Literature DB >> 26588121

A Novel, Computationally Efficient Multipolar Model Employing Distributed Charges for Molecular Dynamics Simulations.

Mike Devereux1, Shampa Raghunathan1, Dmitri G Fedorov2, Markus Meuwly1.   

Abstract

A truncated multipole expansion can be re-expressed exactly using an appropriate arrangement of point charges. This means that groups of point charges that are shifted away from nuclear coordinates can be used to achieve accurate electrostatics for molecular systems. We introduce a multipolar electrostatic model formulated in this way for use in computationally efficient multipolar molecular dynamics simulations with well-defined forces and energy conservation in NVE (constant number-volume-energy) simulations. A framework is introduced to distribute torques arising from multipole moments throughout a molecule, and a refined fitting approach is suggested to obtain atomic multipole moments that are optimized for accuracy and numerical stability in a force field context. The formulation of the charge model is outlined as it has been implemented into CHARMM, with application to test systems involving H2O and chlorobenzene. As well as ease of implementation and computational efficiency, the approach can be used to provide snapshots for multipolar QM/MM calculations in QM/MM-MD studies and easily combined with a standard point-charge force field to allow mixed multipolar/point charge simulations of large systems.

Entities:  

Year:  2014        PMID: 26588121     DOI: 10.1021/ct500511t

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  11 in total

1.  Efficient treatment of induced dipoles.

Authors:  Andrew C Simmonett; Frank C Pickard; Yihan Shao; Thomas E Cheatham; Bernard R Brooks
Journal:  J Chem Phys       Date:  2015-08-21       Impact factor: 3.488

2.  LICHEM: A QM/MM program for simulations with multipolar and polarizable force fields.

Authors:  Eric G Kratz; Alice R Walker; Louis Lagardère; Filippo Lipparini; Jean-Philip Piquemal; G Andrés Cisneros
Journal:  J Comput Chem       Date:  2016-01-18       Impact factor: 3.376

3.  Universal short-range ab initio atom-atom potentials for interaction energy contributions with an optimal repulsion functional form.

Authors:  Jan K Konieczny; W Andrzej Sokalski
Journal:  J Mol Model       Date:  2015-07-14       Impact factor: 1.810

4.  Mapping the Drude polarizable force field onto a multipole and induced dipole model.

Authors:  Jing Huang; Andrew C Simmonett; Frank C Pickard; Alexander D MacKerell; Bernard R Brooks
Journal:  J Chem Phys       Date:  2017-10-28       Impact factor: 3.488

5.  Long-range electrostatic corrections in multipolar/polarizable QM/MM simulations.

Authors:  Eric G Kratz; Robert E Duke; G Andrés Cisneros
Journal:  Theor Chem Acc       Date:  2016-06-17       Impact factor: 1.702

6.  An empirical extrapolation scheme for efficient treatment of induced dipoles.

Authors:  Andrew C Simmonett; Frank C Pickard; Jay W Ponder; Bernard R Brooks
Journal:  J Chem Phys       Date:  2016-10-28       Impact factor: 3.488

7.  Development and application of quantum mechanics/molecular mechanics methods with advanced polarizable potentials.

Authors:  Jorge Nochebuena; Sehr Naseem-Khan; G Andrés Cisneros
Journal:  Wiley Interdiscip Rev Comput Mol Sci       Date:  2021-01-12

8.  Multipolar Ewald methods, 1: theory, accuracy, and performance.

Authors:  Timothy J Giese; Maria T Panteva; Haoyuan Chen; Darrin M York
Journal:  J Chem Theory Comput       Date:  2015-02-10       Impact factor: 6.006

9.  Tinker-HP: a massively parallel molecular dynamics package for multiscale simulations of large complex systems with advanced point dipole polarizable force fields.

Authors:  Louis Lagardère; Luc-Henri Jolly; Filippo Lipparini; Félix Aviat; Benjamin Stamm; Zhifeng F Jing; Matthew Harger; Hedieh Torabifard; G Andrés Cisneros; Michael J Schnieders; Nohad Gresh; Yvon Maday; Pengyu Y Ren; Jay W Ponder; Jean-Philip Piquemal
Journal:  Chem Sci       Date:  2017-11-27       Impact factor: 9.825

Review 10.  Ultrafast dynamics induced by the interaction of molecules with electromagnetic fields: Several quantum, semiclassical, and classical approaches.

Authors:  Sergey V Antipov; Swarnendu Bhattacharyya; Krystel El Hage; Zhen-Hao Xu; Markus Meuwly; Ursula Rothlisberger; Jiří Vaníček
Journal:  Struct Dyn       Date:  2018-01-08       Impact factor: 2.920

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