EMD-8315

Single-particle
3.9 Å
EMD-8315
3D View Gallery
Deposition: 12/08/2016
Map released: 24/08/2016
Last modified: 06/03/2024
Overview 3D View Sample Experiment Validation Additional data Links
Overview 3D View Sample Experiment Validation Additional data Links

EMD-8315
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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)
Map and PDB model 5sy1 summary report (pdf.gz) Map and 5sy1 FULL report (pdf.gz)
EMICSS annotations (xml)

Structure of the STRA6 receptor for retinol uptake in complex with calmodulin

EMD-8315

Single-particle
3.9 Å
EMD-8315
3D View Gallery
Deposition: 12/08/2016
Map released: 24/08/2016
Last modified: 06/03/2024
Overview 3D View Sample Experiment Validation Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.6 mg/mL
Buffer
pH: 7.0
Grid
Mesh: 400
Model: Quantifoil, UltrAuFoil, R1.2/1.3
Material: GOLD
Pretreatment
Type: PLASMA CLEANING
Atmosphere:
Vitrification
Cryogen name: ETHANE
Chamber humidity: 95%
Chamber temperature: 277 K
Instrument: FEI VITROBOT MARK IV
Details: 3 uL sample applied, 3-4 second blot time, 30 second wait time, blot force 3, grid blotted from both sides, plunged into liquid ethane (FEI VITROBOT MARK IV)..
Microscopy [1]
Microscope: FEI TECNAI F30
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: COUNTING
Average electron dose per image: 100.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 3.9 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 56615
⌯ Applied Symmetry
Point group: C2
Software [1]
Name Version Details
RELION 1.3 -
Startup model [1]
Type: OTHER
Details:An initial model was generated using e2initialmodel.py starting from 2D class averages created in Relion 1.3.
⦨ Initial angle assignment
Type: PROJECTION MATCHING
⦩ Final angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
RELION 1.3 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of STRA6/CaM complex
⬡ Geometry
X Y Z
Origin 0 0 0
Dimensions (px) 200 200 200
Dimensions (Å) 251.0 251.0 251.0
Voxel size (Å) 1.255 1.255 1.255
Contour list
Primary Level Source
True 0.035 AUTHOR