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Quantum Chemical Microsolvation by Automated Water Placement
We developed a quantitative approach to quantum chemical microsolvation. Key in our methodology is the automatic placement of individual solvent molecules based on the free energy solvation thermodynamics derived from molecular dynamics (MD) simulations and grid inhomogeneous solvation theory (GIST)...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8005176/ https://www.ncbi.nlm.nih.gov/pubmed/33806731 http://dx.doi.org/10.3390/molecules26061793 |
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author | Steiner, Miguel Holzknecht, Tanja Schauperl, Michael Podewitz, Maren |
author_facet | Steiner, Miguel Holzknecht, Tanja Schauperl, Michael Podewitz, Maren |
author_sort | Steiner, Miguel |
collection | PubMed |
description | We developed a quantitative approach to quantum chemical microsolvation. Key in our methodology is the automatic placement of individual solvent molecules based on the free energy solvation thermodynamics derived from molecular dynamics (MD) simulations and grid inhomogeneous solvation theory (GIST). This protocol enabled us to rigorously define the number, position, and orientation of individual solvent molecules and to determine their interaction with the solute based on physical quantities. The generated solute–solvent clusters served as an input for subsequent quantum chemical investigations. We showcased the applicability, scope, and limitations of this computational approach for a number of small molecules, including urea, 2-aminobenzothiazole, (+)-syn-benzotriborneol, benzoic acid, and helicene. Our results show excellent agreement with the available ab initio molecular dynamics data and experimental results. |
format | Online Article Text |
id | pubmed-8005176 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-80051762021-03-29 Quantum Chemical Microsolvation by Automated Water Placement Steiner, Miguel Holzknecht, Tanja Schauperl, Michael Podewitz, Maren Molecules Article We developed a quantitative approach to quantum chemical microsolvation. Key in our methodology is the automatic placement of individual solvent molecules based on the free energy solvation thermodynamics derived from molecular dynamics (MD) simulations and grid inhomogeneous solvation theory (GIST). This protocol enabled us to rigorously define the number, position, and orientation of individual solvent molecules and to determine their interaction with the solute based on physical quantities. The generated solute–solvent clusters served as an input for subsequent quantum chemical investigations. We showcased the applicability, scope, and limitations of this computational approach for a number of small molecules, including urea, 2-aminobenzothiazole, (+)-syn-benzotriborneol, benzoic acid, and helicene. Our results show excellent agreement with the available ab initio molecular dynamics data and experimental results. MDPI 2021-03-23 /pmc/articles/PMC8005176/ /pubmed/33806731 http://dx.doi.org/10.3390/molecules26061793 Text en © 2021 by the authors. 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 (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Steiner, Miguel Holzknecht, Tanja Schauperl, Michael Podewitz, Maren Quantum Chemical Microsolvation by Automated Water Placement |
title | Quantum Chemical Microsolvation by Automated Water Placement |
title_full | Quantum Chemical Microsolvation by Automated Water Placement |
title_fullStr | Quantum Chemical Microsolvation by Automated Water Placement |
title_full_unstemmed | Quantum Chemical Microsolvation by Automated Water Placement |
title_short | Quantum Chemical Microsolvation by Automated Water Placement |
title_sort | quantum chemical microsolvation by automated water placement |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8005176/ https://www.ncbi.nlm.nih.gov/pubmed/33806731 http://dx.doi.org/10.3390/molecules26061793 |
work_keys_str_mv | AT steinermiguel quantumchemicalmicrosolvationbyautomatedwaterplacement AT holzknechttanja quantumchemicalmicrosolvationbyautomatedwaterplacement AT schauperlmichael quantumchemicalmicrosolvationbyautomatedwaterplacement AT podewitzmaren quantumchemicalmicrosolvationbyautomatedwaterplacement |