Fig. 3: Heterogeneity analysis of the Pf80S ribosome (EMPIAR-10028).
From: OPUS-DSD: deep structural disentanglement for cryo-EM single-particle analysis
a, UMAP visualization of the 12-dimensional latent space of all particles encoded by OPUS-DSD. Solid black dots represent the cluster centers for labeled classes. b, Twenty density maps generated by the decoder of OPUS-DSD using the cluster centers shown in a as inputs. Red dashed ellipses highlight the presence of a peripheral RNA between SSU and LSU in the corresponding classes. c, Change in occupancy of an RNA according to conformation. The negative and positive conformations were generated at the PC1 with an amplitude of −1.4 and 1.8, respectively. Their superposition shows the displacement of different subunits as indicated by the red arrows. The yellow dashed ellipses highlight compositional differences of that RNA. d, Change in occupancy of a chain between a peripheral RNA and the LSU in the positive and negative conformations. The orange dashed ellipses highlight the compositional differences of that chain. Red arrows show the displacement of different subunits. All maps were contoured at the same level and visualized using ChimeraX.
