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- EMDB-75949: In situ cryo-ET analysis of mitochondria and autophagosome contac... -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-75949
TitleIn situ cryo-ET analysis of mitochondria and autophagosome contact in tauP301S Tg mouse cortical neurons Supplementary 2
Map dataMito-AV contact at 19500
Sample
  • Cell: Cortical neuron
Keywordsautophagosome-mitochondria contact / autophagy / mitochondrial bioenergetics / retrograde transport / tauopathy / UNKNOWN FUNCTION
Biological speciesMus musculus (house mouse)
Methodelectron tomography / cryo EM
AuthorsGonzalez CU / Jaber N
Funding support United States, 2 items
OrganizationGrant numberCountry
National Science Foundation (NSF, United States)MCB-2046180 United States
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)R01NS089737 United States
CitationJournal: To Be Published
Title: Dysregulation of a novel autophagosome-mitochondria contact contributes to autophagy dysfunction and neurodegeneration in tauopathy
Authors: Jia N / Guan H / Zuo Y / Jeong YY / Amireddy N / Rajapaksha G / Gonzalez CU / Jaber N / Lee YK / Nissenbaum M / Margolis DJ / Dai W / Kusnecov AW / Cai Q
History
DepositionMar 10, 2026-
Header (metadata) releaseJun 24, 2026-
Map releaseJun 24, 2026-
UpdateJun 24, 2026-
Current statusJun 24, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_75949.png

Downloads & links

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Map

FileDownload / File: emd_75949.map.gz / Format: CCP4 / Size: 1.1 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationMito-AV contact at 19500
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
18.39 Å/pix.
x 201 pix.
= 3696.39 Å		18.39 Å/pix.
x 1440 pix.
= 26481.6 Å		18.39 Å/pix.
x 1024 pix.
= 18831.359 Å

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

generated in cubic-lattice coordinate

Voxel sizeX=Y=Z: 18.39 Å
Density

Histogram

Histogram (log scale)
Minimum - Maximum-24.685124999999999 - 18.409147000000001
Average (Standard dev.)-0.000000007992408 (±1.0)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin208-20890
Dimensions14401024201
Spacing10241440201
CellA: 18831.36 Å / B: 26481.6 Å / C: 3696.39 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Cortical neuron

EntireName: Cortical neuron
Components
  • Cell: Cortical neuron

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Supramolecule #1: Cortical neuron

SupramoleculeName: Cortical neuron / type: cell / ID: 1 / Parent: 0
Source (natural)Organism: Mus musculus (house mouse)

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation statecell

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Sample preparation

BufferpH: 7.4
GridModel: Quantifoil R2/2 / Material: GOLD / Mesh: 300 / Support film - Material: SILICON DIOXIDE / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE
VitrificationCryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 293 K / Instrument: LEICA EM GP
SectioningOther: NO SECTIONING

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 4.32 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 8.0 µm / Nominal defocus min: 4.0 µm / Nominal magnification: 19500
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionSoftware - Name: IMOD (ver. 4.9.12) / Number images used: 37
CTF correctionType: NONE

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