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Structure of the Shigella MxiH needle filament attached to the basal body
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2MME
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.21 f_angle_d 0.609 f_chiral_restr 0.038 f_bond_d 0.007 f_plane_restr 0.006
Sample Needle filament of the type III secretion system
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE-PROPANE Sample Vitrification Details
3D Reconstruction Reconstruction Method HELICAL Number of Particles 19348 Reported Resolution (Å) 3.6 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 4.322 Angular Rotation 64.3
Map-Model Fitting and Refinement Id 1 (2MME) Refinement Space REAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON II (4k x 4k) Electron Dose (electrons/Å**2) 25
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1500 Maximum Defocus (nm) 4000 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 100000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND 4.0.17 MODEL FITTING UCSF Chimera 1.14 CLASSIFICATION RELION 3.0 RECONSTRUCTION RELION 3.0 MODEL REFINEMENT Coot 0.8.9.2 MODEL REFINEMENT PHENIX 1.17-3644
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 101369