3R4D

Crystal structure of mouse coronavirus receptor-binding domain complexed with its murine receptor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.248 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of mouse coronavirus receptor-binding domain complexed with its murine receptor.

Peng, G.Sun, D.Rajashankar, K.R.Qian, Z.Holmes, K.V.Li, F.

(2011) Proc.Natl.Acad.Sci.USA 108: 10696-10701

  • DOI: 10.1073/pnas.1104306108

  • PubMed Abstract: 
  • Coronaviruses have evolved diverse mechanisms to recognize different receptors for their cross-species transmission and host-range expansion. Mouse hepatitis coronavirus (MHV) uses the N-terminal domain (NTD) of its spike protein as its receptor-bind ...

    Coronaviruses have evolved diverse mechanisms to recognize different receptors for their cross-species transmission and host-range expansion. Mouse hepatitis coronavirus (MHV) uses the N-terminal domain (NTD) of its spike protein as its receptor-binding domain. Here we present the crystal structure of MHV NTD complexed with its receptor murine carcinoembryonic antigen-related cell adhesion molecule 1a (mCEACAM1a). Unexpectedly, MHV NTD contains a core structure that has the same β-sandwich fold as human galectins (S-lectins) and additional structural motifs that bind to the N-terminal Ig-like domain of mCEACAM1a. Despite its galectin fold, MHV NTD does not bind sugars, but instead binds mCEACAM1a through exclusive protein-protein interactions. Critical contacts at the interface have been confirmed by mutagenesis, providing a structural basis for viral and host specificities of coronavirus/CEACAM1 interactions. Sugar-binding assays reveal that galectin-like NTDs of some coronaviruses such as human coronavirus OC43 and bovine coronavirus bind sugars. Structural analysis and mutagenesis localize the sugar-binding site in coronavirus NTDs to be above the β-sandwich core. We propose that coronavirus NTDs originated from a host galectin and retained sugar-binding functions in some contemporary coronaviruses, but evolved new structural features in MHV for mCEACAM1a binding.


    Organizational Affiliation

    Department of Pharmacology, University of Minnesota Medical School, Minneapolis, MN 55455, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CEA-related cell adhesion molecule 1, isoform 1/2S
A, C
208Mus musculusMutation(s): 0 
Gene Names: Ceacam1 (Bgp, Bgp1)
Find proteins for P31809 (Mus musculus)
Go to UniProtKB:  P31809
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Spike glycoprotein
B, D
288Murine hepatitis virusMutation(s): 0 
Gene Names: ORF3
Find proteins for Q9J3E7 (Murine hepatitis virus)
Go to UniProtKB:  Q9J3E7
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B, C, D
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.248 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 76.380α = 90.00
b = 76.380β = 90.00
c = 942.090γ = 120.00
Software Package:
Software NamePurpose
HKL-3000data reduction
SOLVEphasing
HKL-3000data collection
REFMACrefinement
HKL-3000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-06-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2014-10-29
    Type: Structure summary