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Immature TBEV envelope spike with interaction partners underneath - SPA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8PUV
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 4.566 f_angle_d 0.55 f_chiral_restr 0.046 f_bond_d 0.005 f_plane_restr 0.003
Sample Tick-borne encephalitis virus
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 552993 Reported Resolution (Å) 3.57 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (8PUV) Refinement Space REAL Refinement Protocol OTHER Refinement Target Cross correlation coefficient Overall B Value 37.8 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 44
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 3000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION crYOLO 1.8 IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4 MODEL FITTING UCSF ChimeraX 1.8 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 5.0 RECONSTRUCTION RELION 5.0 MODEL REFINEMENT PHENIX 1.21_5207
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY