During the past few years, graphics processing units (GPUs) have become extremely popular in the high performance computing community. In this study, we present an implementation of an acceleration engine for the solvent-solvent interaction evaluation of molecular dynamics simulations. By careful optimization of the algorithm speed-ups up to a factor of 54 (single-precision GPU vs. double-precision CPU) could be achieved. The accuracy of the single-precision GPU implementation is carefully investigated and does not influence structural, thermodynamic, and dynamic quantities. Therefore, the implementation enables users of the GROMOS software for biomolecular simulation to run the solvent-solvent interaction evaluation on a GPU, and thus, to speed-up their simulations by a factor 6-9.
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Article Synopsis
- A study was conducted on the solubility and molecular interactions of l-serine and L-cysteine in mixtures of water with different solvents: DMF, DMSO, and ACN, at temperatures from 288.15 K to 308.15 K.
- *L-serine had the highest solubility in water, while L-cysteine was most soluble in the water-DMF mixture.
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