Table 1.
Overview of Cryo-EM data collection and coordinate refinement.
| Apo hMRP4 | PGE1-bound hMRP4 | ATP-bound hMRP4 | Sulindac-bound hMRP4 | |
|---|---|---|---|---|
| Data collection and processing | ||||
| Magnification | 105,000× | 105,000× | 105,000× | 96,000× |
| Voltage (kV) | 300 | 300 | 300 | 300 |
| Camera | Gatan K3 Summit | Gatan K3 Summit | Gatan K3 Summit | Falcon4 |
| Camera mode | Super-resolution | Super-resolution | Super-resolution | Super-resolution |
| Electron exposure (e–/Å2) | 50 | 50 | 50 | 50 |
| Defocus range (μm) | 0.8–1.2 | 0.8–1.2 | 0.8–1.2 | 0.8–1.2 |
| Pixel size (Å) | 0.856 | 0.855 | 0.855 | 0.86 |
| Symmetry imposed | C1 | C1 | C1 | C1 |
| Initial particle projections (no.) | 1,854,905 | 2,147,528 | 389,704 | 371,999 |
| Final particle projections (no.) | 203, 347 | 378, 698 | 108,200 | 151,694 |
| Map resolution (Å) | 3.13 | 2.95 | 3.48 | 3.77 |
| FSC threshold | 0.143 | 0.143 | 0.143 | 0.143 |
| Map resolution range (Å) | 2.7–10 | 2.5– 8.5 | 2.3–9.7 | 1.95–9.45 |
| Refinement | ||||
| Initial model used | Not applicable (N/A) | Not applicable (N/A) | Not applicable (N/A) | Not applicable (N/A) |
| Model resolution (Å) | 3.13 | 2.95 | 3.48 | 3.77 |
| FSC threshold | 0.143 | 0.143 | 0.143 | 0.143 |
| Map sharpening B factor (Å2) | −113.8 | −133.8 | −105.8 | −144.2 |
| Model composition | ||||
| Non-hydrogen atoms | 9969 | 9917 | 10027 | 9858 |
| Protein residues | 1251 | 1301 | 1251 | 1237 |
| Ligand | XPG | ATP MG | SUZ | |
| R.m.s. deviations | ||||
| Bond lengths (Å) | 0.011 | 0.011 | 0.012 | 0.005 |
| Bond angles (°) | 0.894 | 0.884 | 0.889 | 0.585 |
| Validation | ||||
| MolProbity score | 2.22 | 2.111 | 2.08 | 2.13 |
| Clashscore | 6 | 7 | 5 | 7 |
| Rotamer outliers (%) | 0.00 | 0.00 | 0.00 | 0.00 |
| Ramachandran plot | ||||
| Favored (%) | 98 | 98 | 98 | 95 |
| Allowed (%) | 2 | 2 | 2 | 5 |
| Disallowed (%) | 0.00 | 0.00 | 0.00 | 0.00 |