Table 1 Statistics of cryo-EM reconstructions and structural model
From: Structure of a transcribing Pol II-DSIF-SPT6-U1 snRNP complex
Overall (EMD-53087) | SPT6 (EMD-53088) | U1 snRNP (EMD-53089) | |
|---|---|---|---|
Data collection and processing | |||
Microscope | Titan Krios | ||
Voltage (kV) | 300 | ||
Camera | K3 | ||
Magnification | 81,000 x | ||
Pixel size (Å/pixel) | 1.05 | ||
Electron exposure (e-/Å2) | 40.4 | ||
Exposure rate (e-/Å2/frame) | 1.01 | ||
Number of frames per movie | 40 | ||
Defocus range (μm) | 0.5–2.0 | ||
Automation software | SerialEM | ||
Symmetry imposed | C1 | ||
Initial particle numbers | 2,039,129 | ||
Final particle numbers | 52,065 | ||
Map sharpening B factor (Å2) | −111.322 | −500 | −513.8 |
Map resolution (Å, FSC = 0.143) | 3.5 | 6.2 | 7.3 |
Refinement | |||
Initial models used (PDB) | 7B0Y, 9HVQ | ||
Model resolution (Å) | 3.7 | ||
Model composition | |||
Non-hydrogen atoms | 56,145 | ||
Protein residues | 6,297 | ||
Nucleic acid residues | 263 | ||
Ligands | Zn:8 Mg:1 | ||
B factors (Å2) | |||
Protein | 327.52 | ||
Nucleotide | 554.97 | ||
Ligand | 239.11 | ||
R.m.s. deviations | |||
Bond lengths (Å) | 0.004 | ||
Bond angles (°) | 0.568 | ||
Validation | |||
MolProbity score | 1.57 | ||
Clash score | 5.98 | ||
Poor rotamers (%) | 0.00 | ||
Cß deviations (%) | 0 | ||
Ramachandran plot | |||
Favored (%) | 96.35 | ||
Allowed (%) | 3.65 | ||
Outliers (%) | 0.00 | ||
PDB code | 9QEQ | ||
