Evidence map›Paper›PMID 41235840›Full record

ArticleJournal of chemical theory and computation2025

DEGAUSS: A Novel Softcore Force Field Using Double Exponential van der Waals and Gaussian Charge for Molecular Dynamics Simulations I: Theory and Validation.

Zhen Huang, Yong Duan, Xiongwu Wu, Ray Luo

Abstract read
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Article in Journal of chemical theory and computation, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed
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1 · What the graph read from it

What it found

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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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3 · Its place in the literature

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4 · The record

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5 · Who and what money

Authors and funding

4 authors.

Zhen HuangChemical, Applied, and Materials Physics Graduate Program, Departments of Molecular Biology and Biochemistry, Chemical and Biomolecular Engineering, Materials Science and Engineering, and Biomedical Engineering, University of California, Irvine, California 92697, United States.ORCID 0009-0003-4478-8477
Yong DuanGenome Center, University of California, Davis, California 95616, United States.ORCID 0000-0003-3793-5099
Xiongwu WuLaboratory of Computational Biology, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, Maryland 20892, United States.
Ray LuoChemical, Applied, and Materials Physics Graduate Program, Departments of Molecular Biology and Biochemistry, Chemical and Biomolecular Engineering, Materials Science and Engineering, and Biomedical Engineering, University of California, Irvine, California 92697, United States.ORCID 0000-0002-6346-8271

Funding

Multi-scaled Modeling of Electrostatic and Polarization Effects in BiomoleculesR35GM130367 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI RAY LUO · 2019 to 2026
$3.0M
NIGMS NIH HHS R35 GM130367
6 · The paper itself

Abstract

Classical molecular force fields contain singularities in Lennard-Jones and Coulombic potentials that cause numerical challenges under extreme conditions, including transition states, high temperatures and pressures, and alchemical free energy calculations. We present DEGAUSS, a singularity-free force field framework that eliminates these divergences by replacing Lennard-Jones potentials with double exponential functions and point charges with Gaussian charge distributions, ensuring that all interactions remain finite even at zero separation. Using existing classical force field parameters as a starting point, we define DEGAUSS-specific parameters that closely resemble the behaviors of the classical force field, while avoiding numerical instabilities. Validation studies of TIP3P and OPC3 water models demonstrate excellent reproduction of thermodynamic and structural properties across diverse temperature ranges. Alanine dipeptide simulations preserve major conformational states, and protein benchmarks show structural stability consistent with that of conventional force fields. Hydration free energy calculations using alchemical methods demonstrate the absence of singularities during particle annihilation without requiring additional softcore potentials while producing results comparable to classical methods. Although the smooth functional forms increase computational costs relative to standard Lennard-Jones potentials and Coulomb potentials, DEGAUSS provides a robust framework that maintains chemical accuracy and simplifies alchemical free energy calculations.

Identifiers

PMID41235840
PMCPMC12707024

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