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 9SOW | pdb_00009sow

BepA-BamABCDE-OMP-Nb5 complex in open, substrate-engaged beta barrel conformation.

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.23 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history. 

Literature

Stress-induced membrane insertion at the beta-barrel assembly machinery complex regulates BepA metalloprotease activity

Voedts, H., Nguyen, P.C., Nguyen, V.S., Leverrier, P., Iorga, B.I., Cho, S.H., Remaut, H., Collet, J.F.

(2026) Nat Commun 

Macromolecule Content 

  • Total Structure Weight: 265.95 kDa 
  • Atom Count: 15,079 
  • Modeled Residue Count: 1,943 
  • Deposited Residue Count: 2,418 
  • Unique protein chains: 7

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamA810Escherichia coli BW25113Mutation(s): 0 
UniProt
Find proteins for C3TPJ2 (Escherichia coli)
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Go to UniProtKB:  C3TPJ2
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UniProt GroupC3TPJ2
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamB392Escherichia coli BW25113Mutation(s): 0 
UniProt
Find proteins for P77774 (Escherichia coli (strain K12))
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Go to UniProtKB:  P77774
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UniProt GroupP77774
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamC344Escherichia coli BW25113Mutation(s): 0 
UniProt
Find proteins for P0A903 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0A903
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UniProt GroupP0A903
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamD245Escherichia coli BW25113Mutation(s): 0 
UniProt
Find proteins for P0AC02 (Escherichia coli (strain K12))
Explore P0AC02 
Go to UniProtKB:  P0AC02
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UniProt GroupP0AC02
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Reference Sequence
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Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Outer membrane protein assembly factor BamE113Escherichia coli BW25113Mutation(s): 0 
UniProt
Find proteins for P0A937 (Escherichia coli (strain K12))
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UniProt GroupP0A937
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Reference Sequence
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Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
Beta-barrel assembly-enhancing proteaseF [auth H]487Escherichia coli BW25113Mutation(s): 0 
Gene Names: bepA, yfgC, b2494, JW2479
EC: 3.4
UniProt
Find proteins for P66948 (Escherichia coli (strain K12))
Explore P66948 
Go to UniProtKB:  P66948
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UniProt GroupP66948
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Reference Sequence
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Entity ID: 7
MoleculeChains  Sequence LengthOrganismDetailsImage
Unknown beta-barrel substrateG [auth P]27Escherichia coli BW25113Mutation(s): 0 
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN
(Subject of Investigation/LOI)

Query on ZN


Download:Ideal Coordinates CCD File
H
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
UNK
Query on UNK		G [auth P]L-PEPTIDE LINKINGC4 H9 N O2

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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.23 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2_5419
RECONSTRUCTIONcryoSPARC

Structure Validation

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Entry History 

& Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Research Foundation - Flanders (FWO)BelgiumG0G0818N
Research Foundation - Flanders (FWO)Belgium12ZM421N

Revision History  (Full details and data files)

  • Version 1.0: 2026-09-30
    Type: Initial release