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The SARS‐CoV‐2 main protease (M pro ): Structure, function, and emerging therapies for COVID‐19

Qing Hu, Yuan Xiong, Guang‐Hao Zhu and 4 more

MedComm · 2022 · Review · CC BY

doi:10.1002/mco2.151

Abstract

The main proteases (M pro ), also termed 3‐chymotrypsin‐like proteases (3CL pro ), are a class of highly conserved cysteine hydrolases in β‐coronaviruses. Increasing evidence has demonstrated that 3CL pro s play an indispensable role in viral replication and have been recognized as key targets for preventing and treating coronavirus‐caused infectious diseases, including COVID‐19. This review is focused on the structural features and biological function of the severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) main protease M pro (also known as 3CL pro ), as well as recent advances in discovering and developing SARS‐CoV‐2 3CL pro inhibitors. To better understand the characteristics of SARS‐CoV‐2 3CL pro inhibitors, the inhibition activities, inhibitory mechanisms, and key structural features of various 3CL pro inhibitors (including marketed drugs, peptidomimetic, and non‐peptidomimetic synthetic compounds, as well as natural compounds and their derivatives) are summarized comprehensively. Meanwhile, the challenges in this field are highlighted, while future directions for designing and developing efficacious 3CL pro inhibitors as novel anti‐coronavirus therapies are also proposed. Collectively, all information and knowledge presented here are very helpful for understanding the structural features and inhibitory mechanisms of SARS‐CoV‐2 3CL pro inhibitors, which offers new insights or inspiration to medicinal chemists for designing and developing more efficacious 3CL pro inhibitors as novel anti‐coronavirus agents.

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  113. 113.

    Milligan JC, Zeisner TU, Papageorgiou G, et al. Identifying SARS‐CoV‐2 antiviral compounds by screening for small molecule inhibitors of Nsp5 main protease. Biochem J. 2021;478(13):2499‐2515.

    Not in our library10.1042/bcj20210197

  114. 114.

    Wang Y, Xu B, Ma S, et al. Discovery of SARS‐CoV‐2 3CL(Pro) peptidomimetic inhibitors through the catalytic dyad histidine‐specific protein–ligand interactions. Int J Mol Sci. 2022;23(4):2392.

    Not in our library10.3390/ijms23042392

  115. 115.

    Elseginy SA, Fayed B, Hamdy R, et al. Promising anti‐SARS‐CoV‐2 drugs by effective dual targeting against the viral and host proteases. Bioorg Med Chem Lett. 2021;43:128099.

    Not in our library10.1016/j.bmcl.2021.128099

  116. 116.

    Ge R, Shen Z, Yin J, et al. Discovery of SARS‐CoV‐2 main protease covalent inhibitors from a DNA‐encoded library selection. SLAS Discov. 2022;27(2):79‐85.

    Not in our library10.1016/j.slasd.2022.01.001

  117. 117.
  118. 118.

    Konno S, Kobayashi K, Senda M, et al. 3CL protease inhibitors with an electrophilic arylketone moiety as anti‐SARS‐CoV‐2 agents. J Med Chem. 2022;65(4):2926‐2939.

    Not in our library10.1021/acs.jmedchem.1c00665

  119. 119.

    Kitamura N, Sacco MD, Ma C, et al. Expedited approach toward the rational design of noncovalent SARS‐CoV‐2 main protease inhibitors. J Med Chem. 2022;65(4):2848‐2865.

    Not in our library10.1021/acs.jmedchem.1c00509

  120. 120.

    Bai B, Arutyunova E, Khan MB, et al. Peptidomimetic nitrile warheads as SARS‐CoV‐2 3CL protease inhibitors. RSC Med Chem. 2021;12(10):1722‐1730.

    Not in our library10.1039/d1md00247c

  121. 121.

    Lee JY, Kuo CJ, Shin JS, et al. Identification of non‐covalent 3C‐like protease inhibitors against severe acute respiratory syndrome coronavirus‐2 via virtual screening of a Korean compound library. Bioorg Med Chem Lett. 2021;42:128067.

    Not in our library10.1016/j.bmcl.2021.128067

  122. 122.

    Simmons G, Gosalia DN, Rennekamp AJ, et al. Inhibitors of cathepsin L prevent severe acute respiratory syndrome coronavirus entry. Proc Natl Acad Sci U S A. 2005;102(33):11876‐11881.

