7Q5R

ELECTRON MICROSCOPY

Sample

Native 60-mer core of Pyruvate Dehydrogenase Complex

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details For plunging, blot force 0 and blotting time of 4 sec were applied.
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 7825
Reported Resolution (Å) 3.84
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 FLEXIBLE FIT
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details Initial models were predicted using AlphaFold v2.0.1, fitted into reconstructions using COOT and finally refined in real space using COOT and phenix.real_space_refine
Data Acquisition
Detector Type FEI FALCON III (4k x 4k)
Electron Dose (electrons/Å2) 30.0
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model TFS GLACIOS
Minimum Defocus (nm) 800
Maximum Defocus (nm) 2000
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS 2.7
Imaging Mode BRIGHT FIELD
Specimen Holder Model OTHER
Nominal Magnification 92000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details ?
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION cryoSPARC 3.1
IMAGE ACQUISITION EPU 2.9
CTF CORRECTION cryoSPARC 3.1
MODEL FITTING Coot 0.9.2-pre
CLASSIFICATION cryoSPARC 3.1
RECONSTRUCTION cryoSPARC 3.1
MODEL REFINEMENT Coot 0.9.2-pre
MODEL REFINEMENT PHENIX 1.18.2
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?