4ONT

Ternary host recognition complex of complement factor H, C3d, and sialic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.172 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis for sialic acid-mediated self-recognition by complement factor H.

Blaum, B.S.Hannan, J.P.Herbert, A.P.Kavanagh, D.Uhrin, D.Stehle, T.

(2015) Nat.Chem.Biol. 11: 77-82

  • DOI: 10.1038/nchembio.1696

  • PubMed Abstract: 
  • The serum protein complement factor H (FH) ensures downregulation of the complement alternative pathway, a branch of innate immunity, upon interaction with specific glycans on host cell surfaces. Using ligand-based NMR, we screened a comprehensive se ...

    The serum protein complement factor H (FH) ensures downregulation of the complement alternative pathway, a branch of innate immunity, upon interaction with specific glycans on host cell surfaces. Using ligand-based NMR, we screened a comprehensive set of sialylated glycans for binding to FH and solved the crystal structure of a ternary complex formed by the two C-terminal domains of FH, a sialylated trisaccharide and the complement C3b thioester-containing domain. Key residues in the sialic acid binding site are conserved from mice to men, and residues linked to atypical hemolytic uremic syndrome cluster within this binding site, suggesting a possible role for sialic acid as a host marker also in other mammals and a critical role in human renal complement homeostasis. Unexpectedly, the FH sialic acid binding site is structurally homologous to the binding sites of two evolutionarily unrelated proteins. The crystal structure also advances our understanding of bacterial immune evasion strategies.


    Organizational Affiliation

    1] Interfaculty Institute of Biochemistry, University of Tübingen, Tübingen, Germany. [2] Department of Pediatrics, Vanderbilt University School of Medicine, Nashville, Tennessee, USA.,The School of Chemistry, University of Edinburgh, Scotland, UK.,Interfaculty Institute of Biochemistry, University of Tübingen, Tübingen, Germany.,Department of Medicine, University of Colorado School of Medicine, Aurora, Colorado, USA.,Institute of Genetic Medicine, International Centre for Life, Newcastle upon Tyne, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Complement factor H
F, D, E
129Homo sapiensMutation(s): 0 
Gene Names: CFH (HF, HF1, HF2)
Find proteins for P08603 (Homo sapiens)
Go to Gene View: CFH
Go to UniProtKB:  P08603
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Complement C3d fragment
A, B, C
317Homo sapiensMutation(s): 1 
Gene Names: C3 (CPAMD1)
Find proteins for P01024 (Homo sapiens)
Go to Gene View: C3
Go to UniProtKB:  P01024
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B, C, E
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
BGC
Query on BGC

Download SDF File 
Download CCD File 
D, E, F
BETA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-VFUOTHLCSA-N
 Ligand Interaction
GAL
Query on GAL

Download SDF File 
Download CCD File 
D, E, F
BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
 Ligand Interaction
SIA
Query on SIA

Download SDF File 
Download CCD File 
D, E, F
O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.172 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 75.459α = 112.50
b = 82.536β = 110.71
c = 85.752γ = 99.98
Software Package:
Software NamePurpose
CCP4model building
CCP4phasing
XDSdata reduction
XDSdata scaling
DA+data collection
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-11-26
    Type: Initial release
  • Version 1.1: 2014-12-03
    Type: Database references
  • Version 1.2: 2015-01-14
    Type: Database references