Journal of Computer-Aided Molecular Design

, Volume 20, Issue 7, pp 405–416

Dynamic models of G-protein coupled receptor dimers: indications of asymmetry in the rhodopsin dimer from molecular dynamics simulations in a POPC bilayer

Original Paper

DOI: 10.1007/s10822-006-9053-3

Cite this article as:
Filizola, M., Wang, S.X. & Weinstein, H. J Comput Aided Mol Des (2006) 20: 405. doi:10.1007/s10822-006-9053-3


Based on the growing evidence that G-protein coupled receptors (GPCRs) form homo- and hetero-oligomers, models of GPCR signaling are now considering macromolecular assemblies rather than monomers, with the homo-dimer regarded as the minimal oligomeric arrangement required for functional coupling to the G-protein. The dynamic mechanisms of such signaling assemblies are unknown. To gain some insight into properties of GPCR dimers that may be relevant to functional mechanisms, we study their current structural prototype, rhodopsin. We have carried out nanosecond time-scale molecular dynamics (MD) simulations of a rhodopsin dimer and compared the results to the monomer simulated in the same type of bilayer membrane model composed of an equilibrated unit cell of hydrated palmitoyl-oleoyl-phosphatidyl choline (POPC). The dynamic representation of the homo-dimer reveals the location of structural changes in several regions of the monomeric subunits. These changes appear to be more pronounced at the dimerization interface that had been shown to be involved in the activation process [Proc Natl Acad Sci USA 102:17495, 2005]. The results are consistent with a model of GPCR activation that involves allosteric modulation through a single GPCR subunit per dimer.


GPCRsDimerizationAllosteric mechanismDynamic mechanismsMembrane bilayerEssential dynamicsGROMACS

Copyright information

© Springer Science+Business Media B.V. 2006

Authors and Affiliations

  1. 1.Department of Physiology & BiophysicsWeill Medical College of Cornell UniversityNew YorkUSA
  2. 2.HRH Prince Alwaleed Bin Talal Bin Abdulaziz Alsaud Institute for Computational BiomedicineWeill Medical College of Cornell UniversityNew YorkUSA