Crystal structure of SARS-CoV-2 main protease provides a basis for design of improved α-ketoamide inhibitors
- PMID: 32198291
- PMCID: PMC7164518
- DOI: 10.1126/science.abb3405
Crystal structure of SARS-CoV-2 main protease provides a basis for design of improved α-ketoamide inhibitors
Abstract
The coronavirus disease 2019 (COVID-19) pandemic caused by severe acute respiratory syndrome-coronavirus 2 (SARS-CoV-2) is a global health emergency. An attractive drug target among coronaviruses is the main protease (Mpro, also called 3CLpro) because of its essential role in processing the polyproteins that are translated from the viral RNA. We report the x-ray structures of the unliganded SARS-CoV-2 Mpro and its complex with an α-ketoamide inhibitor. This was derived from a previously designed inhibitor but with the P3-P2 amide bond incorporated into a pyridone ring to enhance the half-life of the compound in plasma. On the basis of the unliganded structure, we developed the lead compound into a potent inhibitor of the SARS-CoV-2 Mpro The pharmacokinetic characterization of the optimized inhibitor reveals a pronounced lung tropism and suitability for administration by the inhalative route.
Copyright © 2020 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.
Figures
![Fig. 1](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/7164518/bin/368_409_F1.gif)
![Fig. 2](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/7164518/bin/368_409_F2.gif)
![Fig. 3](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/7164518/bin/368_409_F3.gif)
![Fig. 4](https://www.ncbi.nlm.nih.gov/pmc/articles/instance/7164518/bin/368_409_F4.gif)
Comment in
-
Designing of improved drugs for COVID-19: Crystal structure of SARS-CoV-2 main protease Mpro.Signal Transduct Target Ther. 2020 May 9;5(1):67. doi: 10.1038/s41392-020-0178-y. Signal Transduct Target Ther. 2020. PMID: 32388537 Free PMC article. No abstract available.
Similar articles
-
Design and Evaluation of Anti-SARS-Coronavirus Agents Based on Molecular Interactions with the Viral Protease.Molecules. 2020 Aug 27;25(17):3920. doi: 10.3390/molecules25173920. Molecules. 2020. PMID: 32867349 Free PMC article. Review.
-
Optimization Rules for SARS-CoV-2 Mpro Antivirals: Ensemble Docking and Exploration of the Coronavirus Protease Active Site.Viruses. 2020 Aug 26;12(9):942. doi: 10.3390/v12090942. Viruses. 2020. PMID: 32859008 Free PMC article.
-
Feline coronavirus drug inhibits the main protease of SARS-CoV-2 and blocks virus replication.Nat Commun. 2020 Aug 27;11(1):4282. doi: 10.1038/s41467-020-18096-2. Nat Commun. 2020. PMID: 32855413 Free PMC article.
-
Discovery of M Protease Inhibitors Encoded by SARS-CoV-2.Antimicrob Agents Chemother. 2020 Aug 20;64(9):e00872-20. doi: 10.1128/AAC.00872-20. Print 2020 Aug 20. Antimicrob Agents Chemother. 2020. PMID: 32669265 Free PMC article.
-
Targeting the Dimerization of the Main Protease of Coronaviruses: A Potential Broad-Spectrum Therapeutic Strategy.ACS Comb Sci. 2020 Jun 8;22(6):297-305. doi: 10.1021/acscombsci.0c00058. Epub 2020 May 27. ACS Comb Sci. 2020. PMID: 32402186 Review.
Cited by
-
Development and utility of a SARS-CoV-2 pseudovirus assay for compound screening and antibody neutralization assays.Heliyon. 2024 May 19;10(10):e31392. doi: 10.1016/j.heliyon.2024.e31392. eCollection 2024 May 30. Heliyon. 2024. PMID: 38826759 Free PMC article.
-
The Inhibitory Effects of the Herbals Secondary Metabolites (7α-acetoxyroyleanone, Curzerene, Incensole, Harmaline, and Cannabidiol) on COVID-19: A Molecular Docking Study.Recent Pat Biotechnol. 2024;18(4):316-331. doi: 10.2174/0118722083246773231108045238. Recent Pat Biotechnol. 2024. PMID: 38817009
-
Development of an active-site titrant for SARS-CoV-2 main protease as an indispensable tool for evaluating enzyme kinetics.Acta Pharm Sin B. 2024 May;14(5):2349-2357. doi: 10.1016/j.apsb.2024.03.001. Epub 2024 Mar 6. Acta Pharm Sin B. 2024. PMID: 38799620 Free PMC article.
-
New Thiazolidine-4-One Derivatives as SARS-CoV-2 Main Protease Inhibitors.Pharmaceuticals (Basel). 2024 May 17;17(5):650. doi: 10.3390/ph17050650. Pharmaceuticals (Basel). 2024. PMID: 38794220 Free PMC article.
-
Identification of natural compounds (proanthocyanidin and rhapontin) as high-affinity inhibitors of SARS-CoV-2 Mpro and PLpro using computational strategies.Arch Med Sci. 2021 Mar 20;20(2):567-581. doi: 10.5114/aoms/133706. eCollection 2024. Arch Med Sci. 2021. PMID: 38757037 Free PMC article.
References
-
- Zhou P., Yang X.-L., Wang X.-G., Hu B., Zhang L., Zhang W., Si H.-R., Zhu Y., Li B., Huang C.-L., Chen H.-D., Chen J., Luo Y., Guo H., Jiang R.-D., Liu M.-Q., Chen Y., Shen X.-R., Wang X., Zheng X.-S., Zhao K., Chen Q.-J., Deng F., Liu L.-L., Yan B., Zhan F.-X., Wang Y.-Y., Xiao G.-F., Shi Z.-L., A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature 579, 270–273 (2020). 10.1038/s41586-020-2012-7 - DOI - PMC - PubMed
-
- Wu F., Zhao S., Yu B., Chen Y.-M., Wang W., Song Z.-G., Hu Y., Tao Z.-W., Tian J.-H., Pei Y.-Y., Yuan M.-L., Zhang Y.-L., Dai F.-H., Liu Y., Wang Q.-M., Zheng J.-J., Xu L., Holmes E. C., Zhang Y.-Z., A new coronavirus associated with human respiratory disease in China. Nature 579, 265–269 (2020). 10.1038/s41586-020-2008-3 - DOI - PMC - PubMed
-
- Gorbalenya A. E., Baker S. C., Baric R. S., de Groot R. J., Drosten C., Gulyaeva A. A., Haagmans B. L., Lauber C., Leontovich A. M., Neuman B. W., Penzar D., Perlman S., Poon L. L. M., Samborskiy D., Sidorov I. A., Sola I., Ziebuhr J., Severe acute respiratory syndrome-related coronavirus: The species and its viruses – a statement of the Coronavirus Study Group. Nat. Microbiol. 5, 536–544 (2020). 10.1038/s41564-020-0695-z - DOI - PMC - PubMed
Publication types
MeSH terms
Substances
LinkOut - more resources
Full Text Sources
Other Literature Sources
Chemical Information
Medical
Molecular Biology Databases
Miscellaneous