Literature DB >> 34232662

Comparison and Validation of Force Fields for Deep Eutectic Solvents in Combination with Water and Alcohol Dehydrogenase.

Jan Philipp Bittner1, Lei Huang2, Ningning Zhang2, Selin Kara2, Sven Jakobtorweihen1,3.   

Abstract

Deep eutectic solvents (DESs) have become popular as environmental-friendly solvents for biocatalysis. Molecular dynamics (MD) simulations offer an in-depth analysis of enzymes in DESs, but their performance depends on the force field chosen. Here, we present a comprehensive validation of three biomolecular force fields (CHARMM, Amber, and OPLS) for simulations of alcohol dehydrogenase (ADH) in DESs composed of choline chloride and glycerol/ethylene glycol with varying water contents. Different properties (e.g., protein structure and flexibility, solvation layer, and H-bonds) were used for validation. For two properties (viscosity and water activity) also experiments were performed. The viscosity was calculated with the periodic perturbation method, whereby its parameter dependency is disclosed. A modification of Amber was identified as the best-performing model for low water contents, whereas CHARMM outperforms the other models at larger water concentrations. An analysis of ADH's structure and interactions with the DESs revealed similar predictions for Amber and CHARMM.

Entities:  

Year:  2021        PMID: 34232662     DOI: 10.1021/acs.jctc.1c00274

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  1 in total

Review 1.  Computer Simulations of Deep Eutectic Solvents: Challenges, Solutions, and Perspectives.

Authors:  Dmitry Tolmachev; Natalia Lukasheva; Ruslan Ramazanov; Victor Nazarychev; Natalia Borzdun; Igor Volgin; Maria Andreeva; Artyom Glova; Sofia Melnikova; Alexey Dobrovskiy; Steven A Silber; Sergey Larin; Rafael Maglia de Souza; Mauro Carlos Costa Ribeiro; Sergey Lyulin; Mikko Karttunen
Journal:  Int J Mol Sci       Date:  2022-01-07       Impact factor: 5.923

  1 in total

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