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Mouse heavy chain apoferritin determined using single-particle cryo-EM at 200 keV
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3WNW
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 10.095 f_angle_d 0.91 f_chiral_restr 0.047 f_bond_d 0.007 f_plane_restr 0.007
Sample Heavy chain apoferritin from mouse
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument HOMEMADE PLUNGER Cryogen Name ETHANE Sample Vitrification Details 3 uL of sample/grid was manually blotted for 4 seconds prior to immediate plunge-freezing in liquid nitrogen-cooled ethane.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 241878 Reported Resolution (Å) 1.75 Resolution Method FSC 0.143 CUT-OFF Other Details A refined spherical aberration value of 2.8 mm was used for the final reconstruction Refinement Type Symmetry Type POINT Point Symmetry O
Map-Model Fitting and Refinement Id 1 (3WNW) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 39 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 58
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) 300 Maximum Defocus (nm) 1800 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 73000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION Leginon 3.2 CTF CORRECTION Gctf 1.06 MODEL FITTING UCSF Chimera 1.11.2 INITIAL EULER ASSIGNMENT RELION 3.0 FINAL EULER ASSIGNMENT RELION 3.0 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT PHENIX 1.14_3260
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 405106