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Cryo-EM structure of mouse Elp123 with bound SAM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6QK7
Sample Mouse Elp123 with bound SAM
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details 15 s wait time, blot force 5, 5 s blot time
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 42894 Reported Resolution (Å) 4.01 Resolution Method FSC 0.143 CUT-OFF Other Details Declared resolution for the post-process filtered map Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (6QK7) Refinement Space Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details After initial rigid body fit, further fitting was done using NAMDINATOR with manual corrections in COOT
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 900 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 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC v3.2.0 IMAGE ACQUISITION EPU 2.10 CTF CORRECTION cryoSPARC v3.2.0 MODEL FITTING UCSF ChimeraX INITIAL EULER ASSIGNMENT cryoSPARC v3.2.0 FINAL EULER ASSIGNMENT RELION 3.1 CLASSIFICATION RELION 3.1 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 185923 given number of particles is after TOPAZ picking, 2D cleaning and duplicate removal