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Cryo-EM Structure for the Ectodomain of the Full-length Human Insulin Receptor in Complex with 1 Insulin.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6PXV
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 18.222 f_angle_d 0.995 f_chiral_restr 0.058 f_bond_d 0.007 f_plane_restr 0.006
Sample Human Insulin Receptor Complexed with 1 Insulin Sample Components Insulin receptor Insulin
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK III Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 1162871 Reported Resolution (Å) 4.1 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (6PXV, 6PXV, 6PXV) 2 (6PXV, 6PXV, 6PXV) Refinement Space REAL REAL Refinement Protocol FLEXIBLE FIT FLEXIBLE FIT Refinement Target Correlation coefficient Correlation coefficient Overall B Value 75 90 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 QUANTUM (4k x 4k) GATAN K2 QUANTUM (4k x 4k) GATAN K2 QUANTUM (4k x 4k) Electron Dose (electrons/Å**2) 50 50 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 700 Maximum Defocus (nm) 2700 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 105000 Calibrated Magnification 43796 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION EMAN2 2.21a PARTICLE SELECTION RELION 2.1 IMAGE ACQUISITION SerialEM 3.6 CTF CORRECTION Gctf 1.06 MODEL FITTING UCSF Chimera 1.11.2 MODEL FITTING Coot 0.9 INITIAL EULER ASSIGNMENT cryoSPARC 0.6.5 FINAL EULER ASSIGNMENT RELION 3.0.7 CLASSIFICATION RELION 3.0.7 RECONSTRUCTION RELION 3.0.7 MODEL REFINEMENT PHENIX 1.16 MODEL FITTING UCSF Chimera 1.11.2 MODEL FITTING Coot 0.9 MODEL REFINEMENT PHENIX 1.16
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 2069212 Particle picking was done using EMAN2. 2D classifications were done in Relion 2.1 and good classes were selected.