Fig. 8: Interactions between the inner circular ssDNA genome and the capsid.

A Surface-rendered representations of the density maps of the capsid. The surface is colored according to the surface electrostatic potential, with red for negative potential and blue for positive potential. Left: the outer surface of the capsid; right: a cross section of the capsid showing the inner surface. B Ribbon diagrams of the capsid in the asymmetric density map showing the asymmetric interactions between the inner surface Lys residues and the ssDNA genome. C Plots showing the number of contacts at each rotation position of an A-form dsDNA in the capsid. Top: the number of contacts between the asymmetric capsid and the A-form dsDNA; bottom: the number of contacts between the symmetric capsid and the A-form dsDNA. Only the contacts between the NZ atoms of the inner surface Lys residues and O3, OP1, and OP2 atoms of the phosphate groups are considered. The cutoff distance used is 4 Å.