C.A. Lopez, Z. Sovova, F.J. van Eerden, A.H. de Vries, S.J. Marrink.
Martini force field parameters for glycolipids.
JCTC, 9:1694–1708, 2013. DOI:10.1021/ct3009655
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.
Heropening De Beurs; drie dagen feest RUG/Campus Fryslân
Thanks to the smartphone, these days we keep our work on the kitchen table or bedside table.
The boundary between work and private life is steadily fading.
This is a cause for concern, says Jessica de Bloom, who thinks that we should be using our leisure...
After two years of hard work, the Groningen Top Dutch Solar Racing team has arrived in Australia. The team consists of students of the Hanze University of Applied Sciences, University of Groningen, and secondary vocational education (MBO) and is currently...