    Not in our library10.1073/pnas.0505577102

  123. 123.
  124. 124.
  125. 125.

    Costanzi E, Kuzikov M, Esposito F, et al. Structural and biochemical analysis of the dual inhibition of MG‐132 against SARS‐CoV‐2 main protease (Mpro/3CLpro) and human cathepsin‐L. Int J Mol Sci. 2021;22(21):11779.

    Not in our library10.3390/ijms222111779

  126. 126.

    Li L, Chenna BC, Yang KS, et al. Self‐masked aldehyde inhibitors: a novel strategy for inhibiting cysteine proteases. J Med Chem. 2021;64(15):11267‐11287.

    Not in our library10.1021/acs.jmedchem.1c00628

  127. 127.

    Al‐Wahaibi LH, Mostafa A, Mostafa YA, et al. Discovery of novel oxazole‐based macrocycles as anti‐coronaviral agents targeting SARS‐CoV‐2 main protease. Bioorg Chem. 2021;116:105363.

    Not in our library10.1016/j.bioorg.2021.105363

  128. 128.

    Johansen‐Leete J, Ullrich S, Fry SE, et al. Antiviral cyclic peptides targeting the main protease of SARS‐CoV‐2. Chem Sci. 2022;13(13):3826‐3836.

    Not in our library10.1039/d1sc06750h

  129. 129.

    Di Sarno V, Lauro G, Musella S, et al. Identification of a dual acting SARS‐CoV‐2 proteases inhibitor through in silico design and step‐by‐step biological characterization. Eur J Med Chem. 2021;226:113863.

    Not in our library10.1016/j.ejmech.2021.113863

  130. 130.

    Stille JK, Tjutrins J, Wang G, et al. Design, synthesis and in vitro evaluation of novel SARS‐CoV‐2 3CL(pro) covalent inhibitors. Eur J Med Chem. 2022;229:114046.

    Not in our library10.1016/j.ejmech.2021.114046

  131. 131.

    Breidenbach J, Lemke C, Pillaiyar T, et al. Targeting the main protease of SARS‐CoV‐2: from the establishment of high throughput screening to the design of tailored inhibitors. Angew Chem Int Ed Engl. 2021;60(18):10423‐10429.

    Not in our library10.1002/anie.202016961

  132. 132.
  133. 133.

    Yang KS, Ma XR, Ma Y, et al. A quick route to multiple highly potent SARS‐CoV‐2 main protease inhibitors. ChemMedChem. 2021;16(6):942‐948.

    Not in our library10.1002/cmdc.202000924

  134. 134.

    Ma XR, Alugubelli YR, Ma Y, et al. MPI8 is potent against SARS‐CoV‐2 by inhibiting dually and selectively the SARS‐CoV‐2 main protease and the host cathepsin L. ChemMedChem. 2022;17(1):e202100456.

    Not in our library10.1002/cmdc.202100456

  135. 135.

    Yamane D, Onitsuka S, Re S, et al. Selective covalent targeting of SARS‐CoV‐2 main protease by enantiopure chlorofluoroacetamide. Chem Sci. 2022;13(10):3027‐3034.

    Not in our library10.1039/d1sc06596c

  136. 136.

    Yang J, Lin X, Xing N, et al. Structure‐based discovery of novel nonpeptide inhibitors targeting SARS‐CoV‐2 M(pro). J Chem Inf Model. 2021;61(8):3917‐3926.

    Not in our library10.1021/acs.jcim.1c00355

  137. 137.

    Glaser J, Sedova A, Galanie S, et al. Hit expansion of a noncovalent SARS‐CoV‐2 main protease inhibitor. ACS Pharmacol Transl Sci. 2022;5(4):255‐265.

    Not in our library10.1021/acsptsci.2c00026

  138. 138.

    Chen CC, Yu X, Kuo CJ, et al. Overview of antiviral drug candidates targeting coronaviral 3C‐like main proteases. FEBS J. 2021;288(17):5089‐5121.

    Not in our library10.1111/febs.15696

  139. 139.

