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- PDB-9wso: LamB binding with bacteriophage Lom -

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Basic information

Entry
Database: PDB / ID: 9wso
TitleLamB binding with bacteriophage Lom
Components
  • Maltoporin
  • Outer membrane protein lom
KeywordsVIRAL PROTEIN / membrane protein / phage protein / complex
Function / homology
Function and homology information


maltodextrin transmembrane transporter activity / host outer membrane / maltose transporting porin activity / pore complex / monoatomic ion transport / cell outer membrane / host cell plasma membrane
Similarity search - Function
Enterobacterial Ail/Lom protein / Maltoporin / : / Enterobacterial virulence outer membrane protein signature 1. / Porin, LamB-type / Porin, LamB-type superfamily / : / LamB porin / Virulence-related outer membrane protein / Enterobacterial virulence outer membrane protein signature 2. / Outer membrane protein/outer membrane enzyme PagP, beta-barrel
Similarity search - Domain/homology
Outer membrane protein lom / Maltoporin
Similarity search - Component
Biological speciesShigella sonnei (bacteria)
Escherichia phage Lambda (virus)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.45 Å
AuthorsGe, X.F. / Wang, J.W.
Funding support China, 3items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32501078 China
National Natural Science Foundation of China (NSFC)32371254 China
National Natural Science Foundation of China (NSFC)32171190 China
CitationJournal: To Be Published
Title: LamB binding with bacteriophage Lom
Authors: Ge, X.F. / Wang, J.W.
History
DepositionSep 14, 2025Deposition site: PDBJ / Processing site: PDBC
Revision 1.0Jul 1, 2026Provider: repository / Type: Initial release
Revision 1.0Jul 1, 2026Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release
Revision 1.0Jul 1, 2026Data content type: FSC / Data content type: FSC / Provider: repository / Type: Initial release
Revision 1.0Jul 1, 2026Data content type: Half map / Part number: 1 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Jul 1, 2026Data content type: Half map / Part number: 2 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Jul 1, 2026Data content type: Image / Data content type: Image / Provider: repository / Type: Initial release
Revision 1.0Jul 1, 2026Data content type: Primary map / Data content type: Primary map / Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: Maltoporin
B: Maltoporin
C: Outer membrane protein lom
D: Maltoporin
O: Outer membrane protein lom


Theoretical massNumber of molelcules
Total (without water)186,4635
Polymers186,4635
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

#1: Protein Maltoporin / Maltose-inducible porin


Mass: 47568.004 Da / Num. of mol.: 3
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Shigella sonnei (strain Ss046) (bacteria)
Gene: lamB, SSON_4214 / Production host: Escherichia coli (E. coli) / References: UniProt: Q3YUU9
#2: Protein Outer membrane protein lom / ORF 206A


Mass: 21879.734 Da / Num. of mol.: 2
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Escherichia phage Lambda (virus) / Gene: lom / Production host: Escherichia phage Lambda (virus) / References: UniProt: P03701
Has protein modificationY

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: outer membrane complex of LamB and Los / Type: COMPLEX / Entity ID: all / Source: NATURAL
Source (natural)Organism: Escherichia phage Lambda (virus)
Buffer solutionpH: 8
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Tecnai Polara / Image courtesy: FEI Company
MicroscopyModel: FEI POLARA 300
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 2500 nm / Nominal defocus min: 1500 nm
Image recordingElectron dose: 50 e/Å2 / Film or detector model: FEI FALCON IV (4k x 4k)

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Processing

EM software
IDNameCategory
1cryoSPARCparticle selection
13cryoSPARC3D reconstruction
CTF correctionType: NONE
3D reconstructionResolution: 3.45 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 144910 / Symmetry type: POINT

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