7RU2

SARS-CoV-2-6P-Mut7 S protein (asymmetric)


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6VXX 

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
f_dihedral_angle_d10.054
f_angle_d1.775
f_chiral_restr0.117
f_bond_d0.021
f_plane_restr0.008
Sample
SARS-CoV-2 S protein with 6P-Mut7 stabilizing mutations
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details3 s blot time
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles55575
Reported Resolution (Å)3
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1 (6VXX)
Refinement SpaceREAL
Refinement ProtocolRIGID BODY FIT
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeGATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)50
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)500
Maximum Defocus (nm)1500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification29000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
IMAGE ACQUISITIONLeginon
CTF CORRECTIONGctf1.06
MODEL FITTINGUCSF Chimera
MODEL REFINEMENTRosetta
INITIAL EULER ASSIGNMENTRELION3.1
FINAL EULER ASSIGNMENTcryoSPARC3.2
CLASSIFICATIONRELION3.1
RECONSTRUCTIONcryoSPARC3.2
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION