File:CryoEM-Visualization-of-an-Adenovirus-Capsid-Incorporated-HIV-Antigen-pone.0049607.s006.ogv

English: Simulated density for the MPER 3-mer insertion. The movie starts with the cryoEM density (gray) of the 3-mer MPER between three hexons at the icosahedral 3-fold axis of the Ad-HVR2-GP41-L15 structure. The hexon coordinates (blue ribbons) are docked into the density, followed by the MDFF refined 3-mer model (red ribbons). Three copies of the MPER model are shown sequentially (rotated 120° with respect to each other). Simulating density from these three MPER coordinate sets leads to 3-fold averaged MPER density (red), which is shown with various isosurface levels until it approximates the experimental cryoEM density.