5FLZ | pdb_00005flz

Cryo-EM structure of gamma-TuSC oligomers in a closed conformation

ELECTRON MICROSCOPY

Sample
RECOMBINANT YEAST GAMMA- TUSC MUTANT S58C G288C

Specimen Preparation
Sample Aggregation State	FILAMENT
Vitrification Instrument	FEI VITROBOT MARK I
Cryogen Name	ETHANE
Sample Vitrification Details	CRYOGEN- ETHANE, HUMIDITY- 90, INSTRUMENT- FEI VITROBOT MARK I, METHOD- BLOT FOR 2-5 SECONDS BEFORE PLUNGING,

3D Reconstruction
Reconstruction Method	HELICAL
Number of Particles
Reported Resolution (Å)	6.9
Resolution Method
Other Details	INITIAL MODELS WERE GENERATED WITH MODELER 9.15 BASED ON PDB ENTRIES 3RIP (FOR GCP2 AND GCP3) AND 3CB2 (FOR GAMMA TUBULIN). TWO COMPLETE GAMMA-TUSC ST ...	INITIAL MODELS WERE GENERATED WITH MODELER 9.15 BASED ON PDB ENTRIES 3RIP (FOR GCP2 AND GCP3) AND 3CB2 (FOR GAMMA TUBULIN). TWO COMPLETE GAMMA-TUSC STRUCTURES WERE MODELED SIMULTANEOUSLY, RIGIDLY FITTED INTO THE CRYO-EM MAP WITH UCSF CHIMERA, THEN FLEXIBLY FITTED WITH MDFF. ADDITIONAL SECONDARY STRUCTURE AND SYMMETRY RESTRAINTS WERE ADDED. FINAL VALIDATION PERFORMED WITH THE INTEGRATIVE MODELING PLATFORM. FOR DETAILS, ALL CODE IS DEPOSITED AT GITHUB.COM/INTEGRATIVEMODELING/GAMMA-TUSC SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2799. (DEPOSITION ID: 12869).
Refinement Type
Symmetry Type	HELICAL

Map-Model Fitting and Refinement
Id	1
Refinement Space	REAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target
Overall B Value
Fitting Procedure
Details	METHOD--FLEXIBLE FITTING

Data Acquisition
Detector Type	TVIPS TEMCAM-F816 (8k x 8k)
Electron Dose (electrons/Å**2)	20

Imaging Experiment	1
Date of Experiment	2011-05-25
Temperature (Kelvin)
Microscope Model	FEI TECNAI F20
Minimum Defocus (nm)	800
Maximum Defocus (nm)	2000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2.12
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification	94000
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	200
Imaging Details

EM Software
Task	Software Package	Version
CTF CORRECTION	CTFFIND
MODEL FITTING	MDFF
MODEL FITTING	MODELLER
RECONSTRUCTION	EMAN	1
RECONSTRUCTION	SPIDER
SYMMETRY DETERMINATION	hsearch_lorentz

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

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.