    Turlington M, Chun A, Tomar S, et al. Discovery of N‐(benzo[1,2,3]triazol‐1‐yl)‐N‐(benzyl)acetamido)phenyl) carboxamides as severe acute respiratory syndrome coronavirus (SARS‐CoV) 3CLpro inhibitors: identification of ML300 and noncovalent nanomolar inhibitors with an induced‐fit binding. Bioorg Med Chem Lett. 2013;23(22):6172‐6177.

    Not in our library10.1016/j.bmcl.2013.08.112

  140. 140.

    Han SH, Goins CM, Arya T, et al. Structure‐based optimization of ML300‐derived, noncovalent inhibitors targeting the severe acute respiratory syndrome coronavirus 3CL protease (SARS‐CoV‐2 3CL(pro)). J Med Chem. 2022;65(4):2880‐2904.

    Not in our library10.1021/acs.jmedchem.1c00598

  141. 141.

    Ghahremanpour MM, Tirado‐Rives J, Deshmukh M, et al. Identification of 14 known drugs as inhibitors of the main protease of SARS‐CoV‐2. ACS Med Chem Lett. 2020;11(12):2526‐2533.

    Not in our library10.1021/acsmedchemlett.0c00521

  142. 142.

    Zhang CH, Stone EA, Deshmukh M, et al. Potent noncovalent inhibitors of the main protease of SARS‐CoV‐2 from molecular sculpting of the drug perampanel guided by free energy perturbation calculations. ACS Cent Sci. 2021;7(3):467‐475.

    Not in our library10.1021/acscentsci.1c00039

  143. 143.

    Deshmukh MG, Ippolito JA, Zhang CH, et al. Structure‐guided design of a perampanel‐derived pharmacophore targeting the SARS‐CoV‐2 main protease. Structure. 2021;29(8):823‐833.e5.

    Not in our library10.1016/j.str.2021.06.002

  144. 144.

    Zhang CH, Spasov KA, Reilly RA, et al. Optimization of triarylpyridinone inhibitors of the main protease of SARS‐CoV‐2 to low‐nanomolar antiviral potency. ACS Med Chem Lett. 2021;12(8):1325‐1332.

    Not in our library10.1021/acsmedchemlett.1c00326

  145. 145.
  146. 146.

    Ramos‐Guzman CA, Ruiz‐Pernia JJ, Tunon I. Inhibition mechanism of SARS‐CoV‐2 main protease with ketone‐based inhibitors unveiled by multiscale simulations: insights for improved designs. Angew Chem Int Ed Engl. 2021;60(49):25933‐25941.

    Not in our library10.1002/anie.202110027

  147. 147.
  148. 148.

    Ghosh AK, Gong G, Grum‐Tokars V, et al. Design, synthesis and antiviral efficacy of a series of potent chloropyridyl ester‐derived SARS‐CoV 3CLpro inhibitors. Bioorg Med Chem Lett. 2008;18(20):5684‐5688.

    Not in our library10.1016/j.bmcl.2008.08.082

  149. 149.

    Ma C, Hu Y, Townsend JA, et al. Ebselen, disulfiram, carmofur, PX‐12, tideglusib, and shikonin are nonspecific promiscuous SARS‐CoV‐2 main protease inhibitors. ACS Pharmacol Transl Sci. 2020;3(6):1265‐1277.

    Not in our library10.1021/acsptsci.0c00130

  150. 150.

    Qiao Z, Wei N, Jin L, et al. The Mpro structure‐based modifications of ebselen derivatives for improved antiviral activity against SARS‐CoV‐2 virus. Bioorg Chem. 2021;117:105455.

    Not in our library10.1016/j.bioorg.2021.105455

  151. 151.

    Sun LY, Chen C, Su J, et al. Ebsulfur and Ebselen as highly potent scaffolds for the development of potential SARS‐CoV‐2 antivirals. Bioorg Chem. 2021;112:104889.

    Not in our library10.1016/j.bioorg.2021.104889

  152. 152.

    Ghosh AK, Raghavaiah J, Shahabi D, et al. Indole chloropyridinyl ester‐derived SARS‐CoV‐2 3CLpro inhibitors: enzyme inhibition, antiviral efficacy, structure–activity relationship, and X‐ray structural studies. J Med Chem. 2021;64(19):14702‐14714.

    Not in our library10.1021/acs.jmedchem.1c01214

  153. 153.

