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- EMDB-50845: Real space helical reconstruction of cofilin actin in the microtu... -

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Basic information

Entry
Database: EMDB / ID: EMD-50845
TitleReal space helical reconstruction of cofilin actin in the microtubule lumen of HAP1 cells
Map dataReal space helical reconstruction of cofilin actin in the microtubule lumen of HAP1 cells
Sample
  • Complex: Cofilin bound actin structure found in the lumen of microtubules in HAP1 cells
Keywordscofilin / actin / filament / CYTOSOLIC PROTEIN
Biological speciesHomo sapiens (human)
Methodhelical reconstruction / cryo EM / Resolution: 20.0 Å
AuthorsTsuji C / Bradshaw M / Paul DM / Dodding MP
Funding support United Kingdom, 12 items
OrganizationGrant numberCountry
Wellcome Trust203959/Z/16/Z United Kingdom
British Heart FoundationFS/20/5/34973 United Kingdom
British Heart FoundationFS/4yPhD/F/20/34125 United Kingdom
Wellcome Trust219472/Z/19/Z United Kingdom
British Heart FoundationSP/F/21/150023 United Kingdom
British Heart FoundationPG/21/10760 United Kingdom
British Heart FoundationPG/21/10760 United Kingdom
UK Research and Innovation (UKRI)BB/X017176/1 United Kingdom
British Heart FoundationFS/14/18/3071 United Kingdom
British Heart FoundationFS/IBSRF/23/25156 United Kingdom
The Lister Institute of Preventive Medicine United Kingdom
UK Research and Innovation (UKRI)BB/W005581/1 United Kingdom
CitationJournal: Nat Commun / Year: 2024
Title: CryoET reveals actin filaments within platelet microtubules.
Authors: Chisato Tsuji / Marston Bradshaw / Megan F Allen / Molly L Jackson / Judith Mantell / Ufuk Borucu / Alastair W Poole / Paul Verkade / Ingeborg Hers / Danielle M Paul / Mark P Dodding /
Abstract: Crosstalk between the actin and microtubule cytoskeletons is important for many cellular processes. Recent studies have shown that microtubules and F-actin can assemble to form a composite structure ...Crosstalk between the actin and microtubule cytoskeletons is important for many cellular processes. Recent studies have shown that microtubules and F-actin can assemble to form a composite structure where F-actin occupies the microtubule lumen. Whether these cytoskeletal hybrids exist in physiological settings and how they are formed is unclear. Here, we show that the short-crossover Class I actin filament previously identified inside microtubules in human HAP1 cells is cofilin-bound F-actin. Lumenal F-actin can be reconstituted in vitro, but cofilin is not essential. Moreover, actin filaments with both cofilin-bound and canonical morphologies reside within human platelet microtubules under physiological conditions. We propose that stress placed upon the microtubule network during motor-driven microtubule looping and sliding may facilitate the incorporation of actin into microtubules.
History
DepositionJul 1, 2024-
Header (metadata) releaseJul 10, 2024-
Map releaseJul 10, 2024-
UpdateAug 7, 2024-
Current statusAug 7, 2024Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_50845.png

Downloads & links

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Map

FileDownload / File: emd_50845.map.gz / Format: CCP4 / Size: 8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationReal space helical reconstruction of cofilin actin in the microtubule lumen of HAP1 cells
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
3.75 Å/pix.
x 128 pix.
= 480. Å		3.75 Å/pix.
x 128 pix.
= 480. Å		3.75 Å/pix.
x 128 pix.
= 480. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 3.75 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 4.2
Minimum - Maximum-0.2614465 - 7.6624537
Average (Standard dev.)0.14245977 (±0.73164964)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-64-64-64
Dimensions128128128
Spacing128128128
CellA=B=C: 480.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Cofilin bound actin structure found in the lumen of microtubules ...

EntireName: Cofilin bound actin structure found in the lumen of microtubules in HAP1 cells
Components
  • Complex: Cofilin bound actin structure found in the lumen of microtubules in HAP1 cells

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Supramolecule #1: Cofilin bound actin structure found in the lumen of microtubules ...

SupramoleculeName: Cofilin bound actin structure found in the lumen of microtubules in HAP1 cells
type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Homo sapiens (human) / Strain: HAP1 cells

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Experimental details

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Structure determination

Methodcryo EM
Processinghelical reconstruction
Aggregation statefilament

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Sample preparation

BufferpH: 6.8
VitrificationCryogen name: ETHANE / Instrument: LEICA EM GP

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: TFS FALCON 4i (4k x 4k) / Average electron dose: 2.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 7.0 µm / Nominal defocus min: 3.0 µm / Nominal magnification: 63000
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionApplied symmetry - Helical parameters - Δz: 27.5 Å
Applied symmetry - Helical parameters - Δ&Phi: 162 °
Applied symmetry - Helical parameters - Axial symmetry: C1 (asymmetric)
Resolution.type: BY AUTHOR / Resolution: 20.0 Å / Resolution method: OTHER
Details: A sub-volume containing the filament was extracted from a tomogram, which was then 2D projected. The projected image was used for real space helical reconstruction to create the map. ...Details: A sub-volume containing the filament was extracted from a tomogram, which was then 2D projected. The projected image was used for real space helical reconstruction to create the map. Resolution was estimated compared to molmap generation of PDB:3J0S at 20 angstroms in Chimera and correlation score of 0.96 was obtained.
Number images used: 1
Startup modelType of model: NONE
Final angle assignmentType: NOT APPLICABLE

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