Extended Data Fig. 8: Q-score model validation for cryo-EM models.
Representative images of proteins, waters, ions, or glycans and corresponding Q-score plots for the EV-D68 apo map and model, depicting (a) VP1 (chain A, blue), (b) VP2 (chain B, green), (c) VP3 (chain C, red), (d) VP4 (chain D, brown), and (e) waters (each dot denotes a single water); and for the EV-D68 + Fc-MFSD6(L3) map and model, depicting (f) VP1 (chain A), (g) VP2 (chain B), (h) VP3 (chain C), (i), VP4 (chain D), (j) waters and ions (each dot denotes a single water or ion), and (k) Fc-MFSD6(L3) (chains E-F), with separate plots for the protein backbone (chain E) and glycan chain (chain F). Maps are shown in grey with transparency. Models are coloured by chain or by atomic colouring. For Fc-MFSD6(L3), protein Q-scores are plotted in black, and glycan Q-scores are plotted with colours matching the monosaccharide identity (GlcNAc, denoted NAG in blue, mannose, denoted BMA or MAN, in green, and fucose, denoted FUC, in red). Q-scores for protein residues, water, and glycans are plotted with filled circles. Q-scores for ions (3 points in (j)) are plotted with open circles. Dashed lines indicate the most commonly observed Q-score (black, Q_Peak) for maps in the EMDB at similar resolutions in addition to upper bounds (blue, Q_High 95%) and lower bounds (red, Q_Low 95%) that enclose 95% of observed maps for that resolution.