    Ghosh AK, Shahabi D, Yadav M, et al. Chloropyridinyl esters of nonsteroidal anti‐inflammatory agents and related derivatives as potent SARS‐CoV‐2 3CL protease inhibitors. Molecules. 2021;26(19):5782.

    Not in our library10.3390/molecules26195782

  154. 154.

    Chen W, Feng B, Han S, et al. Discovery of highly potent SARS‐CoV‐2 M(pro) inhibitors based on benzoisothiazolone scaffold. Bioorg Med Chem Lett. 2022;58:128526.

    Not in our library10.1016/j.bmcl.2022.128526

  155. 155.

    Petrou A, Zagaliotis P, Theodoroula NF, et al. Thiazole/thiadiazole/benzothiazole based thiazolidin‐4‐one derivatives as potential inhibitors of main protease of SARS‐CoV‐2. Molecules. 2022;27(7):2180.

    Not in our library10.3390/molecules27072180

  156. 156.

    El Khoury L, Jing Z, Cuzzolin A, et al. Computationally driven discovery of SARS‐CoV‐2 M(pro) inhibitors: from design to experimental validation. Chem Sci. 2022;13(13):3674‐3687.

    Not in our library10.1039/d1sc05892d

  157. 157.

    Guo S, Xie H, Lei Y, et al. Discovery of novel inhibitors against main protease (Mpro) of SARS‐CoV‐2 via virtual screening and biochemical evaluation. Bioorg Chem. 2021;110:104767.

    Not in our library10.1016/j.bioorg.2021.104767

  158. 158.

    Fricker SP, Mosi RM, Cameron BR, et al. Metal compounds for the treatment of parasitic diseases. J Inorg Biochem. 2008;102(10):1839‐1845.

    Not in our library10.1016/j.jinorgbio.2008.05.010

  159. 159.

    Fricker SP. Cysteine proteases as targets for metal‐based drugs. Metallomics. 2010;2(6):366‐377.

    Not in our library10.1039/b924677k

  160. 160.

    Karges J, Cohen SM. Metal complexes as antiviral agents for SARS‐CoV‐2. ChemBioChem. 2021;22(16):2600‐2607.

    Not in our library10.1002/cbic.202100186

  161. 161.
  162. 162.

    Huo PC, Hu Q, Shu S, et al. Design, synthesis and biological evaluation of novel chalcone‐like compounds as potent and reversible pancreatic lipase inhibitors. Bioorg Med Chem. 2021;29:115853.

    Not in our library10.1016/j.bmc.2020.115853

  163. 163.

    Li C‐Y, Wang H‐N, Zhu G‐H, et al. Discovery and characterization of naturally occurring chalcones as potent inhibitors of bile salt hydrolases. Acta Mater Med. 2022;1(2).

    Not in our library

  164. 164.

    Hou XD, Guan XQ, Cao YF, et al. Inhibition of pancreatic lipase by the constituents in St. John's Wort: in vitro and in silico investigations. Int J Biol Macromol. 2020;145:620‐633.

    Not in our library10.1016/j.ijbiomac.2019.12.231

  165. 165.

    Song YQ, Guan XQ, Weng ZM, et al. Discovery of a highly specific and efficacious inhibitor of human carboxylesterase 2 by large‐scale screening. Int J Biol Macromol. 2019;137:261‐269.

    Not in our library10.1016/j.ijbiomac.2019.06.235

  166. 166.

    Xiong Y, Zhu GH, Wang HN, et al. Discovery of naturally occurring inhibitors against SARS‐CoV‐2 3CL(pro) from Ginkgo biloba leaves via large‐scale screening. Fitoterapia. 2021;152:104909.

    Not in our library10.1016/j.fitote.2021.104909

  167. 167.

    Shen N, Wang T, Gan Q, et al. Plant flavonoids: classification, distribution, biosynthesis, and antioxidant activity. Food Chem. 2022;383:132531.

    Not in our library10.1016/j.foodchem.2022.132531

  168. 168.

    Ververidis F, Trantas E, Douglas C, et al. Biotechnology of flavonoids and other phenylpropanoid‐derived natural products. Part I: chemical diversity, impacts on plant biology and human health. Biotechnol J. 2007;2(10):1214‐1234.

    Not in our library10.1002/biot.200700084

  169. 169.

