Table 1 Cryo-EM data collection, processing, and model refinement statistics
Sample | PDB: 8PK7 EMD-17729 | PDB: 8PHZ EMD-17678 | EMD-17730 | EMD-17730 Supplementary map |
|---|---|---|---|---|
Grids | QF 2/1 300 mesh (Cu) | QF 2/1 300 mesh (Cu) | QF 2/1 300 mesh (Cu) | QF 2/1 300 mesh (Cu) |
Vitrification method | Vitrobot | Vitrobot | Vitrobot | Vitrobot |
Microscope | Titan Krios G3, CM01, ESRF | Titan Krios G3, CM01, ESRF | Titan Krios G3, CM01, ESRF | Titan Krios G3, CM01, ESRF |
Magnification factor | 81,000 | 81,000 | 81,000 | 81,000 |
Detector | K3 Summit (Gatan) | K3 Summit (Gatan) | K3 Summit (Gatan) | K3 Summit (Gatan) |
Recording mode | Super-resolution | Super-resolution | Super-resolution | Super-resolution |
Electron dose rate (e-Å-2s-1) | 18.1 | 18.1 | 18.1 | 18.1 |
Total electron dose (e-Å−2) | 42 | 42 | 42 | 42 |
Pixel size (Å) | 1.06 (nominal) 0.53 (super-resolution) | 1.06 (nominal) 0.53 (super-resolution) | 1.06 (nominal) 0.53 (super-resolution) | 1.06 (nominal) 0.53 (super-resolution) |
Number of frames | 40 | 40 | 40 | 40 |
Total exposure time (s) | 2.6 | 2.6 | 2.6 | 2.6 |
Set defocus range (µm) | 0.8−2.5 | 0.8-2.5 | 0.8-2.5 | 0.8-2.5 |
Number of micrographs | 13,046 | 13,046 | 13,046 | 13,046 |
Number of picked particles | 807,973 | 807,973 | 807,973 | 807,973 |
Number of particles used for refinement | 807,973 | 9,695,676 (12x symmetry expanded) | 807,973 | 250,100 |
Symmetry imposed | Helical, C1, twist: 164.175°, rise (Å): 2.782, symmetry order: 12 | C1 | Helical, C1, twist: 164.175°, rise (Å): 2.782, symmetry order: 12 | C1 |
Resolution (Å) (half-map half-map, FSC threshold 0.143) | 2,52 | 2,36 | 2,98 | 6,84 |
RMSD bonds (Å) | 0,004 | 0,003 | ||
RMDS angles (°) | 0,932 | 0,523 | ||
Ramachandran favored (%) | 99,4 | 99,4 | ||
Ramachandran outliers (%) | 0,00 | 0,00 | ||
Rotamer outliers (%) | 0,00 | 0,00 | ||
Map-model cross correlation (CC, main chain) | 0,73 | 0,81 | ||
Clashscore | 9,26 | 8,38 | ||
MolProbity score | 1,49 | 1,45 | ||
Map-model FSC (Å) (threshold = 0.5) | 3,0 | 2,5 |
