ELECTRON MICROSCOPY

Sample

S-layer

Specimen Preperation
Sample Aggregation State CELL
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name NITROGEN
Sample Vitrification Details 1.5 s blot
3D Reconstruction
Reconstruction Method SUBTOMOGRAM AVERAGING
Number of Particles 51866
Reported Resolution (Å) 4.8
Resolution Method FSC 0.143 CUT-OFF
Other Details Tomogram generation in IMOD using the NovaCTF implementation of Turonova and Briggs. Sub-tomogram averaging performed using the AV3 package (Friedrich Foerster) applied to tubular specimens (Bharat et al, PLoS Biology, 2011)
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol RIGID BODY FIT
Refinement Target USCF Chimera
Overall B Value ?
Fitting Procedure ?
Details Initial rigid body fit of the C-terminal X-ray structure (PDB: 5N8P, amino acids 249-1046) and the N-terminal cryo-EM structure (PDB: 6T72, amino acids 2-243) was performed in USCF Chimera. The missing amino acid linker was manually added suing Coot. The model was not refined against the map and all B-factors were set to zero due to resolution anisotropy.
Data Acquisition
Detector Type GATAN K2 QUANTUM (4k x 4k)
Electron Dose (electrons/Å2) 3.4
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) -2000
Maximum Defocus (nm) -5000
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 105000
Calibrated Magnification 105000
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details ?
Imaging Experiment
Task Software Package Version
VOLUME SELECTION RELION 1.4
IMAGE ACQUISITION SerialEM ?
MODEL FITTING UCSF Chimera 1.13
MODEL FITTING Coot 0.9-pre
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION Following Turonova and Briggs NovaCTF