5FT2 | pdb_00005ft2

Sub-tomogram averaging of Lassa virus glycoprotein spike from virus- like particles at pH 5

ELECTRON MICROSCOPY

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Starting Model(s)

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

Sample
PURIFIED LASSA VIRUS VLPS AT PH 5

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	GATAN CRYOPLUNGE 3
Cryogen Name	ETHANE-PROPANE
Sample Vitrification Details	VITRIFICATION 1 -- CRYOGEN- ETHANE-PROPANE MIXTURE, HUMIDITY- 80, TEMPERATURE- 120, INSTRUMENT- GATAN CRYOPLUNGE 3, METHOD- BLOT FOR 3 SECONDS BEFORE PLUNGING.,

3D Reconstruction
Reconstruction Method	TOMOGRAPHY
Number of Particles	2578
Reported Resolution (Å)	16.4
Resolution Method
Other Details	SUB-TOMOGRAM AVERAGING SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-3292. (DEPOSITION ID: 14158).
Refinement Type
Symmetry Type	POINT
Point Symmetry	C3

Map-Model Fitting and Refinement
Id	1 (4ZJF)
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target	Cross-correlation coefficient
Overall B Value
Fitting Procedure
Details	METHOD--RIGID BODY REFINEMENT PROTOCOL--X-RAY

Data Acquisition
Detector Type	GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)	60

Imaging Experiment	1
Date of Experiment	2014-09-25
Temperature (Kelvin)
Microscope Model	FEI TECNAI F30
Minimum Defocus (nm)	2800
Maximum Defocus (nm)	6700
Minimum Tilt Angle (degrees)	-45
Maximum Tilt Angle (degrees)	45
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	160000
Calibrated Magnification	37037
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details	SUPER-RESOLUTION COUNTING MODE

EM Software
Task	Software Package	Version
MODEL FITTING	UCSF Chimera
RECONSTRUCTION	Dynamo
RECONSTRUCTION	IMOD
MODEL FITTING	UCSF Chimera

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