8WJB | pdb_00008wjb

Structural insights into the Langya virus attachment glycoprotein

• PDB DOI: https://doi.org/10.2210/pdb8WJB/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Henipavirus
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2023-09-25 Released: 2024-10-02 
• Deposition Author(s): Jun, L., Chenghai, W.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.75 Å
• R-Value Free: 
  0.275 (Depositor), 0.272 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.216 (DCC) 
• R-Value Observed: 
  0.219 (Depositor) 

Starting Model: experimental

Literature

Structural insights into the Langya virus attachment glycoprotein.

Wang, C., Li, M., Wang, Y., Ding, Q., Fan, S., Lan, J.

(2024) Structure 32: 1090-1098.e3

• PubMed: 38815575 
• DOI: https://doi.org/10.1016/j.str.2024.05.003
• Primary Citation of Related Structures:  
  8WJB


• PubMed Abstract: 
  

  Langya virus (LayV) was recently detected in patients with acute pneumonic diseases in China. Genome alignment indicated that LayV is a type of zoonotic henipavirus (HNV) that might also infect domestic animals. Previous studies revealed that HNVs mainly use ephrin-B1, ephrin-B2, or ephrin-B3 as cell receptors and the attachment glycoprotein (G) is the host cell receptor-binding protein. However, the LayV receptor remains unknown. Here, we present the 2.77 Å crystal structure of the LayV G C-terminal domain (CTD). We show that the LayV G protein CTD possesses a similar architecture as the Mojiang virus (MojV) G protein but is markedly different from the Nipah virus (NiV), Hendra virus (HeV), and Cedar virus (CedV) G proteins. Surface plasmon resonance (SPR) experiments indicate that LayV G does not bind ephrin-B proteins. Steric hindrance may prevent interactions between LayV G and ephrin-B. Our data might facilitate drug development targeting LayV.

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Organizational Affiliation: 
• School of Biomedical Sciences, Hunan University, Changsha, China.
Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing, China.
Center for Infectious Disease Research, School of Medicine, Tsinghua University, Beijing, China.
Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing, China. Electronic address: [e-mail].
School of Biomedical Sciences, Hunan University, Changsha, China. Electronic address: [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 94.03 kDa 
• Atom Count: 6,529 
• Modeled Residue Count: 840 
• Deposited Residue Count: 848 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Attachment glycoprotein	A, B	424	Henipavirus	Mutation(s): 0
UniProt
Find proteins for W8TIR7 (Mojiang virus) Explore W8TIR7  Go to UniProtKB:  W8TIR7

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.75 Å
• R-Value Free:  0.275 (Depositor), 0.272 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.216 (DCC) 
• R-Value Observed: 0.219 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 196.767	α = 90
b = 48.564	β = 122.67
c = 116.924	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-02 
Deposition Author(s): Jun, L., Chenghai, W.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-10-02
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Structure summary
• Version 1.2: 2025-04-16
  Changes: Database references