Cargando…
Inversion Theory Leveling as a New Methodological Approach to Antioxidant Thermodynamics: A Case Study on Phenol
Antioxidants are various types of compounds that represent a link between biology and chemistry. With the development of theoretical and computational methods, antioxidants are now being studied theoretically. Here, a novel method is presented that aims to reduce the estimated wall times for DFT cal...
Autores principales: | , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2023
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9952401/ https://www.ncbi.nlm.nih.gov/pubmed/36829841 http://dx.doi.org/10.3390/antiox12020282 |
_version_ | 1784893622494167040 |
---|---|
author | Stamenković, Nikola Cerkovnik, Janez Poklar Ulrih, Nataša |
author_facet | Stamenković, Nikola Cerkovnik, Janez Poklar Ulrih, Nataša |
author_sort | Stamenković, Nikola |
collection | PubMed |
description | Antioxidants are various types of compounds that represent a link between biology and chemistry. With the development of theoretical and computational methods, antioxidants are now being studied theoretically. Here, a novel method is presented that aims to reduce the estimated wall times for DFT calculations that result in the same or higher degree of accuracy in the second derivatives over energy than is the case with the regular computational route (i.e., optimizing the reaction system at a lower model and then recalculating the energies at a higher level of theory) by applying the inversion of theory level to the universal chemical scavenger model, i.e., phenol. The resulting accuracy and wall time obtained with such a methodological setup strongly suggest that this methodology could be generally applied to antioxidant thermodynamics for some costly DFT methods with relative absolute deviation. |
format | Online Article Text |
id | pubmed-9952401 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-99524012023-02-25 Inversion Theory Leveling as a New Methodological Approach to Antioxidant Thermodynamics: A Case Study on Phenol Stamenković, Nikola Cerkovnik, Janez Poklar Ulrih, Nataša Antioxidants (Basel) Article Antioxidants are various types of compounds that represent a link between biology and chemistry. With the development of theoretical and computational methods, antioxidants are now being studied theoretically. Here, a novel method is presented that aims to reduce the estimated wall times for DFT calculations that result in the same or higher degree of accuracy in the second derivatives over energy than is the case with the regular computational route (i.e., optimizing the reaction system at a lower model and then recalculating the energies at a higher level of theory) by applying the inversion of theory level to the universal chemical scavenger model, i.e., phenol. The resulting accuracy and wall time obtained with such a methodological setup strongly suggest that this methodology could be generally applied to antioxidant thermodynamics for some costly DFT methods with relative absolute deviation. MDPI 2023-01-27 /pmc/articles/PMC9952401/ /pubmed/36829841 http://dx.doi.org/10.3390/antiox12020282 Text en © 2023 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 Stamenković, Nikola Cerkovnik, Janez Poklar Ulrih, Nataša Inversion Theory Leveling as a New Methodological Approach to Antioxidant Thermodynamics: A Case Study on Phenol |
title | Inversion Theory Leveling as a New Methodological Approach to Antioxidant Thermodynamics: A Case Study on Phenol |
title_full | Inversion Theory Leveling as a New Methodological Approach to Antioxidant Thermodynamics: A Case Study on Phenol |
title_fullStr | Inversion Theory Leveling as a New Methodological Approach to Antioxidant Thermodynamics: A Case Study on Phenol |
title_full_unstemmed | Inversion Theory Leveling as a New Methodological Approach to Antioxidant Thermodynamics: A Case Study on Phenol |
title_short | Inversion Theory Leveling as a New Methodological Approach to Antioxidant Thermodynamics: A Case Study on Phenol |
title_sort | inversion theory leveling as a new methodological approach to antioxidant thermodynamics: a case study on phenol |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9952401/ https://www.ncbi.nlm.nih.gov/pubmed/36829841 http://dx.doi.org/10.3390/antiox12020282 |
work_keys_str_mv | AT stamenkovicnikola inversiontheorylevelingasanewmethodologicalapproachtoantioxidantthermodynamicsacasestudyonphenol AT cerkovnikjanez inversiontheorylevelingasanewmethodologicalapproachtoantioxidantthermodynamicsacasestudyonphenol AT poklarulrihnatasa inversiontheorylevelingasanewmethodologicalapproachtoantioxidantthermodynamicsacasestudyonphenol |