8TW3

hMPV fusion protein complexed with single domain antibodies sdHMPV16 and sdHMPV12


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.193 

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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

A neutralizing single-domain antibody that targets the trimer interface of the human metapneumovirus fusion protein.

Ballegeer, M.van Scherpenzeel, R.C.Delgado, T.Iglesias-Caballero, M.Garcia Barreno, B.Pandey, S.Rush, S.A.Kolkman, J.A.Mas, V.McLellan, J.S.Saelens, X.

(2024) mBio 15: e0212223-e0212223

  • DOI: https://doi.org/10.1128/mbio.02122-23
  • Primary Citation of Related Structures:  
    8TW3

  • PubMed Abstract: 

    Human metapneumovirus (hMPV) is an important respiratory pathogen for which no licensed antivirals or vaccines exist. Single-domain antibodies represent promising antiviral biologics that can be easily produced and formatted. We describe the isolation and detailed characterization of two hMPV-neutralizing single-domain antibodies that are directed against the fusion protein F. One of these single-domain antibodies broadly neutralizes hMPV A and B strains, can prevent proteolytic maturation of F, and binds to an epitope in the F trimer interface. This suggests that hMPV pre-F undergoes trimer opening or "breathing" on infectious virions, exposing a vulnerable site for neutralizing antibodies. Finally, we show that this single-domain antibody, fused to a human IgG1 Fc, can protect cotton rats against hMPV replication, an important finding for potential future clinical applications.


  • Organizational Affiliation

    VIB Center for Medical Biotechnology, VIB, Ghent, Belgium.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Single domain antibody sdHMPV12A,
E [auth Y]
193Lama glamaMutation(s): 0 
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Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Single domain antibody sdHMPV16B,
F [auth Z]
192Lama glamaMutation(s): 0 
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Fusion glycoproteinC [auth F],
D [auth X]
542Human metapneumovirus AMutation(s): 0 
UniProt
Find proteins for Q8B9P0 (human metapneumovirus)
Explore Q8B9P0 
Go to UniProtKB:  Q8B9P0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8B9P0
Glycosylation
Glycosylation Sites: 1
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.193 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 80.26α = 90
b = 115.61β = 90
c = 158.03γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
iMOSFLMdata reduction
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Energy (DOE, United States)United StatesDE-AC02-06CH11357
Welch FoundationUnited States--

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-24
    Type: Initial release
  • Version 1.1: 2024-10-16
    Changes: Structure summary