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- EMDB-35225: A3 part of axonemal doublet microtubules in mouse sperm with 48-n... -

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Basic information

Entry
Database: EMDB / ID: EMD-35225
TitleA3 part of axonemal doublet microtubules in mouse sperm with 48-nm repeat
Map dataA3 part of axonemal doublet microtubules in mouse sperm with 48-nm repeat
Sample
  • Cell: mouse sperm
Keywordsmicrotubules / axoneme / sperm / filament / PROTEIN TRANSPORT
Biological speciesMus musculus (house mouse)
Methodsubtomogram averaging / cryo EM / Resolution: 6.6 Å
AuthorsZhu Y / Tai LH / Yin GL / Sun F
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)31925026 China
CitationJournal: Cell Discov / Year: 2023
Title: In-cell structural insight into the stability of sperm microtubule doublet.
Authors: Tai L / Yin G / Huang X / Sun F / Zhu Y
History
DepositionFeb 1, 2023-
Header (metadata) releaseOct 11, 2023-
Map releaseOct 11, 2023-
UpdateDec 6, 2023-
Current statusDec 6, 2023Processing site: PDBj / Status: Released

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Structure visualization

Downloads & links

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Map

FileDownload / File: emd_35225.map.gz / Format: CCP4 / Size: 64 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationA3 part of axonemal doublet microtubules in mouse sperm with 48-nm repeat
Voxel sizeX=Y=Z: 1.76 Å
Density
Contour LevelBy AUTHOR: 0.004
Minimum - Maximum-0.0035586455 - 0.009565523
Average (Standard dev.)0.0005336628 (±0.0015023318)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions256256256
Spacing256256256
CellA=B=C: 450.56 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : mouse sperm

EntireName: mouse sperm
Components
  • Cell: mouse sperm

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Supramolecule #1: mouse sperm

SupramoleculeName: mouse sperm / type: cell / ID: 1 / Parent: 0
Source (natural)Organism: Mus musculus (house mouse)

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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 K2 QUANTUM (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average electron dose: 3.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 5.0 µm / Nominal defocus min: 1.0 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: 6.6 Å / Resolution method: FSC 0.143 CUT-OFF / Number subtomograms used: 17450
ExtractionNumber tomograms: 689 / Number images used: 17450
Final angle assignmentType: MAXIMUM LIKELIHOOD

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