Extended Data Fig. 3: Cryo-EM data processing and reconstruction of the ubiquitin ligase complex with bound Fab.

a, Representative cryo-EM image. Similar results were obtained in two independent experiments. Selected particles are marked by red circles. b, Representative, reference-free 2D class averages of selected particles. c, Cryo-EM processing workflow (see also Extended Data Table 1). The classes selected for further analysis are boxed. Masks used for classification and refinement are indicated. d, Local resolution map with scale on the right. e, Euler angle distribution of refined particles shown in two different views. f, 3D Fourier shell correlation (FSC) curves and preferred orientation analysis. The red line shows the global FSC and the green dotted lines indicate the +1 and – 1 standard deviations around the Mean of Directional FSC curve. The FSC calculations used the mask shown on the side. g, Density map and model for the TMs and RING domains (RFs) of Pex2, Pex10, and Pex12. The plug of Pex10 and the connector of Pex12 are also shown. h, Interaction of the Fab with a loop of Pex12. The Fv portion of the Fab is shown as a green cartoon. Pex12 is shown as a pink cartoon embedded in a space-filling model. Residues at the interface are highlighted.