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Cryo-EM structure of the flagellar hook of Campylobacter jejuni
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5AZ4
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument GATAN CRYOPLUNGE 3 Cryogen Name ETHANE Sample Vitrification Details blotting from both side, Whatman #40 filter paper, 25 seconds blot time
3D Reconstruction Reconstruction Method HELICAL Number of Particles 49884 Reported Resolution (Å) 3.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 4.185 Angular Rotation 64.34
Map-Model Fitting and Refinement Id 1 (5AZ4) Refinement Space REAL Refinement Protocol BACKBONE TRACE Refinement Target CC Overall B Value 120 Fitting Procedure Details side chains included, default parameters
Data Acquisition Detector Type FEI FALCON II (4k x 4k) Electron Dose (electrons/Å**2) 2.4
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN 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 79000 Calibrated Magnification 105000 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details parallel illumination
EM Software Task Software Package Version PARTICLE SELECTION e2helixboxer.py 2.12 IMAGE ACQUISITION Leginon 3.1 CTF CORRECTION ctffind3 3.5 CTF CORRECTION CTFTILT 1.7 MODEL FITTING Coot 0.8.3 MODEL FITTING O 14.0 INITIAL EULER ASSIGNMENT segclassreconstruct 0.83 FINAL EULER ASSIGNMENT segrefine3d 0.83 CLASSIFICATION segmentclass 0.83 RECONSTRUCTION segrefine3d 0.83 MODEL REFINEMENT PHENIX 1.9-1692
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY SPRING v0.83 70477