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I53-50 nanoparticle core reconstructed from GPC-I53-50NP by focused refinement
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6P6F
Sample I53-50 nanoparticle core recovered from GPC-I53-50 nanoparticle
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Blot time 4s, Wait time 10s, Blot force 0
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 86411 Reported Resolution (Å) 3.67 Resolution Method FSC 0.143 CUT-OFF Other Details Icosahedral symmetry imposed for refinement. Solvent mask around the nanoparticle core used for refinement. Refinement Type Symmetry Type POINT Point Symmetry I
Map-Model Fitting and Refinement Id 1 (6P6F) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 50.4
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 600 Maximum Defocus (nm) 1600 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 29000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 2 IMAGE ACQUISITION Leginon CTF CORRECTION Gctf MODEL FITTING UCSF Chimera INITIAL EULER ASSIGNMENT RELION 3.0 FINAL EULER ASSIGNMENT RELION 3.0 CLASSIFICATION RELION 3.0 RECONSTRUCTION RELION 3.0 MODEL REFINEMENT RosettaEM MODEL REFINEMENT Coot
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 145508 Template picker