Extended Data Table 2.
Rho*–GRK1 (ensemble1†) |
Rho*–GRK1S5E/EE (ensemble1) |
Fab1 (ensemble1) |
Fab6 (ensemble1) |
|
---|---|---|---|---|
Data collection and processing | ||||
Magnification | 81,000 x | 81,000 x | 81,000 x | 81,000 x |
Voltage (kV) | 300 | 300 | 300 | 300 |
Electron exposure(e-/Å2) | ~54 | ~54 | ~54 | ~54 |
Defocus range (μm) | 1.2 – 2.5 | 1.2 – 2.5 | 1.2 – 2.5 | 1.2 – 2.5 |
Pixel size (Å) | 1.08 | 1.08 | 1.08 | 1.08 |
Symmetry imposed | C1 | C1 | C1 | C1 |
Initial particle images (no.) | 2,680,798 | 2,719,144 | 5,699,968 | 7,524,629 |
Final particle images (no.) | 183,717 | 132,721 | 310,363 | 250,547 |
Map resolution (Å) | 7.0 | 5.8 | 4.1 | 4.0 |
FSC threshold | 0.143 | 0.143 | 0.143 | 0.143 |
Map resolution range (Å) | 6 – 11 | 4.2–11 | 3.6–10 | 3.4–10 |
Refinement with MDFF | ||||
Initial model used(PDB entry) | Rho*: 3PQR; GRK1: a homology model of 3NYN, Fab models: SWISSMODEL68 | |||
Model composition | ||||
Non-hydrogen atoms | 5358 | 5363 | 8699 | 8707 |
Residues | Protein: 670 | Protein: 670 | Protein:1108 | Protein: 1109 |
Ligands | Sgv: 1 Ret: 1 | Sgv: 1 Ret: 1 | Sgv: 1 Ret: 1 | Sgv: 1 Ret: 1 |
R.m.s. deviations | ||||
Bond lengths (Å) | 0.019 | 0.019 | 0.143 | 0.019 |
Bond angles (°) | 2.01 | 1.95 | 2.88 | 2.02 |
Validation | ||||
MolProbity score | 1.31 | 1.26 | 1.22 | 1.17 |
Clash score | 0.48 | 0.48 | 0.24 | 0.18 |
Poor rotamers (%) | 1.52 | 1.52 | 1.46 | 1.46 |
Ramachandran Plot | ||||
Favored (%) | 91.6 | 92.8 | 91.4 | 92.3 |
Allowed (%) | 6.3 | 5.9 | 6.2 | 6.1 |
Disallowed (%) | 2.1 | 1.4 | 2.4 | 1.6 |
The ensemble most similar to all other ensembles (lowest backbone RMSD over the Rho*–GRK1 complex residues) was used to generate statistics.