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- EMDB-49254: In-situ structure of the flagellar motor of Campylobacter jejuni ... -

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Basic information

Entry
Database: EMDB / ID: EMD-49254
TitleIn-situ structure of the flagellar motor of Campylobacter jejuni flgY deletion mutant
Map dataIn-situ structure of the flagellar motor of Campylobacter jejuni flgY deletion mutant
Sample
  • Cell: Campylobacter jejuni
KeywordsC. jejuni / Flagella / Complex / Flagellar motor / MOTOR PROTEIN
Biological speciesCampylobacter jejuni (Campylobacter)
Methodsubtomogram averaging / cryo EM / Resolution: 30.6 Å
AuthorsTachiyama S / Liu J
Funding support United States, 2 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R01AI087946 United States
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R01AI132818 United States
CitationJournal: To Be Published
Title: The architecture, assembly, and evolution of a complex flagellar motor
Authors: Feng X / Tachiyama S / He J / Zhu S / Zhao H / Botting JM / Liu Y / Chen Y / Hua C / Lara-Tejero M / Baker MAB / Gao X / Liu J / Gao B
History
DepositionFeb 16, 2025-
Header (metadata) releaseDec 17, 2025-
Map releaseDec 17, 2025-
UpdateDec 17, 2025-
Current statusDec 17, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_49254.png

Downloads & links

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Map

FileDownload / File: emd_49254.map.gz / Format: CCP4 / Size: 57.2 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationIn-situ structure of the flagellar motor of Campylobacter jejuni flgY deletion mutant
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
4.3 Å/pix.
x 240 pix.
= 1031.04 Å		4.3 Å/pix.
x 250 pix.
= 1074. Å		4.3 Å/pix.
x 250 pix.
= 1074. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

generated in cubic-lattice coordinate

Voxel sizeX=Y=Z: 4.296 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.0687
Minimum - Maximum-0.4808771 - 0.5921458
Average (Standard dev.)0.000000000023155 (±0.0711129)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions250250240
Spacing250250240
CellA: 1074.0 Å / B: 1074.0 Å / C: 1031.04 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: Half map of the flagellar motor structure of...

Fileemd_49254_half_map_1.map
AnnotationHalf map of the flagellar motor structure of Campylobacter jejuni flgY deletion mutant
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Half map of the flagellar motor structure of...

Fileemd_49254_half_map_2.map
AnnotationHalf map of the flagellar motor structure of Campylobacter jejuni flgY deletion mutant
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Campylobacter jejuni

EntireName: Campylobacter jejuni (Campylobacter)
Components
  • Cell: Campylobacter jejuni

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Supramolecule #1: Campylobacter jejuni

SupramoleculeName: Campylobacter jejuni / type: cell / ID: 1 / Parent: 0
Source (natural)Organism: Campylobacter jejuni (Campylobacter)

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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: 7.4
VitrificationCryogen name: ETHANE-PROPANE

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Electron microscopy

MicroscopeTFS KRIOS
Specialist opticsEnergy filter - Name: GIF Bioquantum / Energy filter - Slit width: 20 eV
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 1.96 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: C17 (17 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 30.6 Å / Resolution method: FSC 0.5 CUT-OFF / Number subtomograms used: 219
ExtractionNumber tomograms: 226 / Number images used: 263
CTF correctionType: PHASE FLIPPING ONLY
Final angle assignmentType: OTHER

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