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. 2020 Apr 14;9:e54575. doi: 10.7554/eLife.54575
Cryo-EM data collection, refinement and validation statistics
Class-1 (open)
(EMDB-21529) (PDB 6W2S)
Class-2 (closed)
(EMDB-21530) (PDB 6W2T)
Data collection and processing
Magnification
Voltage (kV)
Electron exposure (e–/Å2)
Defocus range (μm)
Pixel size (Å)
Symmetry imposed
Initial particle images (no.)
130,000
300
59.55
−1 /– 3
1.06
C1
915,647
Final particle images (no.) 14,257 23,444
Map resolution (Å)
FSC threshold
3.3
0.143
3.3
0.143
Map resolution range (Å) 3–8 3–8
Refinement
Initial model used (PDB code) 5A2Q 5A2Q
Model resolution (Å)
FSC threshold
3.6
0.5
3.6
0.5
Model resolution range (Å) 3.3–8 3.3–8
Map sharpening B factor (Å2) −31.94 −43.41
Model composition
Non-hydrogen atoms
Ligands
106,817
-
109,684
-
B factors (Å2)
Protein
RNA
92.47
114.1
96.5
117.4
R.m.s. deviations
Bond lengths (Å)
Bond angles (°)
0.014
1.77
0.014
1.78
Validation
MolProbity score
Clashscore
Poor rotamers (%)
2.12
6.13
1.62
1.99
4.92
1.39
Ramachandran plot
Favored (%)
Allowed (%)
Disallowed (%)
RNA validation
Angles outliers (%)
Sugar puckers outliers (%)
Average suit
88.92
98.37
1.63
0.18
2.35
0.442
90.25
98.50
1.50
0.17
2.25
0.428