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Structure of SelB-Sec-tRNASec bound to the 70S ribosome in the codon reading state (CR)
ELECTRON MICROSCOPY
Sample
Codon reading state of E. coli ribosome 70S-SelB-GDPNP-Sec-tRNASec-fMet-tRNAfmet-SECIS mRNA complex (CR)
Specimen Preparation
Sample Aggregation State
PARTICLE
Vitrification Instrument
FEI VITROBOT MARK IV
Cryogen Name
ETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction Method
SINGLE PARTICLE
Number of Particles
11658
Reported Resolution (Å)
4.8
Resolution Method
FSC 0.143 CUT-OFF
Other Details
Gold-standard refinement of independent half maps in Relion 1.3
Refinement Type
Symmetry Type
POINT
Map-Model Fitting and Refinement
Id
1
Refinement Space
Refinement Protocol
FLEXIBLE FIT
Refinement Target
Maximum likelihood
Overall B Value
Fitting Procedure
Details
For parts of the model exhibiting larger conformational differences and/or lower local map resolution, additional cycles of real space refinement and ...
For parts of the model exhibiting larger conformational differences and/or lower local map resolution, additional cycles of real space refinement and manual fitting were performed against experimental map filtered to lower resolution
Data Acquisition
Detector Type
FEI FALCON II (4k x 4k)
Electron Dose (electrons/Å**2)
30
Imaging Experiment
1
Date of Experiment
Temperature (Kelvin)
Microscope Model
FEI TITAN KRIOS
Minimum Defocus (nm)
700
Maximum Defocus (nm)
2600
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
0.001
Imaging Mode
BRIGHT FIELD
Specimen Holder Model
FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
59000
Calibrated Magnification
Source
FIELD EMISSION GUN
Acceleration Voltage (kV)
300
Imaging Details
Using a Cs-corrector from CEOS electron optical aberrations were corrected to residual phase errors of 45degree at scattering angles of >12 to 15 mrad.
EM Software
Task
Software Package
Version
MODEL REFINEMENT
Rosetta
3.5
MODEL REFINEMENT
Coot
0.8.3
MODEL REFINEMENT
RCrane
1.1
MODEL REFINEMENT
PHENIX
1.10.1 & developmental
MODEL REFINEMENT
PHENIX
1.10.1
RECONSTRUCTION
RELION
1.3
MODEL REFINEMENT
ERRASER
Image Processing
CTF Correction Type
CTF Correction Details
Number of Particles Selected
Particle Selection Details
PHASE FLIPPING ONLY
Local CTF correction, after MSA based classification and averaging of local power spectra
969526
969526 ribosome particles showing Thon rings better than 3.5A (see CTF correction)