ELECTRON MICROSCOPY

Sample

WT 12C 50S ribosomal subunit assembly intermediate

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details 3 microliter of the sample was added.
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 22502
Reported Resolution (Å) 5.04
Resolution Method FSC 0.143 CUT-OFF
Other Details ?
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol OTHER
Refinement Target Comprehensive validation (cryo-EM)
Overall B Value 118.80
Fitting Procedure ?
Details The atomic model was fitted into a low resolution (5 angstrom) EM map; therefore the coordinates should only serve as a general visual representation and should not be looked into detail. Initial docking of the atomic model was done in ChimeraX. Coot and Phenix were used for real-space refinements. Geometry minimization in Phenix was used to improve the RNA atomic model.
Data Acquisition
Detector Type GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å2) 50
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TALOS ARCTICA
Minimum Defocus (nm) 1000
Maximum Defocus (nm) 2000
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS ?
Imaging Mode BRIGHT FIELD
Specimen Holder Model ?
Nominal Magnification 36000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details In order to account for highly preferred orientation of the specimen, data were acquired using tilts at -20 degrees.
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION cryoSPARC ?
IMAGE ACQUISITION Leginon ?
MODEL FITTING UCSF ChimeraX ?
RECONSTRUCTION cryoSPARC ?
MODEL REFINEMENT Coot ?
MODEL REFINEMENT PHENIX ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
NONE CTF correction were performed by Patch CTF Estimation of cryoSPARC