Cargando…

Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges

[Image: see text] The Quantum Theory of Atoms in Molecules (QTAIM) provides an intuitive, yet physically sound, strategy to determine the partial charges of any chemical system relying on the topology induced by the electron density ρ(r) . In a previous work [J. Chem. Phys.2022, 156, 014112], we int...

Descripción completa

Detalles Bibliográficos
Autores principales: Gallegos, Miguel, Martín Pendás, Ángel
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2023
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10336973/
https://www.ncbi.nlm.nih.gov/pubmed/37339425
http://dx.doi.org/10.1021/acs.jcim.3c00597
_version_ 1785071318703538176
author Gallegos, Miguel
Martín Pendás, Ángel
author_facet Gallegos, Miguel
Martín Pendás, Ángel
author_sort Gallegos, Miguel
collection PubMed
description [Image: see text] The Quantum Theory of Atoms in Molecules (QTAIM) provides an intuitive, yet physically sound, strategy to determine the partial charges of any chemical system relying on the topology induced by the electron density ρ(r) . In a previous work [J. Chem. Phys.2022, 156, 014112], we introduced a machine learning (ML) model for the computation of QTAIM charges of C, H, O, and N atoms at a fraction of the conventional computational cost. Unfortunately, the independent nature of the atomistic predictions implies that the raw atomic charges may not necessarily reconstruct the exact molecular charge, limiting the applicability of the latter in the chemistry realm. Trying to solve such an inconvenience, we introduce NNAIMGUI, a user-friendly code which combines the inferring abilities of ML with an equilibration strategy to afford adequately behaved partial charges. The performance of this approach is put to the test in a variety of scenarios including interpolation and extrapolation regimes (e.g chemical reactions) as well as large systems. The results of this work prove that the equilibrated charges retain the chemically accurate behavior reproduced by the ML models. Furthermore, NNAIMGUI is a fully flexible architecture allowing users to train and use tailor-made models targeted at any atomic property of choice. In this way, the GUI-interfaced code, equipped with visualization utilities, makes the computation of real-space atomic properties much more appealing and intuitive, paving the way toward the extension of QTAIM related descriptors beyond the theoretical chemistry community.
format Online
Article
Text
id pubmed-10336973
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher American Chemical Society
record_format MEDLINE/PubMed
spelling pubmed-103369732023-07-13 Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges Gallegos, Miguel Martín Pendás, Ángel J Chem Inf Model [Image: see text] The Quantum Theory of Atoms in Molecules (QTAIM) provides an intuitive, yet physically sound, strategy to determine the partial charges of any chemical system relying on the topology induced by the electron density ρ(r) . In a previous work [J. Chem. Phys.2022, 156, 014112], we introduced a machine learning (ML) model for the computation of QTAIM charges of C, H, O, and N atoms at a fraction of the conventional computational cost. Unfortunately, the independent nature of the atomistic predictions implies that the raw atomic charges may not necessarily reconstruct the exact molecular charge, limiting the applicability of the latter in the chemistry realm. Trying to solve such an inconvenience, we introduce NNAIMGUI, a user-friendly code which combines the inferring abilities of ML with an equilibration strategy to afford adequately behaved partial charges. The performance of this approach is put to the test in a variety of scenarios including interpolation and extrapolation regimes (e.g chemical reactions) as well as large systems. The results of this work prove that the equilibrated charges retain the chemically accurate behavior reproduced by the ML models. Furthermore, NNAIMGUI is a fully flexible architecture allowing users to train and use tailor-made models targeted at any atomic property of choice. In this way, the GUI-interfaced code, equipped with visualization utilities, makes the computation of real-space atomic properties much more appealing and intuitive, paving the way toward the extension of QTAIM related descriptors beyond the theoretical chemistry community. American Chemical Society 2023-06-20 /pmc/articles/PMC10336973/ /pubmed/37339425 http://dx.doi.org/10.1021/acs.jcim.3c00597 Text en © 2023 The Authors. Published by American Chemical Society https://creativecommons.org/licenses/by/4.0/Permits the broadest form of re-use including for commercial purposes, provided that author attribution and integrity are maintained (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Gallegos, Miguel
Martín Pendás, Ángel
Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges
title Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges
title_full Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges
title_fullStr Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges
title_full_unstemmed Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges
title_short Developing a User-Friendly Code for the Fast Estimation of Well-Behaved Real-Space Partial Charges
title_sort developing a user-friendly code for the fast estimation of well-behaved real-space partial charges
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10336973/
https://www.ncbi.nlm.nih.gov/pubmed/37339425
http://dx.doi.org/10.1021/acs.jcim.3c00597
work_keys_str_mv AT gallegosmiguel developingauserfriendlycodeforthefastestimationofwellbehavedrealspacepartialcharges
AT martinpendasangel developingauserfriendlycodeforthefastestimationofwellbehavedrealspacepartialcharges