Table 2.
Negative‐stain EM data collection, refinement and validation statistics.
| DDB1‐DCAF12‐CCT5 (PDB‐8AJO) (EMDB−15486) | |
|---|---|
| Data collection and processing | |
| Microscope | FEI Tecnai Spirit |
| Camera | FEI Eagle |
| Voltage (kV) | 120 |
| Magnification | 49,000 |
| Defocus (μm) | −1 to −3 |
| Number of micrographs | 167 |
| Pixel size (Å) | 2.125 |
| Initial particle images (no.) | 14,848 |
| Final particle images (no.) | 2,923 |
| Symmetry imposed | C1 |
| Map resolution (Å), FSC threshold 0.143 | 30 |
| Refinement | |
| Non‐hydrogen atoms | 10,269 |
| Protein residues | 2,052 |
| Map sharpening B factor (Å2) | N.A. a |
| RMSD | |
| Bond lengths (Å) | 0.005 |
| Bond angles (°) | 1.106 |
| B factor (Å2) | 600.00 |
| Validation | |
| Clashscore | 0.26 |
| Poor rotamers (%) | N.A. b |
| Ramachandran plot | |
| Favored (%) | 98.48 |
| Allowed (%) | 1.52 |
| Outliers (%) | 0.00 |
| C‐beta deviations | 0.00 |
| Model‐to‐data fit | |
| CCmask | 0.5736 |
| CCbox | 0.8041 |
| CCpeaks | 0.3107 |
| CCvolume | 0.4072 |
a
No sharpening performed.
b
Side chains were removed from final model.