Table 1.
Map and model refinement statistics
| Data Collection Statistics | ||||
|---|---|---|---|---|
| Specimen | Pseudomonas Phage DEV Virion | DEV gp72:gp73 Ejection Proteins | ||
| Facility/Microscope | NCEF/Titan Krios | SLAC-Stanford / Titan Krios | ||
| Detector | Gatan K3 | Falcon 4 | ||
| Imaging Software | SerialEM | EPU | ||
| Magnification | 81,000 x | 150,000 x | ||
| Voltage (kV) | 300 | 300 | ||
| Exposure (e−/Å2) | 50 | 50 | ||
| Exposure Time (sec) | 3.2 | 12.9 | ||
| Defocus range/step (μm) | −0.8 to −1.6 (0.2 increments) | −0.8 to −2.2 (0.2 increments) | ||
| Pixel size (Å) | 1.12 (0.56) | 0.56 (1.12) | ||
| Total movies (frames/movie) | 17,245 (40) | 4,897 (40) | ||
| Total dose (e-/Å2) | 50 | 50 | ||
| Refinement Statistics | ||||
| Entry | Major Capsid protein | Portal Protein/HT-adaptor/tail tube complex | gp72 pre-ejection conformation | gp72:gp73 post-ejection conformation |
| PDB /EMDB entry | 8DTV/EMD-27709 | 7U4U/EMD-26335 | 8CZY/EMD-27102 | 8VXQ/EMD-43629 |
| Initial particles number | 109,000 | 310,000 | ||
| Final particles number | 19,000 | 16,000 | 16,000 | 61,000 |
| Map Resolution (Å) at FSC 0.143 | 3.3 | 3.1 | 4.0 | 3.15 |
| Map Symmetry | C5 | C12 | C12 | C9 |
| Initial Model | de novo | de novo | de novo | de novo |
| Chains / Residues | 9 / 3,591 | 36 / 13,212 | 12 / 4,740 | 18 / 4,140 |
| Model-to-Map Correlation Coefficient (CC) * | 0.89 | 0.89 | 0.70 | 0.78 |
| MolProbity / Clash | 1.7/5.1 | 2.0/10.9 | 2.0/13.2 | 1.6/3.2 |
| R.M.S. deviations Bond Length (Å) / Angles (°) | 0.002 (1) / 0.6 (15) | 0.007 (0) / 0.7 (46) | 0.002 (0) / 0.6 (0) | 0.004 (3) / 0.7 (23) |
| Rotamer outliers (%) | 0.1 | 0.9 | 0.0 | 0.4 |
| Ramachandran (%) Fav / Allow / Outlier | 91.5/8.4 / 0.1 | 92.2 / 7.6 / 0.2 | 94.6 / 5.4 / 0.0 | 93.2 / 6.7 / 0.1 |
*
The model-to-map correlation coefficient CC is calculated in the map region around the model