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Updated: Apr 18, 2026

Analyzing Melts and Fluids from Ab Initio Molecular Dynamics Simulations with the UMD Package
Published on: September 17, 2021
An analysis of hydrated proton diffusion in ab initio molecular dynamics
Ying-Lung Steve Tse1, Chris Knight2, Gregory A Voth1
1Department of Chemistry, James Franck Institute, and Computation Institute, University of Chicago, Chicago, Illinois 60637, USA.
Proton transport in water involves complex molecular mechanisms. This study reveals that weak hydrogen bonds from neighboring water molecules correlate with burst-and-rest proton dynamics, impacting long-range migration.
Area of Science:
- Computational Chemistry
- Physical Chemistry
- Molecular Dynamics
Background:
- Proton transport in aqueous systems is fundamental but involves complex, multiscale phenomena.
- Understanding molecular mechanisms of long-range proton migration and burst-and-rest dynamics remains challenging.
- The role of hydrogen bonding and water structure in proton mobility requires further investigation.
Purpose of the Study:
- To investigate the molecular mechanisms underlying proton transport in water.
- To identify factors correlating with burst-and-rest proton dynamics.
- To explore the influence of temperature and hydrogen bonding on proton migration.
Main Methods:
- Utilized extensive ab initio molecular dynamics (AIMD) simulations (∼2.7 ns).
- Employed various density functional approximations (e.g., BLYP, B3LYP) and temperatures (300-330 K).
- Analyzed equilibrium and dynamical properties of excess protons in a water cluster.
Main Results:
- Identified concerted hops and weak hydrogen-bond donors as key features influencing proton dynamics.
- Found strong correlation between hydrogen bond presence/absence with a fourth water molecule and burst/rest dynamics.
- Observed low probability for a fourth water molecule to approach hydronium, suggesting stable void formation.
Conclusions:
- Weak hydrogen bonds from neighboring water molecules are strongly linked to burst-and-rest proton dynamics.
- Pre-solvation concepts are consistent with observed correlations in proton hopping events.
- Temperature influences structural and dynamical properties of proton transport in water.
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