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- EMDB-72833: H-ring subunit FlgO and FlgP in Vibrio cholerae at assembled, ope... -

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Basic information

Entry
Database: EMDB / ID: EMD-72833
TitleH-ring subunit FlgO and FlgP in Vibrio cholerae at assembled, opened state
Map data
Sample
  • Cell: Vibrio cholerae
    • Protein or peptide: Lipoprotein
    • Protein or peptide: FlgO domain-containing protein
KeywordsIn situ cryo-EM / sheathed flagellar motor / Vibrio cholerae / H-ring / assembled state / MOTOR PROTEIN
Function / homologyFlagellar protein FlgO / FlgO domain / FlgO protein / Flagellar protein FlgP / Prokaryotic membrane lipoprotein lipid attachment site profile. / FlgO domain-containing protein / Lipoprotein
Function and homology information
Biological speciesVibrio cholerae O1 biovar El Tor str. N16961 (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.45 Å
AuthorsGuo W / Yue J
Funding support United States, 2 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R01 AI087946 United States
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)R01 AI132818 United States
CitationJournal: To Be Published
Title: In-situ cryo-EM structures reveal mechanisms of sheathed flagellar assembly, rotation, and disassembly in Vibrio cholerae
Authors: Wangbiao G / Jian Y / Jin HP / Fitnat Y / Jun L
History
DepositionSep 23, 2025-
Header (metadata) releaseJun 10, 2026-
Map releaseJun 10, 2026-
UpdateJun 10, 2026-
Current statusJun 10, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_72833.png

Downloads & links

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Map

FileDownload / File: emd_72833.map.gz / Format: CCP4 / Size: 512 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.5 Å/pix.
x 512 pix.
= 769.024 Å		1.5 Å/pix.
x 512 pix.
= 769.024 Å		1.5 Å/pix.
x 512 pix.
= 769.024 Å

Surface

Projections

Slices (1/3)

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Images are generated by Spider.

Voxel sizeX=Y=Z: 1.502 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.08
Minimum - Maximum-0.9374434 - 1.6295493
Average (Standard dev.)0.0033474867 (±0.039888285)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions512512512
Spacing512512512
CellA=B=C: 769.024 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_72833_msk_1.map
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AxesZYX

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Additional map: #1

Fileemd_72833_additional_1.map
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Half map: #1

Fileemd_72833_half_map_1.map
Projections & Slices
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Histogram

Histogram (log scale)

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Half map: #2

Fileemd_72833_half_map_2.map
Projections & Slices
AxesZYX

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Sample components

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Entire : Vibrio cholerae

EntireName: Vibrio cholerae (bacteria)
Components
  • Cell: Vibrio cholerae
    • Protein or peptide: Lipoprotein
    • Protein or peptide: FlgO domain-containing protein

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Supramolecule #1: Vibrio cholerae

SupramoleculeName: Vibrio cholerae / type: cell / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Vibrio cholerae O1 biovar El Tor str. N16961 (bacteria)

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Macromolecule #1: Lipoprotein

MacromoleculeName: Lipoprotein / type: protein_or_peptide / ID: 1 / Number of copies: 58 / Enantiomer: LEVO
Source (natural)Organism: Vibrio cholerae O1 biovar El Tor str. N16961 (bacteria)
Molecular weightTheoretical: 11.848299 KDa
SequenceString:
PDDWLTAVGY ANISEQRGRD EAEKQVRAMR ASKIDAYREL AEQVYGMRIS GRAELQDQRL GTELTAGADG VIRGAEVVRS YKVGDSYVT ELRLDIRKMD KMRDY

UniProtKB: Lipoprotein

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Macromolecule #2: FlgO domain-containing protein

MacromoleculeName: FlgO domain-containing protein / type: protein_or_peptide / ID: 2 / Number of copies: 58 / Enantiomer: LEVO
Source (natural)Organism: Vibrio cholerae O1 biovar El Tor str. N16961 (bacteria)
Molecular weightTheoretical: 21.563299 KDa
SequenceString: APIYNGKEPY NGSQFMLMES PRHTLDFFVE SMTEDLMLSN TSITARTPIA VTSFVDLQNM DTTNWLGNSV SEGFIHQFQR RGFKVVDFK TTGSIQVTQQ GDFAFSRDWK NLSSEQEVQY VLTGTMLRQE GGVIVNARVV GMHSRIVVAT AQGFLPADRI G RDLDTLNS ...String:
APIYNGKEPY NGSQFMLMES PRHTLDFFVE SMTEDLMLSN TSITARTPIA VTSFVDLQNM DTTNWLGNSV SEGFIHQFQR RGFKVVDFK TTGSIQVTQQ GDFAFSRDWK NLSSEQEVQY VLTGTMLRQE GGVIVNARVV GMHSRIVVAT AQGFLPADRI G RDLDTLNS IRTQDGVLIR SDPTITQPYT VILR

UniProtKB: FlgO domain-containing protein

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation statecell

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Sample preparation

BufferpH: 7.4
VitrificationCryogen name: ETHANE-PROPANE

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Electron microscopy

MicroscopeFEI TECNAI F30
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 70.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.6 µm
Experimental equipment
Model: Tecnai F30 / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: OTHER
Final reconstructionApplied symmetry - Point group: C58 (58 fold cyclic) / Resolution.type: BY AUTHOR / Resolution: 3.45 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 35317
Initial angle assignmentType: OTHER
Final angle assignmentType: OTHER
FSC plot (resolution estimation)

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