Glycolipids dominate the world
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- Created: Thursday, 17 January 2013 23:00
- Last Updated: Monday, 15 December 2014 11:47
Martini glycolipid force field released
Abstract: We present an extension of the Martini coarse-grained force field to glycolipids. The glycolipids considered here are the glycoglycerolipids monogalactosyldiacylglycerol, sulfoquinovosyldiacyglycerol, digalactosyldiacyl- glycerol, and phosphatidylinositol, as well as the glycosphingolipids galactosylceramide and monosialotetrahex- osylganglioside. The parametrization follows the same philosophy as was used previously for lipids, proteins and carbohydrates focusing on the reproduction of partitioning free energies of small compounds between polar and non polar solvents. Bonded parameters are optimized by comparison to lipid conformations sampled with an atomistic force field, in particular with respect to the representation of the most populated states around the glycosidic linkage. Simulations of coarse-grained glycolipid model membranes show good agreement with atomistic simulations as well as experimental data available, especially concerning structural properties such as electron densities, area per lipid and membrane thickness. Our coarse-grained model opens the way to large scale simulations of biological processes in which glycolipids are important, including recognition, sorting and clustering of both external and membrane bound proteins.
The new parameters can be found here