Literature DB >> 25573550

An analysis of hydrated proton diffusion in ab initio molecular dynamics.

Ying-Lung Steve Tse1, Chris Knight2, Gregory A Voth1.   

Abstract

A detailed understanding of the inherently multiscale proton transport process raises a number of scientifically challenging questions. For example, there remain many (partially addressed) questions on the molecular mechanism for long-range proton migration and the potential for the formation of long-lived traps giving rise to burst-and-rest proton dynamics. Using results from a sizeable collection of ab initio molecular dynamics (AIMD) simulations (totaling ∼2.7 ns) with various density functional approximations (Becke-Lee-Yang-Parr (BLYP), BLYP-D3, Hamprecht-Cohen-Tozer-Handy, B3LYP) and temperatures (300-330 K), equilibrium and dynamical properties of one excess proton and 128 water molecules are studied. Two features in particular (concerted hops and weak hydrogen-bond donors) are investigated to identify modes in the system that are strongly correlated with the onset of periods of burst-and-rest dynamics. The question of concerted hops seeks to identify those time scales over which long-range proton transport can be classified as a series of sequential water hopping events or as a near-simultaneous concerted process along compressed water wires. The coupling of the observed burst-and-rest dynamics with motions of a fourth neighboring water molecule (a weak hydrogen-bond donor) solvating the protonated water molecule is also investigated. The presence (absence) of hydrogen bonds involving this fourth water molecule before and after successful proton hopping events is found to be strongly correlated with periods of burst (rest) dynamics (and consistent with pre-solvation concepts). By analyzing several realizations of the AIMD trajectories on the 100-ps time scale, convergence of statistics can be assessed. For instance, it was observed that the probability for a fourth water molecule to approach the hydronium, if not already proximal at the beginning of the lifetime of the hydronium, is very low, indicative of the formation of stable void regions. Furthermore, the correlations of the neighboring water atoms are identified as the fourth water approaches the hydronium. Finally, the temperature effects on structural and dynamical properties are studied.

Entities:  

Year:  2015        PMID: 25573550     DOI: 10.1063/1.4905077

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


  10 in total

1.  Reactive molecular dynamics models from ab initio molecular dynamics data using relative entropy minimization.

Authors:  Christopher Arntsen; Chen Chen; Gregory A Voth
Journal:  Chem Phys Lett       Date:  2017-04-22       Impact factor: 2.328

2.  Development of reactive force fields using ab initio molecular dynamics simulation minimally biased to experimental data.

Authors:  Chen Chen; Christopher Arntsen; Gregory A Voth
Journal:  J Chem Phys       Date:  2017-10-28       Impact factor: 3.488

3.  Understanding and Tracking the Excess Proton in Ab Initio Simulations; Insights from IR Spectra.

Authors:  Chenghan Li; Jessica M J Swanson
Journal:  J Phys Chem B       Date:  2020-06-24       Impact factor: 2.991

Review 4.  Protons and Hydroxide Ions in Aqueous Systems.

Authors:  Noam Agmon; Huib J Bakker; R Kramer Campen; Richard H Henchman; Peter Pohl; Sylvie Roke; Martin Thämer; Ali Hassanali
Journal:  Chem Rev       Date:  2016-06-17       Impact factor: 60.622

5.  Correlated dynamics in aqueous proton diffusion.

Authors:  Sean A Fischer; Brett I Dunlap; Daniel Gunlycke
Journal:  Chem Sci       Date:  2018-07-30       Impact factor: 9.825

6.  Tracking Aqueous Proton Transfer by Two-Dimensional Infrared Spectroscopy and ab Initio Molecular Dynamics Simulations.

Authors:  Rongfeng Yuan; Joseph A Napoli; Chang Yan; Ondrej Marsalek; Thomas E Markland; Michael D Fayer
Journal:  ACS Cent Sci       Date:  2019-05-23       Impact factor: 14.553

7.  Ab Initio Molecular Dynamics Simulations of the Influence of Lithium Bromide Salt on the Deprotonation of Formic Acid in Aqueous Solution.

Authors:  Christopher D Daub; Lauri Halonen
Journal:  J Phys Chem B       Date:  2019-07-30       Impact factor: 2.991

8.  Chirality transfer from a 3D macro shape to the molecular level by controlling asymmetric secondary flows.

Authors:  Semih Sevim; Alessandro Sorrenti; João Pedro Vale; Zoubir El-Hachemi; Salvador Pané; Andreas D Flouris; Tiago Sotto Mayor; Josep Puigmartí-Luis
Journal:  Nat Commun       Date:  2022-04-01       Impact factor: 14.919

9.  Spectral signatures of excess-proton waiting and transfer-path dynamics in aqueous hydrochloric acid solutions.

Authors:  Florian N Brünig; Manuel Rammler; Ellen M Adams; Martina Havenith; Roland R Netz
Journal:  Nat Commun       Date:  2022-07-21       Impact factor: 17.694

10.  Predicting the Ionic Product of Water.

Authors:  Eva Perlt; Michael von Domaros; Barbara Kirchner; Ralf Ludwig; Frank Weinhold
Journal:  Sci Rep       Date:  2017-08-31       Impact factor: 4.379

  10 in total

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