3J5S | pdb_00003j5s

EttA binds to ribosome exit site and regulates translation by restricting ribosome and tRNA dynamics

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3R8O
experimental model	PDB	3R8T
experimental model	PDB	2WDG
experimental model	PDB	4FIN

Sample
E. coli 70S ribosome complex 70S-(EttA-EQ2)-(fMet-tRNA)-(Phe-tRNA)
Sample Components
70S ribosome
Energy-dependent Translational Throttle A (EttA)
fMet-tRNA
Phe-tRNA

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details	Wait time 30 sec, blot time 8 sec (4 C), plunge into liquid ethane (FEI VITROBOT MARK IV)

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	39316
Reported Resolution (Å)	7.5
Resolution Method	FSC 0.143 CUT-OFF
Other Details	Subset after RELION 3D classification
Refinement Type	HALF-MAPS REFINED INDEPENDENTLY
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	Refinement Space	Refinement Protocol	Refinement Target	Overall B Value	Fitting Procedure	Details
1 (3R8O)	REAL	FLEXIBLE FIT	Cross-correlation coefficient			REFINEMENT PROTOCOL--FLEXIBLE DETAILS--Protocol- Molecular dynamics flexible fitting
2 (3R8T)	REAL	FLEXIBLE FIT	Cross-correlation coefficient			REFINEMENT PROTOCOL--FLEXIBLE DETAILS--Protocol- Molecular dynamics flexible fitting
3 (2WDG, 2WDG)	REAL	FLEXIBLE FIT	Cross-correlation coefficient			REFINEMENT PROTOCOL--FLEXIBLE DETAILS--Protocol- Molecular dynamics flexible fitting
4 (4FIN)	REAL	FLEXIBLE FIT	Cross-correlation coefficient			REFINEMENT PROTOCOL--FLEXIBLE DETAILS--Matched the apo-EttA model (derived from PDB ENTRY 4FIN) to CFTR NBD1 (PDB ENTRY 2PZE) to model the ATP-bound form of EttA. Protocol- Molecular dynamics flexible fitting

Data Acquisition
Detector Type	GATAN ULTRASCAN 4000 (4k x 4k)
Electron Dose (electrons/Å**2)	17

Imaging Experiment	1
Date of Experiment	2013-04-05
Temperature (Kelvin)	80
Microscope Model	FEI TECNAI F20
Minimum Defocus (nm)	1200
Maximum Defocus (nm)	2500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	GATAN LIQUID NITROGEN
Nominal Magnification	80000
Calibrated Magnification	110637
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	200
Imaging Details

EM Software
Task	Software Package	Version
MODEL FITTING	NAMD
RECONSTRUCTION	RELION
RECONSTRUCTION	SPIDER

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
	Each micrograph