Table 1.
Cryo-EM data collection, refinement and validation statistics.
| TSP4–10LHC (EMDB-12180) (PDB 7BGI) | TSP4–8LHC (EMDB-12227) (PDB 7BLX) | |
|---|---|---|
| Data collection and processing | ||
| Magnification | 165,000 | 165,000 |
| Voltage (kV) | 300 | 300 |
| Electron exposure (e–/Å2) | 46.80 | 46.80 |
| Defocus range (μm) | 0.9–3.0 | 0.9–3.0 |
| Pixel size (Å) | 0.827 | 0.827 |
| Symmetry imposed | C1 | C1 |
| Initial particle images (no.) | 1,208,518 | 1,208,518 |
| Final particle images (no.) | 101,572 | 17,311 |
| Map resolution (Å) | 2.54 | 3.15 |
| FSC threshold | 0.143 | 0.143 |
| Map resolution range (Å) | 2.3–4.5 | 2.8–5.0 |
| Refinement | ||
| Initial model used (PDB code) | 6JO5 | 6JO5 |
| Model resolution (Å) | 2.90 | 2.90 |
| FSC threshold | 0.143 | 0.143 |
| Model resolution range (Å) | 2.5–4.5 | 2.5–4.5 |
| Map sharpening B factor (Å2) | −61.60 | −63.39 |
| Model composition | ||
| Non-hydrogen atoms | 52213 | 47524 |
| Protein residues | 21 | 19 |
| Ligands | 354 | 317 |
| B factors (Å2) | ||
| Protein | 9.87–61.77 | 4.14–54.08 |
| Ligand | 13.38–74.87 | 6.91–63.26 |
| R.m.s. deviations | ||
| Bond lengths (Å) | 0.006 | 0.007 |
| Bond angles (°) | 1.981 | 1.976 |
| Validation | ||
| MolProbity score | 1.64 | 1.67 |
| Clashscore | 8.36 | 8.78 |
| Poor rotamers (%) | 0.00 | 0.00 |
| Ramachandran plot | ||
| Favoured (%) | 96.85 | 96.81 |
| Allowed (%) | 3.05 | 3.17 |
| Disallowed (%) | 0.09 | 0.03 |