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The Accuracy of Semi-Empirical Quantum Chemistry Methods on Soot Formation Simulation †
Soot molecules are hazardous compounds threatening human health. Computational chemistry provides efficient tools for studying them. However, accurate quantum chemistry calculation is costly for the simulation of large-size soot molecules and high-throughput calculations. Semi-empirical (SE) quantum...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9657144/ https://www.ncbi.nlm.nih.gov/pubmed/36362159 http://dx.doi.org/10.3390/ijms232113371 |
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author | Cong, Yang Zhai, Yu Chen, Xin Li, Hui |
author_facet | Cong, Yang Zhai, Yu Chen, Xin Li, Hui |
author_sort | Cong, Yang |
collection | PubMed |
description | Soot molecules are hazardous compounds threatening human health. Computational chemistry provides efficient tools for studying them. However, accurate quantum chemistry calculation is costly for the simulation of large-size soot molecules and high-throughput calculations. Semi-empirical (SE) quantum chemistry methods are optional choices for balancing computational costs. In this work, we validated the performances of several widely used SE methods in the description of soot formation. Our benchmark study focuses on, but is not limited to, the validation of the performances of SE methods on reactive and non-reactive MD trajectory calculations. We also examined the accuracy of SE methods of predicting soot precursor structures and energy profiles along intrinsic reaction coordinate(s) (IRC). Finally, we discussed the spin density predicted by SE methods. The SE methods validated include AM1, PM6, PM7, GFN2-xTB, DFTB2, with or without spin-polarization, and DFTB3. We found that the shape of MD trajectory profiles, the relative energy, and molecular structures predicted by SE methods are qualitatively correct. We suggest that SE methods can be used in massive reaction soot formation event sampling and primary reaction mechanism generation. Yet, they cannot be used to provide quantitatively accurate data, such as thermodynamic and reaction kinetics ones. |
format | Online Article Text |
id | pubmed-9657144 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-96571442022-11-15 The Accuracy of Semi-Empirical Quantum Chemistry Methods on Soot Formation Simulation † Cong, Yang Zhai, Yu Chen, Xin Li, Hui Int J Mol Sci Article Soot molecules are hazardous compounds threatening human health. Computational chemistry provides efficient tools for studying them. However, accurate quantum chemistry calculation is costly for the simulation of large-size soot molecules and high-throughput calculations. Semi-empirical (SE) quantum chemistry methods are optional choices for balancing computational costs. In this work, we validated the performances of several widely used SE methods in the description of soot formation. Our benchmark study focuses on, but is not limited to, the validation of the performances of SE methods on reactive and non-reactive MD trajectory calculations. We also examined the accuracy of SE methods of predicting soot precursor structures and energy profiles along intrinsic reaction coordinate(s) (IRC). Finally, we discussed the spin density predicted by SE methods. The SE methods validated include AM1, PM6, PM7, GFN2-xTB, DFTB2, with or without spin-polarization, and DFTB3. We found that the shape of MD trajectory profiles, the relative energy, and molecular structures predicted by SE methods are qualitatively correct. We suggest that SE methods can be used in massive reaction soot formation event sampling and primary reaction mechanism generation. Yet, they cannot be used to provide quantitatively accurate data, such as thermodynamic and reaction kinetics ones. MDPI 2022-11-02 /pmc/articles/PMC9657144/ /pubmed/36362159 http://dx.doi.org/10.3390/ijms232113371 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Cong, Yang Zhai, Yu Chen, Xin Li, Hui The Accuracy of Semi-Empirical Quantum Chemistry Methods on Soot Formation Simulation † |
title | The Accuracy of Semi-Empirical Quantum Chemistry Methods on Soot Formation Simulation † |
title_full | The Accuracy of Semi-Empirical Quantum Chemistry Methods on Soot Formation Simulation † |
title_fullStr | The Accuracy of Semi-Empirical Quantum Chemistry Methods on Soot Formation Simulation † |
title_full_unstemmed | The Accuracy of Semi-Empirical Quantum Chemistry Methods on Soot Formation Simulation † |
title_short | The Accuracy of Semi-Empirical Quantum Chemistry Methods on Soot Formation Simulation † |
title_sort | accuracy of semi-empirical quantum chemistry methods on soot formation simulation † |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9657144/ https://www.ncbi.nlm.nih.gov/pubmed/36362159 http://dx.doi.org/10.3390/ijms232113371 |
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