Effect of the aminoacid composition of model α-helical peptides on the physical properties of lipid bilayers and peptide conformation: a molecular dynamics simulation.
The interaction of a model Lys flanked α-helical peptides K2-X24-K2, (X = A,I,L,L+A,V) with lipid bilayers composed of dimyristoylphosphatidylcholine (DMPC) and dipalmitoylphosphatidylcholine (DPPC) both, in a gel and in a liquid-crystalline state, has been studied by molecular dynamics simulations. It has been shown that these peptides cause disordering of the lipid bilayer in the gel state but only small changes have been monitored in a liquid-crystalline state. The peptides affect ordering of the surrounding lipids depending on the helix stability which is determined by amino acid side chains - their volume, shape, etc. We have shown that the helix does not keep the linear shape in all simulations but often bends or breaks. During some simulations with a very small difference between hydrophobic length of peptide and membrane thickness the peptide exhibits negligible tilt. At the same time changes in peptide conformations during simulations resulted in appearance of superhelix.
Department of Nuclear Physics and Biophysics, Comenius University, Mlynská dolina F1, 842 48, Bratislava, Slovak Republic, milan.melichercik@fmph.uniba.sk.
Milan
M
Melicherčík
Alžbeta
A
Holúbeková
Tibor
T
Hianik
Ján
J
Urban
D015060:1,2-Dipalmitoylphosphatidylcholine / Q000737:chemistry*; D004134:Dimyristoylphosphatidylcholine / Q000737:chemistry*; D007930:Leucine / Q000737:chemistry; D008051:Lipid Bilayers / Q000737:chemistry*; D008239:Lysine / Q000737:chemistry; D008565:Membrane Proteins / Q000737:chemistry*; D056004:Molecular Dynamics Simulation; D010455:Peptides / Q000737:chemistry; D011487:Protein Conformation / Q000187:drug effects*
D008051:Lipid Bilayers; D008565:Membrane Proteins; D010455:Peptides; D015060:1,2-Dipalmitoylphosphatidylcholine; D007930:Leucine; D008239:Lysine; D004134:Dimyristoylphosphatidylcholine