CDFTPY: A python package for performing classical density functional theory calculations for molecular liquids
M Valiev, GN Chuev, MV Fedotova - Computer Physics Communications, 2022 - Elsevier
Classical density functional theory (CDFT) provides a rigorous theoretical framework for the
statistical mechanics based analysis of many-body systems. This approach has proven to be …
statistical mechanics based analysis of many-body systems. This approach has proven to be …
Unified framework of multiscale density functional theories and its recent applications
S Zhao, Y Liu, X Chen, Y Lu, H Liu, Y Hu - Advances in Chemical …, 2015 - Elsevier
Most chemical engineering processes involve complex multiphase fluid systems, and their
evolution depends on the mechanism by which the inhomogeneous subsystems exchange …
evolution depends on the mechanism by which the inhomogeneous subsystems exchange …
Molecular insight on hydration of protein tyrosine phosphatase 1B and its complexes with ligands
SE Kruchinin, GN Chuev, MV Fedotova - Journal of Molecular Liquids, 2023 - Elsevier
Abstract Knowledge of hydration and the role of solvent in protein–ligand (PL) binding is
essential for rational drug design. In this direction, a complete description of PL binding …
essential for rational drug design. In this direction, a complete description of PL binding …
Evaluation of an efficient 3D-RISM-SCF implementation as a tool for computational spectroscopy in solution
M Reimann, M Kaupp - The Journal of Physical Chemistry A, 2020 - ACS Publications
The 3D-RISM-SCF solvent-model implementation of Gusarov et al.[J. Phys. Chem. A 2006,
110, 6083− 6090] in the Amsterdam density functional program has been improved and …
110, 6083− 6090] in the Amsterdam density functional program has been improved and …
Accurate calculations of the hydration free energies of druglike molecules using the reference interaction site model
We report on the results of testing the reference interaction site model (RISM) for the
estimation of the hydration free energy of druglike molecules. The optimum model was …
estimation of the hydration free energy of druglike molecules. The optimum model was …
Reaction Entropies in Solution from Analytical Three-Dimensional Reference Interaction Site Model Derivatives with Application to Redox and Spin-Crossover …
M Reimann, M Kaupp - The Journal of Physical Chemistry A, 2022 - ACS Publications
An analytical approach to compute the excess entropy of solvation at constant pressure in
three-dimensional reference interaction site model (3D-RISM) calculations is presented. It …
three-dimensional reference interaction site model (3D-RISM) calculations is presented. It …
Combinations of simulation and integral equation theory
SM Kast - Physical Chemistry Chemical Physics, 2001 - pubs.rsc.org
Much work has been done to accelerate the prediction of structure and thermodynamics,
particularly of the chemical potential of condensed phases by means of molecular …
particularly of the chemical potential of condensed phases by means of molecular …
3D matters! 3D-RISM and 3D convolutional neural network for accurate bioaccumulation prediction
In this work, we present a new method for predicting complex physical-chemical properties
of organic molecules. The approach utilizes 3D convolutional neural network (ActivNet4) …
of organic molecules. The approach utilizes 3D convolutional neural network (ActivNet4) …
[PDF][PDF] The contribution of interchain salt bridges to triple-helical stability in collagen
T Gurry, PS Nerenberg, CM Stultz - Biophysical journal, 2010 - cell.com
Studies on collagen and collagen-like peptides suggest that triple-helical stability can vary
along the amino acid chain. In this regard, it has been shown that lysine residues in the Y …
along the amino acid chain. In this regard, it has been shown that lysine residues in the Y …
Renormalized site density functional theory for models of ion hydration
GN Chuev, MV Fedotova, M Valiev - The Journal of Chemical Physics, 2021 - pubs.aip.org
The development of accurate statistical mechanics models of molecular liquid systems is a
problem of great practical and fundamental importance. Site-density functional theory …
problem of great practical and fundamental importance. Site-density functional theory …