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. Author manuscript; available in PMC: 2022 Jan 14.
Published in final edited form as: Nature. 2021 Jul 14;595(7868):600–605. doi: 10.1038/s41586-021-03721-x

Extended Data Table 2.

Cryo-EM data collection, refinement, and validation statistics.

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.