9O5W | pdb_00009o5w

CryoEM structure of Wuhan spiny eel influenza virus (WSEIV) HA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.67 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9O5W

This is version 1.0 of the entry. See complete history

Literature

Characterization of the glycoproteins of novel fish influenza B-like viruses.

Singh, G.Huang, J.Bhavsar, D.Vasilev, K.Ferguson, J.A.Boons, G.J.Simon, V.de Vries, R.P.Han, J.Ward, A.Krammer, F.

(2025) bioRxiv 

  • DOI: https://doi.org/10.1101/2025.05.08.652883
  • Primary Citation Related Structures: 
    9O5U, 9O5W

  • PubMed Abstract: 

    Novel influenza-like virus sequences previously identified in fish and amphibians were found to cluster as a sister clade of influenza B viruses, but have thus far remained uncharacterized. We demonstrate that salamander influenza-like virus (SILV) HA is functionally divergent from influenza B virus HA and does not bind to α 2,3- and α2,6-linked sialic acids. However, the HAs of Siamese algae-eater influenza-like virus (SAEILV) and chum salmon influenza-like virus (CSILV) bind to α2,3 linked sialic acid. Furthermore, SAEILV HA binds to sialyated Lewis X, is activated by human airway enzymes and is fusogenic at a wide range of pH conditions. SAEILV NA has a highly conserved active site and a similar structure to other known NAs. We also determined the cryo-electron microscopy structure of the HA of a previously described virus from the same sister clade, the Wuhan spiny eel influenza virus (WSEIV). Importantly, no cross-reactive antibodies against these HAs or NAs were found in the human serum, suggesting that humans are immunologically naïve to these viruses.


  • Organizational Affiliation
    • Department of Microbiology, Icahn School of Medicine at Mount Sinai, New York, NY, USA.

Macromolecule Content 

  • Total Structure Weight: 171 kDa 
  • Atom Count: 11,421 
  • Modeled Residue Count: 1,482 
  • Deposited Residue Count: 1,554 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Hemagglutinin HA1 chainA,
B [auth C],
C [auth E]
337Wuhan spiny eel influenza virusMutation(s): 0 
UniProt
Find proteins for A0A2P1GNV0 (Wuhan spiny eel influenza virus)
Explore A0A2P1GNV0 
Go to UniProtKB:  A0A2P1GNV0
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2P1GNV0
Glycosylation
Glycosylation Sites: 2
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Hemagglutinin HA2 chainD [auth B],
E [auth D],
F
181Wuhan spiny eel influenza virusMutation(s): 0 
UniProt
Find proteins for A0A2P1GNV0 (Wuhan spiny eel influenza virus)
Explore A0A2P1GNV0 
Go to UniProtKB:  A0A2P1GNV0
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2P1GNV0
Sequence Annotations
Expand
Reference Sequence

Oligosaccharides

Help  
Entity ID: 3
MoleculeChains Length2D Diagram GlycosylationD Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
G,
H [auth I],
I [auth K],
J [auth M],
K [auth O],
G,
H [auth I],
I [auth K],
J [auth M],
K [auth O],
L [auth Q]
2N-Glycosylation
Glycosylation Resources
GlyTouCan: G42666HT
GlyCosmos: G42666HT
GlyGen: G42666HT

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.67 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONcryoSPARC4.0

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United States75N93019C00051

Revision History  (Full details and data files)

  • Version 1.0: 2025-08-06
    Type: Initial release