Journal
JOURNAL OF PHYSICAL CHEMISTRY B
Volume 117, Issue 26, Pages 7996-8002Publisher
AMER CHEMICAL SOC
DOI: 10.1021/jp4029529
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Funding
- National Research Foundation of Korea (NRF)
- Korea government (MSIP) [2007-0056095, 2012-0004812]
- Next Generation Super Computing Project
- Nanoscience Program
- MEXT, Japan
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An efficient parallel implementation of QM/MM-based replica-exchange molecular dynamics (REMD) as well as umbrella samplings techniques was proposed by adopting the generalized distributed data interface (GDDI). Parallelization speed-up of 40.5 on 48 cores was achieved, making our QM/MM-MD engine a robust tool for studying complex chemical dynamics in solution. They were comparatively used to study the P torsional isomerization of hydrogen peroxide in aqueous solution. All results by QM/MM-REMD and QM/MM umbrella sampling techniques yielded nearly identical potentials of a, mean force (PMFs) regardless of the particular QM theories for solute, showing that the 14 overall dynamics are mainly determined by solvation. Although the entropic penalty of solvent rearrangements exists in cisoid conformers, it was found that both strong intermolecular hydrogen bonding and dipole-dipole interactions preferentially stabilize la them in solution, reducing the torsional free-energy barrier at 0 degrees by about 3 kcal/mol as compared to that in gas phase.
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