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Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule

The Electronegativity Equalization Method (EEM) is a fast approach for charge calculation. A challenging part of the EEM is the parameterization, which is performed using ab initio charges obtained for a set of molecules. The goal of our work was to perform the EEM parameterization for selected sets...

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Autores principales: Vařeková, Radka Svobodová, Jiroušková, Zuzana, Vaněk, Jakub, Suchomel, Šimon, Koča, Jaroslav
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Molecular Diversity Preservation International (MDPI) 2007
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3716427/
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author Vařeková, Radka Svobodová
Jiroušková, Zuzana
Vaněk, Jakub
Suchomel, Šimon
Koča, Jaroslav
author_facet Vařeková, Radka Svobodová
Jiroušková, Zuzana
Vaněk, Jakub
Suchomel, Šimon
Koča, Jaroslav
author_sort Vařeková, Radka Svobodová
collection PubMed
description The Electronegativity Equalization Method (EEM) is a fast approach for charge calculation. A challenging part of the EEM is the parameterization, which is performed using ab initio charges obtained for a set of molecules. The goal of our work was to perform the EEM parameterization for selected sets of organic, organohalogen and organometal molecules. We have performed the most robust parameterization published so far. The EEM parameterization was based on 12 training sets selected from a database of predicted 3D structures (NCI DIS) and from a database of crystallographic structures (CSD). Each set contained from 2000 to 6000 molecules. We have shown that the number of molecules in the training set is very important for quality of the parameters. We have improved EEM parameters (STO-3G MPA charges) for elements that were already parameterized, specifically: C, O, N, H, S, F and Cl. The new parameters provide more accurate charges than those published previously. We have also developed new parameters for elements that were not parameterized yet, specifically for Br, I, Fe and Zn. We have also performed crossover validation of all obtained parameters using all training sets that included relevant elements and confirmed that calculated parameters provide accurate charges.
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spelling pubmed-37164272013-07-22 Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule Vařeková, Radka Svobodová Jiroušková, Zuzana Vaněk, Jakub Suchomel, Šimon Koča, Jaroslav Int J Mol Sci Full Research Paper The Electronegativity Equalization Method (EEM) is a fast approach for charge calculation. A challenging part of the EEM is the parameterization, which is performed using ab initio charges obtained for a set of molecules. The goal of our work was to perform the EEM parameterization for selected sets of organic, organohalogen and organometal molecules. We have performed the most robust parameterization published so far. The EEM parameterization was based on 12 training sets selected from a database of predicted 3D structures (NCI DIS) and from a database of crystallographic structures (CSD). Each set contained from 2000 to 6000 molecules. We have shown that the number of molecules in the training set is very important for quality of the parameters. We have improved EEM parameters (STO-3G MPA charges) for elements that were already parameterized, specifically: C, O, N, H, S, F and Cl. The new parameters provide more accurate charges than those published previously. We have also developed new parameters for elements that were not parameterized yet, specifically for Br, I, Fe and Zn. We have also performed crossover validation of all obtained parameters using all training sets that included relevant elements and confirmed that calculated parameters provide accurate charges. Molecular Diversity Preservation International (MDPI) 2007-07-03 /pmc/articles/PMC3716427/ Text en © 2007 by MDPI (http://www.mdpi.org) Reproduction is permitted for noncommercial purposes.
spellingShingle Full Research Paper
Vařeková, Radka Svobodová
Jiroušková, Zuzana
Vaněk, Jakub
Suchomel, Šimon
Koča, Jaroslav
Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule
title Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule
title_full Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule
title_fullStr Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule
title_full_unstemmed Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule
title_short Electronegativity Equalization Method: Parameterization and Validation for Large Sets of Organic, Organohalogene and Organometal Molecule
title_sort electronegativity equalization method: parameterization and validation for large sets of organic, organohalogene and organometal molecule
topic Full Research Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3716427/
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