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- EMDB-55735: Cryo-electron tomogram of septal region from Nostoc PCC7120 FraD-TM -

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Basic information

Entry
Database: EMDB / ID: EMD-55735
TitleCryo-electron tomogram of septal region from Nostoc PCC7120 FraD-TM
Map data
Sample
  • Cell: Cryo-electron tomogram of septal region from Nostoc PCC7120 FraD-TM
Keywordsseptal junctions / Anabaena / Nostoc / cell-cell communication / TRANSPORT PROTEIN
Biological speciesNostoc PCC 7120 (bacteria)
Methodelectron tomography / cryo EM
AuthorsKieninger AK / Li Y / Janovic A / Tokarz P / Maldener I / Weiss GL
Funding support Switzerland, 1 items
OrganizationGrant numberCountry
Swiss National Science FoundationTMSGI3_226208 Switzerland
CitationJournal: To Be Published
Title: The FraD-SepN structural module serves as an anchor and assembly platform for septal junctions in cyanobacteria
Authors: Kieninger AK / Li Y / Janovic A / Tokarz P / Maldener I / Weiss GL
History
DepositionNov 17, 2025-
Header (metadata) releaseJun 24, 2026-
Map releaseJun 24, 2026-
UpdateJun 24, 2026-
Current statusJun 24, 2026Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_55735.png

Downloads & links

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Map

FileDownload / File: emd_55735.map.gz / Format: CCP4 / Size: 632.8 MB / Type: IMAGE STORED AS SIGNED INTEGER (2 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
10.71 Å/pix.
x 225 pix.
= 2409.75 Å		10.71 Å/pix.
x 1440 pix.
= 15422.4 Å		10.71 Å/pix.
x 1024 pix.
= 10967.04 Å

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

generated in cubic-lattice coordinate

Voxel sizeX=Y=Z: 10.71 Å
Density

Histogram

Histogram (log scale)
Minimum - Maximum-14.0 - 8.0
Average (Standard dev.)0.076811664 (±1.0358657)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-209208-113
Dimensions14401024225
Spacing10241440225
CellA: 10967.04 Å / B: 15422.4 Å / C: 2409.75 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Cryo-electron tomogram of septal region from Nostoc PCC7120 FraD-TM

EntireName: Cryo-electron tomogram of septal region from Nostoc PCC7120 FraD-TM
Components
  • Cell: Cryo-electron tomogram of septal region from Nostoc PCC7120 FraD-TM

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Supramolecule #1: Cryo-electron tomogram of septal region from Nostoc PCC7120 FraD-TM

SupramoleculeName: Cryo-electron tomogram of septal region from Nostoc PCC7120 FraD-TM
type: cell / ID: 1 / Parent: 0
Source (natural)Organism: Nostoc PCC 7120 (bacteria)

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation stateparticle

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Sample preparation

BufferpH: 7.4
VitrificationCryogen name: ETHANE-PROPANE
SectioningFocused ion beam - Instrument: OTHER / Focused ion beam - Ion: OTHER / Focused ion beam - Voltage: 30 / Focused ion beam - Current: 0.05 / Focused ion beam - Duration: 1200 / Focused ion beam - Temperature: 122 K / Focused ion beam - Initial thickness: 3000 / Focused ion beam - Final thickness: 180
Focused ion beam - Details: The value given for _em_focused_ion_beam.instrument is Zeiss Crossbeam. This is not in a list of allowed values {'OTHER', 'DB235'} so OTHER is written into the XML file.

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOCONTINUUM (6k x 4k) / Average electron dose: 3.4 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 6.0 µm / Nominal defocus min: 3.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionSoftware - Name: IMOD / Number images used: 41
CTF correctionType: PHASE FLIPPING ONLY

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