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The ENUF method—Ewald summation based on nonuniformfast Fourier transform: Implementation, parallelization, and application
Stockholm University, Faculty of Science, Department of Materials and Environmental Chemistry (MMK). Nanjing Tech University, China; Petru Poni Institute of Macromolecular Chemistry, Romania; Luleå University of Technology, Sweden.
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Number of Authors: 52020 (English)In: Journal of Computational Chemistry, ISSN 0192-8651, E-ISSN 1096-987X, Vol. 41, no 27, p. 2316-2335Article, review/survey (Refereed) Published
Abstract [en]

Computer simulations of model systems are widely used to explore striking phenomena in promising applications spanning from physics, chemistry, biology, to materials science and engineering. The long range electrostatic interactions between charged particles constitute a prominent factor in determining structures and states of model systems. How to efficiently calculate electrostatic interactions in simulation systems subjected to partial or full periodic boundary conditions has been a grand challenging task. In the past decades, a large variety of computational schemes has been proposed, among which the Ewald summation method is the most reliable route to accurately deal with electrostatic interactions between charged particles in simulation systems. In addition, extensive efforts have been done to improve computational efficiencies of the Ewald summation based methods. Representative examples are approaches based on cutoffs, reaction fields, multi-poles, multi-grids, and particle-mesh schemes. We sketched an ENUF method, an abbreviation for the Ewald summation method based on the nonuniform fast Fourier transform technique, and have implemented this method in particle-based simulation packages to calculate electrostatic energies and forces at micro- and mesoscopic levels. Extensive computational studies of conformational properties of polyelectrolytes, dendrimer-membrane complexes, and ionic fluids demonstrated that the ENUF method and its derivatives conserve both energy and momentum to floating point accuracy, and exhibit a computational complexity ofO mml:mfenced close=) open=( separators=NlogNwith optimal physical parameters. These ENUF based methods are attractive alternatives in molecular simulations where high accuracy and efficiency of simulation methods are needed to accelerate calculations of electrostatic interactions at extended spatiotemporal scales.

Place, publisher, year, edition, pages
2020. Vol. 41, no 27, p. 2316-2335
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Chemical Sciences
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URN: urn:nbn:se:su:diva-185350DOI: 10.1002/jcc.26395ISI: 000560041200001PubMedID: 32808686OAI: oai:DiVA.org:su-185350DiVA, id: diva2:1505280
Available from: 2020-11-30 Created: 2020-11-30 Last updated: 2022-02-28Bibliographically approved

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Laaksonen, AattoWang, Yong-Lei

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