Table 1 Cryo-EM data collection, refinement, and validation statistics
From: RhoA allosterically activates phospholipase Cε via its EF hands
EMDB: EMD-43927, EMD-43928 PDB: 9AX5 EMPIAR: EMPIAR-12069 | |
|---|---|
Data collection | |
Grids | Copper Quantifoil |
Vitrification method | FEI Vitrobot |
Microscope | FEI Titan Krios |
Magnification | 81000 |
Voltage (kV) | 300 |
Detector | GATAN K3 (6k × 4k) |
Electron exposure (e−/Å2) | 57.8 |
Number of frames | 40 |
Defocus range (mM) | 0.6–2.0 |
Pixel Size (Å) | 0.527 |
Data processing | |
Number of micrographs | 6378 |
Initial particle images (no.) | 1,329,298 |
Final particle images (no.) | 209,463 |
Symmetry | C1 |
Map resolution (Å) | 3.3 |
FSC threshold | 0.143 |
Refinement | |
Map sharpening B factor (Å2) | 133.2 |
Map CC | 0.80 |
Model composition | |
Non-hydrogen atoms | 8544 |
Protein residues | 1065 |
Ligands | 3 |
B factor (Å2; min/max/mean) | |
Protein | 20.13/162.65/57.21 |
Ligand | 27.98/138.95/134.91 |
R.m.s. deviations | |
Bond lengths (Å) | 0.004 |
Bond angles (°) | 0.924 |
Validation | |
MolProbity score | 1.60 |
Clashscore | 6.17 |
Rotamer outliers (%) | 1.05 |
CaBLAM outliers (%) | 1.45 |
Ramachandran plot | |
Favored (%) | 96 |
Allowed (%) | 4 |
Outliers (%) | 0 |
