EMD-3388

Single-particle
3.4 Å
EMD-3388
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Deposition: 15/03/2016
Map released: 04/05/2016
Last modified: 01/06/2016
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EMD-3388
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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)
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EMICSS annotations (xml)

Cryo-EM structure of combined apo phosphorylated APC/C

EMD-3388

Single-particle
3.4 Å
EMD-3388
3D View Gallery
Deposition: 15/03/2016
Map released: 04/05/2016
Last modified: 01/06/2016
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.15 mg/mL
Buffer
pH: 8.0
Details: 20mM Hepes, 150mM NaCl, 0.005mM TCEP
Staining
Type: NEGATIVE
Details: Vitrification in liquid ethane
Grid
Details: 200 mesh Quantifoil R2/2 copper grid with thin carbon support, treated with a 9:1 argon:oxygen plasma cleaner for 20-40s
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 100 K
Instrument: FEI VITROBOT MARK III
Method: The grids were incubated for 30s at 4 degree and 100% humidity before blotting for 5s and plunging into liquid ethane
Microscopy [1]
Microscope: FEI POLARA 300
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 2 mm
Nominal defocus: 2.0 µm - 4.0 µm
Nominal magnification: 78000.0
Specimen holder model: OTHER
Specimen holder details: Liquid nitrogen cooled
Temperature
Minimum: 90 K
Average: 105 K
Maximum: 120 K
Specialist optics
Energy filter
Name: FEI
Image Recording [1]
Detector category: CCD
Detector model: FEI FALCON II (4k x 4k)
Number of real images: 12500
Average electron dose per image: 27 e/Å2
Details: The exposure time for each micrograph was 2s at a dose rate of 27 electrons/angstrom2/s. 34 movie frames were recorded for each micrograph.
Image processing [1]
Details: Particles were selected by automatic particle picking in RELION
Final reconstruction
Resolution: 3.4 Å ( BY AUTHOR)
Resolution method: OTHER
Number of images used: 921993
Details:
⌯ Applied Symmetry
Point group: C1
Software [1]
Name Version Details
RELION - -
CTF correction
Details:Each micrograph
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Reconstruction of apo phosphorylated APC/C using both apo phosphorylated APC/C data and apo phosphorylated particles classified from APC/C-Cdc20-Hsl1
Details: ::::EMDATABANK.org::::EMD-3388::::
⬡ Geometry
X Y Z
Dimensions 284 284 284
Origin 0 0 0
Spacing 284 284 284
Voxel size 1.36 Å 1.36 Å 1.36 Å
Contour list
Primary Level Source
True 0.08 AUTHOR