3J0P | pdb_00003j0p

Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 10.6A cryo-em map: rotated PRE state 1

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2XZM
experimental model	PDB	3O58

Sample
Mammalian 80S-PRE complex in rotated 1 state

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK I
Cryogen Name	ETHANE
Sample Vitrification Details	Ethane / Vitrobot (FEI) flash-frozen in liquid ethane

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	22212
Reported Resolution (Å)	10.6
Resolution Method
Other Details	PROJECTION MATCHING
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (2XZM, 3O58)	2
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target
Overall B Value
Fitting Procedure
Details	METHOD--LOCAL RIGID BODY DOCKING REFINEMENT PROTOCOL--RIGID BODY DOCKING DETAILS--RIGID BODY DOCKING CARRIED OUT WITH THE CHIMERA SOFTWARE PACKAGE DETAILS--40S	DETAILS--60S

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

Imaging Experiment	1
Date of Experiment	2006-10-17
Temperature (Kelvin)	77
Microscope Model	FEI POLARA 300
Minimum Defocus (nm)	2000
Maximum Defocus (nm)	4000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	39000
Calibrated Magnification	65520
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details	LOW DOSE

EM Software
Task	Software Package	Version
MODEL FITTING	UCSF Chimera
RECONSTRUCTION	SPIDER

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
	CTF CORRECTION OF EACH DEFOCUS GROUP VOLUME PRIOR TO BACK PROJECTION