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.




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
mpstruct
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
mpstruct
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
mpstruct
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
mpstruct
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
mpstruct
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