Experiment: 6Z9M

Pseudoatomic model of the pre-fusion conformation of glycoprotein B of Herpes simplex virus 1

ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5V2S

Sample
Human alphaherpesvirus 1

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	HOMEMADE PLUNGER
Cryogen Name	ETHANE-PROPANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	SUBTOMOGRAM AVERAGING
Number of Particles	46067
Reported Resolution (Å)	9.1
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	C3

Map-Model Fitting and Refinement
Id	1 (5V2S)
Refinement Space	REAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target	Cross correlation coefficient
Overall B Value	300
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)	2.3

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI POLARA 300
Minimum Defocus (nm)
Maximum Defocus (nm)
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	OTHER
Nominal Magnification
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details	Additional Dataset collected using Titan Krios (FEI Thermo) at 300 kV with a 70 um C2 aperture and post-column QUANTUM energy filter operated in Zero-Loss mode using 20 eV energy slit and K2 Summit direct electron detector in counting mode (Gatan). Defocus range: 2300 - 4900 nm.

EM Software
Task	Software Package	Version
VOLUME SELECTION	3dmod
IMAGE ACQUISITION	SerialEM
CTF CORRECTION	NOVACTF
CTF CORRECTION	CTFPHASEFLIP
MODEL FITTING	UCSF Chimera
FINAL EULER ASSIGNMENT	PEET
RECONSTRUCTION	PEET
MODEL REFINEMENT	MDFF

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING ONLY