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Icosahedrally averaged capsid of empty particle of bacteriophage P68
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6IAT
Sample Staphylococcus phage P68 Sample Components Major capsid protein Arstotzka protein
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blot time 2s; blot force -2; 3.6 ul of sample
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 8580 Reported Resolution (Å) 3.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry I
Map-Model Fitting and Refinement Id 1 (6IAT) Refinement Space REAL Refinement Protocol AB INITIO MODEL Refinement Target Overall B Value Fitting Procedure Details Reconstruction of the native P68 capsid was used as initial model
Data Acquisition Detector Type FEI FALCON II (4k x 4k) Electron Dose (electrons/Å**2) 21
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1 Maximum Defocus (nm) 3 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 75000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION EMAN2 2.1 IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND 4.0 MODEL FITTING Coot 0.8.8 MODEL REFINEMENT PHENIX dev:3042 INITIAL EULER ASSIGNMENT RELION 2.1 FINAL EULER ASSIGNMENT RELION 2.1 CLASSIFICATION RELION 2.1 RECONSTRUCTION RELION 2.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 10259 Manual selection in EMAN