6FJO | pdb_00006fjo

Adenovirus species 26 knob protein, very high resolution

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.17 Å
  • R-Value Free: 
    0.190 (Depositor), 0.193 (DCC) 
  • R-Value Work: 
    0.169 (Depositor), 0.175 (DCC) 
  • R-Value Observed: 
    0.170 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.5 of the entry. See complete history. 

Literature

Human adenovirus type 26 uses sialic acid-bearing glycans as a primary cell entry receptor.

Baker, A.T., Mundy, R.M., Davies, J.A., Rizkallah, P.J., Parker, A.L.

(2019) Sci Adv 5: eaax3567-eaax3567

  • DOI: https://doi.org/10.1126/sciadv.aax3567
  • Primary Citation Related Structures: 
    6FJO, 6QU6, 6QU8

  • PubMed Abstract: 

    Adenoviruses are clinically important agents. They cause respiratory distress, gastroenteritis, and epidemic keratoconjunctivitis. As non-enveloped, double-stranded DNA viruses, they are easily manipulated, making them popular vectors for therapeutic applications, including vaccines. Species D adenovirus type 26 (HAdV-D26) is both a cause of EKC and other diseases and a promising vaccine vector. HAdV-D26-derived vaccines are under investigation as protective platforms against HIV, Zika, and respiratory syncytial virus infections and are in phase 3 clinical trials for Ebola. We recently demonstrated that HAdV-D26 does not use CD46 or Desmoglein-2 as entry receptors, while the putative interaction with coxsackie and adenovirus receptor is low affinity and unlikely to represent the primary cell receptor. Here, we establish sialic acid as a primary entry receptor used by HAdV-D26. We demonstrate that removal of cell surface sialic acid inhibits HAdV-D26 infection, and provide a high-resolution crystal structure of HAdV-D26 fiber-knob in complex with sialic acid.

    • Organizational Affiliation: 
    • Division of Cancer and Genetics, School of Medicine, Cardiff University, Heath Park, Cardiff CF14 4XN, UK.

Macromolecule Content 

  • Total Structure Weight: 20.98 kDa 
  • Atom Count: 1,761 
  • Modeled Residue Count: 183 
  • Deposited Residue Count: 183 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:
|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Fiber183Human adenovirus 26Mutation(s): 0 
UniProt
Find proteins for A4ZKM1 (Human adenovirus 26)
Explore A4ZKM1 
Go to UniProtKB:  A4ZKM1
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA4ZKM1
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.17 Å
  • R-Value Free:  0.190 (Depositor), 0.193 (DCC) 
  • R-Value Work:  0.169 (Depositor), 0.175 (DCC) 
  • R-Value Observed: 0.170 (Depositor) 
Space Group: P 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.776α = 90
b = 85.776β = 90
c = 85.776γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
xia2data reduction
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-02-06
    Type: Initial release
  • Version 1.1: 2019-02-13
    Changes: Data collection, Database references
  • Version 1.2: 2019-05-01
    Changes: Data collection, Database references
  • Version 1.3: 2019-09-18
    Changes: Data collection, Database references
  • Version 1.4: 2019-09-25
    Changes: Data collection, Database references
  • Version 1.5: 2024-01-17
    Changes: Data collection, Database references, Refinement description