A road map for the calculation of molecular binding energies

TH Dunning - The Journal of Physical Chemistry A, 2000 - ACS Publications
During the past decade dramatic progress has been made in calculating the binding
energies of molecules. This is the result of two advances reported in 1989: an accurate …

Approximations to complete basis set-extrapolated, highly correlated non-covalent interaction energies

ID Mackie, GA DiLabio - The Journal of chemical physics, 2011 - pubs.aip.org
The first-principles calculation of non-covalent (particularly dispersion) interactions between
molecules is a considerable challenge. In this work we studied the binding energies for ten …

Standard binding free energies from computer simulations: What is the best strategy?

JC Gumbart, B Roux, C Chipot - Journal of chemical theory and …, 2013 - ACS Publications
Accurate prediction of standard binding free energies describing protein–ligand association
remains a daunting computational endeavor. This challenge is rooted to a large extent in the …

Natural bond orbitals and the nature of the hydrogen bond

AJ Stone - The Journal of Physical Chemistry A, 2017 - ACS Publications
The charge-transfer component of the energy of interaction between molecules has been a
controversial issue for many years. In particular, the values reported from the use of the …

Free energies of ligand binding for structurally diverse compounds

C Oostenbrink… - Proceedings of the …, 2005 - National Acad Sciences
The one-step perturbation approach is an efficient means to calculate many relative free
energies from a common reference compound. Combining lessons learned in previous …

Describing noncovalent interactions beyond the common approximations: how accurate is the “gold standard,” CCSD (T) at the complete basis set limit?

J Rezac, P Hobza - Journal of chemical theory and computation, 2013 - ACS Publications
We have quantified the effects of approximations usually made even in accurate CCSD
(T)/CBS calculations of noncovalent interactions, often considered as the “gold standard” of …

Accurate calculation of relative binding free energies between ligands with different net charges

W Chen, Y Deng, E Russell, Y Wu… - Journal of chemical …, 2018 - ACS Publications
In drug discovery programs, modifications that change the net charge of the ligands are
often considered to improve the binding potency and solubility, or to address other …

Basis set consistent revision of the S22 test set of noncovalent interaction energies

T Takatani, EG Hohenstein, M Malagoli… - The Journal of …, 2010 - pubs.aip.org
The S22 test set of interaction energies for small model complexes [Phys. Chem. Chem.
Phys. 8, 1985 (2006)] has been very valuable for benchmarking new and existing methods …

S66: A well-balanced database of benchmark interaction energies relevant to biomolecular structures

J Rezác, KE Riley, P Hobza - Journal of chemical theory and …, 2011 - ACS Publications
With numerous new quantum chemistry methods being developed in recent years and the
promise of even more new methods to be developed in the near future, it is clearly critical …

Accurate intermolecular potentials obtained from molecular wave functions: Bridging the gap between quantum chemistry and molecular simulations

O Engkvist, PO Åstrand, G Karlström - Chemical Reviews, 2000 - ACS Publications
The forces between molecules govern the properties of condensed phases consisting of
molecular entities. It is therefore of fundamental importance in science to understand the …