Table 2. Cryo-EM data collection and image processing statistics for S2D14.
EMDB, Electron Microscopy Data Bank; PDB, Protein Data Bank; RMSD, root mean square deviation.
| Data collection | |||||
|---|---|---|---|---|---|
| Microscope | Glacios | TitanKrios | |||
| Voltage (kV) | 200 | 300 | |||
| Detector | Falcon 3 | Falcon 4 | |||
| Magnification | 120,000 | 120,000 | |||
| Pixel size (Å/pixel) | 0.91 | 0.67 | |||
| Exposure (e/Å2) | 48 | 43 | |||
| No. of frames | 50 | 42 | |||
| Defocus range (μm) | 0.75–2.5 | 0.8–2.2 | |||
| Software | EPU | EPU | |||
| Total micrographs | 1425 | 6169 | |||
| Data processing | |||||
| Particles extracted | 92,933 | 724,002 | |||
| After 2D classification | 44,459 | 566,825 | |||
| 3-RBD down | 1-RBD open | 3-RDB down | 2-RBD exposed | 2-RBD open | |
| Particles in refinement | 7759 | 9154 | 33,173 | 47,773 | 87,614 |
| Symmetry | C3 | C1 | C3 | C1 | C1 |
| Map sharpening B-factor | −389.99 | −592.139 | −17.18 | −5.35 | −7.2 |
| Unmasked resolution at 0.5/0.143 FSC (Å) | 10/7.5 | 13/9.1 | 4.2/3.5 | 7.9/4.1 | 7.3/3.9 |
| Masked resolution at 0.5/0.143 FSC (Å) | 8.1/7.1 | 9.0/8.5 | 3.3/2.8 | 3.9/3.3 | 3.7/3.1 |
| PDB ID | 8EPN | 8EPQ | 8EPP | ||
| EMDB ID | 28531 | 28533 | 28532 | ||
| Model statistics | |||||
| MolProbity score | 1.50 | 1.60 | 1.67 | ||
| Clash score | 6.70 | 7.20 | 7.58 | ||
| Composition | |||||
| Amino acids | 2991 | 2984 | 2939 | ||
| Glycans | 126 | 66 | 66 | ||
| RMSD bonds (Å) | 0.003 | 0.003 | 0.002 | ||
| RMSD angles (°) | 0.579 | 0.609 | 0.491 | ||
| C-beta outliers (%) | 0.00 | 0.00 | 0.00 | ||
| CC (mask) | 0.87 | 0.81 | 0.84 | ||
| Rotamer outliers (%) | 0.84 | 0.12 | 0.35 | ||
| Ramachandran plot | |||||
| Favored (%) | 97.34 | 96.75 | 96.21 | ||
| Allowed (%) | 2.66 | 3.21 | 3.65 | ||
| Disallowed (%) | 0.00 | 0.03 | 0.14 | ||