ELECTRON MICROSCOPY Experimental Data



Virus Particulars
Virus Host Category Virus Host Species Virus Host Growth Cell Virus Type Virus Isolate ICTVDB ID
ALGAE paramecium bursaria chlorella -- ALGAE -- --
EM Sample
Sample pH 7.0
Sample Support Details electron microscopy grid - in vitrious ice
Sample Vitrification Details frozen in liquid propane
Sample Aggregation State PARTICLE
Name of Sample PBCV-1 virus capsid
Sample Details T=169d quasi-symmetric icosahedron.
EM Data Acquisition
Date of Experiment --
Num of Micrographs-Images Used --
Temperature (Kelvin) 100.0
Microscope Model FEI/PHILIPS CM200FEG/ST
Detector Type KODAK SO163 FILM
Minimum Defocus (nm) --
Maximum Defocus (nm) --
Minimum Tilt Angle (degrees) 0.0
Maximum Tilt Angle (degrees) 0.0
Nominal CS --
Imaging Mode --
Electron Dose (electrons nm**-2) --
Illumination Mode --
Nominal Magnification --
Calibrated Magnification --
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details --
3D Reconstruction
Software Package(s)
Reconstruction Method polar fourier transform.
EM Image Reconstruction Statistics
Effective Resolution 28.0
CTF Correction Method inverse of CTF was applied to images
Other Details used Tim Baker's programs PFT, EM3DR, etc.
EM Map-Model Fitting and Refinement
Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Fitting Software
REAL rigid body -rigid body refinement in real space against Lagrangian filtered EM density, using the program SITUS.Each molecule in the icosahedral ASU was refined separately. -- 6d search, separately for each symmetry related molecule in the icosahedral ASU. SITUS