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A community effort in SARS‐CoV‐2 drug discovery

Authors :
Schimunek, Johannes
Seidl, Philipp
Elez, Katarina
Hempel, Tim
Le, Tuan
Noé, Frank
Olsson, Simon
Raich, Lluís
Winter, Robin
Gokcan, Hatice
Gusev, Filipp
Gutkin, Evgeny M.
Isayev, Olexandr
Kurnikova, Maria G.
Narangoda, Chamali H.
Zubatyuk, Roman
Bosko, Ivan P.
Furs, Konstantin V.
Karpenko, Anna D.
Kornoushenko, Yury V.
Shuldau, Mikita
Yushkevich, Artsemi
Benabderrahmane, Mohammed B.
Bousquet‐Melou, Patrick
Bureau, Ronan
Charton, Beatrice
Cirou, Bertrand C.
Gil, Gérard
Allen, William J.
Sirimulla, Suman
Watowich, Stanley
Antonopoulos, Nick
Epitropakis, Nikolaos
Krasoulis, Agamemnon
Itsikalis, Vassilis
Theodorakis, Stavros
Kozlovskii, Igor
Maliutin, Anton
Medvedev, Alexander
Popov, Petr
Zaretckii, Mark
Eghbal‐Zadeh, Hamid
Halmich, Christina
Hochreiter, Sepp
Mayr, Andreas
Ruch, Peter
Widrich, Michael
Berenger, Francois
Kumar, Ashutosh
Yamanishi, Yoshihiro
Zhang, Kam Y. J.
Bengio, Emmanuel
Bengio, Yoshua
Jain, Moksh J.
Korablyov, Maksym
Liu, Cheng‐Hao
Marcou, Gilles
Glaab, Enrico
Barnsley, Kelly
Iyengar, Suhasini M.
Ondrechen, Mary Jo
Haupt, V. Joachim
Kaiser, Florian
Schroeder, Michael
Pugliese, Luisa
Albani, Simone
Athanasiou, Christina
Beccari, Andrea
Carloni, Paolo
D'Arrigo, Giulia
Gianquinto, Eleonora
Goßen, Jonas
Hanke, Anton
Joseph, Benjamin P.
Kokh, Daria B.
Kovachka, Sandra
Manelfi, Candida
Mukherjee, Goutam
Muñiz‐Chicharro, Abraham
Musiani, Francesco
Nunes‐Alves, Ariane
Paiardi, Giulia
Rossetti, Giulia
Sadiq, S. Kashif
Spyrakis, Francesca
Talarico, Carmine
Tsengenes, Alexandros
Wade, Rebecca C.
Copeland, Conner
Gaiser, Jeremiah
Olson, Daniel R.
Roy, Amitava
Venkatraman, Vishwesh
Wheeler, Travis J.
Arthanari, Haribabu
Blaschitz, Klara
Cespugli, Marco
Durmaz, Vedat
Fackeldey, Konstantin
Fischer, Patrick D.
Gorgulla, Christoph
Gruber, Christian
Gruber, Karl
Hetmann, Michael
Kinney, Jamie E.
Padmanabha Das, Krishna M.
Pandita, Shreya
Singh, Amit
Steinkellner, Georg
Tesseyre, Guilhem
Wagner, Gerhard
Wang, Zi‐Fu
Yust, Ryan J.
Druzhilovskiy, Dmitry S.
Filimonov, Dmitry A.
Pogodin, Pavel V.
Poroikov, Vladimir
Rudik, Anastassia V.
Stolbov, Leonid A.
Veselovsky, Alexander V.
De Rosa, Maria
De Simone, Giada
Gulotta, Maria R.
Lombino, Jessica
Mekni, Nedra
Perricone, Ugo
Casini, Arturo
Embree, Amanda
Gordon, D. Benjamin
Lei, David
Pratt, Katelin
Voigt, Christopher A.
Chen, Kuang‐Yu
Jacob, Yves
Krischuns, Tim
Lafaye, Pierre
Zettor, Agnès
Rodríguez, M. Luis
White, Kris M.
Fearon, Daren
Von Delft, Frank
Walsh, Martin A.
Horvath, Dragos
Brooks, Charles L.
Falsafi, Babak
Ford, Bryan
García‐Sastre, Adolfo
Yup Lee, Sang
Naffakh, Nadia
Varnek, Alexandre
Klambauer, Günter
Hermans, Thomas M.
Source :
Molecular Informatics; January 2024, Vol. 43 Issue: 1
Publication Year :
2024

Abstract

The COVID‐19 pandemic continues to pose a substantial threat to human lives and is likely to do so for years to come. Despite the availability of vaccines, searching for efficient small‐molecule drugs that are widely available, including in low‐ and middle‐income countries, is an ongoing challenge. In this work, we report the results of an open science community effort, the “Billion molecules against COVID‐19 challenge”, to identify small‐molecule inhibitors against SARS‐CoV‐2 or relevant human receptors. Participating teams used a wide variety of computational methods to screen a minimum of 1 billion virtual molecules against 6 protein targets. Overall, 31 teams participated, and they suggested a total of 639,024 molecules, which were subsequently ranked to find ‘consensus compounds’. The organizing team coordinated with various contract research organizations (CROs) and collaborating institutions to synthesize and test 878 compounds for biological activity against proteases (Nsp5, Nsp3, TMPRSS2), nucleocapsid N, RdRP (only the Nsp12 domain), and (alpha) spike protein S. Overall, 27 compounds with weak inhibition/binding were experimentally identified by binding‐, cleavage‐, and/or viral suppression assays and are presented here. Open science approaches such as the one presented here contribute to the knowledge base of future drug discovery efforts in finding better SARS‐CoV‐2 treatments.

Details

Language :
English
ISSN :
18681743 and 18681751
Volume :
43
Issue :
1
Database :
Supplemental Index
Journal :
Molecular Informatics
Publication Type :
Periodical
Accession number :
ejs65249877
Full Text :
https://doi.org/10.1002/minf.202300262