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- EMDB-35848: Cellular components at INS-1E cell periphery under second phase o... -

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Basic information

Entry
Database: EMDB / ID: EMD-35848
TitleCellular components at INS-1E cell periphery under second phase of glucose-stimulated insulin secretion
Map data
Sample
  • Cell: INS-1E cell
Keywordsinsulin secretion / cytoskeleton / CYTOSOLIC PROTEIN
Biological speciesRattus (rat)
Methodelectron tomography / cryo EM
AuthorsLi W / Li A / Yu B / Zhang X / Liu X / White K / Stevens R / Baumeister W / Sali A / Jasnin M / Sun L
Funding support1 items
OrganizationGrant numberCountry
Not funded
CitationJournal: Nat Commun / Year: 2024
Title: In situ structure of actin remodeling during glucose-stimulated insulin secretion using cryo-electron tomography.
Authors: Weimin Li / Angdi Li / Bing Yu / Xiaoxiao Zhang / Xiaoyan Liu / Kate L White / Raymond C Stevens / Wolfgang Baumeister / Andrej Sali / Marion Jasnin / Liping Sun /
Abstract: Actin mediates insulin secretion in pancreatic β-cells through remodeling. Hampered by limited resolution, previous studies have offered an ambiguous depiction as depolymerization and ...Actin mediates insulin secretion in pancreatic β-cells through remodeling. Hampered by limited resolution, previous studies have offered an ambiguous depiction as depolymerization and repolymerization. We report the in situ structure of actin remodeling in INS-1E β-cells during glucose-stimulated insulin secretion at nanoscale resolution. After remodeling, the actin filament network at the cell periphery exhibits three marked differences: 12% of actin filaments reorient quasi-orthogonally to the ventral membrane; the filament network mainly remains as cell-stabilizing bundles but partially reconfigures into a less compact arrangement; actin filaments anchored to the ventral membrane reorganize from a "netlike" to a "blooming" architecture. Furthermore, the density of actin filaments and microtubules around insulin secretory granules decreases, while actin filaments and microtubules become more densely packed. The actin filament network after remodeling potentially precedes the transport and release of insulin secretory granules. These findings advance our understanding of actin remodeling and its role in glucose-stimulated insulin secretion.
History
DepositionApr 7, 2023-
Header (metadata) releaseFeb 28, 2024-
Map releaseFeb 28, 2024-
UpdateFeb 28, 2024-
Current statusFeb 28, 2024Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_35848.png

Downloads & links

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Map

FileDownload / File: emd_35848.map.gz / Format: CCP4 / Size: 793.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
13.41 Å/pix.
x 141 pix.
= 1891.092 Å		13.41 Å/pix.
x 1440 pix.
= 19313.279 Å		13.41 Å/pix.
x 1024 pix.
= 13733.888 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: 13.412 Å
Density

Histogram

Histogram (log scale)
Minimum - Maximum-4.398884 - 3.6310542
Average (Standard dev.)0.0011072184 (±0.0899033)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions14401024141
Spacing10241440141
CellA: 13733.888 Å / B: 19313.28 Å / C: 1891.0919 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : INS-1E cell

EntireName: INS-1E cell
Components
  • Cell: INS-1E cell

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Supramolecule #1: INS-1E cell

SupramoleculeName: INS-1E cell / type: cell / ID: 1 / Parent: 0
Source (natural)Organism: Rattus (rat)

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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: 7.45
VitrificationCryogen name: ETHANE
SectioningOther: NO SECTIONING
Fiducial markerManufacturer: aurion / Diameter: 10 nm

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 8.0 µm / Nominal defocus min: 5.0 µm
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 2.0 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionNumber images used: 61

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