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Cryo-EM structure of Gephyrin E domain filament interface
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7XDS
Sample Gephyrin E filament interface
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 120264 Reported Resolution (Å) 3.6 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (2FU3) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details itterative manual building in coot with realspace refinement in phenix
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 30
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 2500 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 96000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.4 IMAGE ACQUISITION EPU 2.12.1.2782REL CTF CORRECTION cryoSPARC 4.4 MODEL FITTING Coot 0.9.4 INITIAL EULER ASSIGNMENT cryoSPARC 4.4 FINAL EULER ASSIGNMENT cryoSPARC 4.4 CLASSIFICATION cryoSPARC 4.4 RECONSTRUCTION cryoSPARC 4.4 MODEL REFINEMENT PHENIX 1.21-5207
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 6400000