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- EMDB-66344: Cryo-EM structure of of BetTC cage -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-66344
TitleCryo-EM structure of of BetTC cage
Map data
Sample
  • Complex: cage of BetTC oligomer
    • Protein or peptide: High-affinity choline transport protein
Keywordsthe C-terminal of BetT / STRUCTURAL PROTEIN
Function / homology
Function and homology information


: / choline transmembrane transporter activity / choline transport / transmembrane transporter activity / DNA damage response / plasma membrane
Similarity search - Function
BCCT transporter, conserved site / BCCT family of transporters signature. / BCCT transporter family / BCCT, betaine/carnitine/choline family transporter
Similarity search - Domain/homology
High-affinity choline transport protein
Similarity search - Component
Biological speciesEscherichia coli (E. coli) / Escherichia coli K-12 (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.07 Å
AuthorsShi DJ / Cheng XQ / Jiang WX / Xing Q
Funding support China, 2 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32371277 China
National Natural Science Foundation of China (NSFC)32301028 China
CitationJournal: To Be Published
Title: Cryo-EM structure of of BetTC cage
Authors: Shi DJ / Cheng XQ / Jiang WX / Xing Q
History
DepositionSep 25, 2025-
Header (metadata) releaseSep 30, 2026-
Map releaseSep 30, 2026-
UpdateSep 30, 2026-
Current statusSep 30, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_66344.png

Downloads & links

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Map

FileDownload / File: emd_66344.map.gz / Format: CCP4 / Size: 669.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.57 Å/pix.
x 560 pix.
= 317.52 Å		0.57 Å/pix.
x 560 pix.
= 317.52 Å		0.57 Å/pix.
x 560 pix.
= 317.52 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.567 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.04
Minimum - Maximum-0.2559627 - 0.50186515
Average (Standard dev.)0.0012239412 (±0.019487305)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions560560560
Spacing560560560
CellA=B=C: 317.52 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_66344_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_66344_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 : cage of BetTC oligomer

EntireName: cage of BetTC oligomer
Components
  • Complex: cage of BetTC oligomer
    • Protein or peptide: High-affinity choline transport protein

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Supramolecule #1: cage of BetTC oligomer

SupramoleculeName: cage of BetTC oligomer / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Escherichia coli (E. coli) / Strain: strain K12

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Macromolecule #1: High-affinity choline transport protein

MacromoleculeName: High-affinity choline transport protein / type: protein_or_peptide / ID: 1 / Details: C-terminal of BetT / Number of copies: 48 / Enantiomer: LEVO
Source (natural)Organism: Escherichia coli K-12 (bacteria) / Strain: K12
Molecular weightTheoretical: 22.688492 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
MHHHHHHHHH HENLYFQGGS KVEDYRRESA NRDTAPRPLG LQDRLSWKKR LSRLMNYPGT RYTKQMMETV CYPAMEEVAQ ELRLRGAYV ELKSLPPEEG QQLGHLDLLV HMGEEQNFVY QIWPQQYSVP GFTYRARSGK STYYRLETFL LEGSQGNDLM D YSKEQVIT DILDQYERHL NFIHLHREAP TGC

UniProtKB: High-affinity choline transport protein

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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: 8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TALOS ARCTICA
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 30.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.07 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 114039
Initial angle assignmentType: NOT APPLICABLE
Final angle assignmentType: NOT APPLICABLE

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