EMD-2182 Experiments and Validation

Electron microscopy map of SOS1 antiporter

Single particle reconstruction
Overview of EMD-2182
Sample name: Antiporter SOS1
Organism: Arabidopsis thaliana
Related EM entry by publication: EMD-2181

Map parameters

Recommended contour level: 0.035 (author)
Number of grid points: 80 × 80 × 80
Voxel size: 3.30 × 3.30 × 3.30 Å
Minimum density: -0.05
Maximum density: 0.229
Average density: 0.002
Standard deviation: 0.02

Sample information

Sample name: Antiporter SOS1
Protein: Na+/H+ antiporter SOS1

Validation information

Experimental information

 

Image processing

Applied symmetry: C2
Software: XMIPP
Number of particles: 6300
Number of class averages: 96
Reconstruction protocol: 3D maximum likelihood
CTF correction: Each micrograph. Estimation using CTFFIND3 and correction using Bsoft

Imaging

Session
Microscope model: JEOL 2100
Electron source: LAB6
Electron dose (e/A**2): 15.0
Nominal CS (mm): 1.00
Nominal magnification: 20000.0
Defocus max (nm): 2,500.00
Defocus min (nm): 1,000.00
Tilt max (degrees): 0.00
Tilt min (degrees): 0.00
Holder model: JEOL
Acquisition
Number of images: 90

Specimen

Preparation
Specimen state: particle
Buffer: 50 mM phosphate buffer pH 8.5, 300 mM NaCl, 10% glycerol, 0.05% DDM, 250 mM imidazole
Staining procedure: Purified SOS1 was adsorbed to glow-discharged carbon coated grids and stained with 2% uranyl formate
Specimen support: 400 mesh carbon coated copper grid, glow discharged in moderate vacuum
Vitrification
Apparatus: NONE
Cryogen: NONE