Extended Data Fig. 2: Systematic fitting of inner and outer ring components into the S. cerevisiae NPC map.
From: In-cell architecture of the nuclear pore and snapshots of its turnover
Each row shows the visualization of the top fits (left), the histogram of raw scores (middle), and a plot of the top five P values (right). In the P value plots, the statistically significant fits are coloured red (P < 0.05; P values were calculated using the two-sided test as implemented in fdrtool R-package, see Methods). All P values were adjusted for multiple comparisons using Benjamini-Hochberg procedure. The top fits are indicated in the histograms with an arrow and the score value. The number of sampled fits used to calculate P values after clustering of similar solutions was 14,348, 1,015, 1,039, 1,479, 1,354, and 1,183 for the rows from top to bottom. For the IR, the integrative model of the single spoke of the IR15 was used as the fitted structure. For the outer rings (CR and NR), the crystal structure of the yeast Y-complex was fitted or its parts corresponding to subcomplexes. The structures were fitted by an unbiased global search using UCSF Chimera60 and scored using the cross-correlation score about the mean as explained in the Methods. The IR complex was fitted to the entire spoke map, while the other structures were fitted to individual CR and NR segments.
