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Human erythrocyte catalase with CTAB as additive during EM sample preparation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DGF
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 4.748 f_angle_d 0.636 f_chiral_restr 0.05 f_bond_d 0.006 f_plane_restr 0.005
Sample Catalase purified from human erythrocytes
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Blot force, 0
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 153336 Reported Resolution (Å) 2.7 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry D2
Map-Model Fitting and Refinement Id 1 (1dgf) Refinement Space REAL Refinement Protocol OTHER Refinement Target Overall B Value 81.25 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 40.6
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1800 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 130000 Calibrated Magnification 47619 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 3.1 IMAGE ACQUISITION EPU CTF CORRECTION Gctf 1.06 CTF CORRECTION RELION 3.1 MODEL FITTING UCSF Chimera 1.15 MODEL FITTING Coot 0.9.5 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT PHENIX 1.15 MODEL REFINEMENT REFMAC 5.8.0411
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION