ELECTRON MICROSCOPY

Sample

BK POLYOMAVIRUS

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details 6.5 SECONDS BLOT BEFORE PLUNGING IN LIQUID ETHAN
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 2237
Reported Resolution (Å) 7.6
Resolution Method ?
Other Details A HOMOLOGY MODEL OF THE BKPYV VP1 ASYMMETRIC UNIT BASED ON THE CRYSTAL STRUCTURE OF SV40 (PDB 1SVA) WAS BUILT USING THE SWISS-MODEL SERVER. THIS WAS THEN FITTED (AS A RIGID BODY) INTO A CORRESPONDING SEGMENT OF THE BKPYV CRYO-EM DENSITY MAP GENERATED USING UCSF CHIMERA. FLEXIBLE FITTING OF THE HOMOLOGY MODEL WAS THEN CARRIED OUT USING MDFF (TRABUCO ET AL. 10 2008). SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-3283. (DEPOSITION ID: 14117).
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space ?
Refinement Protocol OTHER
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details REFINEMENT PROTOCOL--HOMOLOGY MODEL
Data Acquisition
Detector Type GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å2) 40
Imaging Experiment
Date of Experiment 2014-12-15
Temprature (Kelvin)
Microscope Model FEI TECNAI F20
Minimum Defocus (nm) 600
Maximum Defocus (nm) 4800
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS ?
Imaging Mode BRIGHT FIELD
Specimen Holder Model .
Nominal Magnification 19000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
? CTFFIND3