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FimA type V pilus from P.gingivalis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6JZJ
Sample Type V pilus (FimA)
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE-PROPANE Sample Vitrification Details 3 second blot, 3.0uL
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 61728 Reported Resolution (Å) 3.6 Resolution Method FSC 0.143 CUT-OFF Other Details independent Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (6JZJ) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target CC Overall B Value 128 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 46
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TALOS ARCTICA Minimum Defocus (nm) -1500 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 92000 Calibrated Magnification 125000 Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details nanoprobe, parallel beam illumination
EM Software Task Software Package Version IMAGE ACQUISITION EPU 2.1.0 CTF CORRECTION CTFFIND 4.1 MODEL FITTING Coot 0.8.9 INITIAL EULER ASSIGNMENT cisTEM 1.0.1-beta FINAL EULER ASSIGNMENT cisTEM 1.0.1-beta CLASSIFICATION cisTEM 1.0.1 RECONSTRUCTION cisTEM 1.0.1-beta MODEL REFINEMENT PHENIX 1.14-3260
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 831459