EMD-10259

Subtomogram averaging
15.0 Å
EMD-10259
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Deposition: 26/08/2019
Map released: 24/06/2020
Last modified: 24/06/2020
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Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-10259
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EMICSS annotations (xml)

Sub-tomogram average of the Nap adhesion complex from the human pathogen Mycoplasma genitalium.

EMD-10259

Subtomogram averaging
15.0 Å
EMD-10259
3D View Gallery
Deposition: 26/08/2019
Map released: 24/06/2020
Last modified: 24/06/2020
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Subtomogram averaging
Aggregation State: Cell
Specimen preparation [1]
Details: Mildly detergent-lysed cells
Buffer
pH: 7.5
Vitrification
Cryogen name: ETHANE
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Image Recording [1]
Detector model: GATAN K2 SUMMIT (4k x 4k)
Detector mode: SUPER-RESOLUTION
Average electron dose per image: 50.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 15.0 Å ( BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
⌯ Applied Symmetry
Point group: C1
⦩ Final angle assignment
Type: NOT APPLICABLE
Extraction
Number of images used: 11000
CTF correction
Details:Tomograms were reconstructed by super-sampling SART with 3D contrast transfer function (CTF) correction.
Software [1]
Name Version Details
Super-sampling SART 2 Kunz, M. & Frangakis, A. S. Three-dimensional CTF correction improves the resolution of electron tomograms. Journal of structural biology 197, 114-122, doi: 10.1016
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Sub-tomogram average of the surface adhesin (NAP) complex from Mycoplasma genitalium cells by cryo-electron tomography.
⬡ Geometry
X Y Z
Dimensions 128 128 128
Origin 0 0 0
Spacing 128 128 128
Voxel size 2.2 Å 2.2 Å 2.2 Å
Contour list
Primary Level Source
True 0.0117 AUTHOR