Toxins destroy membrane
- Last Updated: Tuesday, 18 June 2019 20:27
Martini simulations from the Hummer group show how toxic peptides form big pores in cholesterol containing membranes.
For details, see: Vogele et al., PNAS 2019, doi.org/10.1073/pnas.1904304116
- Last Updated: Friday, 28 June 2019 14:30
A web server for setting up and running Martini membrane systems has just been launched:
M. Damre, A. Marchetto, A. Giorgetti. MERMAID: dedicated web server to prepare and run coarse-grained membrane protein dynamics. Nucleic Acids Research, gkz416, doi:10.1093/nar/gkz416.
Ceramide binding to VDAC
- Last Updated: Tuesday, 23 April 2019 12:19
Starting as a simple tutorial excercise to demonstrate the power of Martini to study protein-lipid interactions, ending up as a full-blown paper with lots of experimental support and biological relevance ! Read all about the amazing ability of ceramides to bind to voltage dependent anion channels (VDAC) in mitochondrial membranes:
Dadsena et al., Ceramides bind VDAC2 to trigger mitochondrial apoptosis. Nature Commun. 10:1832, 2019. doi:10.1038/s41467-019-09654
- Last Updated: Saturday, 20 April 2019 19:56
Happy Easter with lots of swinging activities .... For inspiration, check out how to convert your CG water beads to real ones on-the-fly !
J. Zavadlav, S.J. Marrink M. Praprotnik, SWINGER: a clustering algorithm for concurrent coupling of atomistic and supramolecular liquids. Interface Focus 9:20180075, 2019. doi.org/10.1098/rsfs.2018.0075
Light Harvesting Complex II
- Last Updated: Tuesday, 23 April 2019 18:24
Martini simulations of the full trimeric light harvesting complex II, embedded in a thylakoid membrane, reveal interesting chromophore dynamics and lipid binding sites.
For details, check the paper which is now online: S. Thallmair, P.A. Vainikka, S.J. Marrink. Biophys. J., 116:1446-1455, 2019. doi:10.1016/j.bpj.2019.03.009