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- EMDB-47347: Cryo-EM structure of a TatBC complex from Myxococcus xanthus -

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Basic information

Entry
Database: EMDB / ID: EMD-47347
TitleCryo-EM structure of a TatBC complex from Myxococcus xanthus
Map datadeepEMhanced map used for model refinement
Sample
  • Complex: TatBC complex
    • Protein or peptide: Sec-independent protein translocase protein TatC
    • Protein or peptide: Twin-arginine translocase B
KeywordsMembrane Protein / TatC / TatB / twin-arginine translocation / TRANSLOCASE
Function / homology
Function and homology information


proton motive force dependent protein transmembrane transporter activity / TAT protein transport complex / protein transport by the Tat complex / intracellular protein transmembrane transport / protein transport / membrane
Similarity search - Function
Sec-independent protein translocase protein TatA/B/E / mttA/Hcf106 family / Sec-independent periplasmic protein translocase TatC / Sec-independent protein translocase protein (TatC)
Similarity search - Domain/homology
Sec-independent protein translocase protein TatC / Twin-arginine translocase B
Similarity search - Component
Biological speciesMyxococcus xanthus (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.2 Å
AuthorsDeme JC / Bryant OJ / Berks BC / Lea SM
Funding support United Kingdom, United States, 3 items
OrganizationGrant numberCountry
Medical Research Council (MRC, United Kingdom)MR/L000776/1 United Kingdom
Wellcome Trust107929/Z/15/Z United Kingdom
National Institutes of Health/National Cancer Institute (NIH/NCI)Intramural Research Program United States
CitationJournal: To Be Published
Title: Structure of the twin-arginine protein translocation pathway core complex and the molecular basis for substrate recognition
Authors: Deme JC / Bryant OJ / Berks BC / Lea SM
History
DepositionOct 17, 2024-
Header (metadata) releaseAug 27, 2025-
Map releaseAug 27, 2025-
UpdateAug 27, 2025-
Current statusAug 27, 2025Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_47347.png

Downloads & links

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Map

FileDownload / File: emd_47347.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationdeepEMhanced map used for model refinement
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.83 Å/pix.
x 320 pix.
= 266.24 Å		0.83 Å/pix.
x 320 pix.
= 266.24 Å		0.83 Å/pix.
x 320 pix.
= 266.24 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.832 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.05
Minimum - Maximum-0.04595112 - 1.7646546
Average (Standard dev.)0.0010705015 (±0.020983886)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 266.24 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_47347_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: mask used for FSC calculation

Fileemd_47347_additional_1.map
Annotationmask used for FSC calculation
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: unsharpened map

Fileemd_47347_additional_2.map
Annotationunsharpened map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half map 2

Fileemd_47347_half_map_1.map
Annotationhalf map 2
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: half map 1

Fileemd_47347_half_map_2.map
Annotationhalf map 1
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : TatBC complex

EntireName: TatBC complex
Components
  • Complex: TatBC complex
    • Protein or peptide: Sec-independent protein translocase protein TatC
    • Protein or peptide: Twin-arginine translocase B

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Supramolecule #1: TatBC complex

SupramoleculeName: TatBC complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Myxococcus xanthus (bacteria)

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Macromolecule #1: Sec-independent protein translocase protein TatC

MacromoleculeName: Sec-independent protein translocase protein TatC / type: protein_or_peptide / ID: 1 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Myxococcus xanthus (bacteria)
Molecular weightTheoretical: 44.397664 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MSLADHLTEL RSRLMRATIA VLILGTISLV FAKPIFGLLM QPVLDALPPE NRSLIYTSGI EELNVLMKVG VYAGIFLTTP VILMQIWGF VSPGLYPEER RFAAPFVAFG SIAFLLGAAF AYFAVLPSMF TFLLNEEETL ALEQRLDTAR LRADDALRFL R LGEAEEAG ...String:
MSLADHLTEL RSRLMRATIA VLILGTISLV FAKPIFGLLM QPVLDALPPE NRSLIYTSGI EELNVLMKVG VYAGIFLTTP VILMQIWGF VSPGLYPEER RFAAPFVAFG SIAFLLGAAF AYFAVLPSMF TFLLNEEETL ALEQRLDTAR LRADDALRFL R LGEAEEAG RIAKETSTQL RAEGQGQAPA PEVAPAASVE MTGRLDGLGR LLDAASVGYG AQSRGVLRQA VEKRVEAVTA YE KKDFAAA AAAMDGSASL LAGIAPTRTE ELAGLWRLEK ELATAHAAHE AARWTRPMLS MHEQLSLVLL LILAFGIIFE LPL VMALLG VVGVVKSSWL FRYQRHAFVV ALIAAAIITP TGDVVNLSLM AGPMLLAYEL GVLLVWMVER RRARNSAETG ITPA SGSEN LYFQ

UniProtKB: Sec-independent protein translocase protein TatC

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Macromolecule #2: Twin-arginine translocase B

MacromoleculeName: Twin-arginine translocase B / type: protein_or_peptide / ID: 2 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Myxococcus xanthus (bacteria)
Molecular weightTheoretical: 19.944227 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString:
MFNIGAGEMV FILVAALLIL GPQRLPELAR GIGKFLREFR RQTDEVRNVV EREFYAMDQE IGEPPTAPLR PGTRFAPQPP QAVGGPEAT LPPATDGASP PADAASPQPS SPAQVLEMDA QGPREVATSD VHAGETPAQD AATAEPGAEP TAEAPPEPAA S TATSPTLS PIPGTVARNA PKRSWSHPQF EK

UniProtKB: Twin-arginine translocase B

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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: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 59.9 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: 0.8 µm
Experimental equipment
Model: Titan Krios / 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: 3.2 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 133384
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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