Table 2 Cryo-EM data collection, refinement and validation statistics
From: Allosteric competition and inhibition in AMPA receptors
GluA2-γ2IS-1 (EMD-43275), (PDB 8VJ6) | GluA2-γ2IS-2 (EMD-43276), (PDB 8VJ7) | |
|---|---|---|
Data collection and processing | ||
Magnification | ×130,000 | ×130,000 |
Voltage (kV) | 300 | 300 |
Electron exposure (e− per Å2) | 40 | 40 |
Defocus range (μm) | −1.0 to 2.6 | −1.0 to 2.6 |
Pixel size (Å) | 0.93 | 0.93 |
Symmetry imposed | C2 | C2 |
Initial particle images (no.) | 1,258,087 | 1,031,751 |
Final particle images (no.) | 123,729 | 130,474 |
Map resolution (Å) FSC = 0.143 | 3.50 | 4.85 |
Map resolution range (Å) | 2–13 | 2.5–13 |
Refinement | ||
Initial model used | PDB 5WEO | GluA2-γ2IS-1 |
Model resolution (Å) FSC = 0.143 | 4.2 | 3.50 |
Model resolution range (Å) | 3.4–4.1 | 3.2–4.1 |
Map sharpening B factor (Å2) | −65 | −120 |
Model composition | ||
Non-hydrogen atoms | 25,180 | 25,179 |
Protein residues | 3,186 | 3,186 |
Ligands | 4 | 4 |
B factors (Å2) | ||
Protein | 0.00/98.47/54.29 | 0.00/391.17/141.52 |
Ligand | 0.00/23.22/7.37 | 0.01/9.83/4.80 |
R.m.s.d. | ||
Bond lengths (Å) | 0.006 | 0.004 |
Bond angles (°) | 0.631 | 0.650 |
Validation | ||
MolProbity score | 1.61 | 1.64 |
Clashscore | 6.38 | 6.96 |
Poor rotamers (%) | 0 | 0.48 |
Ramachandran plot | ||
Favored (%) | 96.18 | 96.21 |
Allowed (%) | 3.63 | 3.54 |
Disallowed (%) | 0.19 | 0.25 |
