Gain-of-Signal Assays for Probing Inhibition of SARS-CoV-2 M[superscript pro]/3CL[superscript pro] i

Moghadasi, Seyed Arad; Esler, Morgan A.; Otsuka, Yuka; Becker, Jordan T.; Moraes, Sofia N.; Anderson, Constance B.; Chamakuri, Srinivas; Belica, Christopher; Wick, Chloe; Harki, Daniel A.; Young, Damian W.; Scampavia, Louis; Spicer, Timothy P.; Shi, Ke; Aihara, Hideki; Brown, William L.; Harris, Reuben S.

doi:10.1128/mbio.00784-22

Gain-of-Signal Assays for Probing Inhibition of SARS-CoV-2 M[superscript pro]/3CL[superscript pro] i

Journal Article · 01 May 2022 · mBio

DOI:https://doi.org/10.1128/mbio.00784-22· OSTI ID:1877200

Moghadasi, Seyed Arad; Esler, Morgan A.; Otsuka, Yuka; Becker, Jordan T.; Moraes, Sofia N.; Anderson, Constance B.; Chamakuri, Srinivas; Belica, Christopher; Wick, Chloe; Harki, Daniel A.; Young, Damian W.; Scampavia, Louis; Spicer, Timothy P.; Shi, Ke; Aihara, Hideki; Brown, William L.; Harris, Reuben S.

Research Organization:: Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, IL (US)

Sponsoring Organization:: DOE - Office Of Science; NCI; NIAID

OSTI ID:: 1877200

Journal Information:: mBio, Journal Name: mBio Journal Issue: (3) Vol. 13

Country of Publication:: United States

Language:: ENGLISH

References (62)

