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- EMDB-45291: A focused refinement map of the flagellar collar of a Borreliella... -

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Entry
Database: EMDB / ID: EMD-45291
TitleA focused refinement map of the flagellar collar of a Borreliella burgdorferi flcB mutant
Map dataA focused refined map of half of the flagellar collar from an flcB deletion mutant strain of Borreliella burgdorferi.
Sample
  • Complex: B. burgdorferi flagellar collar
Keywordsflagella / cryo electron tomography / spirochete / motor / collar / MOTOR PROTEIN
Biological speciesBorreliella burgdorferi (Lyme disease spirochete)
Methodsubtomogram averaging / cryo EM / Resolution: 24.2 Å
AuthorsBotting JM / Rahman MK / Xu H / Yue J / Guo W / Motaleb MA / Liu J
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) United States
CitationJournal: PLoS Pathog / Year: 2025
Title: FlbB forms a distinctive ring essential for periplasmic flagellar assembly and motility in Borrelia burgdorferi.
Authors: Jack M Botting / Md Khalesur Rahman / Hui Xu / Jian Yue / Wangbiao Guo / Joshua T Del Mundo / Michal Hammel / Md A Motaleb / Jun Liu /
Abstract: Spirochetes are a widespread group of bacteria with a distinct morphology. Some spirochetes are important human pathogens that utilize periplasmic flagella to achieve motility and host infection. The ...Spirochetes are a widespread group of bacteria with a distinct morphology. Some spirochetes are important human pathogens that utilize periplasmic flagella to achieve motility and host infection. The motors that drive the rotation of periplasmic flagella have a unique spirochete-specific feature, termed the collar, crucial for the flat-wave morphology and motility of the Lyme disease spirochete Borrelia burgdorferi. Here, we deploy cryo-electron tomography and subtomogram averaging to determine high-resolution in-situ structures of the B. burgdorferi flagellar motor. Comparative analysis and molecular modeling of in-situ flagellar motor structures from B. burgdorferi mutants lacking each of the known collar proteins (FlcA, FlcB, FlcC, FlbB, and Bb0236/FlcD) uncover a complex protein network at the base of the collar. Importantly, our data suggest that FlbB forms a novel periplasmic ring around the rotor but also acts as a scaffold supporting collar assembly and subsequent recruitment of stator complexes. The complex protein network based on the FlbB ring effectively bridges the rotor and 16 torque-generating stator complexes in each flagellar motor, thus contributing to the specialized motility and lifestyle of spirochetes in complex environments.
History
DepositionJun 11, 2024-
Header (metadata) releaseDec 25, 2024-
Map releaseDec 25, 2024-
UpdateJul 9, 2025-
Current statusJul 9, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_45291.png

Downloads & links

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Map

FileDownload / File: emd_45291.map.gz / Format: CCP4 / Size: 10.5 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationA focused refined map of half of the flagellar collar from an flcB deletion mutant strain of Borreliella burgdorferi.
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
4.29 Å/pix.
x 140 pix.
= 600.04 Å		4.29 Å/pix.
x 140 pix.
= 600.04 Å		4.29 Å/pix.
x 140 pix.
= 600.04 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 4.286 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.075
Minimum - Maximum-0.46220112 - 0.50718933
Average (Standard dev.)-0.000000000037813 (±0.059682693)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-70-70-70
Dimensions140140140
Spacing140140140
CellA=B=C: 600.04 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: The odd half map used to calculate fourier...

Fileemd_45291_half_map_1.map
AnnotationThe odd half map used to calculate fourier shell correlation for a focused refined map of half of the flagellar collar from an flcB deletion mutant strain of Borreliella burgdorferi.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: The even half map used to calculate fourier...

Fileemd_45291_half_map_2.map
AnnotationThe even half map used to calculate fourier shell correlation for a focused refined map of half of the flagellar collar from an flcB deletion mutant strain of Borreliella burgdorferi.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : B. burgdorferi flagellar collar

EntireName: B. burgdorferi flagellar collar
Components
  • Complex: B. burgdorferi flagellar collar

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Supramolecule #1: B. burgdorferi flagellar collar

SupramoleculeName: B. burgdorferi flagellar collar / type: complex / ID: 1 / Parent: 0 / Details: flcB mutant
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 stateparticle

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Sample preparation

BufferpH: 7.4
GridModel: Quantifoil / Material: COPPER / Pretreatment - Type: GLOW DISCHARGE
VitrificationCryogen name: ETHANE-PROPANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 2.5 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 4.8 µm / Nominal defocus min: 4.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionApplied symmetry - Point group: C16 (16 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 24.2 Å / Resolution method: FSC 0.5 CUT-OFF / Number subtomograms used: 1693
ExtractionNumber tomograms: 268 / Number images used: 1693
CTF correctionType: PHASE FLIPPING ONLY
Final angle assignmentType: OTHER

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