Structural characterization of the HCoV-229E fusion core

Experimental Data Snapshot

  • Resolution: 2.44 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.228 

Starting Model: experimental
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Structural characterization of the HCoV-229E fusion core.

Zhang, W.Zheng, Q.Yan, M.Chen, X.Yang, H.Zhou, W.Rao, Z.

(2018) Biochem Biophys Res Commun 497: 705-712

  • DOI: https://doi.org/10.1016/j.bbrc.2018.02.136
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    HCoV-229E spike (S) protein mediates virion attachment to cells and subsequent fusion of the viral and cellular membranes. This protein is composed of an N-terminal receptor-binding domain (S1) and a C-terminal trans-membrane fusion domain (S2). S2 contains a highly conserved heptad repeat 1 and 2 (HR1 and HR2). In this study, the HRs sequences were designed and connected with a flexible linker. The recombinant fusion core protein was crystallized and its structure was solved at a resolution of 2.45 Å. Then we characterized the binding of HR1s and HR2s via both sequence alignment and structural analysis. The overall structures, especially the residues in some positions of HR2 are highly conserved. Fourteen hydrophobic and three polar residues from each HR1 peptide are packed in layers at the coiled-coil interface. These core amino acids can be grouped into seven heptad repeats. Analysis of hydrophobic and hydrophilic interactions between HR2 helix and HR1 helices, shows that the HR1 and HR2 polypeptides are highly complementary in both shape and chemical properties. Furthermore, the available knowledge concerning HCoV-229E fusion core may make it possible to design small molecule or polypeptide drugs targeting membrane fusion, a crucial step of HCoV-229E infection.

  • Organizational Affiliation

    College of Life Sciences, State Key Laboratory of Medicinal Chemical Biology, Nankai University, Tianjin, 300071, People's Republic of China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Spike glycoprotein, Spike glycoprotein
A, B, C, D, E
A, B, C, D, E, F
148Human coronavirus 229EMutation(s): 0 
Find proteins for P15423 (Human coronavirus 229E)
Explore P15423 
Go to UniProtKB:  P15423
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP15423
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.44 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.228 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 30.108α = 76.89
b = 77.348β = 89.78
c = 77.386γ = 90.2
Software Package:
Software NamePurpose
HKL-3000data reduction
HKL-2000data scaling

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Key R&D Program of ChinaChina2017YFC0840300
MOST 973 ProjectChinaNo. 2014CB542800
MOST 973 ProjectChinaNo. 2014CBA02003
CAS SPR program BChinaXDB08020200
National Science Foundation of ChinaChina81330036 and 81520108019

Revision History  (Full details and data files)

  • Version 1.0: 2018-06-06
    Type: Initial release
  • Version 1.1: 2023-11-22
    Changes: Data collection, Database references, Refinement description