EMD-22139
SARS-CoV-2 ORF3a with Emodin in a MSP1E3D1 lipid nanodisc
EMD-22139
Single-particle3.7 Å
Deposition: 11/06/2020
Map released: 17/06/2020
Last modified: 31/08/2022
Concentration: 1.1
mg/mL
Buffer
pH: 7.4
Buffer components [3]:
Buffer components [3]:
Name | Formula | Concentration | ChEBI |
---|---|---|---|
HEPES | C8H18N2O4S | 20.0 mM | |
Potassium chloride | KCl | 150.0 mM | |
Emodin | C15H10O5 | 100.0 uM |
Grid
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 277 K
Instrument: FEI VITROBOT MARK IV
Details: 1 blot force, 5 second wait time, 3 second blot time.
Chamber humidity: 100%
Chamber temperature: 277 K
Instrument: FEI VITROBOT MARK IV
Details: 1 blot force, 5 second wait time, 3 second blot time.
Microscope: FEI TALOS ARCTICA
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
C2 aperture diameter: 50.0 µm
Nominal CS: 2.7 mm
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Alignment procedure: COMA FREE
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
C2 aperture diameter: 50.0 µm
Nominal CS: 2.7 mm
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Alignment procedure: COMA FREE
Image Recording
[1]
Detector model:
GATAN K3 (6k x 4k)
Dimensions: 11520 pixel x 8184 pixel
Number of grids: 1
Number of real images: 6750
Average exposure time: 5.25 s
Average electron dose per image: 47.20275 e/Å2
Details: 50 frames per image
Dimensions: 11520 pixel x 8184 pixel
Number of grids: 1
Number of real images: 6750
Average exposure time: 5.25 s
Average electron dose per image: 47.20275 e/Å2
Details: 50 frames per image
Final
reconstruction
Resolution: 3.7
Å
(
BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 51908
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 51908
⌯ Applied Symmetry
Point group:
C2
Software
[1]
Name | Version | Details |
---|---|---|
CryoSPARC | 2 | - |
Startup model
[1]
⦨ Initial angle
assignment
⦩ Final angle assignment
Particle selection
[1]
Selected | Ref. model | Method | Software | Details |
---|---|---|---|---|
3873767 | - | - | - | - |
Final 3D classification
Software
[1]
Name | Version | Details |
---|---|---|
CryoSPARC | - | - |
CTF correction
Software
[1]
Name | Version | Details |
---|---|---|
CTFFIND | 4.1 | - |
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
⬡ Geometry
X | Y | Z | |
---|---|---|---|
Dimensions | 256 | 256 | 256 |
Origin | 0 | 0 | 0 |
Spacing | 256 | 256 | 256 |
Voxel size | 1.137 Å | 1.137 Å | 1.137 Å |
Contour list
Primary | Level | Source |
---|---|---|
True | 0.845 | AUTHOR |