Improving Viral Protease Inhibitors to Counter Drug Resistance Kurt Yilmaz, Nese; Swanstrom, Ronald; Schiffer, Celia A. Trends in Microbiology, Vol. 24, Issue 7 https://doi.org/10.1016/j.tim.2016.03.010	journal	July 2016
Role of proteolytic enzymes in the COVID-19 infection and promising therapeutic approaches Gioia, Magda; Ciaccio, Chiara; Calligari, Paolo Biochemical Pharmacology, Vol. 182 https://doi.org/10.1016/j.bcp.2020.114225	journal	December 2020
Ethacridine inhibits SARS-CoV-2 by inactivating viral particles Li, Xiaoquan; Lidsky, Peter V.; Xiao, Yinghong PLOS Pathogens, Vol. 17, Issue 9 https://doi.org/10.1371/journal.ppat.1009898	journal	September 2021
Defending Antiviral Cationic Amphiphilic Drugs That May Cause Drug-Induced Phospholipidosis Lane, Thomas R.; Ekins, Sean Journal of Chemical Information and Modeling, Vol. 61, Issue 9 https://doi.org/10.1021/acs.jcim.1c00903	journal	September 2021
Malleability of the SARS-CoV-2 3CL Mpro Active-Site Cavity Facilitates Binding of Clinical Antivirals Kneller, Daniel W.; Galanie, Stephanie; Phillips, Gwyndalyn Structure, Vol. 28, Issue 12 https://doi.org/10.1016/j.str.2020.10.007	journal	December 2020
Designing a Green Fluorogenic Protease Reporter by Flipping a Beta Strand of GFP for Imaging Apoptosis in Animals Zhang, Qiang; Schepis, Antonino; Huang, Hai Journal of the American Chemical Society, Vol. 141, Issue 11 https://doi.org/10.1021/jacs.8b13042	journal	March 2019
Detecting SARS-CoV-2 3CLpro expression and activity using a polyclonal antiserum and a luciferase-based biosensor O'Brien, Amornrat; Chen, Da-Yuan; Hackbart, Matthew Virology, Vol. 556 https://doi.org/10.1016/j.virol.2021.01.010	journal	April 2021
DNA-encoded chemistry technology yields expedient access to SARS-CoV-2 M ^pro inhibitors Chamakuri, Srinivas; Lu, Shuo; Ucisik, Melek Nihan Proceedings of the National Academy of Sciences, Vol. 118, Issue 36 https://doi.org/10.1073/pnas.2111172118	journal	August 2021
Lead compounds for the development of SARS-CoV-2 3CL protease inhibitors Iketani, Sho; Forouhar, Farhad; Liu, Hengrui Nature Communications, Vol. 12, Issue 1 https://doi.org/10.1038/s41467-021-22362-2	journal	April 2021
Production of Authentic SARS-CoV Mpro with Enhanced Activity: Application as a Novel Tag-cleavage Endopeptidase for Protein Overproduction Xue, Xiaoyu; Yang, Haitao; Shen, Wei Journal of Molecular Biology, Vol. 366, Issue 3 https://doi.org/10.1016/j.jmb.2006.11.073	journal	February 2007
Molecular characterization of ebselen binding activity to SARS-CoV-2 main protease Menéndez, Cintia A.; Byléhn, Fabian; Perez-Lemus, Gustavo R. Science Advances, Vol. 6, Issue 37 https://doi.org/10.1126/sciadv.abd0345	journal	August 2020
A protease-activatable luminescent biosensor and reporter cell line for authentic SARS-CoV-2 infection Gerber, Pehuén Pereyra; Duncan, Lidia M.; Greenwood, Edward JD PLOS Pathogens, Vol. 18, Issue 2 https://doi.org/10.1371/journal.ppat.1010265	journal	February 2022
Broad-Spectrum Antivirals against 3C or 3C-Like Proteases of Picornaviruses, Noroviruses, and Coronaviruses Kim, Y.; Lovell, S.; Tiew, K. -C. Journal of Virology, Vol. 86, Issue 21 https://doi.org/10.1128/JVI.01348-12	journal	August 2012
Sensitivity of Human Immunodeficiency Virus Type 1 to the Fusion Inhibitor T-20 Is Modulated by Coreceptor Specificity Defined by the V3 Loop of gp120 Derdeyn, Cynthia A.; Decker, Julie M.; Sfakianos, Jeffrey N. Journal of Virology, Vol. 74, Issue 18 https://doi.org/10.1128/jvi.74.18.8358-8367.2000	journal	September 2000
Phaser crystallographic software McCoy, Airlie J.; Grosse-Kunstleve, Ralf W.; Adams, Paul D. Journal of Applied Crystallography, Vol. 40, Issue 4 https://doi.org/10.1107/S0021889807021206	journal	July 2007
Masitinib is a broad coronavirus 3CL inhibitor that blocks replication of SARS-CoV-2 Drayman, Nir; DeMarco, Jennifer K.; Jones, Krysten A. Science, Vol. 373, Issue 6557 https://doi.org/10.1126/science.abg5827	journal	August 2021
