5EKQ

The structure of the BamACDE subcomplex from E. coli


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.392 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.238 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The structure of the beta-barrel assembly machinery complex.

Bakelar, J.Buchanan, S.K.Noinaj, N.

(2016) Science 351: 180-186

  • DOI: 10.1126/science.aad3460

  • PubMed Abstract: 
  • β-Barrel outer membrane proteins (OMPs) are found in the outer membranes of Gram-negative bacteria and are essential for nutrient import, signaling, and adhesion. A 200-kilodalton five-component complex called the β-barrel assembly machinery (BAM) co ...

    β-Barrel outer membrane proteins (OMPs) are found in the outer membranes of Gram-negative bacteria and are essential for nutrient import, signaling, and adhesion. A 200-kilodalton five-component complex called the β-barrel assembly machinery (BAM) complex has been implicated in the biogenesis of OMPs. We report the structure of the BAM complex from Escherichia coli, revealing that binding of BamCDE modulates the conformation of BamA, the central component, which may serve to regulate the BAM complex. The periplasmic domain of BamA was in a closed state that prevents access to the barrel lumen, which indicates substrate OMPs may not be threaded through the barrel during biogenesis. Further, conformational shifts in the barrel domain lead to opening of the exit pore and rearrangement at the lateral gate.


    Organizational Affiliation

    Markey Center for Structural Biology, Department of Biological Sciences, Purdue University, West Lafayette, IN 47907, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Outer membrane protein assembly factor BamA
A
790Escherichia coli (strain K12)Gene Names: bamA (yaeT, yzzN, yzzY)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamACDE complex of the Bam β-barrel assembly machine
Find proteins for P0A940 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A940
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Outer membrane protein assembly factor BamD
D
226Escherichia coli (strain K12)Gene Names: bamD (yfiO)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamACDE complex of the Bam β-barrel assembly machine
Find proteins for P0AC02 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AC02
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Outer membrane protein assembly factor BamC
C
320Escherichia coli (strain K12)Gene Names: bamC (dapX, nlpB)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamACDE complex of the Bam β-barrel assembly machine
Find proteins for P0A903 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A903
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Outer membrane protein assembly factor BamE
E
94Escherichia coli (strain K12)Gene Names: bamE (smpA)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamACDE complex of the Bam β-barrel assembly machine
Find proteins for P0A937 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A937
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.392 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.238 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 234.848α = 90.00
b = 109.231β = 95.04
c = 103.988γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationCountryGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited States1K22AI113078-01
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney DiseaseUnited StatesIntramural Program

Revision History 

  • Version 1.0: 2016-01-20
    Type: Initial release
  • Version 1.1: 2017-09-27
    Type: Author supporting evidence, Derived calculations