ELECTRON MICROSCOPY

Sample

The structure of the COPI coat leaf

Specimen Preperation
Sample Aggregation State 3D ARRAY
Vitrification Instrument HOMEMADE PLUNGER
Cryogen Name ETHANE
Sample Vitrification Details The sample was applied onto glow-discharged (30 sec, 20 mA) C-flat (Protochips Inc.) multihole grids. The grids were blotted from the back side for 11 seconds at room temperature in a chamber at 85% humidity and plunge-frozen into liquid ethane using a manual plunger.
3D Reconstruction
Reconstruction Method SUBTOMOGRAM AVERAGING
Number of Particles 1640
Reported Resolution (Å) 17.3
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 RIGID BODY FIT
Refinement Target Cross-correlation coefficient
Overall B Value ?
Fitting Procedure ?
Details ?
Data Acquisition
Detector Type GATAN K2 QUANTUM (4k x 4k)
Electron Dose (electrons/Å2) 2
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) 2500
Maximum Defocus (nm) 5000
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 ?
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details Tomographic tilt series were acquired with the dose-symmetric tilt-scheme (Hagen et al., J Struct Biol. 2017)
Imaging Experiment
Task Software Package Version
VOLUME SELECTION Amira ?
IMAGE ACQUISITION SerialEM ?
CTF CORRECTION CTFFIND 4
MODEL FITTING UCSF Chimera 1.11
RECONSTRUCTION TOM Toolbox ?
VOLUME SELECTION TOM Toolbox ?
CTF CORRECTION IMOD ?
RECONSTRUCTION AV3 ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING ONLY CTF-determination for each individual tilt image was performed using CTFFIND4. Strip-based CTF-correction and tomogram reconstruction was performed in Imod.
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