9NZ2 | pdb_00009nz2

Cryo-EM structure of antibody 22F5 in complex with pre-fusion stabilized LayV-F

• PDB DOI: https://doi.org/10.2210/pdb9NZ2/pdb
• EM Map EMD-49948: EMDB EMDataResource

• Classification: IMMUNE SYSTEM/VIRAL PROTEIN
• Organism(s): Langya virus, Mus musculus
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2025-03-31 Released: 2026-06-03 
• Deposition Author(s): May, A.J., Kumar, U., Acharya, P.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.46 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Mechanistic and antigenic boundaries of Henipavirus and Parahenipavirus glycoproteins.

May, A.J., Lella, M., Lindenberger, J., Berkman, A., Kumar, U., Liu, K., Dutta, M., Barr, M., Parks, R., Lu, X., Berry, M., Powell, A., Thompson, A.G., Sowdamini Nakka, S., Franca, C.T., Huang, X., Mrigwani, A., Song, K., Ilevbare, V., Sammour, S., Park, C.S., Devkota Adhikari, R., Devkota, P., Janowska, K., Liu, Y., Scapellato, G., Spence, T.N., Mansouri, K., Wiehe, K., Sullivan, N.J., Mason, R., Edwards, R.J., Saunders, K.O., Haynes, B.F., Acharya, P.

(2026) Nat Commun 

• PubMed: 42321170 
• DOI: https://doi.org/10.1038/s41467-026-74212-8
• Primary Citation Related Structures: 
  9EHU, 9MNH, 9MQN, 9NZ0, 9NZ2


• PubMed Abstract: 
  

  Henipaviruses, in the Paramyxoviridae family, includes the highly virulent Nipah virus that causes reoccurring outbreaks of deadly disease. Recent discoveries of Henipavirus-like species, including the zoonotic Langya virus, have revealed much higher antigenic diversity than currently characterized and prompted the reorganization of these viruses into the Henipavirus and Parahenipavirus genera. Here, to explore the limits of structural and antigenic variation in both genera, collectively referred to as HNVs, we construct an expanded, diverse panel of HNV fusion and attachment glycoproteins from non-redundant HNV strains that better reflect global HNV diversity. We express and purify the fusion protein ectodomains and the attachment protein head domains and study their biochemical and biophysical properties. We perform immunization experiments in mice, eliciting antibodies reactive to multiple HNV fusion proteins. Cryo-electron microscopy structures elucidate molecular determinants of differential pre-fusion state stability and higher order contacts. A crystal structure of the Gamak virus attachment head domain reveals an additional domain appended to the conserved 6-bladed, β-propeller fold. Taken together, these studies expand the known structural and antigenic limits of the HNVs, reveal cross-reactive epitopes within both genera and provide foundational data for the development of broadly reactive countermeasures.

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Organizational Affiliation: 
• Duke Human Vaccine Institute, Duke University, Durham, NC, USA. [e-mail].
Department of Biochemistry, Duke University, Durham, NC, USA. [e-mail].
Duke Human Vaccine Institute, Duke University, Durham, NC, USA.
Department of Biochemistry, Duke University, Durham, NC, USA.
Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA.
National Emerging Infectious Diseases Laboratories, Boston University, Boston, MA, USA.
Department of Medicine, Duke University, Durham, NC, USA.
Department of Integrative Immunology, Duke University, Durham, NC, USA.
Department of Surgery, Duke University, Durham, NC, USA.
Duke Human Vaccine Institute, Duke University, Durham, NC, USA. [e-mail].
Department of Biochemistry, Duke University, Durham, NC, USA. [e-mail].
Department of Surgery, Duke University, Durham, NC, USA. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 9-mer - A3B3C3 Pseudo Symmetry: Cyclic - C3  (Explore in 3D)
Pseudo Stoichiometry: Hetero 9-mer - A6B3 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 327.74 kDa 
• Atom Count: 15,516 
• Modeled Residue Count: 2,019 
• Deposited Residue Count: 2,994 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion glycoprotein F0	A, B, C	563	Langya virus	Mutation(s): 2
UniProt
Find proteins for A0AAX3C923 (Langya virus) Explore A0AAX3C923  Go to UniProtKB:  A0AAX3C923
Glycosylation
Glycosylation Sites: 1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody 22F5 Heavy Chain	D, F, I	216	Mus musculus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Antibody 22F5 Kappa Light Chain	E, G, H	219	Mus musculus	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	J [auth A], K [auth B], L [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.46 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-06-03 
Deposition Author(s): May, A.J., Kumar, U., Acharya, P.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History  

• Version 1.0: 2026-06-03
  Type: Initial release
  
• Version 1.1: 2026-07-01
  Changes: Data collection, Database references