    D'Arcy MS. A review of biologically active flavonoids as inducers of autophagy and apoptosis in neoplastic cells and as cytoprotective agents in non‐neoplastic cells. Cell Biol Int. 2022.

    Not in our library10.1002/cbin.11813

  170. 170.

    Fraga CG, Croft KD, Kennedy DO, et al. The effects of polyphenols and other bioactives on human health. Food Funct. 2019;10(2):514‐528.

    Not in our library10.1039/c8fo01997e

  171. 171.

    Zaragoza C, Villaescusa L, Monserrat J, et al. Potential therapeutic anti‐inflammatory and immunomodulatory effects of dihydroflavones, flavones, and flavonols. Molecules. 2020;25(4):1107.

    Not in our library10.3390/molecules25041017

  172. 172.
  173. 173.

    Mouffouk C, Mouffouk S, Mouffouk S, et al. Flavonols as potential antiviral drugs targeting SARS‐CoV‐2 proteases (3CL(pro) and PL(pro)), spike protein, RNA‐dependent RNA polymerase (RdRp) and angiotensin‐converting enzyme II receptor (ACE2). Eur J Pharmacol. 2021;891:173759.

    Not in our library10.1016/j.ejphar.2020.173759

  174. 174.

    Liskova A, Samec M, Koklesova L, et al. Flavonoids against the SARS‐CoV‐2 induced inflammatory storm. Biomed Pharmacother. 2021;138:111430.

    Not in our library10.1016/j.biopha.2021.111430

  175. 175.

    Song JW, Long JY, Xie L, et al. Applications, phytochemistry, pharmacological effects, pharmacokinetics, toxicity of Scutellaria baicalensis Georgi. and its probably potential therapeutic effects on COVID‐19: a review. Chin Med. 2020;15:102.

    Not in our library10.1186/s13020-020-00384-0

  176. 176.

    Li K, Liang Y, Cheng A, et al. Antiviral properties of Baicalin: a concise review. Rev Bras Farmacogn. 2021;31(4):408‐419.

    Not in our library10.1007/s43450-021-00182-1

  177. 177.
  178. 178.

    Bolton JL, Dunlap TL, Dietz BM. Formation and biological targets of botanical o‐quinones. Food Chem Toxicol. 2018;120:700‐707.

    Not in our library10.1016/j.fct.2018.07.050

  179. 179.

    Wu Q, Yan S, Wang Y, et al. Discovery of 4'‐O‐methylscutellarein as a potent SARS‐CoV‐2 main protease inhibitor. Biochem Biophys Res Commun. 2022;604:76‐82.

    Not in our library10.1016/j.bbrc.2022.03.052

  180. 180.
  181. 181.

    Su HX, Yao S, Zhao WF, et al. Anti‐SARS‐CoV‐2 activities in vitro of Shuanghuanglian preparations and bioactive ingredients. Acta Pharmacol Sin. 2020;41(9):1167‐1177.

    Not in our library10.1038/s41401-020-0483-6

  182. 182.
  183. 183.
  184. 184.

    Ryu YB, Jeong HJ, Kim JH, et al. Biflavonoids from Torreya nucifera displaying SARS‐CoV 3CL(pro) inhibition. Bioorg Med Chem. 2010;18(22):7940‐7947.

    Not in our library10.1016/j.bmc.2010.09.035

  185. 185.

    Abian O, Ortega‐Alarcon D, Jimenez‐Alesanco A, et al. Structural stability of SARS‐CoV‐2 3CLpro and identification of quercetin as an inhibitor by experimental screening. Int J Biol Macromol. 2020;164:1693‐1703.

    Not in our library10.1016/j.ijbiomac.2020.07.235

  186. 186.

    Saakre M, Mathew D, Ravisankar V. Perspectives on plant flavonoid quercetin‐based drugs for novel SARS‐CoV‐2. Beni Suef Univ J Basic Appl Sci. 2021;10(1):21.

    Not in our library10.1186/s43088-021-00107-w

  187. 187.

    Mangiavacchi F, Botwina P, Menichetti E, et al. Seleno‐functionalization of quercetin improves the non‐covalent inhibition of M(pro) and its antiviral activity in cells against SARS‐CoV‐2. Int J Mol Sci. 2021;22(13):7048.

    Not in our library10.3390/ijms22137048

  188. 188.

