EMD-5659
Cryo-electron microscopy of herpesvirus simplex type 1 C-capsid
EMD-5659
Single-particle16.7 Å
Deposition: 01/05/2013
Map released: 10/07/2013
Last modified: 04/09/2013
Buffer
pH: 7.5
Details: TNE: 500mM NaCl, 10mM Tris, 1mM EDTA
Details: TNE: 500mM NaCl, 10mM Tris, 1mM EDTA
Grid
Details: Quantifoil R2/1, 200 mesh copper, glow discharged for 10-15 secs
Vitrification
Cryogen name: ETHANE-PROPANE MIXTURE
Chamber humidity: 95%
Chamber temperature: 82 K
Instrument: FEI VITROBOT MARK III
Method: Blot for 6 seconds.
Chamber humidity: 95%
Chamber temperature: 82 K
Instrument: FEI VITROBOT MARK III
Method: Blot for 6 seconds.
Microscope: FEI TECNAI F20
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Nominal CS: 2 mm
Nominal magnification: 29000.0
Calibrated magnification: 30000.0
Specimen holder model: GATAN LIQUID NITROGEN
Specimen holder details: Gatan 626
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Nominal CS: 2 mm
Nominal magnification: 29000.0
Calibrated magnification: 30000.0
Specimen holder model: GATAN LIQUID NITROGEN
Specimen holder details: Gatan 626
Temperature
Maximum: 95
K
Image Recording
[1]
Detector category:
FILM
Detector model: KODAK SO-163 FILM
Scanner: NIKON SUPER COOLSCAN 9000
Sampling interval: 6.35 µm
Number of real images: 48
Bits per pixel: 8.0
Detector model: KODAK SO-163 FILM
Scanner: NIKON SUPER COOLSCAN 9000
Sampling interval: 6.35 µm
Number of real images: 48
Bits per pixel: 8.0
Details: Particles were picked with xdpreprocess.
Final
reconstruction
Resolution: 16.7
Å
(
BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 3687
Algorithm: OTHER
Details:
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 3687
Algorithm: OTHER
Details:
⌯ Applied Symmetry
Point group:
I
Software
[1]
Name | Version | Details |
---|---|---|
AUTO3DEM(v3.13) | - | - |
CTF correction
Details:Each micrograph
Format: CCP4
Data type: IMAGE STORED AS SIGNED INTEGER (2 BYTES)
Annotation details: Reconstruction of herpesvirus simplex type 1 C-capsid
Details: ::::EMDATABANK.org::::EMD-5659::::
Data type: IMAGE STORED AS SIGNED INTEGER (2 BYTES)
Annotation details: Reconstruction of herpesvirus simplex type 1 C-capsid
Details: ::::EMDATABANK.org::::EMD-5659::::
⬡ Geometry
X | Y | Z | |
---|---|---|---|
Dimensions | 723 | 723 | 723 |
Origin | 0 | 0 | 0 |
Spacing | 723 | 723 | 723 |
Voxel size | 2.12 Å | 2.12 Å | 2.12 Å |
Contour list
Primary | Level | Source |
---|---|---|
True | 5000.0 | AUTHOR |