Literature DB >> 30193468

A physically grounded damped dispersion model with particle mesh Ewald summation.

Joshua A Rackers1, Chengwen Liu2, Pengyu Ren2, Jay W Ponder1.   

Abstract

Accurate modeling of dispersion is critical to the goal of predictive biomolecular simulations. To achieve this accuracy, a model must be able to correctly capture both the short-range and asymptotic behavior of dispersion interactions. We present here a damped dispersion model based on the overlap of charge densities that correctly captures both regimes. The overlap damped dispersion model represents a classical physical interpretation of dispersion: the interaction between the instantaneous induced dipoles of two distinct charge distributions. This model is shown to be an excellent fit with symmetry adapted perturbation theory dispersion energy calculations, yielding an RMS error on the S101x7 database of 0.5 kcal/mol. Moreover, the damping function used in this model is wholly derived and parameterized from the electrostatic dipole-dipole interaction, making it not only physically grounded but transferable as well.

Entities:  

Year:  2018        PMID: 30193468      PMCID: PMC6118897          DOI: 10.1063/1.5030434

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  39 in total

1.  Derivation and Implementation of the Gradient of the R(-7) Dispersion Interaction in the Effective Fragment Potential Method.

Authors:  Emilie B Guidez; Peng Xu; Mark S Gordon
Journal:  J Phys Chem A       Date:  2016-01-25       Impact factor: 2.781

2.  Intermolecular potentials based on symmetry-adapted perturbation theory with dispersion energies from time-dependent density-functional calculations.

Authors:  Alston J Misquitta; Rafał Podeszwa; Bogumił Jeziorski; Krzysztof Szalewicz
Journal:  J Chem Phys       Date:  2005-12-01       Impact factor: 3.488

3.  Transferable next-generation force fields from simple liquids to complex materials.

Authors:  J R Schmidt; Kuang Yu; Jesse G McDaniel
Journal:  Acc Chem Res       Date:  2015-02-17       Impact factor: 22.384

4.  Importance of explicit smeared lone-pairs in anisotropic polarizable molecular mechanics. Torture track angular tests for exchange-repulsion and charge transfer contributions.

Authors:  Léa El Khoury; Sehr Naseem-Khan; Karolina Kwapien; Zeina Hobaika; Richard G Maroun; Jean-Philip Piquemal; Nohad Gresh
Journal:  J Comput Chem       Date:  2017-05-30       Impact factor: 3.376

5.  Quantum-mechanical analysis of the energetic contributions to π stacking in nucleic acids versus rise, twist, and slide.

Authors:  Trent M Parker; Edward G Hohenstein; Robert M Parrish; Nicholas V Hud; C David Sherrill
Journal:  J Am Chem Soc       Date:  2013-01-16       Impact factor: 15.419

6.  Levels of symmetry adapted perturbation theory (SAPT). I. Efficiency and performance for interaction energies.

Authors:  Trent M Parker; Lori A Burns; Robert M Parrish; Alden G Ryno; C David Sherrill
Journal:  J Chem Phys       Date:  2014-03-07       Impact factor: 3.488

7.  Next-Generation Force Fields from Symmetry-Adapted Perturbation Theory.

Authors:  Jesse G McDaniel; J R Schmidt
Journal:  Annu Rev Phys Chem       Date:  2016-03-16       Impact factor: 12.703

8.  Assessing Ion-Water Interactions in the AMOEBA Force Field Using Energy Decomposition Analysis of Electronic Structure Calculations.

Authors:  Yuezhi Mao; Omar Demerdash; Martin Head-Gordon; Teresa Head-Gordon
Journal:  J Chem Theory Comput       Date:  2016-10-18       Impact factor: 6.006

9.  A post-Hartree-Fock model of intermolecular interactions.

Authors:  Erin R Johnson; Axel D Becke
Journal:  J Chem Phys       Date:  2005-07-08       Impact factor: 3.488

10.  General Model for Treating Short-Range Electrostatic Penetration in a Molecular Mechanics Force Field.

Authors:  Qiantao Wang; Joshua A Rackers; Chenfeng He; Rui Qi; Christophe Narth; Louis Lagardere; Nohad Gresh; Jay W Ponder; Jean-Philip Piquemal; Pengyu Ren
Journal:  J Chem Theory Comput       Date:  2015-04-28       Impact factor: 6.006

View more
  5 in total

1.  AMOEBA+ Classical Potential for Modeling Molecular Interactions.

Authors:  Chengwen Liu; Jean-Philip Piquemal; Pengyu Ren
Journal:  J Chem Theory Comput       Date:  2019-06-11       Impact factor: 6.006

2.  Classical Pauli repulsion: An anisotropic, atomic multipole model.

Authors:  Joshua A Rackers; Jay W Ponder
Journal:  J Chem Phys       Date:  2019-02-28       Impact factor: 3.488

3.  Psi4 1.4: Open-source software for high-throughput quantum chemistry.

Authors:  Daniel G A Smith; Lori A Burns; Andrew C Simmonett; Robert M Parrish; Matthew C Schieber; Raimondas Galvelis; Peter Kraus; Holger Kruse; Roberto Di Remigio; Asem Alenaizan; Andrew M James; Susi Lehtola; Jonathon P Misiewicz; Maximilian Scheurer; Robert A Shaw; Jeffrey B Schriber; Yi Xie; Zachary L Glick; Dominic A Sirianni; Joseph Senan O'Brien; Jonathan M Waldrop; Ashutosh Kumar; Edward G Hohenstein; Benjamin P Pritchard; Bernard R Brooks; Henry F Schaefer; Alexander Yu Sokolov; Konrad Patkowski; A Eugene DePrince; Uğur Bozkaya; Rollin A King; Francesco A Evangelista; Justin M Turney; T Daniel Crawford; C David Sherrill
Journal:  J Chem Phys       Date:  2020-05-14       Impact factor: 3.488

4.  A Minimum Quantum Chemistry CCSD(T)/CBS Data Set of Dimeric Interaction Energies for Small Organic Functional Groups: Heterodimers.

Authors:  Hsing-Hsiang Huang; Yi-Siang Wang; Sheng D Chao
Journal:  ACS Omega       Date:  2022-05-31

5.  Polarizable Water Potential Derived from a Model Electron Density.

Authors:  Joshua A Rackers; Roseane R Silva; Zhi Wang; Jay W Ponder
Journal:  J Chem Theory Comput       Date:  2021-10-26       Impact factor: 6.006

  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.