Evidence map›Paper›PMID 38860842›Full record

ArticleThe journal of physical chemistry. B2024

Inclusion of Water Multipoles into the Implicit Solvation Framework Leads to Accuracy Gains.

Igor S Tolokh, Dan E Folescu, Alexey V Onufriev

Abstract read
In one paragraph

Article in The journal of physical chemistry. B, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

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2 · The registry

The trial behind it

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3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

3 authors.

Igor S TolokhDepartment of Computer Science, Virginia Tech, Blacksburg, Virginia 24061, United States.
Dan E FolescuDepartment of Computer Science, Virginia Tech, Blacksburg, Virginia 24061, United States.
Alexey V OnufrievDepartment of Computer Science, Virginia Tech, Blacksburg, Virginia 24061, United States.ORCID 0000-0002-4930-6612

Funding

Next generation implicit solvation for atomistic modelingR01GM144596 · NIGMS · VIRGINIA POLYTECHNIC INST AND ST UNIV · PI ONUFRIEV, ALEXEY VLAD · 2022 to 2025
$1.2M
NIGMS NIH HHS R01 GM144596
6 · The paper itself

Abstract

The current practical "workhorses" of the atomistic implicit solvation─the Poisson-Boltzmann (PB) and generalized Born (GB) models─face fundamental accuracy limitations. Here, we propose a computationally efficient implicit solvation framework, the Implicit Water Multipole GB (IWM-GB) model, that systematically incorporates the effects of multipole moments of water molecules in the first hydration shell of a solute, beyond the dipole water polarization already present at the PB/GB level. The framework explicitly accounts for coupling between polar and nonpolar contributions to the total solvation energy, which is missing from many implicit solvation models. An implementation of the framework, utilizing the GAFF force field and AM1-BCC atomic partial charges model, is parametrized and tested against the experimental hydration free energies of small molecules from the FreeSolv database. The resulting accuracy on the test set (RMSE ∼ 0.9 kcal/mol) is 12% better than that of the explicit solvation (TIP3P) treatment, which is orders of magnitude slower. We also find that the coupling between polar and nonpolar parts of the solvation free energy is essential to ensuring that several features of the IWM-GB model are physically meaningful, including the sign of the nonpolar contributions.

Identifiers

PMID38860842
PMCPMC11194828

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.