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Data collection
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| Microscope |
FEI Titan Krios G3i |
FEI Titan Krios G3i |
FEI Titan Krios G3i |
FEI Titan Krios G3i |
| Voltage (kV) |
300 |
300 |
300 |
300 |
| Detector |
Gatan K3 |
Gatan K3 |
Gatan K3 |
Gatan K3 |
| Automation software |
EPU |
EPU |
EPU |
EPU |
| Energy filter slit width (eV) |
20 |
20 |
20 |
20 |
| Recording mode |
Super-resolution |
Super-resolution |
Super-resolution |
Super-resolution |
| Magnification (nominal) |
81,000 |
81,000 |
81,000 |
81,000 |
| Movie micrograph pixel size (Å) |
0.891 |
0.891 |
0.891 |
0.891 |
| Total Dose rate (e−/Å2) |
65 |
60 |
50 |
65 |
| Defocus range (µm) |
–0.5 to –2.5 |
–0.5 to –2.5 |
–0.5 to –2.5 |
–0.5 to –2.5 |
| Spherical aberration (mm) |
0.01 |
0.01 |
0.01 |
0.01 |
| Movies |
2046 |
1444 |
1352 |
2952 |
| Total extracted particles |
261,195 |
657,300 |
279,120 |
1,249,379 |
| Total # of refined particles |
185,406 |
657,041 |
263,911 |
1,009,372 |
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Reconstruction
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| EMDB code |
EMD-27548 |
EMD-27549 |
EMD-27572 |
EMD-27565 |
| Box size |
350 |
256 |
256 |
256 |
| Symmetry |
helical |
helical |
C1 |
C1 |
| Map sharpening B-factor (Å2) |
–90 |
–149 |
–81 |
–201 |
| Resolution (global) (Å) |
3.37 |
3.07 |
2.99 |
3.38 |
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Structure building and validation
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| PDB ID |
8 DMX |
8DMY |
8DNH |
8DNF |
| Model building |
Coot |
Coot |
Coot |
Coot |
| Refinement program |
Phenix |
Phenix |
Phenix |
Phenix |
| Refinement target |
Real-space |
Real-space |
Real-space |
Real-space |
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RMSD from ideal values
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|
| Bond length (Å) |
0.02 |
0.02 |
0.04 |
0.03 |
| Bond Angles (0) |
0.493 |
0.494 |
0.761 |
0.711 |
| Ramachandran favored (%) |
97.61 |
96.68 |
96.21 |
96.20 |
| Ramachandran allowed (%) |
2.39 |
3.32 |
3.79 |
3.46 |
| Ramachandran outliers (%) |
0 |
0 |
0 |
0.34 |
| MolProbity Score |
1.42 |
1.42 |
1.72 |
1.72 |
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Structures Characteristics
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| Species |
Rabbit |
Bovine |
Human |
Human |
| Amino acid resolved |
4–375 |
2–375 |
1–374 |
1–374 |
| PTMs resolved |
H73 |
H73 |
D1/H72 |
E1/H72 |