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Native flagellar filament from Leptospira interrogans flaB1- KO mutant strain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details integrative model Other
Sample native endoflagellar filament
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 53501 Reported Resolution (Å) 4.3 Resolution Method FSC 0.143 CUT-OFF Other Details Further Density Modification with Phenix Resolve increased resolution to 4.2 angstroems and better resolved features in the cryoEM map Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 Refinement Space RECIPROCAL Refinement Protocol FLEXIBLE FIT Refinement Target cross-correlation coefficient Overall B Value Fitting Procedure Details iterative refinement was done in reciprocal and real space, using servalcat and phenix.real_space_refine respectively
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 61.5
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1500 Maximum Defocus (nm) 2600 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC MODEL FITTING Coot 1.1.19 MODEL FITTING UCSF ChimeraX 1.10.1 MODEL REFINEMENT PHENIX 2.0-5936 MODEL REFINEMENT Servalcat 0.4.128 INITIAL EULER ASSIGNMENT cryoSPARC FINAL EULER ASSIGNMENT cryoSPARC RECONSTRUCTION cryoSPARC 4.2.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION