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- EMDB-52776: Cryo-electron tomogram of cryo-FIB milled Nostoc PCC7120 cse KO -

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Basic information

Entry
Database: EMDB / ID: EMD-52776
TitleCryo-electron tomogram of cryo-FIB milled Nostoc PCC7120 cse KO
Map data
Sample
  • Cell: Septum of Nostoc PCC7120 cseKO
KeywordsSeptal junctions / STRUCTURAL PROTEIN
Biological speciesNostoc PCC7120 (bacteria)
Methodelectron tomography / cryo EM
AuthorsMueller T / Kleusberg FM / Roganowicz K / Weiss G / Coles M / Selim KA
Funding support Switzerland, 1 items
OrganizationGrant numberCountry
ETH Zurich Switzerland
CitationJournal: EMBO J / Year: 2026
Title: The calcium-binding protein CSE links Ca signaling with cell-cell communication in cyanobacteria.
Authors: Teresa A Müller / Felicia Stahlecker / Karolina Roganowicz / Sherihan Samir / Gregor L Weiss / Murray Coles / Khaled A Selim /
Abstract: Multicellular cyanobacteria have evolved sophisticated cell-cell communication machinery to exchange, synchronize, and coordinate the efforts of individual cells. Analogous to gap junctions that have ...Multicellular cyanobacteria have evolved sophisticated cell-cell communication machinery to exchange, synchronize, and coordinate the efforts of individual cells. Analogous to gap junctions that have traditionally been regarded as a eukaryotic feature, multicellular cyanobacteria coordinate their cell-cell communication via septal junctions (SJs). However, the signals that regulate cell-cell communication and septal-junction assembly are largely unknown. Lately, calcium signaling has been implicated in regulating cell junctions in eukaryotes. We recently discovered a Ca-binding protein, CSE, which is exclusively found in multicellular cyanobacteria. Here, we investigate CSE as a potential link between calcium signaling and cell-cell communication. We solve the NMR structure of CSE in its Ca-bound state and revealed that CSE acts as Ca-buffer protein. Using cryo-electron tomography, we find that Δcse mutant cells display significantly fewer septal junctions as well as SJ precursors known as nanopores. This indicates that CSE is not only essential for Ca homeostasis, but also mediates cell-cell communication via regulating SJs and nanopores formation, and establishes Ca signaling and CSE as key players regulating cyanobacterial multicellularity. Furthermore, these findings highlight calcium signaling as a conserved principle for regulating cellular junctions in organisms that diverged a billion years ago.
History
DepositionFeb 7, 2025-
Header (metadata) releaseFeb 18, 2026-
Map releaseFeb 18, 2026-
UpdateAug 26, 2026-
Current statusAug 26, 2026Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_52776.png

Downloads & links

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Map

FileDownload / File: emd_52776.map.gz / Format: CCP4 / Size: 1.1 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
10.71 Å/pix.
x 202 pix.
= 2163.42 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-4.8178344 - 1.5334612
Average (Standard dev.)-0.45816347 (±0.2887482)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions14401024202
Spacing10241440202
CellA: 10967.04 Å / B: 15422.4 Å / C: 2163.42 Å
α=β=γ: 90.0 °

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Supplemental data

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Sample components

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Entire : Septum of Nostoc PCC7120 cseKO

EntireName: Septum of Nostoc PCC7120 cseKO
Components
  • Cell: Septum of Nostoc PCC7120 cseKO

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Supramolecule #1: Septum of Nostoc PCC7120 cseKO

SupramoleculeName: Septum of Nostoc PCC7120 cseKO / type: cell / ID: 1 / Parent: 0
Source (natural)Organism: Nostoc PCC7120 (bacteria)

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Experimental details

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Structure determination

Methodcryo EM
Processingelectron tomography
Aggregation statecell

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Sample preparation

BufferpH: 7.5
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: 360 / Focused ion beam - Temperature: 123 K / Focused ion beam - Initial thickness: 1000 / 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: 5.7 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: 6.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Final reconstructionNumber images used: 41
CTF correctionType: NONE

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