Discovery of SARS-CoV-2 Papain-like Protease Inhibitors through a Combination of High-Throughput Screening and a FlipGFP-Based Reporter Assay Ma, Chunlong; Sacco, Michael Dominic; Xia, Zilei ACS Central Science, Vol. 7, Issue 7 https://doi.org/10.1021/acscentsci.1c00519	journal	June 2021
Design of modular autoproteolytic gene switches responsive to anti-coronavirus drug candidates Franko, Nik; Teixeira, Ana Palma; Xue, Shuai Nature Communications, Vol. 12, Issue 1 https://doi.org/10.1038/s41467-021-27072-3	journal	November 2021
Both Boceprevir and GC376 efficaciously inhibit SARS-CoV-2 by targeting its main protease Fu, Lifeng; Ye, Fei; Feng, Yong Nature Communications, Vol. 11, Issue 1 https://doi.org/10.1038/s41467-020-18233-x	journal	September 2020
Structural basis for the inhibition of SARS-CoV-2 main protease by antineoplastic drug carmofur Jin, Zhenming; Zhao, Yao; Sun, Yuan Nature Structural & Molecular Biology, Vol. 27, Issue 6 https://doi.org/10.1038/s41594-020-0440-6	journal	May 2020
Targeting SARS-CoV-2 Proteases for COVID-19 Antiviral Development Lv, Zongyang; Cano, Kristin E.; Jia, Lijia Frontiers in Chemistry, Vol. 9 https://doi.org/10.3389/fchem.2021.819165	journal	February 2022
Efficacy of a 3C-like protease inhibitor in treating various forms of acquired feline infectious peritonitis Pedersen, Niels C.; Kim, Yunjeong; Liu, Hongwei Journal of Feline Medicine and Surgery, Vol. 20, Issue 4 https://doi.org/10.1177/1098612X17729626	journal	May 2017
Ebselen, Disulfiram, Carmofur, PX-12, Tideglusib, and Shikonin Are Nonspecific Promiscuous SARS-CoV-2 Main Protease Inhibitors Ma, Chunlong; Hu, Yanmei; Townsend, Julia Alma ACS Pharmacology & Translational Science, Vol. 3, Issue 6 https://doi.org/10.1021/acsptsci.0c00130	journal	October 2020
Protein production by auto-induction in high-density shaking cultures Studier, F. William Protein Expression and Purification, Vol. 41, Issue 1, p. 207-234 https://doi.org/10.1016/j.pep.2005.01.016	journal	May 2005
Profiling of Substrate Specificities of 3C-Like Proteases from Group 1, 2a, 2b, and 3 Coronaviruses Chuck, Chi-Pang; Chow, Hak-Fun; Wan, David Chi-Cheong PLoS ONE, Vol. 6, Issue 11 https://doi.org/10.1371/journal.pone.0027228	journal	November 2011
Human Coronavirus: Host-Pathogen Interaction Fung, To Sing; Liu, Ding Xiang Annual Review of Microbiology, Vol. 73, Issue 1 https://doi.org/10.1146/annurev-micro-020518-115759	journal	September 2019
Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix Liebschner, Dorothee; Afonine, Pavel V.; Baker, Matthew L. Acta Crystallographica Section D Structural Biology, Vol. 75, Issue 10 https://doi.org/10.1107/S2059798319011471	journal	October 2019
Inhibition mechanism of SARS-CoV-2 main protease by ebselen and its derivatives Amporndanai, Kangsa; Meng, Xiaoli; Shang, Weijuan Nature Communications, Vol. 12, Issue 1 https://doi.org/10.1038/s41467-021-23313-7	journal	May 2021
Identify potent SARS-CoV-2 main protease inhibitors via accelerated free energy perturbation-based virtual screening of existing drugs Li, Zhe; Li, Xin; Huang, Yi-You Proceedings of the National Academy of Sciences, Vol. 117, Issue 44 https://doi.org/10.1073/pnas.2010470117	journal	October 2020
Validation and invalidation of SARS-CoV-2 main protease inhibitors using the Flip-GFP and Protease-Glo luciferase assays Ma, Chunlong; Tan, Haozhou; Choza, Juliana Acta Pharmaceutica Sinica B, Vol. 12, Issue 4 https://doi.org/10.1016/j.apsb.2021.10.026	journal	April 2022
Crystal structure of SARS-CoV-2 main protease provides a basis for design of improved α-ketoamide inhibitors Zhang, Linlin; Lin, Daizong; Sun, Xinyuanyuan Science https://doi.org/10.1126/science.abb3405	journal	March 2020
Development of a Fluorescence-Based, High-Throughput SARS-CoV-2 3CL ^pro Reporter Assay Froggatt, Heather M.; Heaton, Brook E.; Heaton, Nicholas S. Journal of Virology, Vol. 94, Issue 22 https://doi.org/10.1128/JVI.01265-20	journal	October 2020
