Virus Particulars
Virus Host Category Virus Host Species Virus Host Growth Cell Virus Type Virus Isolate ICTVDB ID
VERTEBRATES Oryctolagus cuniculus -- VERTEBRATES STRAIN --
EM Sample
Sample pH 7.0
Sample Support Details 200 mesh copper grid with holey array carbon support (GiG), glow discharged
Sample Vitrification Details Blot for 3 seconds before plunging into liquid ethane.
Sample Aggregation State PARTICLE
Name of Sample Wild Rabbit Hemorrhagic Disease Virus (strain HYD)
EM Data Acquisition
Date of Experiment 22-JAN-2011
Num of Micrographs-Images Used --
Temperature (Kelvin) 85.0
Microscope Model FEI TITAN KRIOS
Detector Type Gatan UltraScan4000
Minimum Defocus (nm) 1500.0
Maximum Defocus (nm) 2500.0
Minimum Tilt Angle (degrees) 0.0
Maximum Tilt Angle (degrees) 0.0
Nominal CS 2.7
Electron Dose (electrons nm**-2) 2000.0
Illumination Mode FLOOD BEAM
Nominal Magnification 96000
Calibrated Magnification 160770
Acceleration Voltage (kV) 300
Imaging Details --
3D Reconstruction
Software Package(s) EMAN1.9, Spider
Reconstruction Method Projection matching and Fourier reconstruction
EM Image Reconstruction Statistics
Number of Particles 26000
Nominal Pixel Size 0.933
Actual Pixel Size 0.933
Effective Resolution 6.5
CTF Correction Method CTF correction of each whole micrograph
EM Reconstruction Magnification Callibration cross gating and interpolation
Other Details The final map was sharpened to 4.5 Angstrom with B factor -300 and then filtered to 5.0 Angstrom (details about the particle: the particles were selected using an automatic selection program FindEM).
EM Map-Model Fitting and Refinement
Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Fitting Software
REAL Manual building of NTA domain -- -- -- Coot
REAL symmetry restrained molecular dynamics flexible fitting -- -- -- Chimera
REAL symmetry restrained molecular dynamics flexible fitting -- -- -- Chimera