4V69 | pdb_00004v69

Ternary complex-bound E.coli 70S ribosome.

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2I2U
experimental model	PDB	2I2V
experimental model	PDB	2J00
experimental model	PDB	1OB2

Sample
E. coli ribosome in complex with the ternary complex EF-Tu aminoacyl-tRNA GDP

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK I
Cryogen Name	ETHANE
Sample Vitrification Details	Vitrification using FEI Vitrobot; blot 3 seconds before plunging with an offset of -1mm

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	131599
Reported Resolution (Å)	6.7
Resolution Method
Other Details	see LeBarron et al., JSB 164 (2008) 24-32.
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (2I2U, 2I2V, 2J00, 1OB2)
Refinement Space	REAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target	Cross correlation, root-mean square deviation
Overall B Value
Fitting Procedure
Details	METHOD--See Trabuco et al., Structure 16 (2008) 673-683. REFINEMENT PROTOCOL--Flexible fitting

Data Acquisition
Detector Type	KODAK SO-163 FILM
Electron Dose (electrons/Å**2)	20

Imaging Experiment	1
Date of Experiment	2006-08-31
Temperature (Kelvin)	84
Microscope Model	FEI POLARA 300
Minimum Defocus (nm)	4520
Maximum Defocus (nm)	1200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	59000
Calibrated Magnification	58279
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
MODEL FITTING	MDFF
RECONSTRUCTION	SPIDER

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
	Correction of reconstruction of each defocus group