Design and construction of a stereochemically diverse piperazine-based DNA-encoded chemical library Chamakuri, Srinivas; Chung, Mee-Kyung; Samuel, Errol L. G. Bioorganic & Medicinal Chemistry, Vol. 48 https://doi.org/10.1016/j.bmc.2021.116387	journal	October 2021
Identification of Host Cellular Protein Substrates of SARS-COV-2 Main Protease Miczi, Márió; Golda, Mária; Kunkli, Balázs International Journal of Molecular Sciences, Vol. 21, Issue 24 https://doi.org/10.3390/ijms21249523	journal	December 2020
Taming a beast: lessons from the domestication of hepatitis C virus Luna, Joseph M.; Saeed, Mohsan; Rice, Charles M. Current Opinion in Virology, Vol. 35 https://doi.org/10.1016/j.coviro.2019.02.008	journal	April 2019
From SARS to MERS: crystallographic studies on coronaviral proteases enable antiviral drug design Hilgenfeld, Rolf FEBS Journal, Vol. 281, Issue 18 https://doi.org/10.1111/febs.12936	journal	August 2014
Development of boceprevir: a first-in-class direct antiviral treatment for chronic hepatitis C infection: Boceprevir: a first-in-class direct antiviral Hazuda, Daria J.; Burroughs, Margaret; Howe, Anita Y. M. Annals of the New York Academy of Sciences, Vol. 1291, Issue 1 https://doi.org/10.1111/nyas.12218	journal	July 2013
Coot model-building tools for molecular graphics Emsley, Paul; Cowtan, Kevin Acta Crystallographica Section D Biological Crystallography, Vol. 60, Issue 12, p. 2126-2132 https://doi.org/10.1107/S0907444904019158	journal	November 2004
Two adjacent mutations on the dimer interface of SARS coronavirus 3C-like protease cause different conformational changes in crystal structure Hu, Tiancen; Zhang, Yu; Li, Lianwei Virology, Vol. 388, Issue 2 https://doi.org/10.1016/j.virol.2009.03.034	journal	June 2009
The proximal proteome of 17 SARS-CoV-2 proteins links to disrupted antiviral signaling and host translation Meyers, Jordan M.; Ramanathan, Muthukumar; Shanderson, Ronald L. PLOS Pathogens, Vol. 17, Issue 10 https://doi.org/10.1371/journal.ppat.1009412	journal	October 2021
Structural and Biochemical Analysis of the Dual Inhibition of MG-132 against SARS-CoV-2 Main Protease (Mpro/3CLpro) and Human Cathepsin-L Costanzi, Elisa; Kuzikov, Maria; Esposito, Francesca International Journal of Molecular Sciences, Vol. 22, Issue 21 https://doi.org/10.3390/ijms222111779	journal	October 2021
XDS Kabsch, Wolfgang Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2 https://doi.org/10.1107/S0907444909047337	journal	January 2010
Development of a Cell-Based Luciferase Complementation Assay for Identification of SARS-CoV-2 3CLpro Inhibitors Rawson, Jonathan M. O.; Duchon, Alice; Nikolaitchik, Olga A. Viruses, Vol. 13, Issue 2 https://doi.org/10.3390/v13020173	journal	January 2021
Coronavirus Main Proteinase (3CLpro) Structure: Basis for Design of Anti-SARS Drugs Anand, K. Science, Vol. 300, Issue 5626 https://doi.org/10.1126/science.1085658	journal	June 2003
A SARS-CoV-2 protein interaction map reveals targets for drug repurposing Gordon, David E.; Jang, Gwendolyn M.; Bouhaddou, Mehdi Nature, Vol. 583, Issue 7816 https://doi.org/10.1038/s41586-020-2286-9	journal	April 2020
Feline coronavirus drug inhibits the main protease of SARS-CoV-2 and blocks virus replication Vuong, Wayne; Khan, Muhammad Bashir; Fischer, Conrad Nature Communications, Vol. 11, Issue 1 https://doi.org/10.1038/s41467-020-18096-2	journal	August 2020
The HIV-1 Tat Nuclear Localization Sequence Confers Novel Nuclear Import Properties Efthymiadis, Athina; Briggs, Lyndall J.; Jans, David A. Journal of Biological Chemistry, Vol. 273, Issue 3 https://doi.org/10.1074/jbc.273.3.1623	journal	January 1998
The preclinical inhibitor GS441524 in combination with GC376 efficaciously inhibited the proliferation of SARS-CoV-2 in the mouse respiratory tract Shi, Yuejun; Shuai, Lei; Wen, Zhiyuan Emerging Microbes & Infections, Vol. 10, Issue 1 https://doi.org/10.1080/22221751.2021.1899770	journal	January 2021
Structure-based design, synthesis, and biological evaluation of peptidomimetic SARS-CoV 3CLpro inhibitors Ghosh, Arun K.; Xi, Kai; Grum-Tokars, Valerie Bioorganic & Medicinal Chemistry Letters, Vol. 17, Issue 21 https://doi.org/10.1016/j.bmcl.2007.08.031	journal	November 2007
