8Q71 image
Deposition Date 2023-08-15
Release Date 2023-12-06
Last Version Date 2024-01-31
Entry Detail
PDB ID:
8Q71
Keywords:
Title:
Crystal structure of SARS-CoV-2 main protease (MPro) in complex with the inhibitor GC-67
Biological Source:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.32 Å
R-Value Free:
0.29
R-Value Work:
0.22
R-Value Observed:
0.23
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:3C-like proteinase nsp5
Gene (Uniprot):rep
Chain IDs:A, B, C, D
Chain Length:306
Number of Molecules:4
Biological Source:Severe acute respiratory syndrome coronavirus
Ligand Molecules
Primary Citation
Design, Synthesis, and Biological Evaluation of Trisubstituted Piperazine Derivatives as Noncovalent Severe Acute Respiratory Syndrome Coronavirus 2 Main Protease Inhibitors with Improved Antiviral Activity and Favorable Druggability.
J.Med.Chem. 66 16426 16440 (2023)
PMID: 37992202 DOI: 10.1021/acs.jmedchem.3c01876

Abstact

The ongoing transmission of SARS-CoV-2 necessitates the development of additional potent antiviral agents capable of combating the current highly infectious variants and future coronaviruses. Here, we present the discovery of potent nonpeptide main protease (Mpro) inhibitors with prominent antiviral activity and improved pharmacokinetic properties. Three series of 1,2,4-trisubstituted piperazine derivatives were designed and synthesized, and the optimal GC-78-HCl demonstrated high enzyme-inhibitory potency (IC50 = 0.19 μM) and exhibited excellent antiviral activity (EC50 = 0.40 μM), reaching the same level as Nirmatrelvir (EC50 = 0.38 μM). Additionally, GC-78-HCl displayed potent antiviral activities against various SARS-CoV-2 variants as well as HCoV-OC43 and HCoV-229E, indicating its potential broad-spectrum anticoronaviral activity. Notably, the pharmacokinetic properties of GC-78-HCl were somewhat enhanced compared to those of the lead compound. Furthermore, the cocrystal and molecular docking elucidated the mechanism of action. In conclusion, we discovered a novel nonpeptidic Mpro inhibitor with promising antiviral activity and a favorable pharmacokinetic profile.

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