Fig. 1.

The structure of Ageratum yellow vein virus. a EM density for AYVV at 3.3 Å resolution. The density is segmented and colored to highlight the 11 unique copies of the AYVV CP in the D5 asymmetric unit (labeled A-K). b Complete atomic model for all 110 subunits in the capsid, with a polyhedral cage showing the symmetry of the particle. The fivefold symmetry axis is vertical and through the center of the particle in this view. c Representative regions of EM density with the corresponding section of atomic model. d A “zoomed in” view of the N-terminal segment of all 11 unique CPs aligned. The N-terminal of chain I, chain H and the remaining 9 CPs is highlighted. The position of a polar patch (residues 214–215) is also shown. e Alignment of residues 64–256 from all 11 unique copies of the CP. The RMSD between structures is ~0.2–0.3 Å. The position of the N terminal and the polar patch of residues is indicated