4LM9 image
Entry Detail
PDB ID:
4LM9
Title:
Crystal structure of HCoV-OC43 N-NTD complexed with GMP
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2013-07-10
Release Date:
2014-05-28
Method Details:
Experimental Method:
Resolution:
1.60 Å
R-Value Free:
0.27
R-Value Work:
0.22
R-Value Observed:
0.23
Space Group:
P 65
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Nucleoprotein
Chain IDs:A
Chain Length:135
Number of Molecules:1
Biological Source:Human coronavirus
Ligand Molecules
Primary Citation
Structural basis for the identification of the N-terminal domain of coronavirus nucleocapsid protein as an antiviral target
J.Med.Chem. 57 2247 2257 (2014)
PMID: 24564608 DOI: 10.1021/jm500089r

Abstact

Coronaviruses (CoVs) cause numerous diseases, including Middle East respiratory syndrome and severe acute respiratory syndrome, generating significant health-related and economic consequences. CoVs encode the nucleocapsid (N) protein, a major structural protein that plays multiple roles in the virus replication cycle and forms a ribonucleoprotein complex with the viral RNA through the N protein's N-terminal domain (N-NTD). Using human CoV-OC43 (HCoV-OC43) as a model for CoV, we present the 3D structure of HCoV-OC43 N-NTD complexed with ribonucleoside 5'-monophosphates to identify a distinct ribonucleotide-binding pocket. By targeting this pocket, we identified and developed a new coronavirus N protein inhibitor, N-(6-oxo-5,6-dihydrophenanthridin-2-yl)(N,N-dimethylamino)acetamide hydrochloride (PJ34), using virtual screening; this inhibitor reduced the N protein's RNA-binding affinity and hindered viral replication. We also determined the crystal structure of the N-NTD-PJ34 complex. On the basis of these findings, we propose guidelines for developing new N protein-based antiviral agents that target CoVs.

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Primary Citation of related structures