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Structure of a partial yeast 48S preinitiation complex in closed conformation
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3J81 experimental model PDB 3CW2 experimental model PDB 2D74 experimental model PDB 4U1C experimental model PDB 4U1D experimental model PDB 4U1E
Sample Partial yeast 48S preinitiation complex Sample Components 40S ribosome Eukaryotic initiation factor eIF1A Eukaryotic initiation factor eIF2 Eukaryotic initiation factor eIF1 Eukaryotic initiation factor eIF3 Met-tRNAi mRNA
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK I Cryogen Name ETHANE Sample Vitrification Details Blot for 2.5 to 3 seconds before plunging into liquid ethane (FEI VITROBOT MARK I).
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 21401 Reported Resolution (Å) 4.9 Resolution Method FSC 0.143 CUT-OFF Other Details gold-standard Refinement Type HALF-MAPS REFINED INDEPENDENTLY Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (3J81, 3CW2, 2D74, 4U1C, 4U1D, 4U1E) Refinement Space RECIPROCAL Refinement Protocol OTHER Refinement Target R-factor, FSC Overall B Value Fitting Procedure Details METHOD--Local refinement
Data Acquisition Detector Type FEI FALCON II (4k x 4k) Electron Dose (electrons/Å**2) 27
Imaging Experiment 1 Date of Experiment 2014-07-04 Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1500 Maximum Defocus (nm) 4000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 59000 Calibrated Magnification 104478 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details Complete dataset was collected over two non-consecutive days.
EM Software Task Software Package Version MODEL FITTING Coot MODEL FITTING REFMAC MODEL FITTING UCSF Chimera RECONSTRUCTION RELION
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details Each particle