METHODS AND SYSTEMS FOR ORGANIC SOLUTE SAMPLING OF AQUEOUS AND HETEROGENEOUS ENVIRONMENTS
摘要
Provided are computer implemented methods for organic solute sampling in aqueous and heterogeneous environments using oscillating chemical potentials in Grand Canonical Monte Carlo simulations. The methods involve GCMC of both the solutes and water, with the excess chemical potential (μex) of both the solute and the water oscillated to attain their target concentrations in the simulation system. In some example methods, the μex of the water and solutes over the GCMC iterations are varied to improve solute exchange probabilities and the spatial distributions of the solutes and molecular dynamics (MD) simulations may be performed in addition to GCMC to improve sampling of spatial distributions. These methods may be used to determine the hydration free energy (HFE) of the individual or multiple solutes when targeting in aqueous solutions. Also included are methods of driving solute sampling in and around macromolecules, including proteins, in aqueous environments.
申请公布号
WO2015116862(A9)
申请公布日期
2016.01.07
申请号
WO2015US13607
申请日期
2015.01.29
申请人
UNIVERSITY OF MARYLAND, BALTIMORE
发明人
MACKERELL, ALEXANDER, D., JR.;RAMAN, E., PRABHU;LAKKARAJU, SIRISH, KAUSHIK