ELECTRON MICROSCOPY

Sample

Complex between T5 Receptor Binding Protein pb5 and its E. coli receptor FhuA, stabilized with detergent

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details 3.5 microliters of the FhuA-pb5 complex were deposited on a freshly glow discharged (25 mA, 30 sec) Cu/Rh 400 mesh Quantifoil R 2/1 EM grids and flash-frozen in nitrogen-cooled liquid ethane using a ThermoFisher Mark IV Vitrobot device (100% humidity, 293.15K, 2s blotting time, blot force 1).
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 109350
Reported Resolution (Å) 2.6
Resolution Method FSC 0.143 CUT-OFF
Other Details ?
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol AB INITIO MODEL
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details The pb5 protein model was built de novo in the cryo-electron microscopy map. FhuA was adapted from the FhuA structure solved by X-ray crystallography (PDB 2GRX). The two structures were first refined separately using Coot (version 0.9.2) and Phenix (version 1.18.2-3874) softwares, then together. Structure validation was done using MolProbity.
Data Acquisition
Detector Type GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å2) 60
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) 1200
Maximum Defocus (nm) 2600
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 130000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details calibrated pixel size = 1.052
Imaging Experiment
Task Software Package Version
IMAGE ACQUISITION EPU ?
CTF CORRECTION Gctf ?
MODEL FITTING UCSF Chimera ?
MODEL REFINEMENT Coot 0.9.2
MODEL REFINEMENT PHENIX 1.18.2-3874
CLASSIFICATION RELION 3
RECONSTRUCTION RELION 3
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?
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