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- EMDB-35096: The in situ structure of conoid fiber from Toxoplasma gondii tach... -

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Basic information

Entry
Database: EMDB / ID: EMD-35096
TitleThe in situ structure of conoid fiber from Toxoplasma gondii tachyzoite
Map data
Sample
  • Complex: Conoid fiber of mature Toxoplasma gondii tachyzoite
KeywordsToxoplasma gondii / conoid / CELL INVASION
Biological speciesToxoplasma gondii RH (eukaryote)
Methodsubtomogram averaging / cryo EM / Resolution: 28.0 Å
AuthorsLi Z / Guo Q
Funding support1 items
OrganizationGrant numberCountry
Not funded
CitationJournal: Adv Sci (Weinh) / Year: 2023
Title: Cryo-Electron Tomography of Toxoplasma gondii Indicates That the Conoid Fiber May Be Derived from Microtubules.
Authors: Zhixun Li / Wenjing Du / Jiong Yang / De-Hua Lai / Zhao-Rong Lun / Qiang Guo /
Abstract: Toxoplasma gondii (T. gondii) is the causative agent of toxoplasmosis and can infect numerous warm-blooded animals. An improved understanding of the fine structure of this parasite can help elucidate ...Toxoplasma gondii (T. gondii) is the causative agent of toxoplasmosis and can infect numerous warm-blooded animals. An improved understanding of the fine structure of this parasite can help elucidate its replication mechanism. Previous studies have resolved the ultrastructure of the cytoskeleton using purified samples, which eliminates their cellular context. Here the application of cryo-electron tomography to visualize T. gondii tachyzoites in their native state is reported. The fine structure and cellular distribution of the cytoskeleton are resolved and analyzed at nanometer resolution. Additionally, the tachyzoite structural characteristics are annotated during its endodyogeny for the first time. By comparing the structural features in mature tachyzoites and their daughter buds, it is proposed that the conoid fiber of the Apicomplexa originates from microtubules. This work represents the detailed molecular anatomy of T. gondii, particularly during the budding replication stage of tachyzoite, and provides a reference for further studies of this fascinating organism.
History
DepositionJan 10, 2023-
Header (metadata) releaseMar 8, 2023-
Map releaseMar 8, 2023-
UpdateJun 7, 2023-
Current statusJun 7, 2023Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_35096.png

Downloads & links

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Map

FileDownload / File: emd_35096.map.gz / Format: CCP4 / Size: 32.4 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 3.328 Å
Density
Contour LevelBy AUTHOR: 0.422
Minimum - Maximum-0.3111854 - 0.7844338
Average (Standard dev.)0.050817814 (±0.13811727)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions204204204
Spacing204204204
CellA=B=C: 678.912 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_35096_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_35096_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Conoid fiber of mature Toxoplasma gondii tachyzoite

EntireName: Conoid fiber of mature Toxoplasma gondii tachyzoite
Components
  • Complex: Conoid fiber of mature Toxoplasma gondii tachyzoite

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Supramolecule #1: Conoid fiber of mature Toxoplasma gondii tachyzoite

SupramoleculeName: Conoid fiber of mature Toxoplasma gondii tachyzoite / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Toxoplasma gondii RH (eukaryote)

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Experimental details

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Structure determination

Methodcryo EM
Processingsubtomogram averaging
Aggregation statecell

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Sample preparation

BufferpH: 7
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 3.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 5.0 µm / Nominal defocus min: 3.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 28.0 Å / Resolution method: FSC 0.143 CUT-OFF / Number subtomograms used: 1082
ExtractionNumber tomograms: 10 / Number images used: 1082
Final angle assignmentType: MAXIMUM LIKELIHOOD

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