ELECTRON MICROSCOPY

Sample

Homohexamer of p97

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details ?
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 478635
Reported Resolution (Å) 2.72
Resolution Method FSC 0.143 CUT-OFF
Other Details Homogenous refinement with global CTF refinement. The map was also sharpened by deepEMhancer to obtain final map used for modeling.
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol ?
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details Single chain ModelAngelo model built in PDB 9OX9 was docked into this map, and undergone manual modeling in Coot. The rest of the chains were built using molrep in CCP-EM and refined.
Data Acquisition
Detector Type GATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å2) 50
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model TFS KRIOS
Minimum Defocus (nm) 900
Maximum Defocus (nm) 2200
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS ?
Imaging Mode BRIGHT FIELD
Specimen Holder Model ?
Nominal Magnification ?
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details ?
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION cryoSPARC ?
IMAGE ACQUISITION SerialEM ?
CTF CORRECTION cryoSPARC ?
MODEL FITTING UCSF ChimeraX ?
MODEL FITTING Coot ?
MODEL FITTING ISOLDE ?
INITIAL EULER ASSIGNMENT cryoSPARC ?
FINAL EULER ASSIGNMENT cryoSPARC ?
CLASSIFICATION cryoSPARC ?
RECONSTRUCTION cryoSPARC ?
MODEL REFINEMENT MOLREP ?
MODEL REFINEMENT PHENIX ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?