EMD-7563

Single-particle
6.8 Å
EMD-7563
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Deposition: 18/03/2018
Map released: 01/08/2018
Last modified: 13/03/2024
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Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-7563
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3D volume (map.gz) Experimental metadata (xml) Experimental Metadata (cif.gz)
Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
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EMICSS annotations (xml)

Structure of the HIV-Nef tetherin cargo bound AP-1:Arf1 stable closed trimer

EMD-7563

Single-particle
6.8 Å
EMD-7563
3D View Gallery
Deposition: 18/03/2018
Map released: 01/08/2018
Last modified: 13/03/2024
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.07 mg/mL
Buffer
pH: 8.0
Details: 20 mM Tris at pH 8.0, 200 mM NaCl, 5 mM MgCl2, and 0.5 mM TCEP
Grid
Details: Unspecified
Pretreatment
Type: PLASMA CLEANING
Atmosphere:
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 296 K
Instrument: FEI VITROBOT MARK IV
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Image Recording [1]
Detector model: GATAN K2 SUMMIT (4k x 4k)
Detector mode: SUPER-RESOLUTION
Average electron dose per image: 62.4 e/Å2
Image processing [1]
Final reconstruction
Resolution: 6.8 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 11108
⌯ Applied Symmetry
Point group: C1
Software [1]
Name Version Details
RELION - -
Startup model [1]
Type: OTHER
Details:CRYOSPARC
⦨ Initial angle assignment
Type: MAXIMUM LIKELIHOOD
⦩ Final angle assignment
Type: MAXIMUM LIKELIHOOD
Software [1]
Name Version Details
RELION - -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: HIV-Nef tetherin cargo bound AP-1:Arf1 stable closed trimer
⬡ Geometry
X Y Z
Dimensions 384 384 384
Origin 0 0 0
Spacing 384 384 384
Voxel size 1.067 Å 1.067 Å 1.067 Å
Contour list
Primary Level Source
True 0.0149 AUTHOR