EMD-7581

Single-particle
5.3 Å
EMD-7581
3D View Gallery
Deposition: 19/03/2018
Map released: 11/04/2018
Last modified: 15/05/2019
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Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-7581
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3D volume (map.gz) Experimental metadata (xml)
Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
EMICSS annotations (xml)

SARS spike glycoprotein, trypsin-cleaved, stabilized variant, three S1 CTDs in a downwards conformation

EMD-7581

Single-particle
5.3 Å
EMD-7581
3D View Gallery
Deposition: 19/03/2018
Map released: 11/04/2018
Last modified: 15/05/2019
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.35 mg/mL
Buffer
pH: 7.5
Buffer components [3]:
Name Formula Concentration ChEBI
TrisCl - 25.0 mM -
Sodium chloride NaCl 150.0 mM
A8-35 - 0.01 % (w/v) -
Grid
Model: C-flat-2/2 4C
Material: COPPER
Pretreatment
Type: PLASMA CLEANING
Atmosphere: OTHER
Support Film [1]
Material Topology Thickness
CARBON HOLEY -
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 298 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
C2 aperture diameter: 70.0 µm
Nominal CS: 2.7 mm
Nominal defocus: 1.2 µm - 2.2 µm
Nominal magnification: 29000.0
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Alignment procedure: COMA FREE
Image Recording [1]
Detector model: GATAN K2 SUMMIT (4k x 4k)
Detector mode: COUNTING
Number of grids: 1
Average exposure time: 0.25 s
Average electron dose per image: 65.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 5.3 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 6664
⌯ Applied Symmetry
Point group: C3
Software [1]
Name Version Details
RELION 2.1 -
Startup model [1]
Type: OTHER
Details:Low-pass filtered negative-stain model
⦨ Initial angle assignment
Type: ANGULAR RECONSTITUTION
Software [1]
Name Version Details
RELION 2.1 -
⦩ Final angle assignment
Type: ANGULAR RECONSTITUTION
Software [1]
Name Version Details
RELION 2.1 -
CTF correction
Software [1]
Name Version Details
Gctf 1.06 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Primary map
⬡ Geometry
X Y Z
Dimensions 320 320 320
Origin 0 0 0
Spacing 320 320 320
Voxel size 1.03 Å 1.03 Å 1.03 Å
Contour list
Primary Level Source
True 0.029 AUTHOR