3J9S

Single particle cryo-EM structure of rotavirus VP6 at 2.6 Angstrom resolution


ELECTRON MICROSCOPY
Sample
Bovine rotavirus VP6
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK II
Cryogen NameETHANE
Sample Vitrification DetailsBlot for 4-6 seconds before plunging into liquid ethane (FEI VITROBOT MARK II).
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles4000
Reported Resolution (Å)2.6
Resolution MethodFSC 0.143 CUT-OFF
Other DetailsFinal map is a 13-fold average of VP6 trimers from the asymmetric unit of the reconstruction of the whole capsid. Data at resolutions higher than 15A ...Final map is a 13-fold average of VP6 trimers from the asymmetric unit of the reconstruction of the whole capsid. Data at resolutions higher than 15A were not used for alignments.
Refinement Type
Symmetry TypePOINT
Point SymmetryI
Map-Model Fitting and Refinement
Id1 (1QHD)
Refinement SpaceREAL
Refinement ProtocolFLEXIBLE FIT
Refinement Target
Overall B Value
Fitting Procedure
DetailsREFINEMENT PROTOCOL--flexible DETAILS--Model was refined by real space refinement using COOT and all restraints.
Data Acquisition
Detector TypeGATAN K2 (4k x 4k)
Electron Dose (electrons/Å**2)100
Imaging Experiment1
Date of Experiment2014-08-13
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)400
Maximum Defocus (nm)2000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification29000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
MODEL FITTINGCoot
MODEL FITTINGCoot
RECONSTRUCTIONFREALIGN
RECONSTRUCTIONIMAGIC
RECONSTRUCTIONTIGRIS
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
each particle