EMD-5764 Experiments and Validation

A new topology of the HK97-like fold revealed in Bordetella bacteriophage by cryoEM at 3.5A resolution

Single particle reconstruction
Overview of EMD-5764
Sample name: Bordetella bacteriophage
Organism: Bordetella phage BPP-1
Fitted atomic model: 3j4u
Related EM entry by publication: EMD-5766, EMD-5765

Map parameters

Minimum density: -0.05
Maximum density: 0.105
Average density: -0.005
Standard deviation: 0.01
Recommended contour level: 0.025 (author)

Sample information

Sample name: Bordetella bacteriophage
Virus: Bordetella phage BPP-1

Validation information

Experimental information

 

Image processing

Applied symmetry: I
Software: eLite3D, Frealign
Number of particles: 39549
Number of class averages: 1
Reconstruction protocol: projection matching
CTF correction: Each particle

Imaging

Session
Microscope model: FEI TITAN KRIOS
Electron source: FIELD EMISSION GUN
Electron dose (e/A**2): 25.0
Nominal CS (mm): 2.70
Nominal magnification: 59000.0
Defocus max (nm): 2,300.00
Defocus min (nm): 800.00
Holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Acquisition
Number of images: 895
Scanner model: NIKON SUPER COOLSCAN 9000
Sampling interval (μm): 6.3499999999999996

Specimen

Preparation
Specimen state: particle
Buffer: 50 mM Tris-HCl, 250 mM NaCl
Specimen support: 400 mesh holey carbon film
Vitrification
Apparatus: FEI VITROBOT MARK IV
Cryogen: ETHANE
Humidity: 100