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 …
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 …
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
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 …
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
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 …
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”
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 …
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 …
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
In computer simulations of solvation effects on chemical reactions, continuum modeling
techniques regain popularity as a way to efficiently circumvent an otherwise costly sampling …
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 …
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 …
examples from various SM x models and compared the SM8 method with default versions of …
A variational formulation of the polarizable continuum model
Continuum solvation models are widely used to accurately estimate solvent effects on
energy, structural and spectroscopic properties of complex molecular systems. The …
energy, structural and spectroscopic properties of complex molecular systems. The …