Table 4 Cryo-EM data collection, refinement, and validation statistics
From: Molecular basis of TRPV3 channel blockade by intracellular polyamines
TRPV3-K169A in nanodiscs with NASPM (EMD-44645) (PDB 9BKU) | |
|---|---|
Data collection and processing | |
Magnification | 120k |
Voltage (kV) | 200 |
Electron exposure (e–/Å2) | 44.1 |
Defocus range (μm) | −0.8 to −2.4 |
Pixel size (Å) | 1.2 |
Symmetry imposed | C4 |
Initial particle images (no.) | 1,864,667 |
Final particle images (no.) | 266,529 |
Map resolution (Å) | 3.4 |
FSC threshold | 0.143 |
Map resolution range (Å) | 2.5–4.5 |
Refinement | |
Initial model used (PDB code) | 6UW6 |
Model resolution (Å) | 3.6 |
FSC threshold | 0.5 |
Map sharpening B factor (Å2) | −162.7 |
Model composition | |
Nonhydrogen atoms | 17,504 |
Protein residues | 2,352 |
Ligands | 36 |
B factors (Å2) | |
Protein | 60.52 |
Ligand | 56.37 |
R.m.s. deviations | |
Bond lengths (Å) | 0.002 |
Bond angles (°) | 0.425 |
Validation | |
MolProbity score | 1.55 |
Clash score | 6.01 |
Poor rotamers (%) | 0 |
Ramachandran plot | |
Favored (%) | 96.54 |
Allowed (%) | 3.46 |
Disallowed (%) | 0 |
