Literature DB >> 30981237

Analytic gradient for the QM/MM-Ewald method using charges derived from the electrostatic potential: Theory, implementation, and application to ab initio molecular dynamics simulation of the aqueous electron.

Zachary C Holden1, Bhaskar Rana1, John M Herbert1.   

Abstract

We report an implementation of periodic boundary conditions for mixed quantum mechanics/molecular mechanics (QM/MM) simulations, in which atomic partial charges are used to represent periodic images of the QM region. These charges are incorporated into the Fock matrix in a manner that preserves the variational nature of the self-consistent field procedure, and their interactions with the MM charges are summed using the conventional Ewald technique. To ensure that the procedure is stable in arbitrary basis sets, the atomic charges are derived by least-squares fit to the electrostatic potential generated by the QM region. We formulate and implement analytic energy gradients for the QM/MM-Ewald method and demonstrate that stable molecular dynamics simulations are thereby obtained. As a proof-of-concept application, we perform QM/MM simulations of a hydrated electron in bulk liquid water at the level of Hartree-Fock theory plus empirical dispersion. These simulations demonstrate that the "cavity model" of the aqueous electron, in which the spin density of the anionic defect is localized within an excluded volume in the liquid, is stable at room temperature on a time scale of at least several picoseconds. These results validate cavity-forming pseudopotential models of e-(aq) that have previously been derived from static-exchange Hartree-Fock calculations, and cast doubt upon whether non-cavity-forming pseudopotentials are faithful to the underlying Hartree-Fock calculation from which they were obtained.

Entities:  

Year:  2019        PMID: 30981237     DOI: 10.1063/1.5089673

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


  3 in total

1.  A simplified charge projection scheme for long-range electrostatics in ab initio QM/MM calculations.

Authors:  Xiaoliang Pan; Kwangho Nam; Evgeny Epifanovsky; Andrew C Simmonett; Edina Rosta; Yihan Shao
Journal:  J Chem Phys       Date:  2021-01-14       Impact factor: 3.488

2.  New organosulfur metallic compounds as potent drugs: synthesis, molecular modeling, spectral, antimicrobial, drug likeness and DFT analysis.

Authors:  Abrar Ul Hassan; Sajjad Hussain Sumrra; Muhammad Nadeem Zafar; Muhammad Faizan Nazar; Ehsan Ullah Mughal; Muhammad Naveed Zafar; Mazhar Iqbal
Journal:  Mol Divers       Date:  2021-01-07       Impact factor: 2.943

3.  Correction Schemes for Absolute Binding Free Energies Involving Lipid Bilayers.

Authors:  Zhiyi Wu; Philip C Biggin
Journal:  J Chem Theory Comput       Date:  2022-03-22       Impact factor: 6.578

  3 in total

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