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- EMDB-15250: Microtubules in presence of CSPP-L and vinblastine -

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Basic information

Entry
Database: EMDB / ID: EMD-15250
TitleMicrotubules in presence of CSPP-L and vinblastineMicrotubule
Map data
Sample
  • Complex: MicrotubulesMicrotubule
Biological speciesSus scrofa (pig)
Methodelectron tomography / cryo EM
AuthorsVolkov VA
Funding supportEuropean Union, 1 items
OrganizationGrant numberCountry
European Research Council (ERC)European Union
Citation
Journal: J Cell Biol / Year: 2023
Title: CSPP1 stabilizes growing microtubule ends and damaged lattices from the luminal side.
Authors: Cyntha M van den Berg / Vladimir A Volkov / Sebastian Schnorrenberg / Ziqiang Huang / Kelly E Stecker / Ilya Grigoriev / Sania Gilani / Kari-Anne M Frikstad / Sebastian Patzke / Timo ...Authors: Cyntha M van den Berg / Vladimir A Volkov / Sebastian Schnorrenberg / Ziqiang Huang / Kelly E Stecker / Ilya Grigoriev / Sania Gilani / Kari-Anne M Frikstad / Sebastian Patzke / Timo Zimmermann / Marileen Dogterom / Anna Akhmanova /
Abstract: Microtubules are dynamic cytoskeletal polymers, and their organization and stability are tightly regulated by numerous cellular factors. While regulatory proteins controlling the formation of ...Microtubules are dynamic cytoskeletal polymers, and their organization and stability are tightly regulated by numerous cellular factors. While regulatory proteins controlling the formation of interphase microtubule arrays and mitotic spindles have been extensively studied, the biochemical mechanisms responsible for generating stable microtubule cores of centrioles and cilia are poorly understood. Here, we used in vitro reconstitution assays to investigate microtubule-stabilizing properties of CSPP1, a centrosome and cilia-associated protein mutated in the neurodevelopmental ciliopathy Joubert syndrome. We found that CSPP1 preferentially binds to polymerizing microtubule ends that grow slowly or undergo growth perturbations and, in this way, resembles microtubule-stabilizing compounds such as taxanes. Fluorescence microscopy and cryo-electron tomography showed that CSPP1 is deposited in the microtubule lumen and inhibits microtubule growth and shortening through two separate domains. CSPP1 also specifically recognizes and stabilizes damaged microtubule lattices. These data help to explain how CSPP1 regulates the elongation and stability of ciliary axonemes and other microtubule-based structures.
#1: Journal: Biorxiv / Year: 2022
Title: CSPP1 stabilizes growing microtubule ends and damaged lattices from the luminal side
Authors: van den Berg CM / Volkov VA / Schnorrenberg S / Huang Z / Stecker KE / Grigoriev I / Patzke S / Zimmermann T / Dogterom M / Akhmanova A
History
DepositionJun 24, 2022-
Header (metadata) releaseJul 6, 2022-
Map releaseJul 6, 2022-
UpdateFeb 15, 2023-
Current statusFeb 15, 2023Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_15250.png

Downloads & links

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Map

FileDownload / File: emd_15250.map.gz / Format: CCP4 / Size: 2.6 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.73 Å/pix.
x 198 pix.
= 145.332 Å		0.73 Å/pix.
x 1920 pix.
= 1409.28 Å		0.73 Å/pix.
x 1856 pix.
= 1362.304 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: 0.734 Å
Density

Histogram

Histogram (log scale)
Minimum - Maximum-553.4099 - 317.63046
Average (Standard dev.)1.8102832 (±36.6149)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-325315-989
Dimensions19201856198
Spacing18561920198
CellA: 1362.3041 Å / B: 1409.28 Å / C: 145.332 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Microtubules

EntireName: MicrotubulesMicrotubule
Components
  • Complex: MicrotubulesMicrotubule

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Supramolecule #1: Microtubules

SupramoleculeName: Microtubules / type: complex / ID: 1 / Chimera: Yes / Parent: 0
Source (natural)Organism: Sus scrofa (pig)

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation statefilament

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Sample preparation

BufferpH: 6.9
VitrificationCryogen name: ETHANE
SectioningOther: NO SECTIONING
Fiducial markerManufacturer: Sigma / Diameter: 5 nm

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Electron microscopy

MicroscopeJEOL 3200FSC
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 4.0 µm / Nominal defocus min: 4.0 µm / Nominal magnification: 10000
Specialist opticsEnergy filter - Slit width: 30 eV
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 80.0 e/Å2

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Image processing

Final reconstructionNumber images used: 61

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