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- EMDB-23737: PolyQ40 oligomer tomogram at 2uM concentration -

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Basic information

Entry
Database: EMDB / ID: EMD-23737
TitlePolyQ40 oligomer tomogram at 2uM concentration
Map dataPolyQ40 oligomer
Sample
  • Organelle or cellular component: Synthetic polyQ40 oligomers
    • Other: Synthetic polyQ peptide
Biological speciesHomo sapiens (human)
Methodelectron tomography / cryo EM
AuthorsNunn K / Jiang J / Dai W
Funding support United States, 1 items
OrganizationGrant numberCountry
National Science Foundation (NSF, United States)MB-2046180 United States
CitationJournal: Biochem Biophys Res Commun / Year: 2021
Title: Structural insight into transmissive mutant huntingtin species by correlative light and electron microscopy and cryo-electron tomography.
Authors: Xuyuan Kuang / Kyle Nunn / Jennifer Jiang / Paul Castellano / Uttara Hardikar / Arianna Horgan / Joyce Kong / Zhiqun Tan / Wei Dai /
Abstract: Aggregates of mutant huntingtin (mHTT) containing an expanded polyglutamine (polyQ) tract are hallmarks of Huntington's Disease (HD). Studies have shown that mHTT can spread between cells, leading to ...Aggregates of mutant huntingtin (mHTT) containing an expanded polyglutamine (polyQ) tract are hallmarks of Huntington's Disease (HD). Studies have shown that mHTT can spread between cells, leading to the propagation of misfolded protein pathology. However, the structure of transmissive mHTT species, and the molecular mechanisms underlying their transmission remain unknown. Using correlative light and electron microscopy (CLEM) and cryo-electron tomography (cryo-ET), we identified two types of aggregation-prone granules in conditioned medium from PC12 cells expressing a mHTT N-terminal fragment: densities enclosed by extracellular vesicles (EVs), and uncoated, amorphous meshworks of heterogeneous oligomers that co-localize with clusters of EVs. In vitro assays confirmed that liposomes induce condensation of polyQ oligomers into higher-order assemblies, resembling the uncoated meshworks observed in PC12 conditioned medium. Our findings provide novel insights into formation and architecture of transmissive mHTT proteins, and highlight the potential role of EVs as both carriers and modulators of transmissive mHTT proteins.
History
DepositionMar 31, 2021-
Header (metadata) releaseApr 20, 2022-
Map releaseApr 20, 2022-
UpdateNov 9, 2022-
Current statusNov 9, 2022Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_23737.png

Downloads & links

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Map

FileDownload / File: emd_23737.map.gz / Format: CCP4 / Size: 50.4 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationPolyQ40 oligomer
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
6.99 Å/pix.
x 36 pix.
= 251.496 Å		6.99 Å/pix.
x 500 pix.
= 3493. Å		6.99 Å/pix.
x 734 pix.
= 5127.724 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: 6.986 Å
Density

Histogram

Histogram (log scale)
Minimum - Maximum-16.383469 - 35.925884
Average (Standard dev.)8.6338945e-09 (±0.52357346)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin1227-18112
Dimensions50073436
Spacing73450036
CellA: 5127.724 Å / B: 3493.0 Å / C: 251.496 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Synthetic polyQ40 oligomers

EntireName: Synthetic polyQ40 oligomers
Components
  • Organelle or cellular component: Synthetic polyQ40 oligomers
    • Other: Synthetic polyQ peptide

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Supramolecule #1: Synthetic polyQ40 oligomers

SupramoleculeName: Synthetic polyQ40 oligomers / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: Synthetic polyQ peptide

MacromoleculeName: Synthetic polyQ peptide / type: other / ID: 1 / Classification: other
Source (natural)Organism: Homo sapiens (human)
SequenceString:
KKQQQQQQQQ QQQQQQQQQQ QQQQQQQQQQ QQQQQQQQQQ QQKK

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation stateparticle

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Sample preparation

BufferpH: 7
VitrificationCryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 293.15 K / Instrument: LEICA EM GP
SectioningOther: NO SECTIONING
Fiducial markerManufacturer: EMS / Diameter: 10 nm

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Electron microscopy

MicroscopeFEI TALOS ARCTICA
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 1.5 e/Å2
Electron beamAcceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 70.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal magnification: 31000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company

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Image processing

Final reconstructionSoftware - Name: IMOD / Number images used: 47

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