5FKI

Pseudorabies virus (PrV) nuclear egress complex proteins fitted as a hexameric lattice into a sub-tomogram average derived from focused- ion beam milled lamellae electron cryo-microscopic data

ELECTRON MICROSCOPY

Sample
PORCINE EPITHELIAL-LIKE EMBRYONIC EFN-R KIDNEY CELLS STABLY CO- EXPRESSING PRV UL31 AND UL34, THE LATTER FUSED WITH GFP (CELL LINE DESIGNATED AS BK-EF-UL31- 34GFP CATALOGUE NO. RIE 1083 OF THE COLLECTION OF CELL LINES IN VETERINARY MEDICINE AT THE FLI, GREIFSWALD-INSEL RIEMS, GERMANY)

Specimen Preparation
Sample Aggregation State	CELL
Vitrification Instrument	HOMEMADE PLUNGER
Cryogen Name	ETHANE-PROPANE
Sample Vitrification Details	VITRIFICATION 1 -- CRYOGEN- ETHANE-PROPANE MIXTURE, INSTRUMENT- HOMEMADE PLUNGER, METHOD- BLOTTED MANUALLY WITH A BENT STRIP OF WHATMAN NO. 1 FILTER P ...	VITRIFICATION 1 -- CRYOGEN- ETHANE-PROPANE MIXTURE, INSTRUMENT- HOMEMADE PLUNGER, METHOD- BLOTTED MANUALLY WITH A BENT STRIP OF WHATMAN NO. 1 FILTER PAPER FROM THE NON-COATED GRID SIDE FOR 2 TO 3 S IMMEDIATELY BEFORE VITRIFICATION BY THE GRAVITY-DRIVEN PLUNGING APPARATUS IN A ETHANE-PROPANE MIXTURE COOLED BY LIQUID NITROGEN, TIMERESOLVEDSTATE- TWO DAYS OF INCUBATION (37 DEGREE C, 5 PERCENT CO2) IN PLASTIC MICROSCOPE SLIDE GROWTH CHAMBERS (MUE-SLIDE 2X9 WELL, IBIDI GMBH) BEFORE CRYO- IMMOBILIZATION,

3D Reconstruction
Reconstruction Method	TOMOGRAPHY
Number of Particles	300
Reported Resolution (Å)	35
Resolution Method
Other Details	FIT OF HEXAMERIC LATTICE OF NEC INTO SUBTOMOGRAM AVERAGE. SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-3197.
Refinement Type
Symmetry Type	POINT
Point Symmetry	C6

Map-Model Fitting and Refinement
Id	1 (5E8C)
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target	MINIMISATION OF ATOMIC CLASHES AND PROTRUSION FROM MAP
Overall B Value
Fitting Procedure
Details	METHOD--RIGID BODY REFINEMENT PROTOCOL--X-RAY

Data Acquisition
Detector Type	GATAN MULTISCAN
Electron Dose (electrons/Å**2)	114

Imaging Experiment	1
Date of Experiment	2013-04-26
Temperature (Kelvin)
Microscope Model	FEI POLARA 300
Minimum Defocus (nm)	-6000
Maximum Defocus (nm)	6000
Minimum Tilt Angle (degrees)	-50
Maximum Tilt Angle (degrees)	52
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	22500
Calibrated Magnification	52650
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details	2048 X 2048

EM Software
Task	Software Package	Version
MODEL FITTING	TEMPy
RECONSTRUCTION	IMOD
RECONSTRUCTION	PEET

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 R01GM133198.