Improved prediction of solvation free energies by machine-learning polarizable continuum solvation model

A Alibakhshi, B Hartke - Nature Communications, 2021 - nature.com
Theoretical estimation of solvation free energy by continuum solvation models, as a
standard approach in computational chemistry, is extensively applied by a broad range of …

Accurate predictions of nonpolar solvation free energies require explicit consideration of binding-site hydration

S Genheden, P Mikulskis, LH Hu… - Journal of the …, 2011 - ACS Publications
Continuum solvation methods are frequently used to increase the efficiency of computational
methods to estimate free energies. In this paper, we have evaluated how well such methods …

Computations of absolute solvation free energies of small molecules using explicit and implicit solvent model

D Shivakumar, Y Deng, B Roux - Journal of Chemical Theory and …, 2009 - ACS Publications
Accurate determination of absolute solvation free energy plays a critical role in numerous
areas of biomolecular modeling and drug discovery. A quantitative representation of ligand …

Improving Performance of the SMD Solvation Model: Bondi Radii Improve Predicted Aqueous Solvation Free Energies of Ions and pKa Values of Thiols

S Mirzaei, MV Ivanov… - The Journal of Physical …, 2019 - ACS Publications
Calculation of the solvation free energy of ionic molecules is the principal source of errors in
the quantum chemical evaluation of p K a values using implicit polarizable continuum …

On the performance of continuum solvation methods. A comment on “Universal approaches to solvation modeling”

A Klamt, B Mennucci, J Tomasi, V Barone… - Accounts of chemical …, 2009 - ACS Publications
In a recent Account, Cramer and Truhlar presented a comparison between the SM8 method
and standard versions of other continuum solvation models implemented in widely available …

New universal solvation model and comparison of the accuracy of the SM5. 42R, SM5. 43R, C-PCM, D-PCM, and IEF-PCM continuum solvation models for aqueous …

JD Thompson, CJ Cramer… - The Journal of Physical …, 2004 - ACS Publications
We present a new continuum solvation model, called Solvation Model 5.43 R (SM5. 43R).
The model is based on the generalized Born approximation for electrostatics augmented by …

Generalized molecular solvation in non-aqueous solutions by a single parameter implicit solvation scheme

C Hille, S Ringe, M Deimel, C Kunkel… - The Journal of …, 2019 - pubs.aip.org
In computer simulations of solvation effects on chemical reactions, continuum modeling
techniques regain popularity as a way to efficiently circumvent an otherwise costly sampling …

Machine learning-guided approach for studying solvation environments

Y Basdogan, MC Groenenboom… - Journal of chemical …, 2019 - ACS Publications
Molecular-level understanding and characterization of solvation environments are often
needed across chemistry, biology, and engineering. Toward practical modeling of local …

Reply to comment on “a universal approach to solvation modeling”

CJ Cramer, DG Truhlar - Accounts of Chemical Research, 2009 - ACS Publications
In a recent Account, we discussed a universal approach to solvation modeling. We included
examples from various SM x models and compared the SM8 method with default versions of …

A variational formulation of the polarizable continuum model

F Lipparini, G Scalmani, B Mennucci… - The Journal of …, 2010 - pubs.aip.org
Continuum solvation models are widely used to accurately estimate solvent effects on
energy, structural and spectroscopic properties of complex molecular systems. The …