EMD-5513 Experiments and Validation

Structure of late pre-60S ribosomal subunits with nuclear export factor Arx1 bound at the peptide exit tunnel

Single particle reconstruction
Overview of EMD-5513
Sample name: pre-60S particle
Organisms: Saccharomyces cerevisiae, Homo sapiens
Fitted atomic model: 3j2i

Map parameters

Recommended contour level: 0.50 (emdb)
Number of grid points: 368 × 368 × 368
Voxel size: 1.24 × 1.24 × 1.24 Å
Minimum density: -1.016
Maximum density: 3.016
Average density: -0.003
Standard deviation: 0.214

Sample information

Sample name: pre-60S particle
Protein: Proliferation-associated protein 2G4
Ribosome: Pre-60S particle

Validation information

Experimental information

 

Image processing

Applied symmetry: C1
Software: Signature, Spider, Chimera
Number of particles: 100000
Reconstruction protocol: Projection Matching
CTF correction: Subvolumes

Imaging

Session
Microscope model: FEI TITAN KRIOS
Electron source: FIELD EMISSION GUN
Electron dose (e/A**2): 20.0
Holder model: FEI TITAN KRIOS AUTOGRID HOLDER

Specimen

Preparation
Specimen state: particle
Buffer: 50 mM Tris-HCl, pH 7.5, 100 mM NaCl, 1.5 mM or 5 mM MgCl2, 0.075% (v/v) NP-40
Vitrification
Apparatus: FEI VITROBOT MARK IV
Cryogen: ETHANE
Humidity: 95
Protocol: Blot for 2 seconds before plunging