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- EMDB-48081: Subtomogram average structure of MS-ring in Borrelia burgdorferi -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-48081
TitleSubtomogram average structure of MS-ring in Borrelia burgdorferi
Map data
Sample
  • Complex: flagellar MS-ring
Keywordsflagellar motor / MOTOR PROTEIN
Biological speciesBorreliella burgdorferi (Lyme disease spirochete)
Methodsubtomogram averaging / cryo EM / Resolution: 16.0 Å
AuthorsYue J / Jun L
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R01AI087946 United States
CitationJournal: To Be Published
Title: Membrane remodeling is required for the coordinated, sequential assembly of the export apparatus and MS-ring in bacterial flagella
Authors: Yue J / Jun L
History
DepositionNov 25, 2024-
Header (metadata) releaseJun 3, 2026-
Map releaseJun 3, 2026-
UpdateJun 3, 2026-
Current statusJun 3, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_48081.png

Downloads & links

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Map

FileDownload / File: emd_48081.map.gz / Format: CCP4 / Size: 6.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
4.3 Å/pix.
x 120 pix.
= 516. Å		4.3 Å/pix.
x 120 pix.
= 516. Å		4.3 Å/pix.
x 120 pix.
= 516. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 4.3 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.02
Minimum - Maximum-0.67907876 - 0.64096475
Average (Standard dev.)0.00014335015 (±0.090028)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-60-60-60
Dimensions120120120
Spacing120120120
CellA=B=C: 516.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_48081_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_48081_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 : flagellar MS-ring

EntireName: flagellar MS-ring
Components
  • Complex: flagellar MS-ring

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Supramolecule #1: flagellar MS-ring

SupramoleculeName: flagellar MS-ring / type: complex / ID: 1 / Parent: 0
Source (natural)Organism: Borreliella burgdorferi (Lyme disease spirochete)

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Experimental details

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Structure determination

Methodcryo EM
Processingsubtomogram averaging
Aggregation state2D array

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Sample preparation

BufferpH: 7.5
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TECNAI ARCTICA
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 2.1 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Nominal defocus max: 5.0 µm / Nominal defocus min: 2.0 µm
Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company

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Image processing

Final reconstructionResolution.type: BY AUTHOR / Resolution: 16.0 Å / Resolution method: FSC 0.143 CUT-OFF / Number subtomograms used: 735
ExtractionNumber tomograms: 735 / Number images used: 4042
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Final angle assignmentType: OTHER

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