EMD-21950

Single-particle
3.34 Å
EMD-21950
3D View Gallery
Deposition: 09/05/2020
Map released: 24/06/2020
Last modified: 01/07/2020
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Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-21950
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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)
Map and PDB model 6wwz summary report (pdf.gz) Map and 6wwz FULL report (pdf.gz)
EMICSS annotations (xml)

Cryo-EM structure of the human chemokine receptor CCR6 in complex with CCL20 and a Go protein

EMD-21950

Single-particle
3.34 Å
EMD-21950
3D View Gallery
Deposition: 09/05/2020
Map released: 24/06/2020
Last modified: 01/07/2020
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 6.8 mg/mL
Buffer
pH: 7.5
Buffer components [6]:
Name Formula Concentration ChEBI
HEPES HEPES 20.0 mM
Sodium Chloride NaCl 100.0 mM
Lauryl Maltose Neopentyl Glycol LMNG 0.001 %
Cholesteryl Hemisuccinate CHS 0.0002 %
FLAG Peptide - 0.2 mg/ml -
Fluorinated Fos-Choline-8 - 3.0 mM -
Grid
Mesh: 300
Model: Quantifoil R1.2/1.3
Material: GOLD
Pretreatment
Type: PLASMA CLEANING
Atmosphere:
Support Film [1]
Material Topology Thickness
CARBON HOLEY -
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 277.0 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: 100.0 µm
Nominal CS: 2.7 mm
Nominal defocus: 0.6 µm - 2.0 µm
Nominal magnification: 165000.0
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Temperature
Minimum: 80.0 K
Maximum: 100.0 K
Specialist optics
Energy filter
Name: GIF Quantum LS
Slit width: 20 eV
Image Recording [1]
Detector model: GATAN K2 SUMMIT (4k x 4k)
Detector mode: SUPER-RESOLUTION
Dimensions: 3838 pixel x 3710 pixel
Frames per image: 1-50
Number of grids: 1
Number of real images: 5303
Average exposure time: 8.0 s
Average electron dose per image: 81.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 3.34 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of classed used: 1
Number of images used: 230450
⌯ Applied Symmetry
Point group: C1
Software [1]
Name Version Details
RELION 3.0.5 -
Startup model [1]
Type: INSILICO MODEL
Insilico model: Model generated in Relion 3.0.5 from subset of data
⦨ Initial angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
RELION 3.0.5 -
⦩ Final angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
RELION 3.0.5 -
Particle selection [1]
Selected Ref. model Method Software Details
1000382 - - - -
Final 3D classification
Number of classes: 6
Avg. number of members per classes: 900.0
Software [1]
Name Version Details
RELION 3.0.5 -
CTF correction
Software [1]
Name Version Details
CTFFIND 4.1 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Chemokine receptor CCR6 in complex with CCL20 and a Go protein
⬡ Geometry
X Y Z
Dimensions 384 384 384
Origin 0 0 0
Spacing 384 384 384
Voxel size 0.87000006 Å 0.87000006 Å 0.87000006 Å
Contour list
Primary Level Source
True 0.015 AUTHOR