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- EMDB-69626: Cryo-EM map of CagM-CagX complex with CagM-focused mask -

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Basic information

Entry
Database: EMDB / ID: EMD-69626
TitleCryo-EM map of CagM-CagX complex with CagM-focused mask
Map data
Sample
  • Complex: CagM-CagX complex
KeywordsType IV secretion system / Helicobacter pylori / double-ring complex / STRUCTURAL PROTEIN
Biological speciesHelicobacter pylori G27 (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 7.77 Å
AuthorsChu HY / Mok CY / Au SWN
Funding support Hong Kong, 2 items
OrganizationGrant numberCountry
Other privateStrategic Partnership Award for Research Collaboration Hong Kong
The University Grants Committee, Research Grants Council (RGC)14121619 Hong Kong
CitationJournal: To Be Published
Title: Cryo-EM map of CagM-CagX complex with CagM-focused mask
Authors: Chu HY / Mok CY / Au SWN
History
DepositionMar 10, 2026-
Header (metadata) releaseJul 8, 2026-
Map releaseJul 8, 2026-
UpdateJul 8, 2026-
Current statusJul 8, 2026Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_69626.png

Downloads & links

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Map

FileReleased
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.49 Å/pix.
x 300 pix.
= 448.2 Å		1.49 Å/pix.
x 300 pix.
= 448.2 Å		1.49 Å/pix.
x 300 pix.
= 448.2 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.494 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.5
Minimum - Maximum-3.9441016 - 4.9081264
Average (Standard dev.)0.002584687 (±0.1600704)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 448.19998 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_69626_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_69626_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_69626_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 : CagM-CagX complex

EntireName: CagM-CagX complex
Components
  • Complex: CagM-CagX complex

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Supramolecule #1: CagM-CagX complex

SupramoleculeName: CagM-CagX complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#2
Source (natural)Organism: Helicobacter pylori G27 (bacteria)

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.5
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeTFS TALOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.5 µm

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 7.77 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 190251
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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