Literature DB >> 30823770

Classical Pauli repulsion: An anisotropic, atomic multipole model.

Joshua A Rackers1, Jay W Ponder2.   

Abstract

Pauli repulsion is a key component of any theory of intermolecular interactions. Although Pauli or exchange repulsion has its origin in the quantum mechanical nature of electrons, it is possible to describe the resulting energetic effects via a classical model in terms of the overlap of electron densities. In fact, closed shell intermolecular repulsion can be explained as a diminution of election density in the internuclear region resulting in decreased screening of nuclear charges and increased nuclear-nuclear repulsion. We provide a concise anisotropic repulsion formulation using the atomic multipoles from the Atomic Multipole Optimized Energetics for Biomolecular Applications force field to describe the electron density at each atom in a larger system. Mathematically, the proposed model consists of damped pairwise exponential multipolar repulsion interactions truncated at short range, which are suitable for use in compute-intensive biomolecular force fields and molecular dynamics simulations. Parameters for 26 atom classes encompassing most organic molecules are derived from a fit to Symmetry Adapted Perturbation Theory exchange repulsion energies for the S101 dimer database. Several applications of the multipolar Pauli repulsion model are discussed, including noble gas interactions, analysis of stationary points on the water dimer potential surface, and the directionality of several halogen bonding interactions.

Entities:  

Year:  2019        PMID: 30823770      PMCID: PMC6386640          DOI: 10.1063/1.5081060

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


  37 in total

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4.  Comparison of overlap-based models for approximating the exchange-repulsion energy.

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Journal:  J Chem Phys       Date:  2006-06-28       Impact factor: 3.488

5.  Pauli repulsions exist only in the eye of the beholder.

Authors:  Richard F W Bader
Journal:  Chemistry       Date:  2006-03-20       Impact factor: 5.236

6.  Electrostatic energy in the effective fragment potential method: theory and application to benzene dimer.

Authors:  Lyudmila V Slipchenko; Mark S Gordon
Journal:  J Comput Chem       Date:  2007-01-15       Impact factor: 3.376

7.  Polarizable Atomic Multipole-based Molecular Mechanics for Organic Molecules.

Authors:  Pengyu Ren; Chuanjie Wu; Jay W Ponder
Journal:  J Chem Theory Comput       Date:  2011-10-11       Impact factor: 6.006

8.  Halogen bonds in biological molecules.

Authors:  Pascal Auffinger; Franklin A Hays; Eric Westhof; P Shing Ho
Journal:  Proc Natl Acad Sci U S A       Date:  2004-11-19       Impact factor: 11.205

9.  Could an anisotropic molecular mechanics/dynamics potential account for sigma hole effects in the complexes of halogenated compounds?

Authors:  Krystel El Hage; Jean-Philip Piquemal; Zeina Hobaika; Richard G Maroun; Nohad Gresh
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10.  Towards a force field based on density fitting.

Authors:  Jean-Philip Piquemal; G Andrés Cisneros; Peter Reinhardt; Nohad Gresh; Thomas A Darden
Journal:  J Chem Phys       Date:  2006-03-14       Impact factor: 3.488

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  9 in total

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Journal:  J Chem Phys       Date:  2020-05-14       Impact factor: 3.488

2.  Implicit Solvents for the Polarizable Atomic Multipole AMOEBA Force Field.

Authors:  Rae A Corrigan; Guowei Qi; Andrew C Thiel; Jack R Lynn; Brandon D Walker; Thomas L Casavant; Louis Lagardere; Jean-Philip Piquemal; Jay W Ponder; Pengyu Ren; Michael J Schnieders
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Authors:  Yuanjun Shi; Marie L Laury; Zhi Wang; Jay W Ponder
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4.  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.  Molecular and Supramolecular Interactions in Systems with Nitroxide-Based Radicals.

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6.  Development and Validation of a DFT-Based Force Field for a Hydrated Homoalanine Polypeptide.

Authors:  Ying Yuan; Zhonghua Ma; Feng Wang
Journal:  J Phys Chem B       Date:  2021-02-08       Impact factor: 2.991

7.  Evolution of Conformation, Nanomechanics, and Infrared Nanospectroscopy of Single Amyloid Fibrils Converting into Microcrystals.

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Journal:  Adv Sci (Weinh)       Date:  2020-12-11       Impact factor: 16.806

8.  Comparison of approximate intermolecular potentials for ab initio fragment calculations on medium sized N-heterocycles.

Authors:  Bónis Barcza; Ádám B Szirmai; Katalin J Szántó; Attila Tajti; Péter G Szalay
Journal:  J Comput Chem       Date:  2022-04-28       Impact factor: 3.672

9.  Accurate Biomolecular Simulations Account for Electronic Polarization.

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Journal:  Front Mol Biosci       Date:  2019-12-04
  9 in total

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