EMD-1733 Experiments and Validation

Mechanism of Gate Opening in the 20S proteasome by the proteasomal ATPases

Single particle reconstruction
Overview of EMD-1733
Sample name: Thermoplasma acidophilum 20S proteasome
Organism: Thermoplasma acidophilum
Fitted atomic model: 3c91
Related EM entry by publication: EMD-1740

Map parameters

Recommended contour level: 2.50 (author)
Number of grid points: 144 × 144 × 144
Voxel size: 1.37 × 1.37 × 1.37 Å
Minimum density: -4.98
Maximum density: 9.018
Average density: 0.00
Standard deviation: 1.00

Sample information

Sample name: Thermoplasma acidophilum 20S proteasome
Protein: archaeal 20S proteasome

Validation information

Experimental information

 

Image processing

Applied symmetry: D7
Software: FREALIGN
Reconstruction protocol: Fourier space
CTF correction: each particle

Fitting

Fitting 1
Initial atomic model: 1ya7
Refinement space: REAL
Fitting 2
Initial atomic model: 1pma
Refinement space: REAL

Imaging

Session
Microscope model: FEI TECNAI F20
Electron source: FIELD EMISSION GUN
Nominal CS (mm): 2.00
Nominal magnification: 50000.0
Defocus max (nm): 3,500.00
Defocus min (nm): 1,500.00
Holder model: GATAN LIQUID NITROGEN
Acquisition
Scanner model: ZEISS SCAI
Sampling interval (μm): 7.0

Specimen

Preparation
Specimen state: particle
Specimen support: 400 mesh Quantifoil grid
Vitrification
Apparatus: FEI VITROBOT
Cryogen: NITROGEN
Details: Vitrification instrument: Vitrobot