Table 2 cryo-EM data collection, map, and model refinement statistics
| Â | (DH270.4-CH848.10.17) | (DH270.5-CH848.10.17) | (DH270.6-CH848.10.17) | (VRC01-CH848.0526.25) | (VRC01-CH848.10.17) | (DH270.6-CH848.0526.25) | (VRC01-CH848.0836.10) | (VRC01-CH848.0358.80) |
|---|---|---|---|---|---|---|---|---|
Data Collection | ||||||||
Microscope | FEI Titan Krios | |||||||
Detector | Gatan K3 | |||||||
Magnification | 105000 | |||||||
Voltage (kV) | 300 | |||||||
Electron dose (e-/Ã…2) | 60 | 60 | 53.15 | 69.98 | 60 | 60 | 60 | 60 |
Pixel Size (Ã…) | 1.066 | 1.066 | 1.066 | 1.066 | 1.066 | 1.066 | 1.066 | 1.066 |
Defocus Range (µm) | ~0.8–4.3 | ~0.7–4.1 | ~0.5–4.1 | ~0.5–3.1 | ~0.5–3.5 | ~0.5–3.5 | ~0.5–3.5 | ~0.5–3.5 |
Reconstruction Software cryoSPARC | ||||||||
Symmetry | C3 | C3 | C3 | C3 | C3 | C3 | C3 | C3 |
Particles | 107890 | 76211 | 106823 | 252873 | 35839 | 119542 | 28746 | 46336 |
Box size (pix) | 384 | 384 | 384 | 384 | 384 | 384 | 384 | 384 |
Resolution (Ã…) (FSC0.143)a | 3.3 | 4.0 | 3.82 | 4.0 | 4.5 | 3.9 | 4.6 | 4.9 |
Coordinate Refinement (Phenix)b | ||||||||
Protein residues | 2490 | 2496 | 2490 | 2514 | 2457 | 2574 | 2505 | 2523 |
R.m.s. deviations | ||||||||
Bond lengths (Ã…) | 0.006 | 0.008 | 0.006 | 0.004 | 0.005 | 0.006 | 0.004 | 0.006 |
Bond angles (°) | 0.915 | 1.100 | 1.055 | 0.845 | 0.894 | 1.041 | 0.949 | 0.997 |
Validation | ||||||||
Molprobity score | 1.57 | 1.71 | 1.71 | 1.53 | 1.80 | 1.76 | 1.71 | 1.90 |
Clash score | 3.13 | 4.02 | 4.37 | 2.96 | 5.01 | 4.26 | 4.65 | 6.60 |
Favored rotamers (%) | 99.72 | 99.68 | 99.30 | 99.77 | 99.81 | 99.73 | 99.59 | 100 |
EMRinger Score | 1.95 | 0.36 | 1.74 | 1.66 | 1.65 | 1.49 | 1.31 | 0.56 |
Ramachandran plot | ||||||||
Favored regions (%) | 92.46 | 90.94 | 91.93 | 93.14 | 90.56 | 89.78 | 92.51 | 90.15 |
Disallowed regions (%) | 0.32 | 0.44 | 0.41 | 0.24 | 0.41 | 0.35 | 0.12 | 0.24 |