Table 1 ∣.
Cryo-EM data collection, refinement and validation statistics of CDH1-RNC
| CDH1-RNC_AP tRNA (EMD-0600, PDB 6OLE.) |
CDH1-RNC_AA tRNA (EMD-0599, PDB 6OLF) |
CDH1-RNC_PP tRNA (EMD-0601, PDB 6OLG) |
|
|---|---|---|---|
| Data collection and processing | |||
| Magnification | 43,478 | 43,478 | 43,478 |
| Voltage (kV) | 300 | 300 | 300 |
| Electron exposure (e−/Å2) | 50 | 50 | 50 |
| Defocus range (μm) | 1.0 to 2.0 | 1.0 to 2.0 | 1.0 to 2.0 |
| Pixel size (Å) | 1.15 | 1.15 | 1.15 |
| Symmetry imposed | C1 | C1 | C1 |
| Initial particle images (no.) | 213,412 | 213,412 | 213,412 |
| Final particle images (no.) | 73,110 | 10,350 | 16,594 |
| Map resolution (Å) | 3.0 | 3.9 | 3.4 |
| FSC threshold | 0.143 | 0.143 | 0.143 |
| Map resolution range (Å) | 2.5 to 7.5 | 3.1 to 9 | 2.8 to 8 |
| Refinement | |||
| Initial model used (PDB code) | |||
| 40S subunit | 6ek0 | 6ek0 | 5aj0 |
| 60S subunit | 5aj0 | 5aj0 | 5aj0 |
| tRNA | 3j7r | 3j7r | 5aj0 |
| Model resolution (Å) | 3.0 | 3.9 | 3.4 |
| FSC threshold | 0.5 | 0.5 | 0.5 |
| Model resolution range (Å) | 2.5 to 7.5 | 3.1 to 9 | 2.8 to 8 |
| Map sharpening B factor (Å2) | −71 | −73 | −62 |
| R.m.s. deviations | |||
| Bond lengths (Å) | 0.007 | 0.019 | 0.009 |
| Bond angles (°) | 1.014 | 1.188 | 1.193 |
| Validation | |||
| MolProbity score | 1.81 | 2.02 | 2.04 |
| Clashscore | 4.89 | 7.02 | 6.89 |
| Poor rotamers (%) | 1.00 | 1.05 | 1.34 |
| Ramachandran plot | |||
| Favored (%) | 89.90 | 87.03 | 89.28 |
| Allowed (%) | 9.76 | 12.63 | 10.08 |
| Disallowed (%) | 0.36 | 0.35 | 0.64 |