Combining molecular dynamics and machine learning to predict self-solvation free energies and limiting activity coefficients

J Gebhardt, M Kiesel, S Riniker… - Journal of chemical …, 2020 - ACS Publications
Computational prediction of limiting activity coefficients is of great relevance for process
design. For highly nonideal mixtures including molecules with directed interactions, methods …

Evaluating classical force fields against experimental cross-solvation free energies

S Kashefolgheta, MP Oliveira, SR Rieder… - Journal of chemical …, 2020 - ACS Publications
Experimental solvation free energies are nowadays commonly included as target properties
in the validation and sometimes even in the calibration of condensed-phase force fields …

Evaluation of nine condensed-phase force fields of the GROMOS, CHARMM, OPLS, AMBER, and OpenFF families against experimental cross-solvation free energies

S Kashefolgheta, S Wang, WE Acree… - Physical Chemistry …, 2021 - pubs.rsc.org
Experimental solvation free energies are nowadays commonly included as target properties
in the validation of condensed-phase force fields, sometimes even in their calibration. In a …

Expanding the solubility parameter method mosced to pyridinium-, quinolinium-, pyrrolidinium-, piperidinium-, bicyclic-, morpholinium-, ammonium-, phosphonium …

P Dhakal, AR Weise, MC Fritsch, CM O'Dell… - ACS …, 2020 - ACS Publications
MOSCED (modified separation of cohesive energy density) is a solubility parameter method
that offers an improved treatment of association interactions. Solubility parameter methods …

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

JA Ouimet, AS Paluch - Journal of Computer-Aided Molecular Design, 2020 - Springer
Blind predictions of octanol/water partition coefficients at 298 K for 11 kinase inhibitor
fragment like compounds were made for the SAMPL6 challenge. We used the conventional,“ …

A simple method to predict and interpret the formation of azeotropes in binary systems using conventional solvation free energy calculations

SN Roese, GV Margulis, AJ Schmidt… - Industrial & …, 2019 - ACS Publications
Simple expressions are presented to determine if a binary system will exhibit a minimum or
maximum boiling azeotrope using conventional free energy calculations using molecular …

Predicting octanol/water partition coefficients using molecular simulation for the SAMPL7 challenge: Comparing the use of neat and water saturated 1-octanol

SJ Sabatino, AS Paluch - Journal of Computer-Aided Molecular Design, 2021 - Springer
Blind predictions of octanol/water partition coefficients at 298.15 K for 22 drug-like
compounds were made for the SAMPL7 challenge. The octanol/water partition coefficients …

Assessment of the SM12, SM8, and SMD solvation models for predicting limiting activity coefficients at 298.15 K

SN Roese, JD Heintz, CB Uzat, AJ Schmidt… - Processes, 2020 - mdpi.com
The SM x (x= 12, 8, or D) universal solvent models are implicit solvent models which using
electronic structure calculations can compute solvation free energies at 298.15 K. While …

[PDF][PDF] Biomolecular force fields probed by free energies of binding and solvation

J Gebhardt - 2021 - elib.uni-stuttgart.de
Molecular dynamics simulations of native cyclodextrins in aqueous solution were performed
with the aim of studying the performance of the CHARMM36, the AMBER-compatible q4md …

[PDF][PDF] Supporting Information for” Evaluation of nine condensed-phase force fields of the GROMOS, CHARMM, OPLS, AMBER and OpenFF families against …

S Kashefolgheta, S Wang, WE Acree Jr… - pdfs.semanticscholar.org
For the five force fields newly considered in this work, the simulation results for all compound
pairs are reported in Tab. S. 1 in terms of calculated∆ sG◦− A: B values and associated …