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HER2/ErbB2 extracellular domain (ECD) from a near full-length construct solubilized in amphipols.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5MY6
Sample HER2/ErbB2 extracellular domain (ECD) from a near full-length construct solubilized in amphipols.
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 364430 Reported Resolution (Å) 3.77 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (5MY6) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Cross-correlation coefficient Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 72.3
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2400 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 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version MODEL FITTING UCSF Chimera FINAL EULER ASSIGNMENT cryoSPARC CLASSIFICATION cryoSPARC CLASSIFICATION Xmipp RECONSTRUCTION cryoSPARC MODEL REFINEMENT Coot 0.9.6 MODEL REFINEMENT PHENIX 1.21.1_5286 MODEL REFINEMENT RosettaEM 2024.09+release.06b3cf8ad0
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 5437963