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Effective Inclusion of Electronic Polarization Improves the Description of Electrostatic Interactions: The prosECCo75 Biomolecular Force Field

  • Ricky Nencini
  • , Carmelo Tempra
  • , Denys Biriukov
  • , Miguel Riopedre-Fernandez
  • , Victor Cruces Chamorro
  • , Jakub Polák
  • , Philip E. Mason
  • , Daniel Ondo
  • , Jan Heyda
  • , O.H. Samuli Ollila
  • , Pavel Jungwirth
  • , Matti Javanainen
  • , Hector Martinez-Seara*
  • *Corresponding author for this work
  • Czech Academy of Sciences
  • University of Helsinki
  • Masaryk University
  • University of Chemistry and Technology, Prague
  • Institute of Biotechnology (HiLIFE)

Research output: Contribution to journalArticleScientificpeer-review

Abstract

prosECCo75 is an optimized force field effectively incorporating electronic polarization via charge scaling. It aims to enhance the accuracy of nominally nonpolarizable molecular dynamics simulations for interactions in biologically relevant systems involving water, ions, proteins, lipids, and saccharides. Recognizing the inherent limitations of nonpolarizable force fields in precisely modeling electrostatic interactions essential for various biological processes, we mitigate these shortcomings by accounting for electronic polarizability in a physically rigorous mean-field way that does not add to computational costs. With this scaling of (both integer and partial) charges within the CHARMM36 framework, prosECCo75 addresses overbinding artifacts. This improves agreement with experimental ion binding data across a broad spectrum of systems─lipid membranes, proteins (including peptides and amino acids), and saccharides─without compromising their biomolecular structures. prosECCo75 thus emerges as a computationally efficient tool providing enhanced accuracy and broader applicability in simulating the complex interplay of interactions between ions and biomolecules, pivotal for improving our understanding of many biological processes.
Original languageEnglish
Pages (from-to)7546-7559
Number of pages14
JournalJournal of Chemical Theory and Computation
Volume20
Issue number17
DOIs
Publication statusPublished - 10 Sept 2024
MoE publication typeA1 Journal article-refereed

Funding

M.R.-F. and H.M.-S. acknowledge support of the Czech Science Foundation (project 19-19561S). M.R.-F. and V.C.C. acknowledge support from the Charles University in Prague and the International Max Planck Research School in Dresden. D.B. acknowledges support of the Czech Science Foundation (project 24-11274S). M.J. acknowledges support from the Research Council of Finland (grant no. 338160) and the Emil Aaltonen foundation. P.J. acknowledges support from the European Research Council via an ERC Advanced Grant no. 101095957. R.N. and O.H.S.O. acknowledge support from the Research Council of Finland for funding (grant no. 315596, 319902, and 345631) and CSC\u2500IT Center for Science for computational resources. R.N. acknowledges financial support from the Emil Aaltonen Foundation. We acknowledge Grammarly and ChatGPT for improving the readability and language of the manuscript. TOC was created with http://BioRender.com .

Keywords

  • Static Electricity
  • Molecular Dynamics Simulation
  • Proteins/chemistry
  • Water/chemistry
  • Peptides/chemistry

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