3JCP | pdb_00003jcp

Structure of yeast 26S proteasome in M2 state derived from Titan dataset

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4CR2

Sample
yeast 26S proteasome in M2 state
Sample Components
26S proteasome

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	25151
Reported Resolution (Å)	4.6
Resolution Method	FSC 0.143 CUT-OFF
Other Details	The particles were selected in RELION and manually checked. 3D classification and refinement were performed in RELION. Single particle--Applied symmetry: C1
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (4CR2)
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target
Overall B Value
Fitting Procedure
Details	REFINEMENT PROTOCOL--rigid body DETAILS--The domains were separately fitted in chimera and then manual checked in Coot. The final model is refined with Phenix.

Data Acquisition
Detector Type	FEI FALCON II (4k x 4k)
Electron Dose (electrons/Å**2)

Imaging Experiment	1
Date of Experiment	2015-11-02
Temperature (Kelvin)	100
Microscope Model	FEI TITAN KRIOS
Minimum Defocus (nm)	1.5
Maximum Defocus (nm)	2.5
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2.7
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification	75000
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

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

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