Pulling single bacteriorhodopsin out of a membrane: Comparison of simulation and experiment.

TitlePulling single bacteriorhodopsin out of a membrane: Comparison of simulation and experiment.
Publication TypeJournal Article
Year of Publication2006
AuthorsCieplak, Marek, Filipek Sławomir, Janovjak Harald, and Krzyśko Krystiana A.
JournalBiochimica et biophysica acta
Volume1758
Issue4
Pagination537-44
Date Published2006 Apr
ISSN0006-3002
KeywordsBacterial Proteins, Bacteriorhodopsins, Cell Membrane, Computer Simulation, Halobacterium salinarum, Lipid Bilayers, Models, Molecular, Protein Conformation, Protein Denaturation, Protein Structure, Secondary
AbstractMechanical unfolding of single bacteriorhodopsins from a membrane bilayer is studied using molecular dynamics simulations. The initial conformation of the lipid membrane is determined through all-atom simulations and then its coarse-grained representation is used in the studies of stretching. A Go-like model with a realistic contact map and with Lennard-Jones contact interactions is applied to model the protein-membrane system. The model qualitatively reproduces the experimentally observed differences between force-extension patterns obtained on bacteriorhodopsin at different temperatures and predicts a lack of symmetry in the choice of the terminus to pull by. It also illustrates the decisive role of the interactions of the protein with the membrane in determining the force pattern and thus the stability of transmembrane proteins.
DOI10.1016/j.bbamem.2006.03.028
Alternate JournalBiochim. Biophys. Acta
PubMed ID16678120