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Vibrio cholerae competence pilus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model ITasser 1OQW
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 4.7252 f_angle_d 0.6387 f_chiral_restr 0.0526 f_plane_restr 0.0073 f_bond_d 0.0036
Sample Vibrio cholera PilA competence pilus rod
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE-PROPANE Sample Vitrification Details
3D Reconstruction Reconstruction Method HELICAL Number of Particles 22000 Reported Resolution (Å) 3.3 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 94.65 Angular Rotation 10.75
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol OTHER Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 600 Maximum Defocus (nm) 2000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 3.01 IMAGE ACQUISITION SerialEM 3-9-0beta7 CTF CORRECTION RELION 3.01 CTF CORRECTION CTFFIND 4.1 MODEL FITTING Coot 0.9.5 MODEL REFINEMENT PHENIX 1.19.2 CLASSIFICATION RELION 3.01 RECONSTRUCTION RELION 3.01
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION Filaments were manually selected as start-end coordinates in Relion and extracted as 300 px boxes with a 10 A overlap