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- EMDB-19642: Campylobacter jejuni bacterial flagellar C-ring -

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Basic information

Entry
Database: EMDB / ID: EMD-19642
TitleCampylobacter jejuni bacterial flagellar C-ring
Map dataC-ring from the Campylobacter jejuni bacterial flagellar motor
Sample
  • Organelle or cellular component: C-ring from bacterial flagellar motor of Campylobacter jejuni
Keywordsbacterial flagella / MOTOR PROTEIN
Biological speciesCampylobacter jejuni (Campylobacter)
Methodsubtomogram averaging / cryo EM / Resolution: 20.0 Å
AuthorsBeeby M
Funding support United Kingdom, 1 items
OrganizationGrant numberCountry
Medical Research Council (MRC, United Kingdom)MR/V000799/1 United Kingdom
CitationJournal: bioRxiv / Year: 2024
Title: Molecular model of a bacterial flagellar motor reveals a "parts-list" of protein adaptations to increase torque.
Authors: Tina Drobnič / Eli J Cohen / Tom Calcraft / Mona Alzheimer / Kathrin Froschauer / Sarah Svensson / William H Hoffmann / Nanki Singh / Sriram G Garg / Louie Henderson / Trishant R Umrekar / ...Authors: Tina Drobnič / Eli J Cohen / Tom Calcraft / Mona Alzheimer / Kathrin Froschauer / Sarah Svensson / William H Hoffmann / Nanki Singh / Sriram G Garg / Louie Henderson / Trishant R Umrekar / Andrea Nans / Deborah Ribardo / Francesco Pedaci / Ashley L Nord / Georg K A Hochberg / David R Hendrixson / Cynthia M Sharma / Peter B Rosenthal / Morgan Beeby /
Abstract: One hurdle to understanding how molecular machines work, and how they evolve, is our inability to see their structures . Here we describe a minicell system that enables cryogenic electron microscopy ...One hurdle to understanding how molecular machines work, and how they evolve, is our inability to see their structures . Here we describe a minicell system that enables cryogenic electron microscopy imaging and single particle analysis to investigate the structure of an iconic molecular machine, the bacterial flagellar motor, which spins a helical propeller for propulsion. We determine the structure of the high-torque motor including the subnanometre-resolution structure of the periplasmic scaffold, an adaptation essential to high torque. Our structure enables identification of new proteins, and interpretation with molecular models highlights origins of new components, reveals modifications of the conserved motor core, and explain how these structures both template a wider ring of motor proteins, and buttress the motor during swimming reversals. We also acquire insights into universal principles of flagellar torque generation. This approach is broadly applicable to other membrane-residing bacterial molecular machines complexes.
History
DepositionFeb 16, 2024-
Header (metadata) releaseOct 30, 2024-
Map releaseOct 30, 2024-
UpdateOct 30, 2024-
Current statusOct 30, 2024Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_19642.png

Downloads & links

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Map

FileDownload / File: emd_19642.map.gz / Format: CCP4 / Size: 1.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationC-ring from the Campylobacter jejuni bacterial flagellar motor
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
7.59 Å/pix.
x 100 pix.
= 759.3 Å		7.59 Å/pix.
x 50 pix.
= 379.65 Å		7.59 Å/pix.
x 100 pix.
= 759.3 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: 7.593 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.4
Minimum - Maximum-0.09141582 - 0.75889283
Average (Standard dev.)0.26885587 (±0.102354884)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions50100100
Spacing10050100
CellA: 759.3 Å / B: 379.65 Å / C: 759.3 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: C-ring from the Campylobacter jejuni bacterial flagellar motor...

Fileemd_19642_half_map_1.map
AnnotationC-ring from the Campylobacter jejuni bacterial flagellar motor half-map: even
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: C-ring from the Campylobacter jejuni bacterial flagellar motor...

Fileemd_19642_half_map_2.map
AnnotationC-ring from the Campylobacter jejuni bacterial flagellar motor half map: odd
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : C-ring from bacterial flagellar motor of Campylobacter jejuni

EntireName: C-ring from bacterial flagellar motor of Campylobacter jejuni
Components
  • Organelle or cellular component: C-ring from bacterial flagellar motor of Campylobacter jejuni

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Supramolecule #1: C-ring from bacterial flagellar motor of Campylobacter jejuni

SupramoleculeName: C-ring from bacterial flagellar motor of Campylobacter jejuni
type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Details: Strain DRH8754 - see publication
Source (natural)Organism: Campylobacter jejuni (Campylobacter) / Strain: 81-176 / Location in cell: Cell envelope

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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

MicroscopeTFS GLACIOS
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Digitization - Dimensions - Width: 4096 pixel / Digitization - Dimensions - Height: 4096 pixel / Number real images: 2 / Average electron dose: 2.7 e/Å2
Electron beamAcceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 5.0 µm / Nominal defocus min: 0.2 µm

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Image processing

Final reconstructionAlgorithm: SIMULTANEOUS ITERATIVE (SIRT) / Resolution.type: BY AUTHOR / Resolution: 20.0 Å / Resolution method: FSC 0.5 CUT-OFF / Number subtomograms used: 194
ExtractionNumber tomograms: 194 / Number images used: 194
Final angle assignmentType: NOT APPLICABLE

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