A consensus virtual screening protocol has been applied to ca. 2000 approved drugs to seek inhibitors of the main protease (Mpro) of SARS-CoV-2, the virus responsible for COVID-19. 42 drugs emerged as top candidates, and after visual analyses of the predicted structures of their complexes with Mpro, 17 were chosen for evaluation in a kinetic assay for Mpro inhibition. Remarkably 14 of the compounds at 100-μM concentration were found to reduce the enzymatic activity and 5 provided IC50 values below 40 μM: manidipine (4.8 μM), boceprevir (5.4 μM), lercanidipine (16.2 μM), bedaquiline (18.7 μM), and efonidipine (38.5 μM). Structural analyses reveal a common cloverleaf pattern for the binding of the active compounds to the P1, P1′, and P2 pockets of Mpro. Further study of the most active compounds in the context of COVID-19 therapy is warranted, while all of the active compounds may provide a foundation for lead optimization to deliver valuable chemotherapeutics to combat the pandemic.
ADVERTISEMENT RETURN TO ISSUEEditorialNEXTLetter from the Editor—January 2011William L. JorgensenCite this: J. Chem. Inf. Model. 2011, 51, 2, 195Publication Date (Web):February 28, 2011Publication History Published online28 February 2011Published inissue 28 February 2011https://pubs.acs.org/doi/10.1021/ci200046rhttps://doi.org/10.1021/ci200046reditorialACS PublicationsCopyright © 2011 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views990Altmetric-Citations1LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail PDF (611 KB) Get e-AlertscloseSUBJECTS:Ab initio calculations Get e-Alerts
Orbital theory provides a powerful tool for rationalizing and understanding many phenomena in chemistry. In most introductory chemistry courses, students are introduced to atomic and molecular orbitals in the form of two-dimensional drawings. In this work, we describe a general method for producing 3D printing files of orbital models that can be employed with most popular software packages for performing electronic structure calculations and molecular visualization. Methods for producing both solid and mesh orbitals are provided, including pointers for producing a model that is both informative and structurally sound. Finally, numerous examples of various systems of interest in physical organic chemistry are provided in the .stl format for 3D printing, as well as a fully illustrated tutorial for the process.
ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTComputer-assisted mechanistic evaluation of organic reactions. 12. pKa predictions for organic compounds in Me2SOAlan J. Gushurst and William L. JorgensenCite this: J. Org. Chem. 1986, 51, 18, 3513–3522Publication Date (Print):September 1, 1986Publication History Published online1 May 2002Published inissue 1 September 1986https://doi.org/10.1021/jo00368a023RIGHTS & PERMISSIONSArticle Views268Altmetric-Citations22LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (1 MB) Get e-Alerts Get e-Alerts
No abstract is provided for this article.
Monte Carlo statistical mechanics simulations were used to compute absolute free energies of solvation in chloroform for 16 organic molecules. The intermolecular interactions were described by classical potential functions consisting of Coulomb and Lennard–Jones interactions. The partial charges for the solutes were derived from fitting to the electrostatic potential surfaces of ab initio 6–31G* wavefunctions. First, free energy perturbation (FEP) calculations yielded relative free energies of solvation. These were converted to absolute quantities through perturbations to the reference molecule, methane, which was annihilated. The average error in the FEP-computed free energies of solvation is 0·8 kcal mol−1. Then, a linear response equation, which contains terms proportional to the Lennard–Jones (van der Waals) and Coulombic components of the solute–solvent energy and to the solvent-accessible surface area of the solute, was optimized and reproduced both the FEP-calculated and experimental free energies of solvation with average errors of ca 0·5 kcal mol−1. In addition, an existing solute dataset for water, which had previously been fitted to the same equation, was expanded from 16 to 35 molecules. The fit of the Monte Carlo results for this set of molecules in TIP4P water to the experimental free energies of hydration yielded an average error of 0·8 kcal mol−1. Combination of the predictions of free energies of solvation in water and chloroform yields partition coefficients, log P, with an average error of 0·3–0·4 log unit. © 1997 John Wiley & Sons, Ltd.
No abstract is provided for this article.
The Thorpe−Ingold hypothesis for the gem-dimethyl effect in the cyclization reactions of 2-chloroethoxide derivatives has been investigated computationally in the gas phase and in aqueous solution. Ab initio MP2/6-311+G(d,p) and CBS-Q calculations reveal little intrinsic difference in reactivity with increasing α-methylation for the series of reactants 1−3. However, inclusion of continuum hydration or of explicit hydration through mixed quantum and statistical mechanics (MC/FEP) simulations does reproduce the substantial, experimentally observed rate increases with increasing α-methylation. Analysis of the MC/FEP results provides clear evidence that the rate increases stem primarily from increased steric hindrance to hydration of the nucleophilic oxygen atom with increasing α-methylation. Thus, the gem-dimethyl acceleration of oxirane formation for 1−3 is found to be predominantly a solvent effect.
ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
