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Inner membrane ring and secretin N0 N1 domains of the type 3 secretion system of Shigella flexneri
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6RWK
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 18.475 f_angle_d 0.508 f_chiral_restr 0.043 f_bond_d 0.003 f_plane_restr 0.003
Sample Needle complex of the type 3 secretion system Sample Components Inner membrane ring Connector
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 90547 Reported Resolution (Å) 3.34 Resolution Method FSC 0.143 CUT-OFF Other Details Focused reconstruction Refinement Type Symmetry Type POINT Point Symmetry C8
Map-Model Fitting and Refinement Id 1 (6RWK) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 67 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 101179 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND 4.1.13 MODEL FITTING UCSF Chimera 1.15 MODEL REFINEMENT PHENIX 1.18.2_3874 INITIAL EULER ASSIGNMENT RELION 3.0 FINAL EULER ASSIGNMENT RELION 3.0 RECONSTRUCTION RELION 3.0
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION