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231225s2022 xx |||||o 00| ||eng c |
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|a 10.1002/jcc.26830
|2 doi
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|a pubmed24n1519.xml
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|a (NLM)35239208
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|a DE-627
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|c DE-627
|e rakwb
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|a eng
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|a Gallmetzer, Hans Georg
|e verfasserin
|4 aut
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|a Probing the range of applicability of structure- and energy-adjusted QM/MM link bonds II
|b Optimized link bond parameters for density functional tight binding approaches
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|c 2022
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|a Text
|b txt
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|a ƒaComputermedien
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|a ƒa Online-Ressource
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|a Date Completed 06.05.2022
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|a Date Revised 01.09.2024
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|a published: Print-Electronic
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|a Citation Status MEDLINE
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|a © 2022 The Authors. Journal of Computational Chemistry published by Wiley Periodicals LLC.
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|a Optimized link bond parameters for the Cα Cβ bond of 22 different capped amino acid model systems have been determined at SCC DFTB/mio (self-consistent charge density functional tight-binding), SCC DFTB/3ob and GFNn-xTB (n = 0, 1, and 2) level in conjunction with the AMBER 99SB, 14SB, and 19B force fields. The resulting parameter sets have been compared to newly calculated reference data obtained via resolution-of-identity 2nd order Møller-Plesset perturbation theory. The data collected in this work suggests that the optimized values in this study provide a more suitable setup of the QM/MM link bonds compared to the use of a single global setting applied to every amino acid fragmented by the QM/MM interface. The results also imply that a transfer of the ideal link bond settings between different levels of theory is not advised. In contrast, virtually identical parameters were obtained in calculations employing different variants of the AMBER force field. Considering the increasing success of tight binding based approaches being inter alia a results of their exceptional accuracy/effort ratio the provided collection of link atoms parameters provides a valuable resource for QM/MM studies of biomacromolecular systems as demonstrated in an exemplary QM/MM MD simulation of the β-amyloid/Zn2+ complex
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|a Journal Article
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|a QM/MM
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|a ab-initio methods
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|a amyloid
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|a density functional tight binding
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|a link bonds
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|a semi-empirical
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|a Amino Acids
|2 NLM
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|a Hofer, Thomas S
|e verfasserin
|4 aut
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|i Enthalten in
|t Journal of computational chemistry
|d 1984
|g 43(2022), 11 vom: 30. Apr., Seite 746-756
|w (DE-627)NLM098138448
|x 1096-987X
|7 nnns
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| 773 |
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|g volume:43
|g year:2022
|g number:11
|g day:30
|g month:04
|g pages:746-756
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|u http://dx.doi.org/10.1002/jcc.26830
|3 Volltext
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