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.
| Original language | English |
|---|---|
| Journal | Journal of Chemical Theory and Computation |
| Volume | 17 |
| Issue | 8 |
| Pages (from-to) | 5322-5341 |
| Number of pages | 20 |
| ISSN | 1549-9618 |
| DOIs | |
| Publication status | Published - Aug 2021 |
Keywords
- Alcohol Dehydrogenase/chemistry
- Choline/chemistry
- Ethylene Glycol/chemistry
- Glycerol/chemistry
- Hydrogen Bonding
- Molecular Dynamics Simulation
- Solvents/chemistry
- Thermodynamics
- Viscosity
- Water/chemistry