EMD-2431

Subtomogram averaging
40.0 Å
EMD-2431
3D View Gallery
Deposition: 26/07/2013
Map released: 18/09/2013
Last modified: 09/10/2013
Overview 3D View Sample Experiment Validation Additional data Links
Overview 3D View Sample Experiment Validation Additional data Links

EMD-2431
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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 4bzk summary report (pdf.gz) Map and 4bzk FULL report (pdf.gz)
EMICSS annotations (xml)

The structure of the COPII coat assembled on membranes

EMD-2431

Subtomogram averaging
40.0 Å
EMD-2431
3D View Gallery
Deposition: 26/07/2013
Map released: 18/09/2013
Last modified: 09/10/2013
Overview 3D View Sample Experiment Validation Additional data Links
Method: Subtomogram averaging
Aggregation State: Helical Array
Specimen preparation [1]
Concentration: 0.03 mg/mL
Buffer
pH: 6.8
Details: HEPES, 50 mM KOAc, 1.2 mM MgCl2
Staining
Type: NEGATIVE
Details: Plunge frozen
Grid
Details: C-flat grids
Vitrification
Cryogen name: ETHANE
Instrument: HOMEMADE PLUNGER
Microscopy [2]
Microscope: FEI TITAN KRIOS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Nominal CS: 2.7 mm
Nominal defocus: 2.0 µm - 3.2 µm
Nominal magnification: 19500.0
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Specialist optics
Energy filter
Name: GATAN GIF 2002
Image Recording [1]
Detector category: CCD
Detector model: GATAN MULTISCAN
Number of real images: 26
Average electron dose per image: 80 e/Å2
Bits per pixel: 16.0
Tilt Series [1]
Axis 1 Axis 2
Min. Max. Inc. Min. Max. Inc. Rotation
-60 ° 60 ° - - - - -
Microscope: FEI TITAN KRIOS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Nominal CS: 2.7 mm
Nominal defocus: 2.0 µm - 3.2 µm
Nominal magnification: 19500.0
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Specialist optics
Energy filter
Name: GATAN GIF 2002
Image Recording [1]
Detector category: CCD
Detector model: GATAN MULTISCAN
Number of real images: 26
Average electron dose per image: 80 e/Å2
Bits per pixel: 16.0
Tilt Series [1]
Axis 1 Axis 2
Min. Max. Inc. Min. Max. Inc. Rotation
-60 ° 60 ° - - - - -
Image processing [1]
Details: See materials and methods in relevant publication
Final reconstruction
Resolution: 40.0 Å ( BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Algorithm: OTHER
Details:
⌯ Applied Symmetry
Point group: C2
Software [1]
Name Version Details
TOM/AV3, Matlab - -
⦩ Final angle assignment
Details: 0 0 0 in zyz convention
CTF correction
Details: Each tilted image within tomogram
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Sec13/31 complex (as part of complete coat assembled on membrane). Edge, right handed direction
Details: ::::EMDATABANK.org::::EMD-2431::::
⬡ Geometry
X Y Z
Origin 0 0 0
Dimensions (px) 72 72 72
Dimensions (Å) 309.6 309.6 309.6
Voxel size (Å) 4.3 4.3 4.3
Contour list
Primary Level Source
True 2.0 AUTHOR