curutchet; F Javier Luque
Journal:  J Comput Aided Mol Des       Date:  2019-11-27       Impact factor: 3.686

7.  Predicting octanol/water partition coefficients for the SAMPL6 challenge using the SM12, SM8, and SMD solvation models.

Authors:  Jonathan A Ouimet; Andrew S Paluch
Journal:  J Comput Aided Mol Des       Date:  2020-01-30       Impact factor: 3.686

8.  Computation of Hydration Free Energies Using the Multiple Environment Single System Quantum Mechanical/Molecular Mechanical Method.

Authors:  Gerhard König; Ye Mei; Frank C Pickard; Andrew C Simmonett; Benjamin T Miller; John M Herbert; H Lee Woodcock; Bernard R Brooks; Yihan Shao
Journal:  J Chem Theory Comput       Date:  2015-12-11       Impact factor: 6.006

9.  SAMPL6 Octanol-water partition coefficients from alchemical free energy calculations with MBIS atomic charges.

Authors:  Maximiliano Riquelme; Esteban Vöhringer-Martinez
Journal:  J Comput Aided Mol Des       Date:  2020-01-20       Impact factor: 3.686

10.  Consistent inclusion of continuum solvation in energy decomposition analysis: theory and application to molecular CO2 reduction catalysts.

Authors:  Yuezhi Mao; Matthias Loipersberger; Kareesa J Kron; Jeffrey S Derrick; Christopher J Chang; Shaama Mallikarjun Sharada; Martin Head-Gordon
Journal:  Chem Sci       Date:  2020-11-27       Impact factor: 9.825

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