EMD-0987

Tomography
EMD-0987
Gallery
Deposition: 01/02/2020
Map released: 20/05/2020
Last modified: 20/05/2020
Overview Sample Experiment Validation Volume Browser Additional data Links
Overview Sample Experiment Validation Volume Browser Additional data Links

EMD-0987
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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)

Ultra-high voltage electron microscope tomography using 1000-nm-thick neurite section acquired at 20,000 magnification at an accelerating voltage of 2 MV

EMD-0987

Tomography
EMD-0987
Gallery
Deposition: 01/02/2020
Map released: 20/05/2020
Last modified: 20/05/2020
Overview Sample Experiment Validation Volume Browser Additional data Links
Method: Tomography
Aggregation State: Cell
Specimen preparation [1]
Buffer
pH: 7.3
Staining
Type: POSITIVE
Material: Uranyl Acetate, Lead
Sugar embedding
Material: Resin
Grid
Mesh: 50
Material: COPPER
Support Film [1]
Material Topology Thickness
FORMVAR - -
Fiducial Markers
Manufacturer Fiducial type Diameter
BBI Solutions - 20 nanometer
Sectioning (Ultramicrotomy)
Instrument: Reichert-Jung Ultracut E
Temperature: 300 K
Final thickness: 1000 nm
Microscopy [1]
Microscope: HITACHI H3000 UHVEM
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: LAB6
Acceleration voltage: 2000 kV
Nominal magnification: 20000.0
Specimen holder model: OTHER
Image Recording [1]
Detector model: OTHER
Average electron dose per image: 48.0 e/Å2
Image processing [1]
Final reconstruction
Number of images used: 67
Algorithm: BACK PROJECTION
Software [1]
Name Version Details
IMOD - -
Tomogram
Format: CCP4
Data type: IMAGE STORED AS SIGNED INTEGER (2 BYTES)
Annotation details: 1.0-um-thick neurite section of cultured PC12 cells(Magnification 20K)
⬡ Geometry
X Y Z
Dimensions 934 1008 91
Origin -2 3 2
Spacing 934 1008 91
Voxel size 34.0 Å 34.0 Å 34.0 Å
Contour list
Primary Level Source
True - AUTHOR