Crystal structure of middle east respiratory syndrome coronavirus S2 protein fusion core

Experimental Data Snapshot

  • Resolution: 2.30 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.223 

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Structure-based discovery of Middle East respiratory syndrome coronavirus fusion inhibitor.

Lu, L.Liu, Q.Zhu, Y.Chan, K.H.Qin, L.Li, Y.Wang, Q.Chan, J.F.Du, L.Yu, F.Ma, C.Ye, S.Yuen, K.Y.Zhang, R.Jiang, S.

(2014) Nat Commun 5: 3067-3067

  • DOI: https://doi.org/10.1038/ncomms4067
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    A novel human coronavirus, Middle East respiratory syndrome coronavirus (MERS-CoV), has caused outbreaks of a SARS-like illness with high case fatality rate. The reports of its person-to-person transmission through close contacts have raised a global concern about its pandemic potential. Here we characterize the six-helix bundle fusion core structure of MERS-CoV spike protein S2 subunit by X-ray crystallography and biophysical analysis. We find that two peptides, HR1P and HR2P, spanning residues 998-1039 in HR1 and 1251-1286 in HR2 domains, respectively, can form a stable six-helix bundle fusion core structure, suggesting that MERS-CoV enters into the host cell mainly through membrane fusion mechanism. HR2P can effectively inhibit MERS-CoV replication and its spike protein-mediated cell-cell fusion. Introduction of hydrophilic residues into HR2P results in significant improvement of its stability, solubility and antiviral activity. Therefore, the HR2P analogues have good potential to be further developed into effective viral fusion inhibitors for treating MERS-CoV infection.

  • Organizational Affiliation

    1] National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China [2].

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
S protein131Middle East respiratory syndrome-related coronavirusMutation(s): 0 
Find proteins for R9UQ53 (Middle East respiratory syndrome-related coronavirus)
Explore R9UQ53 
Go to UniProtKB:  R9UQ53
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupR9UQ53
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on PGE

Download Ideal Coordinates CCD File 
C6 H14 O4
Experimental Data & Validation

Experimental Data

  • Resolution: 2.30 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.223 
  • Space Group: P 3 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 43.51α = 90
b = 43.51β = 90
c = 129.633γ = 120
Software Package:
Software NamePurpose
CrystalCleardata collection
PHENIXmodel building
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-02-19
    Type: Initial release
  • Version 1.1: 2023-09-20
    Changes: Data collection, Database references, Derived calculations, Refinement description