[HTML][HTML] Study of self-interaction errors in density functional predictions of dipole polarizabilities and ionization energies of water clusters using Perdew–Zunger and …

S Akter, Y Yamamoto, CM Diaz, KA Jackson… - The Journal of …, 2020 - pubs.aip.org
… local-scaling self-interaction correction 45 (LSIC) method for the prediction of dipoles and …
factor based on the local character of the charge density to scale down the energy densities of …

A survey of factors contributing to accurate theoretical predictions of atomization energies and molecular structures

D Feller, KA Peterson, DA Dixon - The Journal of chemical physics, 2008 - pubs.aip.org
… cluster theory and configuration interaction (CI) techniques … predicting the heat of formation
reliably, we can use the calculated heats of formation to predict chemical reaction energies

Gaussian‐1 theory: A general procedure for prediction of molecular energies

JA Pople, M Head‐Gordon, DJ Fox… - The Journal of …, 1989 - pubs.aip.org
… The best estimates that we can get of the omitted correlation energies are from the
configuration interaction study of Sasaki and Yoshimine. These authors evaluated total correlation …

A systems approach to measuring the binding energy landscapes of transcription factors

SJ Maerkl, SR Quake - Science, 2007 - science.org
basis of mechanical trapping of molecular interactions. With this platform we characterized
DNA binding energy … information on higher-order interactions, the predicted affinities reflect an …

SIMPLE estimate of the free energy change due to aliphatic mutations: superior predictions based on first principles

M Bueno, CJ Camacho… - … : Structure, Function, and …, 2007 - Wiley Online Library
… We note that the van der Waals interaction is the only term that cannot be estimated based
on first principles. However, we argue that, for the most part, van der Waals in the folded state …

Predicting protein–protein interactions from the molecular to the proteome level

O Keskin, N Tuncbag, A Gursoy - Chemical reviews, 2016 - ACS Publications
… This review provides available methods to predict interaction of … to solve the prediction of
protein interaction problem. These … proteins which implies the importance of binding energies? …

Three-body interactions improve the prediction of rate and mechanism in protein folding models

MR Ejtehadi, SP Avall… - Proceedings of the …, 2004 - National Acad Sciences
… to test energy functions characterizing pair interactions at the … interaction parameters
improved the simulational predictions … and a model with pair interactions (between all residues) …

mCSM-PPI2: predicting the effects of mutations on protein–protein interactions

CHM Rodrigues, Y Myung, DEV Pires… - Nucleic acids …, 2019 - academic.oup.com
Interaction energy information between the two interacting chains were extracted from FoldX
(22). In addition, we included the predicted folding free energy … contacts and energy terms …

How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules?

J Wang, P Cieplak, PA Kollman - Journal of computational …, 2000 - Wiley Online Library
… simulations of conformational energies and noncovalent interactions of complex molecular
… 0.15 kcal/mol (V 3 ), which can predict the energy difference (2.93 kcal/mol) as essentially the …

[HTML][HTML] Polarizable charge equilibration model for predicting accurate electrostatic interactions in molecules and solids

S Naserifar, DJ Brooks, WA Goddard… - The Journal of chemical …, 2017 - pubs.aip.org
… polarization underlying the electrostatic interactions. Here the … We validate PQEq by comparing
to QM interaction energy as … We find that PQEq predicts interaction energies in excellent …