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Local refinement of ankyrin-1 (C-terminal half), class 1 of erythrocyte ankyrin-1 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4YZF
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 4.546 f_angle_d 0.548 f_chiral_restr 0.038 f_plane_restr 0.005 f_bond_d 0.002
Sample Erythrocyte ankyrin-1 complex
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details 4-6 seconds, wait time 30 seconds.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 126197 Reported Resolution (Å) 3 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (4YZF) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 58
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 1500 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) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION Leginon CTF CORRECTION cryoSPARC 3 MODEL FITTING Coot 0.9.8 MODEL REFINEMENT PHENIX 1.20.1 INITIAL EULER ASSIGNMENT cryoSPARC 3 FINAL EULER ASSIGNMENT cryoSPARC 3 RECONSTRUCTION cryoSPARC 3
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION Patch CTF (cryoSPARC v3) followed by per particle defocus refinement and refinement of higher order aberrations (cryoSPARC v3)