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Structural characterization of mRNA-tRNA translocation intermediates (class 6 of the six classes)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2I2U
Sample Trp-tRNA-EFTu-GDP-kir-70S ribosome
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK I Cryogen Name NITROGEN Sample Vitrification Details Blot for 3 seconds, plunge into liquid nitrogen (Vitrobot)
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 37000 Reported Resolution (Å) 11.5 Resolution Method FSC 0.5 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (2I2U) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target RMSD, cross correlation Overall B Value Fitting Procedure Details REFINEMENT PROTOCOL--Molecular Dynamics based flexible fitting
Data Acquisition Detector Type TVIPS TEMCAM-F415 (4k x 4k) Electron Dose (electrons/Å**2) 25
Imaging Experiment 1 Date of Experiment 2011-05-01 Temperature (Kelvin) 80.7 Microscope Model FEI TECNAI F30 Minimum Defocus (nm) 1200 Maximum Defocus (nm) 4000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.26 Imaging Mode BRIGHT FIELD Specimen Holder Model OTHER Nominal Magnification 59000 Calibrated Magnification 58269 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details automated data collection system AutoEMation (CCD mag. 100000x)
EM Software Task Software Package Version MODEL FITTING MDFF RECONSTRUCTION SPIDER RECONSTRUCTION Xmipp
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details Volumes were CTF-corrected in defocus groups