    Chiou WC, Chen JC, Chen YT, et al. The inhibitory effects of PGG and EGCG against the SARS‐CoV‐2 3C‐like protease. Biochem Biophys Res Commun. 2022;591:130‐136.

    Not in our library10.1016/j.bbrc.2020.12.106

  189. 189.

    Du A, Zheng R, Disoma C, et al. Epigallocatechin‐3‐gallate, an active ingredient of Traditional Chinese Medicines, inhibits the 3CLpro activity of SARS‐CoV‐2. Int J Biol Macromol. 2021;176:1‐12.

    Not in our library10.1016/j.ijbiomac.2021.02.012

  190. 190.

    Nguyen TT, Woo HJ, Kang HK, et al. Flavonoid‐mediated inhibition of SARS coronavirus 3C‐like protease expressed in Pichia pastoris. Biotechnol Lett. 2012;34(5):831‐838.

    Not in our library10.1007/s10529-011-0845-8

  191. 191.

    Liu SY, Wang W, Ke JP, et al. Discovery of Camellia sinensis catechins as SARS‐CoV‐2 3CL protease inhibitors through molecular docking, intra and extra cellular assays. Phytomedicine. 2022;96:153853.

    Not in our library10.1016/j.phymed.2021.153853

  192. 192.

    Park J, Park R, Jang M, et al. Therapeutic potential of EGCG, a green tea polyphenol, for treatment of coronavirus diseases. Life. 2021;11(3):197.

    Not in our library10.3390/life11030197

  193. 193.

    Cianciosi D, Forbes‐Hernandez TY, Regolo L, et al. The reciprocal interaction between polyphenols and other dietary compounds: impact on bioavailability, antioxidant capacity and other physico‐chemical and nutritional parameters. Food Chem. 2022;375:131904.

    Not in our library10.1016/j.foodchem.2021.131904

  194. 194.
  195. 195.

    Plaza M, Pozzo T, Liu J, et al. Substituent effects on in vitro antioxidizing properties, stability, and solubility in flavonoids. J Agric Food Chem. 2014;62(15):3321‐3333.

    Not in our library10.1021/jf405570u

  196. 196.
  197. 197.

    Cherrak SA, Merzouk H, Mokhtari‐Soulimane N. Potential bioactive glycosylated flavonoids as SARS‐CoV‐2 main protease inhibitors: a molecular docking and simulation studies. PLoS One. 2020;15(10):e0240653.

    Not in our library10.1371/journal.pone.0240653

  198. 198.

    Jo S, Kim S, Shin DH, et al. Inhibition of SARS‐CoV 3CL protease by flavonoids. J Enzyme Inhib Med Chem. 2020;35(1):145‐151.

    Not in our library10.1080/14756366.2019.1690480

  199. 199.

    da Silva FMA, da Silva KPA, de Oliveira LPM, et al. Flavonoid glycosides and their putative human metabolites as potential inhibitors of the SARS‐CoV‐2 main protease (Mpro) and RNA‐dependent RNA polymerase (RdRp). Mem Inst Oswaldo Cruz. 2020;115:e200207.

    Not in our library10.1590/0074-02760200207

  200. 200.

    Godinho PIC, Soengas RG, Silva VLM. Therapeutic potential of glycosyl flavonoids as anti‐coronaviral agents. Pharmaceuticals. 2021;14(6):546.

    Not in our library10.3390/ph14060546

  201. 201.

    Refaat H, Mady FM, Sarhan HA, et al. Optimization and evaluation of propolis liposomes as a promising therapeutic approach for COVID‐19. Int J Pharm. 2021;592:120028.

    Not in our library10.1016/j.ijpharm.2020.120028

  202. 202.

    Rizzuti B, Grande F, Conforti F, et al. Rutin is a low micromolar inhibitor of SARS‐CoV‐2 main protease 3CLpro: implications for drug design of quercetin analogs. Biomedicines. 2021;9(4):375.

    Not in our library10.3390/biomedicines9040375

  203. 203.
  204. 204.

    Chen L, Li J, Luo C, et al. Binding interaction of quercetin‐3‐beta‐galactoside and its synthetic derivatives with SARS‐CoV 3CL(pro): structure–activity relationship studies reveal salient pharmacophore features. Bioorg Med Chem. 2006;14(24):8295‐8306.

