Extended Data Table 1 |.
Cryo-EM data collection, refinement and validation statistics.
| Core TIM23 complex (Tim17/23/44 + Pam16/18) (EMDB-40346; PDB 8SCX) | Endogenous core TIM23 complex (Tim 17/23/44) (EMDB-27825; PDB 8E1M) | |
|---|---|---|
|
| ||
| Data collection and processing | ||
| Magnification | 64,000x | 64,000x |
| Voltage (kV) | 300 | 300 |
| Electron exposure (e−/Å2) | 50 | 50 |
| Defocus range (μm) | −0.8 to −2.1 | −0.8 to −1.6 |
| Pixel size (Å) | 1.05 | 1.05 |
| Symmetry imposed | C1 | C1 |
| Initial particle images (no.) | 689,333 | 1,251,068 |
| Final particle images (no.) | 159,958 | 214,281 |
| Map resolution (Å) | 2.7 | 2.9 |
| FSC threshold | 0.143 | 0.143 |
| Map resolution range (Å) | 2.4–6 | 2.4–6 |
| Refinement | ||
| Initial model used | de novo + PDB-2FXT | PDB-8SCX |
| Model resolution (Å) | 2.9 | 3.0 |
| FSC threshold | 0.5 | 0.5 |
| Map sharpening B factor (Å2) | 92 | 54 |
| Model composition | ||
| Non-hydrogen atoms | 5,753 | 5,691 |
| Protein residues | 760 | 760 |
| Ligands | 2 | 2 |
| B factors (Å2) | ||
| Protein | 69 | 44 |
| Ligand | 67 | 36 |
| R.m.s. deviations | ||
| Bond lengths (Å) | 0.004 | 0.005 |
| Bond angles (°) | 0.523 | 0.611 |
| Validation | ||
| MolProbity score | 1.28 | 1.53 |
| Clashscore | 5.30 | 7.25 |
| Poor rotamers (%) | 0 | 0 |
| Ramachandran plot | ||
| Favored (%) | 98.13 | 97.33 |
| Allowed (%) | 1.87 | 2.67 |
| Disallowed (%) | 0 | 0 |
| Rama-Z | 1.27 | 0.83 |
| CaBLAM outliers (%) | 0.68 | 0.95 |