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. 2023 Feb 9;30(3):383–390. doi: 10.1038/s41594-022-00913-5

Table 1.

Data collection, processing and refinement statistics

WT declination WT declination + CPSF6-FG T = 1 (CA-G60A G61P) T = 1 (CA-M66A) T = 1 (CA-G60A G61P M66A)
EMDB EMD-26715 EMD-28186 EMD-28054 EMD-28057 EMD-26718
PDB 7URN 8EJL 8EEP 8EET 7URT
Data collection, processing and map calculation
Magnification ×81,000 ×81,000 ×81,000 ×92,000 ×81,000
Voltage (kV) 300 300 300 200 300
Electron exposure (e2) 50 54 50 48 50
Defocus range (μm) 0.5 to 2.5 0.75 to 2.5 0.5 to 2.5 0.5 to 2.5 0.5 to 2.5
Pixel size (Å) 1.08 1.08 1.08 0.75 1.08
Symmetry imposed C5 C5 I I I
Particles 525,219 166,463 494,057 116,627 509,666
Map resolution (Å) 3.4 3.9 2.2 3.1 2.4
 FSC threshold 0.143 0.143 0.143 0.143 0.143
Map resolution range (Å) 2.3–8.3 2.5–8.9 2.2–4.9 2.1–7.2 2.4–5.2
Coordinate modeling and refinement
Chain A (pentamer) Chains L,M,N (half-hexamer)
Initial model PDB 4XFX PDB 4XFX PDB 7URN PDB 7URT PDB 7URT PDB 4XFX
Model resolution (Å) 3.4 3.6 4.1 2.5 3.4 2.5
 FSC threshold 0.5 0.5 0.5 0.5 0.5 0.5
Map sharpening B-factor (Å2) 146.9 146.9 159.3 97.0 144.4 109.7
Model composition
 Non-hydrogen atoms 1,725 5,175 4,431 1,726 1,726 1,726
 Protein residues 221 663 619 221 221 221
 IP6 2 0 0 2 2 2
B-factors (Å2) 73.2 78.8 117.0 42.9 42.6
Root mean squared deviations
 Bond lengths (Å) 0.006 0.004 0.005 0.002 0.004 0.004
 Bond angles (°) 0.623 0.508 0.545 0.647 1.019 0.554
Validation
 MolProbity score 1.57 1.42 1.81 1.33 1.37 1.34
 Clash score 8.40 5.79 7.23 3.95 6.23 4.05
 Poor rotamers (%) 0.43 1.24 3.04 1.59 1.07 1.60
Ramachandran plot
 Favored (%) 97.26 97.87 97.82 100 99.54 99.09
 Outliers (%) 0 0 0 0 0 0
Z-score 1.00 1.79 1.74 1.98 1.87 1.22