    Not in our library10.1016/j.bmc.2006.09.014

  205. 205.

    Menezes J, Campos VR. Natural biflavonoids as potential therapeutic agents against microbial diseases. Sci Total Environ. 2021;769:145168.

    Not in our library10.1016/j.scitotenv.2021.145168

  206. 206.

    Heleno SA, Martins A, Queiroz MJ, et al. Bioactivity of phenolic acids: metabolites versus parent compounds: a review. Food Chem. 2015;173:501‐513.

    Not in our library10.1016/j.foodchem.2014.10.057

  207. 207.
  208. 208.

    Chen Z, Cui Q, Cooper L, et al. Ginkgolic acid and anacardic acid are specific covalent inhibitors of SARS‐CoV‐2 cysteine proteases. Cell Biosci. 2021;11(1):45.

    Not in our library10.1186/s13578-021-00564-x

  209. 209.

    Yao Q‐Q, Li L, Xu M‐C, et al. The metabolism and hepatotoxicity of ginkgolic acid (17:1) in vitro. Chin J Natural Med. 2018;16(11):829‐837.

    Not in our library10.1016/s1875-5364(18)30124-9

  210. 210.

    Borenstein R, Hanson BA, Markosyan RM, et al. Ginkgolic acid inhibits fusion of enveloped viruses. Sci Rep. 2020;10(1):4746.

    Not in our library10.1038/s41598-020-61700-0

  211. 211.

    Lu JM, Yan S, Jamaluddin S, et al. Ginkgolic acid inhibits HIV protease activity and HIV infection in vitro. Med Sci Monit. 2012;18(8):BR293‐BR298.

    Not in our library10.12659/msm.883261

  212. 212.

    Nguyen TTH, Jung JH, Kim MK, et al. The inhibitory effects of plant derivate polyphenols on the main protease of SARS coronavirus 2 and their structure–activity relationship. Molecules. 2021;26(7):1924.

    Not in our library10.3390/molecules26071924

  213. 213.

    Wang S‐C, Chen Y, Wang Y‐C, et al. Tannic acid suppresses SARS‐CoV‐2 as a dual inhibitor of the viral main protease and the cellular TMPRSS2 protease. Am J Cancer Res. 2020;10(12):4538‐4546.

    Not in our library

  214. 214.
  215. 215.
  216. 216.

    Torres‐León C, Ventura‐Sobrevilla J, Serna‐Cock L, et al. Pentagalloylglucose (PGG): a valuable phenolic compound with functional properties. J Funct Foods. 2017;37:176‐189.

    Not in our library

  217. 217.

    Park JY, Kim JH, Kwon JM, et al. Dieckol, a SARS‐CoV 3CL(pro) inhibitor, isolated from the edible brown algae Ecklonia cava. Bioorg Med Chem. 2013;21(13):3730‐3737.

    Not in our library10.1016/j.bmc.2013.04.026

  218. 218.

    Yan G, Li D, Lin Y, et al. Development of a simple and miniaturized sandwich‐like fluorescence polarization assay for rapid screening of SARS‐CoV‐2 main protease inhibitors. Cell Biosci. 2021;11(1):199.

    Not in our library10.1186/s13578-021-00720-3

  219. 219.

    Du R, Cooper L, Chen Z, et al. Discovery of chebulagic acid and punicalagin as novel allosteric inhibitors of SARS‐CoV‐2 3CL(pro). Antiviral Res. 2021;190:105075.

    Not in our library10.1016/j.antiviral.2021.105075

  220. 220.

    Monks TJ, Jones DC. The metabolism and toxicity of quinones, quinonimines, quinone methides, and quinone‐thioethers. Curr Drug Metab. 2002;3(4):425‐438.

    Not in our library10.2174/1389200023337388

  221. 221.

    Ali K, Mishra P, Kumar A, et al. Reactivity vs. selectivity of quinone methides: synthesis of pharmaceutically important molecules, toxicity and biological applications. Chem Commun. 2022;58(42):6160‐6175.

    Not in our library10.1039/d2cc00838f

  222. 222.

    Park JY, Kim JH, Kim YM, et al. Tanshinones as selective and slow‐binding inhibitors for SARS‐CoV cysteine proteases. Bioorg Med Chem. 2012;20(19):5928‐5935.

