Literature DB >> 26580356

Multisurface Adiabatic Reactive Molecular Dynamics.

Tibor Nagy1, Juvenal Yosa Reyes1, Markus Meuwly1.   

Abstract

Adiabatic reactive molecular dynamics (ARMD) simulation method is a surface-crossing algorithm for modeling chemical reactions in classical molecular dynamics simulations using empirical force fields. As the ARMD Hamiltonian is time dependent during crossing, it allows only approximate energy conservation. In the current work, the range of applicability of conventional ARMD is explored, and a new multisurface ARMD (MS-ARMD) method is presented, implemented in CHARMM and applied to the vibrationally induced photodissociation of sulfuric acid (H2SO4) in the gas phase. For this, an accurate global potential energy surface (PES) involving 12 H2SO4 and 4 H2O + SO3 force fields fitted to MP2/6-311G++(2d,2p) reference energies is employed. The MS-ARMD simulations conserve total energy and feature both intramolecular H-transfer reactions and water elimination. An analytical treatment of the dynamics in the crossing region finds that conventional ARMD can approximately conserve total energy for limiting cases. In one of them, the reduced mass of the system is large, which often occurs for simulations of solvated biomolecular systems. On the other hand, MS-ARMD is a general approach for modeling chemical reactions including gas-phase, homogeneous, heterogeneous, and enzymatic catalytic reactions while conserving total energy in atomistic simulations.

Entities:  

Year:  2014        PMID: 26580356     DOI: 10.1021/ct400953f

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


  10 in total

1.  Molecular Dynamics Simulations with Quantum Mechanics/Molecular Mechanics and Adaptive Neural Networks.

Authors:  Lin Shen; Weitao Yang
Journal:  J Chem Theory Comput       Date:  2018-02-26       Impact factor: 6.006

Review 2.  Quantitative molecular simulations.

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Journal:  Phys Chem Chem Phys       Date:  2022-06-01       Impact factor: 3.945

3.  Double proton transfer in hydrated formic acid dimer: Interplay of spatial symmetry and solvent-generated force on reactivity.

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Journal:  Phys Chem Chem Phys       Date:  2022-06-08       Impact factor: 3.945

4.  Machine Learning Force Fields.

Authors:  Oliver T Unke; Stefan Chmiela; Huziel E Sauceda; Michael Gastegger; Igor Poltavsky; Kristof T Schütt; Alexandre Tkatchenko; Klaus-Robert Müller
Journal:  Chem Rev       Date:  2021-03-11       Impact factor: 60.622

Review 5.  Implications of short time scale dynamics on long time processes.

Authors:  Krystel El Hage; Sebastian Brickel; Sylvain Hermelin; Geoffrey Gaulier; Cédric Schmidt; Luigi Bonacina; Siri C van Keulen; Swarnendu Bhattacharyya; Majed Chergui; Peter Hamm; Ursula Rothlisberger; Jean-Pierre Wolf; Markus Meuwly
Journal:  Struct Dyn       Date:  2017-12-22       Impact factor: 2.920

6.  Energy Redistribution Following CO2 Formation on Cold Amorphous Solid Water.

Authors:  Meenu Upadhyay; Markus Meuwly
Journal:  Front Chem       Date:  2022-02-08       Impact factor: 5.221

Review 7.  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

Review 8.  Nonadiabatic effects in electronic and nuclear dynamics.

Authors:  Martin P Bircher; Elisa Liberatore; Nicholas J Browning; Sebastian Brickel; Cornelia Hofmann; Aurélien Patoz; Oliver T Unke; Tomáš Zimmermann; Majed Chergui; Peter Hamm; Ursula Keller; Markus Meuwly; Hans-Jakob Woerner; Jiří Vaníček; Ursula Rothlisberger
Journal:  Struct Dyn       Date:  2018-01-09       Impact factor: 2.920

9.  Solvent Composition Drives the Rebinding Kinetics of Nitric Oxide to Microperoxidase.

Authors:  Padmabati Mondal; Markus Meuwly
Journal:  Sci Rep       Date:  2018-03-27       Impact factor: 4.379

10.  Complex reaction processes in combustion unraveled by neural network-based molecular dynamics simulation.

Authors:  Jinzhe Zeng; Liqun Cao; Mingyuan Xu; Tong Zhu; John Z H Zhang
Journal:  Nat Commun       Date:  2020-11-11       Impact factor: 14.919

  10 in total

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