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Cryo-EM structure of EBV gB prefusion construct C3-GT
ELECTRON MICROSCOPY
Starting Model(s)
Initial Refinement Model(s)
Type
Source
Accession Code
Details
in silico model
AlphaFold
Sample
Prefusion-stabilized Epstein-Barr virus glycoprotein B
Specimen Preparation
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
162928
Reported Resolution (Å)
3.1
Resolution Method
FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type
POINT
Point Symmetry
C3
Map-Model Fitting and Refinement
Id
1
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector Type
FEI FALCON IV (4k x 4k)
Electron Dose (electrons/Å**2)
49
Imaging Experiment
1
Date of Experiment
Temperature (Kelvin)
Microscope Model
TFS GLACIOS
Minimum Defocus (nm)
1500
Maximum Defocus (nm)
3000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode
BRIGHT FIELD
Specimen Holder Model
Nominal Magnification
150000
Calibrated Magnification
Source
FIELD EMISSION GUN
Acceleration Voltage (kV)
200
Imaging Details
EM Software
Task
Software Package
Version
PARTICLE SELECTION
cryoSPARC
4.5.3
IMAGE ACQUISITION
SerialEM
CTF CORRECTION
cryoSPARC
MODEL FITTING
PHENIX
INITIAL EULER ASSIGNMENT
cryoSPARC
FINAL EULER ASSIGNMENT
cryoSPARC
CLASSIFICATION
cryoSPARC
RECONSTRUCTION
cryoSPARC
MODEL REFINEMENT
Coot
MODEL REFINEMENT
ISOLDE
Image Processing
CTF Correction Type
CTF Correction Details
Number of Particles Selected
Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION
2178814
Particle picking was performed initially using blob picker. After initial, on-the-fly processing in CryoSparc Live, templates were generated for subsequent template-based picking.