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- EMDB-72687: Tetrameric InvE from Salmonella Typhimurium -

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Open data


ID or keywords:

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Basic information

Entry
Database: EMDB / ID: EMD-72687
TitleTetrameric InvE from Salmonella Typhimurium
Map data
Sample
  • Complex: InvE
    • Protein or peptide: Invasion protein InvE
Keywordstetramer / gatekeeper protein / T3SS / PROTEIN TRANSPORT
Function / homology
Function and homology information


protein secretion by the type III secretion system / outer membrane / negative regulation of protein secretion / cell surface / plasma membrane
Similarity search - Function
Salmonella/Shigella invasion protein E / Type III secretion regulator, YopN/LcrE/InvE/MxiC / Hypersensitivity response secretion-like, HrpJ / HrpJ-like domain
Similarity search - Domain/homology
Invasion protein InvE
Similarity search - Component
Biological speciesSalmonella enterica subsp. enterica serovar Typhimurium (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.42 Å
AuthorsZhu LY / Wang TT / Guo EZ / Lara-Tejero M / Galan JE
Funding support United States, 1 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)AI030492 United States
CitationJournal: To Be Published
Title: Oligomeric Assembly of the Gatekeeper InvE Orchestrates Hierarchical Type III Protein Secretion in Salmonella Typhimurium
Authors: Wang TT / Zhu LY / Guo EZ / Lara-Tejero M / Galan JE
History
DepositionSep 13, 2025-
Header (metadata) releaseJan 21, 2026-
Map releaseJan 21, 2026-
UpdateJan 21, 2026-
Current statusJan 21, 2026Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_72687.png

Downloads & links

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Map

FileDownload / File: emd_72687.map.gz / Format: CCP4 / Size: 42.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.83 Å/pix.
x 224 pix.
= 186.368 Å		0.83 Å/pix.
x 224 pix.
= 186.368 Å		0.83 Å/pix.
x 224 pix.
= 186.368 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: 0.013
Minimum - Maximum-0.10803829 - 0.2634419
Average (Standard dev.)0.00018931099 (±0.008824524)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions224224224
Spacing224224224
CellA=B=C: 186.36801 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_72687_msk_1.map
Projections & Slices
AxesZYX

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Slices (1/2)
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Histogram

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Additional map: #1

Fileemd_72687_additional_1.map
Projections & Slices
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Histogram (log scale)

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Half map: #2

Fileemd_72687_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_72687_half_map_2.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : InvE

EntireName: InvE
Components
  • Complex: InvE
    • Protein or peptide: Invasion protein InvE

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Supramolecule #1: InvE

SupramoleculeName: InvE / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Details: In Salmonella enterica serovar Typhimurium, the SPI 1 gatekeeper InvE governs the hierarchical secretion of T3SS substrates. Here InvE forms a homotetramer. Its oligomeric assemblies is essential for function.
Source (natural)Organism: Salmonella enterica subsp. enterica serovar Typhimurium (bacteria)

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Macromolecule #1: Invasion protein InvE

MacromoleculeName: Invasion protein InvE / type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Salmonella enterica subsp. enterica serovar Typhimurium (bacteria)
Molecular weightTheoretical: 45.538781 KDa
Recombinant expressionOrganism: Escherichia coli (E. coli)
SequenceString: MGSSHHHHHH SSGLVPRGSH MASMTGGQQM IPGSTSGISF SRILSRQTSH QDATQHTDAQ QAEIQQAAED SSPGAEVQKF VQSTDEMSA ALAQFRNRRD YEKKSSNLSN SFERVLEDEA LPKAKQILKL ISVHGGALED FLRQARSLFP DPSDLVLVLR E LLRRKDLE ...String:
MGSSHHHHHH SSGLVPRGSH MASMTGGQQM IPGSTSGISF SRILSRQTSH QDATQHTDAQ QAEIQQAAED SSPGAEVQKF VQSTDEMSA ALAQFRNRRD YEKKSSNLSN SFERVLEDEA LPKAKQILKL ISVHGGALED FLRQARSLFP DPSDLVLVLR E LLRRKDLE EIVRKKLESL LKHVEEQTDP KTLKAGINCA LKARLFGKTL SLKPGLLRAS YRQFIQSESH EVEIYSDWIA SY GYQRRLV VLDFIEGSLL TDIDANDASC SRLEFGQLLR RLTQLKMLRS ADLLFVSTLL SYSFTKAFNA EESSWLLLML SLL QQPHEV DSLLADIIGL NALLLSHKEH ASFLQIFYQV CKAIPSSLFY EEYWQEELLM ALRSMTDIAY KHEMAEQRRT IEKL S

UniProtKB: Invasion protein InvE

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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 / Instrument: FEI VITROBOT MARK III

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (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: 2.2 µm / Nominal defocus min: 1.2 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: OTHER / Details: alphafold prediected model
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.42 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4.4.1)
Software - details: local refinement job was used to generate the final map
Number images used: 2169983
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

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