3O8E

Structure of extracelllar portion of CD46 in complex with Adenovirus type 11 knob


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.84 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.210 

wwPDB Validation 3D Report Full Report


This is version 1.5 of the entry. See complete history

Literature

Structure of the extracellular portion of CD46 provides insights into its interactions with complement proteins and pathogens.

Persson, B.D.Schmitz, N.B.Santiago, C.Zocher, G.Larvie, M.Scheu, U.Casasnovas, J.M.Stehle, T.

(2010) Plos Pathog. 6: e1001122-e1001122

  • DOI: 10.1371/journal.ppat.1001122

  • PubMed Abstract: 
  • The human membrane cofactor protein (MCP, CD46) is a central component of the innate immune system. CD46 protects autologous cells from complement attack by binding to complement proteins C3b and C4b and serving as a cofactor for their cleavage. Rece ...

    The human membrane cofactor protein (MCP, CD46) is a central component of the innate immune system. CD46 protects autologous cells from complement attack by binding to complement proteins C3b and C4b and serving as a cofactor for their cleavage. Recent data show that CD46 also plays a role in mediating acquired immune responses, and in triggering autophagy. In addition to these physiologic functions, a significant number of pathogens, including select adenoviruses, measles virus, human herpes virus 6 (HHV-6), Streptococci, and Neisseria, use CD46 as a cell attachment receptor. We have determined the crystal structure of the extracellular region of CD46 in complex with the human adenovirus type 11 fiber knob. Extracellular CD46 comprises four short consensus repeats (SCR1-SCR4) that form an elongated structure resembling a hockey stick, with a long shaft and a short blade. Domains SCR1, SCR2 and SCR3 are arranged in a nearly linear fashion. Unexpectedly, however, the structure reveals a profound bend between domains SCR3 and SCR4, which has implications for the interactions with ligands as well as the orientation of the protein at the cell surface. This bend can be attributed to an insertion of five hydrophobic residues in a SCR3 surface loop. Residues in this loop have been implicated in interactions with complement, indicating that the bend participates in binding to C3b and C4b. The structure provides an accurate framework for mapping all known ligand binding sites onto the surface of CD46, thereby advancing an understanding of how CD46 acts as a receptor for pathogens and physiologic ligands of the immune system.


    Organizational Affiliation

    University of Tuebingen, Tuebingen, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Fiber 36.1 kDa protein
A, C
213Human adenovirus 11Mutation(s): 0 
Find proteins for Q772X2 (Human adenovirus 11)
Go to UniProtKB:  Q772X2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Membrane cofactor protein
B, D
252Homo sapiensMutation(s): 0 
Gene Names: CD46 (MCP, MIC10)
Find proteins for P15529 (Homo sapiens)
Go to Gene View: CD46
Go to UniProtKB:  P15529
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
B, D
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
DTD
Query on DTD

Download SDF File 
Download CCD File 
A, C
DITHIANE DIOL
C4 H8 O2 S2
YPGMOWHXEQDBBV-IMJSIDKUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.84 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.210 
  • Space Group: P 63
Unit Cell:
Length (Å)Angle (°)
a = 108.160α = 90.00
b = 108.160β = 90.00
c = 222.990γ = 120.00
Software Package:
Software NamePurpose
XDSdata scaling
XDSdata reduction
BUSTERrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-10-13
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2011-08-24
    Type: Database references
  • Version 1.3: 2011-09-07
    Type: Database references
  • Version 1.4: 2011-10-05
    Type: Database references
  • Version 1.5: 2017-11-08
    Type: Refinement description