    Not in our library10.1016/j.bmc.2012.07.038

  223. 223.
  224. 224.

    Ma C, Wang J. Validation and invalidation of SARS‐CoV‐2 papain‐like protease inhibitors. ACS Pharmacol Transl Sci. 2022;5(2):102‐109.

    Not in our library10.1021/acsptsci.1c00240

  225. 225.

    Lim CT, Tan KW, Wu M, et al. Identifying SARS‐CoV‐2 antiviral compounds by screening for small molecule inhibitors of Nsp3 papain‐like protease. Biochem J. 2021;478(13):2517‐2531.

    Not in our library10.1042/bcj20210244

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    Elgawish MS, Kishikawa N, Helal MA, et al. Molecular modeling and spectroscopic study of quinone–protein adducts: insight into toxicity, selectivity, and reversibility. Toxicol Res. 2015;4(4):843‐847.

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    Khan NA, Al‐Thani H, El‐Menyar A. The emergence of new SARS‐CoV‐2 variant (Omicron) and increasing calls for COVID‐19 vaccine boosters—the debate continues. Travel Med Infect Dis. 2022;45:102246.

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    s‐217622. Available from: https://www.shionogi.com/us/en/news/2022/04/new‐data‐for‐shionogis‐covid‐19‐once‐dailyoral‐antiviral‐s‐217622‐show‐rapid‐virus‐clearance.html

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    PBI‐0451‐ZW. Available from: https://ir.pardesbio.com/news‐releases/news‐release‐details/pardes‐biosciences‐presents‐interim‐clinical‐data‐ongoing‐pbi

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    EDDC‐2214. Available from: https://www.a‐star.edu.sg/News/a‐star‐news/news/press‐releases/everest‐medicines‐to‐develop‐commercialise‐eddc‐s‐small‐molecules

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    Chen J, Zhang Y, Zeng D, et al. Merbromin is a mixed‐type inhibitor of 3‐chyomotrypsin like protease of SARS‐CoV‐2. Biochem Biophys Res Commun. 2022;591:118‐123.

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    Mujtaba A, Kohli K. In vitro/in vivo evaluation of HPMC/alginate based extended‐release matrix tablets of cefpodoxime proxetil. Int J Biol Macromol. 2016;89:434‐441.

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    Bharathi C, Jayaram P, Sunder Raj J, et al. Identification, isolation and characterization of impurities of clindamycin palmitate hydrochloride. J Pharm Biomed Anal. 2008;48(4):1211‐1218.

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    Zhang F, Huang J, Liu W, et al. Inhibition of drug‐metabolizing enzymes by Qingfei Paidu decoction: implication of herb‐drug interactions in COVID‐19 pharmacotherapy. Food Chem Toxicol. 2021;149:111998.

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    DI Pierro F, Khan A, Bertuccioli A, et al. Quercetin Phytosome(R) as a potential candidate for managing COVID‐19. Minerva Gastroenterol. 2021;67(2):190‐195.

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    Thabault L, Liberelle M, Frederick R. Targeting protein self‐association in drug design. Drug Discov Today. 2021;26(5):1148‐1163.

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    Goyal B, Goyal D. Targeting the dimerization of the main protease of coronaviruses: a potential broad‐spectrum therapeutic strategy. ACS Comb Sci. 2020;22(6):297‐305.

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    Bahun M, Jukic M, Oblak D, et al. Inhibition of the SARS‐CoV‐2 3CL(pro) main protease by plant polyphenols. Food Chem. 2022;373(Pt B):131594.

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    Wu Y, Xu L, Cao G, et al. Effect and mechanism of qingfei paidu decoction in the management of pulmonary fibrosis and COVID‐19. Am J Chin Med. 2022;50(1):33‐51.

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    Li Y, Li B, Wang P, et al. Traditional chinese medicine, qingfei paidu decoction and xuanfei baidu decoction, inhibited cytokine production via NF‐kappaB signaling pathway in macrophages: implications for coronavirus disease 2019 (COVID‐19) therapy. Front Pharmacol. 2021;12:722126.

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    Paraiso IL, Revel JS, Stevens JF. Potential use of polyphenols in the battle against COVID‐19. Curr Opin Food Sci. 2020;32:149‐155.

    Not in our library10.1016/j.cofs.2020.08.004

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