EMD-2301 Experiments and Validation

Negative stain EM structure of TcdA1 in pore state

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

Map parameters

Minimum density: -0.02
Maximum density: 0.16
Average density: 0
Standard deviation: 0.01
Recommended contour level: 0.04 (author)

Sample information

Sample name: TcdA1
Protein: TcdA1

Validation information

Experimental information

 

Image processing

Applied symmetry: C5
Software: Sparx
Number of particles: 1936
Reconstruction protocol: Projection Matching

Imaging

Session
Electron source: LAB6
Nominal CS (mm): 3.4
Nominal magnification: 50000.0
Defocus max (nm): 2
Defocus min (nm): 1.2
Holder model: JEOL
Acquisition
Number of images: 80

Specimen

Preparation
Specimen state: particle
Specimen concentration (mg/mL): 0.02
Buffer: 50 mM CAPS, mM NaCl, 0.05% Tween-20, 5% glycerol
Staining procedure: Grids with adsorbed Protein floated on 0.07% Uranyl Formate for 45 sec.
Specimen support: glow discharged 400 mesh copper grids with thin carbon support
Vitrification
Apparatus: NONE
Cryogen: NONE