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T33-Fus-1A cage - Designed tetrahedral protein cage based on helical fusion and machine learning
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 4.864 f_angle_d 0.599 f_chiral_restr 0.044 f_plane_restr 0.005 f_bond_d 0.003
Sample T33-Fus-1A cage - Designed tetrahedral protein cage based on helical fusion and machine learning
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE-PROPANE Sample Vitrification Details blotting 3 seconds, blot force 0
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 32793 Reported Resolution (Å) 3.61 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry T
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS GLACIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2200 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 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC v5.0.4 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC v5.0.4 MODEL FITTING UCSF ChimeraX 1.11.1 MODEL REFINEMENT PHENIX 1.21.2_5419 INITIAL EULER ASSIGNMENT cryoSPARC v5.0.4 FINAL EULER ASSIGNMENT cryoSPARC v5.0.4 CLASSIFICATION cryoSPARC v5.0.4 RECONSTRUCTION cryoSPARC v5.0.4
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION