8XNE

Crystal structure of measles virus fusion inhibitor M1 complexed with F protein HR1 (HR1-42) (H32 space group)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.16 Å
  • R-Value Free: 
    0.187 (Depositor), 0.189 (DCC) 
  • R-Value Work: 
    0.160 (Depositor), 0.160 (DCC) 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Elucidation of Postfusion Structures of the Measles Virus F Protein for the Structure-Based Design of Fusion Inhibitors.

Takahara, A.Nakatsu, T.Hirata, K.Hayashi, H.Kawaji, K.Aoki, K.Inuki, S.Ohno, H.Kato, H.Kodama, E.Oishi, S.

(2025) J Med Chem 68: 3123-3133

  • DOI: https://doi.org/10.1021/acs.jmedchem.4c02337
  • Primary Citation of Related Structures:  
    8XNE, 8XO2, 8XO3, 8XO4, 8XO5, 8XO6, 8XO7, 8XO8

  • PubMed Abstract: 

    Measles is a highly infectious disease and remains a major cause of childhood mortality worldwide. In some cases, the measles virus (MV) induces subacute sclerosing panencephalitis within several years of the acute infection. The infection of the target cells by MV is mediated by the F protein, in which two heptad repeat regions, HR1 and HR2, form a six-helix bundle before membrane fusion. We previously reported anti-MV peptides, which were designed from the HR region of the MV F protein. Here, we characterized the essential interactions between the HR1 and HR2 regions on the postfusion six-helix bundles of synthetic HR1 and HR2 peptides by crystallographic studies. Based on the crystal structures, we identified the minimal α-helix sequence for antiviral activity. Additionally, optimizing HR2 peptides by introducing α-helix-inducible motifs and maintaining key hydrogen bond networks at the N- and C-terminal regions led to the identification of highly potent antiviral peptides.


  • Organizational Affiliation

    Graduate School of Pharmaceutical Sciences, Kyoto University, Sakyo-ku, Kyoto 606-8501, Japan.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Fusion glycoprotein F144Measles virus strain EdmonstonMutation(s): 2 
UniProt
Find proteins for P69353 (Measles virus (strain Edmonston))
Explore P69353 
Go to UniProtKB:  P69353
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP69353
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Fusion glycoprotein F137Measles virus strain EdmonstonMutation(s): 2 
UniProt
Find proteins for P69353 (Measles virus (strain Edmonston))
Explore P69353 
Go to UniProtKB:  P69353
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP69353
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.16 Å
  • R-Value Free:  0.187 (Depositor), 0.189 (DCC) 
  • R-Value Work:  0.160 (Depositor), 0.160 (DCC) 
Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 28.506α = 90
b = 28.506β = 90
c = 387.637γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)JapanJP16H05346
Japan Society for the Promotion of Science (JSPS)JapanJP18H02555
Japan Society for the Promotion of Science (JSPS)JapanJP19H03701
Japan Society for the Promotion of Science (JSPS)JapanJP21K19366
Japan Agency for Medical Research and Development (AMED)JapanJP20ak0101140
Other privateJapan--

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-01
    Type: Initial release
  • Version 1.1: 2025-03-05
    Changes: Database references