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Cryo-EM structure of a 2:1 ALK:ALKAL2 complex obtained after re-processing of EMPIAR-10930 data
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7N00
Sample Cryo-EM structure of a 2:1 ALK:ALKAL2 complex obtained after re-processing of EMPIAR-10930 data
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details QUANTIFOIL R1.2/1/3 gold 300 mesh grids without glow-discharge, blotting time 3 sec., blotting force -5.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 142986 Reported Resolution (Å) 3.2 Resolution Method FSC 0.143 CUT-OFF Other Details Final 3D refinement was performed in Relion v5 with enabled Blush Regularization. Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (7N00) Refinement Space REAL Refinement Protocol OTHER Refinement Target Overall B Value Fitting Procedure Details Rigid-body fitting in Chimera was followed by manual building in Coot and refinement using Phenix real-space refine and Refmac-Servalcat.
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 81
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 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details SerialEM coma-free alignment
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 3.3.1 CTF CORRECTION cryoSPARC 3.3.1 MODEL FITTING UCSF Chimera INITIAL EULER ASSIGNMENT cryoSPARC 4.5 FINAL EULER ASSIGNMENT cryoSPARC 4.5 CLASSIFICATION cryoSPARC 4.5 RECONSTRUCTION RELION 5 MODEL REFINEMENT PHENIX 1.19.2-4158 MODEL REFINEMENT REFMAC
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 18053705