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 2 and blotting time of 6 sec were applied.
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 29516
Reported Resolution (Å) 6.9
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 103.25
Fitting Procedure ?
Details The initial model was used to generate our model using MODELLER. This inital model was fitted into the density using ChimeraX and refined in real space using PHENIX.
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 45000
Calibrated Magnification 44067
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details ?
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION Xmipp 3.0
IMAGE ACQUISITION EPU 2.6
IMAGE ACQUISITION Scipion 2.0
IMAGE ACQUISITION RELION 3.0
IMAGE ACQUISITION Xmipp 3
IMAGE ACQUISITION MotionCorr2 2.03
IMAGE ACQUISITION Gctf 1.06
CTF CORRECTION Gctf 1.06
MODEL FITTING UCSF Chimera 0.94
INITIAL EULER ASSIGNMENT RELION 3.0
FINAL EULER ASSIGNMENT RELION 3.0
CLASSIFICATION RELION 3.0
RECONSTRUCTION RELION 3.0
MODEL REFINEMENT MODELLER 9.22
MODEL REFINEMENT PHENIX 1.18-3845
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?