4V5Z

ELECTRON MICROSCOPY

Sample

40S ribosomal subunit in the 80S ribosome-channel complex

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument HOMEMADE PLUNGER
Cryogen Name ETHANE
Sample Vitrification Details plunge freezing with a custom apparatus at 4C and RH greater than 90 percent
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 78800
Reported Resolution (Å) 8.7
Resolution Method ?
Other Details Refinements done in EMAN
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol RIGID BODY FIT
Refinement Target Rigid body fitting and best visual fit using the program O for RNA. For the proteins DOPE score and other statistical techniques were used to evaluate the best fold and a local exhaustive exploration of Euler angles was used to evaluate the best fit into the density.
Overall B Value ?
Fitting Procedure ?
Details REFINEMENT PROTOCOL--Rigid body
Data Acquisition
Detector Type KODAK SO-163 FILM
Electron Dose (electrons/Å2) 15
Imaging Experiment
Date of Experiment 2002-04-01
Temprature (Kelvin)
Microscope Model FEI TECNAI F20
Minimum Defocus (nm) 1100
Maximum Defocus (nm) 4400
Minimum Tilt Angle (degrees) 0
Maximum Tilt Angle (degrees) 0
Nominal CS 2
Imaging Mode BRIGHT FIELD
Specimen Holder Model ?
Nominal Magnification 50000
Calibrated Magnification 51000
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details ?
Imaging Experiment
Task Software Package Version
CTF CORRECTION CTFFIND 3
MODEL FITTING Insight II ?
MODEL FITTING Mod-EM ?
MODEL FITTING MODPIPE ?
MODEL FITTING O ?
MODEL FITTING RSRef ?
RECONSTRUCTION RELION ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
. CTF correction using phase flipping and setsf in EMAN to correct the amplitudes