5NBH

Structure of the distal domain of mouse adenovirus 2 fibre, P212121 native


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.172 
  • R-Value Observed: 0.174 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure and N-acetylglucosamine binding of the distal domain of mouse adenovirus 2 fibre.

Singh, A.K.Nguyen, T.H.Vidovszky, M.Z.Harrach, B.Benko, M.Kirwan, A.Joshi, L.Kilcoyne, M.Berbis, M.A.Canada, F.J.Jimenez-Barbero, J.Menendez, M.Wilson, S.S.Bromme, B.A.Smith, J.G.van Raaij, M.J.

(2018) J Gen Virol 99: 1494-1508

  • DOI: https://doi.org/10.1099/jgv.0.001145
  • Primary Citation of Related Structures:  
    5N83, 5N8D, 5NBH, 5NC1

  • PubMed Abstract: 

    Murine adenovirus 2 (MAdV-2) infects cells of the mouse gastrointestinal tract. Like human adenoviruses, it is a member of the genus Mastadenovirus, family Adenoviridae. The MAdV-2 genome has a single fibre gene that expresses a 787 residue-long protein. Through analogy to other adenovirus fibre proteins, it is expected that the carboxy-terminal virus-distal head domain of the fibre is responsible for binding to the host cell, although the natural receptor is unknown. The putative head domain has little sequence identity to adenovirus fibres of known structure. In this report, we present high-resolution crystal structures of the carboxy-terminal part of the MAdV-2 fibre. The structures reveal a domain with the typical adenovirus fibre head topology and a domain containing two triple β-spiral repeats of the shaft domain. Through glycan microarray profiling, saturation transfer difference nuclear magnetic resonance spectroscopy, isothermal titration calorimetry and site-directed mutagenesis, we show that the fibre specifically binds to the monosaccharide N-acetylglucosamine (GlcNAc). The crystal structure of the complex reveals that GlcNAc binds between the AB and CD loops at the top of each of the three monomers of the MAdV-2 fibre head. However, infection competition assays show that soluble GlcNAc monosaccharide and natural GlcNAc-containing polymers do not inhibit infection by MAdV-2. Furthermore, site-directed mutation of the GlcNAc-binding residues does not prevent the inhibition of infection by soluble fibre protein. On the other hand, we show that the MAdV-2 fibre protein binds GlcNAc-containing mucin glycans, which suggests that the MAdV-2 fibre protein may play a role in viral mucin penetration in the mouse gut.


  • Organizational Affiliation

    1​Departamento de Estructura de Macromoléculas, Centro Nacional de Biotecnologia (CNB-CSIC), Calle Darwin 3, 28049 Madrid, Spain.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Fiber
A, B, C
237Murine adenovirus 2Mutation(s): 0 
UniProt
Find proteins for E7CH51 (Murine adenovirus 2)
Explore E7CH51 
Go to UniProtKB:  E7CH51
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE7CH51
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
D [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.172 
  • R-Value Observed: 0.174 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.872α = 90
b = 91.11β = 90
c = 128.922γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
Cootmodel building
Aimlessdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-03-14
    Type: Initial release
  • Version 1.1: 2018-10-10
    Changes: Data collection, Database references, Structure summary
  • Version 1.2: 2018-11-14
    Changes: Data collection, Database references, Structure summary
  • Version 1.3: 2024-01-17
    Changes: Data collection, Database references, Refinement description