5TP3

Crystal structure of the RSV-neutralizing single-domain antibody F-VHH-4

  • Classification: IMMUNE SYSTEM
  • Organism(s): Lama glama
  • Expression System: Homo sapiens
  • Mutation(s): No 

  • Deposited: 2016-10-19 Released: 2017-02-22 
  • Deposition Author(s): Wrapp, D., Gilman, M.S.A., McLellan, J.S.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), IWT-Vlaanderen, FWO-Vlaanderen, Ghent University, Inter university Attraction Poles Program, VIB and Mineco

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.87 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.170 
  • R-Value Observed: 0.175 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Potent single-domain antibodies that arrest respiratory syncytial virus fusion protein in its prefusion state.

Rossey, I.Gilman, M.S.Kabeche, S.C.Sedeyn, K.Wrapp, D.Kanekiyo, M.Chen, M.Mas, V.Spitaels, J.Melero, J.A.Graham, B.S.Schepens, B.McLellan, J.S.Saelens, X.

(2017) Nat Commun 8: 14158-14158

  • DOI: https://doi.org/10.1038/ncomms14158
  • Primary Citation of Related Structures:  
    5TOJ, 5TOK, 5TP3

  • PubMed Abstract: 

    Human respiratory syncytial virus (RSV) is the main cause of lower respiratory tract infections in young children. The RSV fusion protein (F) is highly conserved and is the only viral membrane protein that is essential for infection. The prefusion conformation of RSV F is considered the most relevant target for antiviral strategies because it is the fusion-competent form of the protein and the primary target of neutralizing activity present in human serum. Here, we describe two llama-derived single-domain antibodies (VHHs) that have potent RSV-neutralizing activity and bind selectively to prefusion RSV F with picomolar affinity. Crystal structures of these VHHs in complex with prefusion F show that they recognize a conserved cavity formed by two F protomers. In addition, the VHHs prevent RSV replication and lung infiltration of inflammatory monocytes and T cells in RSV-challenged mice. These prefusion F-specific VHHs represent promising antiviral agents against RSV.


  • Organizational Affiliation

    Medical Biotechnology Center, VIB, Technologiepark 927, Ghent B-9052, Belgium.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
F-VHH-4
A, B
125Lama glamaMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 47.71α = 90
b = 47.77β = 90
c = 149.82γ = 90
Software Package:
Software NamePurpose
Aimlessdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
iMOSFLMdata reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP20GM113132
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32GM008704
IWT-VlaanderenBelgiumPh.D. Student Fellowship
FWO-VlaanderenBelgiumPostdoctoral Fellowship
Ghent UniversityBelgiumBOF12/GOA/014
Inter university Attraction Poles ProgramBelgiumIAP7, BELVIR
VIB and MinecoSpainSAF2015-67033-R

Revision History  (Full details and data files)

  • Version 1.0: 2017-02-22
    Type: Initial release
  • Version 1.1: 2017-03-01
    Changes: Database references
  • Version 1.2: 2017-04-26
    Changes: Experimental preparation
  • Version 1.3: 2017-09-13
    Changes: Author supporting evidence
  • Version 1.4: 2019-12-25
    Changes: Author supporting evidence
  • Version 1.5: 2023-10-04
    Changes: Data collection, Database references, Refinement description