7ODE
E. coli 50S ribosome LiCl core particle
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
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Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 13.0935 |
f_angle_d | 0.3503 |
f_chiral_restr | 0.027 |
f_plane_restr | 0.0023 |
f_bond_d | 0.0022 |
Sample |
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50S LiCl core particle |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK IV |
Cryogen Name | ETHANE |
Sample Vitrification Details | continuous carbon, 3 microL of sample, incubate for 30 seconds, blot for 3.5 seconds |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 384374 |
Reported Resolution (Å) | 2.84 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C1 |
Map-Model Fitting and Refinement | |||||
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Id | 1 (4YBB) | ||||
Refinement Space | REAL | ||||
Refinement Protocol | FLEXIBLE FIT | ||||
Refinement Target | correlation coefficient | ||||
Overall B Value | 69.21 | ||||
Fitting Procedure | |||||
Details | Low-resolution regions were modeled at a lower contour level. |
Data Acquisition | |||||||||
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Detector Type | FEI FALCON III (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 42 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | |
Maximum Defocus (nm) | |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | 2.7 |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | FEI TITAN KRIOS AUTOGRID HOLDER |
Nominal Magnification | 75000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details | The sample stage was tilted at 0, 15 or 30 degrees |
EM Software | ||
---|---|---|
Task | Software Package | Version |
PARTICLE SELECTION | RELION | 3.0 |
IMAGE ACQUISITION | EPU | |
CTF CORRECTION | Gctf | |
CTF CORRECTION | RELION | 3.1 |
MODEL FITTING | UCSF Chimera | 1.14 |
MODEL FITTING | PHENIX | 1.19 |
MODEL FITTING | Coot | 0.8 |
FINAL EULER ASSIGNMENT | RELION | 3.1 |
RECONSTRUCTION | RELION | 3.1 |
MODEL REFINEMENT | PHENIX | 1.19 |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION |