EMD-2297 Experiments and Validation

Structure of TcdA1 in prepore state

Single particle reconstruction
Overview of EMD-2297
Sample name: TcdA1
Organism: Photorhabdus luminescens
Related EM entries by publication: EMD-2298, EMD-2299, EMD-2300, EMD-2301

Map parameters

Recommended contour level: 0.70 (author)
Number of grid points: 300 × 300 × 300
Voxel size: 1.25 × 1.25 × 1.25 Å
Minimum density: -1.076
Maximum density: 2.553
Average density: 0.018
Standard deviation: 0.128

Sample information

Sample name: TcdA1
Protein: TcdA1

Validation information

Experimental information

 

Image processing

Applied symmetry: C5
Software: Sparx
Number of particles: 45158
Reconstruction protocol: Projection matching
CTF correction: each particle

Imaging

Session
Microscope model: JEOL 3200FSC
Electron source: FIELD EMISSION GUN
Electron dose (e/A**2): 20.0
Energy filter: in-column Omega filter
Energy window (eV): 0.00
Nominal CS (mm): 4.10
Nominal magnification: 60000.0
Defocus max (nm): 2.40
Defocus min (nm): 0.50
Holder model: JEOL 3200FSC CRYOHOLDER
Acquisition
Number of images: 251

Specimen

Preparation
Specimen state: particle
Specimen concentration (mg/mL): 0.02
Buffer: 100 mM NaCl, 0.05% Tween-20, 50 mM MES , 5% glycerol
Specimen support: C-Flat 1.2/1.3-4C copper 400 mesh, with additional thin carbon support
Vitrification
Apparatus: GATAN CRYOPLUNGE 3
Cryogen: ETHANE
Humidity: 90
Protocol: Blot for 1 sec before plunging