4V70 | pdb_00004v70

E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate pre-translocation state (pre3)

ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3I1O
experimental model	PDB	2K4C
experimental model	PDB	2HGP
experimental model	PDB	2WRI

Sample
E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	HOMEMADE PLUNGER
Cryogen Name	ETHANE
Sample Vitrification Details	Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjust ...	Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	2648
Reported Resolution (Å)	17
Resolution Method	FSC 0.5 CUT-OFF
Other Details	Final maps were calculated from 13 datasets acquired at different time points, computationally sorted into distinct substates.
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (3I1O, 2K4C, 2HGP, 2WRI)
Refinement Space	REAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target	Cross-correlation coefficient
Overall B Value
Fitting Procedure
Details	METHOD--Cross-correlation gradient based REFINEMENT PROTOCOL--flexible fitting, dynamic elastic network

Data Acquisition
Detector Type	GENERIC TVIPS (4k x 4k)
Electron Dose (electrons/Å**2)	20

Imaging Experiment	1
Date of Experiment	2008-05-11
Temperature (Kelvin)	77
Microscope Model	FEI/PHILIPS CM200FEG
Minimum Defocus (nm)	500
Maximum Defocus (nm)	2000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	GATAN LIQUID NITROGEN
Nominal Magnification	161000
Calibrated Magnification	162740
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	160
Imaging Details	Objective lens astigmatism was corrected at 200,000 times magnification

EM Software
Task	Software Package	Version
MODEL FITTING	DireX
RECONSTRUCTION	Custom
RECONSTRUCTION	IMAGIC
RECONSTRUCTION	SPIDER

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

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.