Transmembrane Peptides from Tyrosine Kinase Receptor. Mutation-related Behavior in a Lipid Bilayer Investigated by Molecular Dynamics Simulations

• Published in: Journal of biomolecular structure & dynamics 2005-08, Vol.23 (1), p.91-100
• Main Authors: Soumana, Oumarou Samna, Aller, Pierre, Garnier, Norbert, Genest, Monique
• Format: Article
• Language: English
• Subjects: Amino Acid Sequence; Dimerization; Dimyristoylphosphatidylcholine - chemistry; Glutamic Acid - chemistry; Helix insertion; Hydrogen Bonding; Indicators and Reagents - chemistry; Life Sciences; Lipid Bilayers - chemistry; Lipid Bilayers - metabolism; Lipids - chemistry; MD simulations; Membrane environment; Molecular Sequence Data; Mutation; Peptides - chemistry; Protein Conformation; Protein Structure, Secondary; Receptor Protein-Tyrosine Kinases - chemistry; Receptor, ErbB-2 - chemistry; Software; Time Factors; Transmembrane helix; Tyrosine kinase receptor; Valine - chemistry
• ISSN: 0739-1102; 1538-0254
• DOI: 10.1080/07391102.2005.10507050

Polar mutations in transmembrane α helices may alter the structural details of the hydrophobic sequences and control intermolecular contacts. We have performed molecular dynamics simulations on the transmembrane domain of the proto-oncogenic and the oncogenic forms of the Neu receptor in a fluid DMPC bilayer to test whether the Glu mutation which replaces the Val residue at position 664 may alter the helical structure and its insertion in the membrane. The simulations show that the wild and the mutant forms of the transmembrane domain have a different behavior in the bilayer. The native transmembrane sequence is found to be more flexible than in the presence of the Glu mutation, characterized by a tendency to it deformation to accommodate the helix length to the membrane thickness. The mutant form of this domain does not evidence helical deformation in the present simulation. Hydrophobic matching is achieved both by a larger helix tilt and a vertical shift of the helix towards the membrane interface, favoring the accessibility of the Glu side chain to the membrane environment. A rapid exchange of hydrogen bond interactions with the surrounding water molecules and the lipid headgroups is observed. The difference in the behavior between the two peptides in a membrane environment was also observed experimentally. Both simulation and experimental results agree with the hypothesis that water may act as an intermediate for the formation of cross links between the facing Glu side chains stabilizing the dimer.