An NS3 protease inhibitor with antiviral effects in humans infected with hepatitis C virus Lamarre, Daniel; Anderson, Paul C.; Bailey, Murray Nature, Vol. 426, Issue 6963 https://doi.org/10.1038/nature02099	journal	October 2003
A new reporter cell line to monitor HIV infection and drug susceptibility in vitro Gervaix, Alain; West, Daniel; Leoni, Lorenzo M. Proceedings of the National Academy of Sciences, Vol. 94, Issue 9 https://doi.org/10.1073/pnas.94.9.4653	journal	April 1997
APOBEC3B is an enzymatic source of mutation in breast cancer Burns, Michael B.; Lackey, Lela; Carpenter, Michael A. Nature, Vol. 494, Issue 7437 https://doi.org/10.1038/nature11881	journal	February 2013
Discovery of (1 R ,5 S )- N -[3-Amino-1-(cyclobutylmethyl)-2,3-dioxopropyl]- 3-[2( S )-[[[(1,1-dimethylethyl)amino]carbonyl]amino]-3,3-dimethyl-1-oxobutyl]- 6,6-dimethyl-3-azabicyclo[3.1.0]hexan-2( S )-carboxamide (SCH 503034), a Selective, Potent, Orally Bioavailable Hepatitis C Virus NS3 Protease Inhibitor: A Potential Therapeutic Agent for the Treatment of Hepatitis C Infection Venkatraman, Srikanth; Bogen, Stéphane L.; Arasappan, Ashok Journal of Medicinal Chemistry, Vol. 49, Issue 20 https://doi.org/10.1021/jm060325b	journal	September 2006
N‐Terminomics for the Identification of In Vitro Substrates and Cleavage Site Specificity of the SARS‐CoV‐2 Main Protease Koudelka, Tomas; Boger, Juliane; Henkel, Alessandra PROTEOMICS, Vol. 21, Issue 2 https://doi.org/10.1002/pmic.202000246	journal	November 2020
Hepatitis C virus protease inhibitor-resistance mutations: Our experience and review Wu, Shuang World Journal of Gastroenterology, Vol. 19, Issue 47 https://doi.org/10.3748/wjg.v19.i47.8940	journal	January 2013
Coronaviruses: An Overview of Their Replication and Pathogenesis Fehr, Anthony R.; Perlman, Stanley Coronaviruses https://doi.org/10.1007/978-1-4939-2438-7_1	book	January 2015
Boceprevir, GC-376, and calpain inhibitors II, XII inhibit SARS-CoV-2 viral replication by targeting the viral main protease Ma, Chunlong; Sacco, Michael Dominic; Hurst, Brett Cell Research, Vol. 30, Issue 8 https://doi.org/10.1038/s41422-020-0356-z	journal	June 2020
Flexibility—Not just for yoga anymore! Seley-Radtke, Katherine Antiviral Chemistry and Chemotherapy, Vol. 26 https://doi.org/10.1177/2040206618756788	journal	January 2018
Structure of Mpro from SARS-CoV-2 and discovery of its inhibitors Jin, Zhenming; Du, Xiaoyu; Xu, Yechun Nature, Vol. 582, Issue 7811 https://doi.org/10.1038/s41586-020-2223-y	journal	April 2020
Design, synthesis and antiviral efficacy of a series of potent chloropyridyl ester-derived SARS-CoV 3CLpro inhibitors Ghosh, Arun K.; Gong, Gangli; Grum-Tokars, Valerie Bioorganic & Medicinal Chemistry Letters, Vol. 18, Issue 20 https://doi.org/10.1016/j.bmcl.2008.08.082	journal	October 2008
Ribozymes as Potential Anti-HIV-1 Therapeutic Agents Sarver, Nava; Cantin, Edouard M.; Chang, Pairoj S. Science, Vol. 247, Issue 4947 https://doi.org/10.1126/science.2107573	journal	March 1990
An oral SARS-CoV-2 M ^pro inhibitor clinical candidate for the treatment of COVID-19 Owen, Dafydd R.; Allerton, Charlotte M. N.; Anderson, Annaliesa S. Science, Vol. 374, Issue 6575 https://doi.org/10.1126/science.abl4784	journal	December 2021

Similar Records

Gain-of-Signal Assays for Probing Inhibition of SARS-CoV-2 M[superscript pro]/3CL[superscript pro] i

Journal Article · 2022 · mBio · OSTI ID:1879747

Design, synthesis and in vitro evaluation of novel SARS-CoV-2 3CL[superscript pro] covalent inhibito

Journal Article · 2022 · Eur. J. Med. Chem. · OSTI ID:1845534

Design, synthesis and in vitro evaluation of novel SARS-CoV-2 3CL[superscript pro] covalent inhibito

Journal Article · 2022 · Eur. J. Med. Chem. · OSTI ID:1844659

Gain-of-Signal Assays for Probing Inhibition of SARS-CoV-2 M[superscript pro]/3CL[superscript pro] i

Citation Formats

References (62)

Similar Records

Related Subjects