4C0Z

The N-terminal domain of the Streptococcus pyogenes pilus tip adhesin Cpa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.203 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural Model for the Covalent Adhesion of the Streptococcus Pyogenes Pilus Through a Thioester Bond.

Linke-Winnebeck, C.Paterson, N.G.Young, P.G.Middleditch, M.J.Greenwood, D.R.Witte, G.Baker, E.N.

(2014) J Biol Chem 289: 177

  • DOI: https://doi.org/10.1074/jbc.M113.523761
  • Primary Citation of Related Structures:  
    4C0Z

  • PubMed Abstract: 

    The human pathogen Streptococcus pyogenes produces pili that are essential for adhesion to host surface receptors. Cpa, the adhesin at the pilus tip, was recently shown to have a thioester-containing domain. The thioester bond is believed to be important in adhesion, implying a mechanism of covalent attachment analogous to that used by human complement factors. Here, we have characterized a second active thioester-containing domain on Cpa, the N-terminal domain of Cpa (CpaN). Expression of CpaN in Escherichia coli gave covalently linked dimers. These were shown by x-ray crystallography and mass spectrometry to comprise two CpaN molecules cross-linked by the polyamine spermidine following reaction with the thioester bonds. This cross-linked CpaN dimer provides a model for the covalent attachment of Cpa to target receptors and thus the streptococcal pilus to host cells. Similar thioester domains were identified in cell wall proteins of other Gram-positive pathogens, suggesting that thioester domains are more widely used and provide a mechanism of adhesion by covalent bonding to target molecules on host cells that mimics that used by the human complement system to eliminate pathogens.


  • Organizational Affiliation

    From the School of Biological Sciences and Maurice Wilkins Centre for Molecular Biodiscovery, University of Auckland, Private Bag 921019, Auckland 1142, New Zealand and.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ANCILLARY PROTEIN 2
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L
215Streptococcus pyogenesMutation(s): 0 
UniProt
Find proteins for S5FV19 (Streptococcus pyogenes)
Explore S5FV19 
Go to UniProtKB:  S5FV19
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupS5FV19
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SPD
Query on SPD

Download Ideal Coordinates CCD File 
AA [auth G]
GA [auth I]
KA [auth L]
O [auth A]
V [auth C]
AA [auth G],
GA [auth I],
KA [auth L],
O [auth A],
V [auth C],
Z [auth F]
SPERMIDINE
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
PO4
Query on PO4

Download Ideal Coordinates CCD File 
P [auth B],
U [auth C],
Y [auth F]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
GOL
Query on GOL

Download Ideal Coordinates CCD File 
FA [auth I],
JA [auth L],
T [auth C]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL
Query on CL

Download Ideal Coordinates CCD File 
BA [auth G]
CA [auth H]
DA [auth H]
EA [auth H]
HA [auth J]
BA [auth G],
CA [auth H],
DA [auth H],
EA [auth H],
HA [auth J],
IA [auth L],
LA [auth L],
M [auth A],
N [auth A],
Q [auth B],
R [auth B],
S [auth C],
W [auth E],
X [auth F]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.203 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 132.22α = 90
b = 132.22β = 90
c = 136.58γ = 120
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
SCALAdata scaling
autoSHARPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-11-20
    Type: Initial release
  • Version 1.1: 2013-11-27
    Changes: Database references, Structure summary
  • Version 1.2: 2014-01-15
    Changes: Database references
  • Version 1.3: 2024-11-06
    Changes: Data collection, Database references, Derived calculations, Other, Structure summary