… dynamics simulations and computing hydration free energies on the B3LYP-D3 (BJ) potential energy surface with adaptive force matching: a benchmark study with …
D Zheng, F Wang - ACS Physical Chemistry Au, 2021 - ACS Publications
… The solute–water cross terms are iteratively improved during the AFM … predict a trend similar
to experiments with the isobutanol absolute HFE smaller by 3 kJ/mol, while both OPLS-AA …
to experiments with the isobutanol absolute HFE smaller by 3 kJ/mol, while both OPLS-AA …
Assessment of GAFF and OPLS force fields for urea: crystal and aqueous solution properties
S Anker, D McKechnie, P Mulheran, J Sefcik… - Crystal Growth & …, 2023 - ACS Publications
… structural correlations, diffusion and solvation free energy; … the crystal and solution properties
predicted using these force … , there are significant and increasing fluctuations of the crystal …
predicted using these force … , there are significant and increasing fluctuations of the crystal …
GAFF/IPolQ-Mod+ LJ-Fit: Optimized force field parameters for solvation free energy predictions
A Mecklenfeld, G Raabe - ADMET and DMPK, 2020 - hrcak.srce.hr
… to further improve the accuracies of solvation free energy and liquid density predictions. We
… Besides the rootmean-square deviations (RMSD) and the mean absolute errors (MAE), the …
… Besides the rootmean-square deviations (RMSD) and the mean absolute errors (MAE), the …
Computation of drug solvation free energy in supercritical CO2: Alternatives to all-atom computer simulations
… improved the agreement between the solvation free energy … aspirin solvation free energy
values computed using the OPLS… that the absolute values of the solvation free energy we have …
values computed using the OPLS… that the absolute values of the solvation free energy we have …
Improving predictions of solvation free energies from non-polarisable models by applying polarisation corrections
MC Barrera - 2021 - stax.strath.ac.uk
… Lastly, PolCA was used to calculate solvation free energies of … not able to simultaneously
predict solvation free energies in … The latter was proposed after observing that GROMOS, OPLS…
predict solvation free energies in … The latter was proposed after observing that GROMOS, OPLS…
Accurate prediction of free solvation energy of organic molecules via graph attention network and message passing neural network from pairwise atomistic …
R Ansari, A Ghorbani - arXiv preprint arXiv:2105.02048, 2021 - arxiv.org
… such promising predictive models will be applicable to enhancing the … Prediction of
absolute solvation free energies using molecular dynamics free energy perturbation and the opls …
absolute solvation free energies using molecular dynamics free energy perturbation and the opls …
Validation of AMBER/GAFF for relative free energy calculations
… overall ability of these methods to accurately predict relative binding free energies. We …
(both in λ-space and orthogonal degree of freedom), compare capabilities of the next generation …
(both in λ-space and orthogonal degree of freedom), compare capabilities of the next generation …
A hybrid alchemical free energy and machine learning methodology for the calculation of absolute hydration free energies of small molecules
… /GAFF hydration free energies with the OPLS hydration free … corrections to improve GAFF
hydration free energies reported … methods to predict absolute hydration free energies of small …
hydration free energies reported … methods to predict absolute hydration free energies of small …
Revisiting OPLS-AA force field for the simulation of anionic surfactants in concentrated electrolyte solutions
S Abdel-Azeim - Journal of Chemical Theory and Computation, 2020 - ACS Publications
… than the Farafonov set; it predicted one large micelle (192 SDS … , and solvation free energy
based on the atomic solvation energy … These sets significantly improved the stability of the rod …
based on the atomic solvation energy … These sets significantly improved the stability of the rod …
Prediction of octanol-water partition coefficients for the SAMPL6-logP molecules using molecular dynamics simulations with OPLS-AA, AMBER and CHARMM force …
F Shujie, BI Iorga, B Oliver - Journal of Computer-Aided …, 2020 - search.proquest.com
… Absolute solvation free energies were computed by … protocol using 5-ns windowed alchemical
free energy perturbation (… Because of the large improvement in the RMSE for the GAFF …
free energy perturbation (… Because of the large improvement in the RMSE for the GAFF …