3RFZ

Crystal structure of the FimD usher bound to its cognate FimC:FimH substrate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.223 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of the FimD usher bound to its cognate FimC-FimH substrate.

Phan, G.Remaut, H.Wang, T.Allen, W.J.Pirker, K.F.Lebedev, A.Henderson, N.S.Geibel, S.Volkan, E.Yan, J.Kunze, M.B.Pinkner, J.S.Ford, B.Kay, C.W.Li, H.Hultgren, S.J.Thanassi, D.G.Waksman, G.

(2011) Nature 474: 49-53

  • DOI: 10.1038/nature10109
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Type 1 pili are the archetypal representative of a widespread class of adhesive multisubunit fibres in Gram-negative bacteria. During pilus assembly, subunits dock as chaperone-bound complexes to an usher, which catalyses their polymerization and med ...

    Type 1 pili are the archetypal representative of a widespread class of adhesive multisubunit fibres in Gram-negative bacteria. During pilus assembly, subunits dock as chaperone-bound complexes to an usher, which catalyses their polymerization and mediates pilus translocation across the outer membrane. Here we report the crystal structure of the full-length FimD usher bound to the FimC-FimH chaperone-adhesin complex and that of the unbound form of the FimD translocation domain. The FimD-FimC-FimH structure shows FimH inserted inside the FimD 24-stranded β-barrel translocation channel. FimC-FimH is held in place through interactions with the two carboxy-terminal periplasmic domains of FimD, a binding mode confirmed in solution by electron paramagnetic resonance spectroscopy. To accommodate FimH, the usher plug domain is displaced from the barrel lumen to the periplasm, concomitant with a marked conformational change in the β-barrel. The amino-terminal domain of FimD is observed in an ideal position to catalyse incorporation of a newly recruited chaperone-subunit complex. The FimD-FimC-FimH structure provides unique insights into the pilus subunit incorporation cycle, and captures the first view of a protein transporter in the act of secreting its cognate substrate.


    Organizational Affiliation

    Institute of Structural and Molecular Biology, University College London and Birkbeck College, Malet Street, London WC1E 7HX, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Type 1 fimbrial adhesin
A, D
279Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: fimH
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Beta-Barrel Membrane Proteins: Monomeric/Dimeric
Protein: 
P pilus FimD usher bound to FimC:FimH substrate
Find proteins for P08191 (Escherichia coli (strain K12))
Go to UniProtKB:  P08191
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Outer membrane usher protein, type 1 fimbrial synthesis
B, E
843Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: fimD
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Beta-Barrel Membrane Proteins: Monomeric/Dimeric
Protein: 
P pilus FimD usher bound to FimC:FimH substrate
Find proteins for P30130 (Escherichia coli (strain K12))
Go to UniProtKB:  P30130
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Chaperone protein fimC
C, F
211Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: fimC
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Beta-Barrel Membrane Proteins: Monomeric/Dimeric
Protein: 
P pilus FimD usher bound to FimC:FimH substrate
Find proteins for P31697 (Escherichia coli (strain K12))
Go to UniProtKB:  P31697
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.223 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 126.190α = 90.00
b = 95.900β = 112.13
c = 144.570γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
ADSCdata collection
PHASERphasing
SCALAdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-06-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2012-03-28
    Type: Database references