Table 1 Data acquisition and processing statistics for cryo-ET
From: Distinct stabilization of the human T cell leukemia virus type 1 immature Gag lattice
Data collection and processing | |||
System | TFS Titan Krios 3Gi | TFS Titan Krios 3Gi | FEI Titan Krios |
System 1 | System 1 | System 2 | |
Detector | Gatan BioQuantum K3 | Gatan BioQuantum K3 | Gatan K2xp |
Magnification | ×80,000 | ×80,000 | ×80,000 |
Voltage (kV) | 300 | 300 | 300 |
Electron exposure (e− per Å2) | ~145 | ~145 | ~145 |
Dose rate (eps) | 18 | 21 | 5.4 |
Defocus range (μm) | 1.25–3.5 | 1–3.5 | 1–3 |
Slit width (eV) | 20 | 20 | 20 |
Pixel size (Å) | 1.381 | 1.381 | 1.327 |
Acquisition scheme, tilt | −60/60°, 3 | −60/60°, 3 | −60/60°, 3 |
Frame number | 8 | 8 | 10 |
Symmetry imposed | C2 | C2 | C2 |
Tomograms | 85 | 24 | 45 |
Final subtomograms (no.) | 264,000 (CA-NTD) | 268,000 | |
58,000 (CA-CTD) | |||
Map resolution (Å) | 5.9 (CA-NTD) | 3.4 | |
6.2 (CA-CTD) | |||
FSC threshold | 0.143 | 0.143 | |
Refinement | HTLV-1 MA126CANC, residues 13–125 (PDB 8PU6) | ||
Model resolution (Å) | 4/3.4 | ||
FSC threshold | 0.5/0.143 | ||
Map sharpening B factor (Å2) | – | ||
Model composition | |||
Nonhydrogen atoms | 2,679 | ||
Protein residues | 339 (in three chains) | ||
R.m.s.d. | |||
Bond lengths (Å) | 0.005 | ||
Bond angles (°) | 1.011 | ||
Validation | |||
MolProbity score | 1.75 | ||
Clashscore | 10 | ||
Poor rotamers (%) | 15 (5 %) | ||
Ramachandran plot | |||
Favored (%) | 321 (96 %) | ||
Allowed (%) | 12 (4 %) | ||
Disallowed (%) | 0 (0.0%) | ||
