5AYW

Structure of a membrane complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.555 Å
  • R-Value Free: 0.314 
  • R-Value Work: 0.271 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of the BAM complex and its implications for biogenesis of outer-membrane proteins

Han, L.Zheng, J.Wang, Y.Yang, X.Liu, Y.Sun, C.Cao, B.Zhou, H.Ni, D.Lou, J.Zhao, Y.Huang, Y.

(2016) Nat.Struct.Mol.Biol. 23: 192-196

  • DOI: 10.1038/nsmb.3181

  • PubMed Abstract: 
  • In Gram-negative bacteria, the assembly of β-barrel outer-membrane proteins (OMPs) requires the β-barrel-assembly machinery (BAM) complex. We determined the crystal structure of the 200-kDa BAM complex from Escherichia coli at 3.55-Å resolution. The ...

    In Gram-negative bacteria, the assembly of β-barrel outer-membrane proteins (OMPs) requires the β-barrel-assembly machinery (BAM) complex. We determined the crystal structure of the 200-kDa BAM complex from Escherichia coli at 3.55-Å resolution. The structure revealed that the BAM complex assembles into a hat-like shape, in which the BamA β-barrel domain forms the hat's crown embedded in the outer membrane, and its five polypeptide transport-associated (POTRA) domains interact with the four lipoproteins BamB, BamC, BamD and BamE, thus forming the hat's brim in the periplasm. The assembly of the BAM complex creates a ring-like apparatus beneath the BamA β-barrel in the periplasm and a potential substrate-exit pore located at the outer membrane-periplasm interface. The complex structure suggests that the chaperone-bound OMP substrates may feed into the chamber of the ring-like apparatus and insert into the outer membrane via the potential substrate-exit pore in an energy-independent manner.


    Organizational Affiliation

    National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.,University of Chinese Academy of Sciences, Beijing, China.,Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Outer membrane protein assembly factor BamA
A
789Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: bamA (yaeT, yzzN, yzzY)
Membrane protein
mpstruc
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamABCDE 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 BamB
B
383Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: bamB (yfgL)
Membrane protein
mpstruc
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamABCDE complex of the Bam β-barrel assembly machine
Find proteins for P77774 (Escherichia coli (strain K12))
Go to UniProtKB:  P77774
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Outer membrane protein assembly factor BamC
C
56Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: bamC (dapX, nlpB)
Membrane protein
mpstruc
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamABCDE 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 BamD
D
226Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: bamD (yfiO)
Membrane protein
mpstruc
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamABCDE complex of the Bam β-barrel assembly machine
Find proteins for P0AC02 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AC02
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Outer membrane protein assembly factor BamE
E
102Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: bamE (smpA)
Membrane protein
mpstruc
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Omp85-TpsB Outer Membrane Transporter Superfamily
Protein: 
BamABCDE 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: 3.555 Å
  • R-Value Free: 0.314 
  • R-Value Work: 0.271 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 116.428α = 90.00
b = 116.428β = 90.00
c = 434.407γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-02-24
    Type: Initial release
  • Version 1.1: 2016-03-16
    Type: Database references
  • Version 1.2: 2017-09-27
    Type: Data collection, Derived calculations