4.6 Article

Computational Screening of Phenylamino-Phenoxy-Quinoline Derivatives against the Main Protease of SARS-CoV-2 Using Molecular Docking and the ONIOM Method

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

Structural Basis of 2-Phenylamino-4-phenoxyquinoline Derivatives as Potent HIV-1 Non-Nucleoside Reverse Transcriptase Inhibitors

Arthit Makarasen et al.

Summary: New target molecules, 2-phenylamino-4-phenoxyquinoline derivatives, were designed using a molecular hybridization approach. These derivatives showed potent inhibitory activity against HIV-1 RT and cytotoxicity against certain cancer cells, while exhibiting low toxicity towards normal cells.

MOLECULES (2022)

Article Multidisciplinary Sciences

The oral protease inhibitor (PF-07321332) protects Syrian hamsters against infection with SARS-CoV-2 variants of concern

Rana Abdelnabi et al.

Summary: There is an urgent need for potent and selective antivirals against SARS-CoV-2. Pfizer has developed PF-07321332 (PF-332), a powerful inhibitor of the viral main protease (Mpro, 3CLpro), which can be taken orally and is currently in clinical development. In this study, it was found that PF-332 has equal in vitro activity against the four SARS-CoV-2 variants of concern and can completely halt replication of the alpha variant in human airway epithelial cells. The treatment with PF-332 protected Syrian Golden hamsters against infection with the beta and delta variants and prevented transmission of the SARS-CoV-2 (B.1.617.2) variant to untreated co-housed sentinels.

NATURE COMMUNICATIONS (2022)

Article Biochemistry & Molecular Biology

Remdesivir (GS-5734) as a therapeutic option of 2019-nCOV main protease -in silicoapproach

Vankudavath Raju Naik et al.

Summary: The 2019 novel coronavirus is a highly infectious and deadly virus without effective treatment options. In this study, computational methods were used to analyze the sequence, structure, and molecular docking of the M(pro) protein of 2019-nCOV. The results suggest that Remdesivir may be a potent therapeutic inhibitor against 2019-nCoV, with strong binding affinity and stable interactions with key residues of the M(pro) protein.

JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2021)

Article Biochemistry & Molecular Biology

Evaluation of green tea polyphenols as novel corona virus (SARS CoV-2) main protease (Mpro) inhibitors - anin silicodocking and molecular dynamics simulation study

Rajesh Ghosh et al.

Summary: The study selected eight polyphenols from green tea, among which three were identified as potential inhibitors against SARS CoV-2 Mpro, showing promise as drug candidates for COVID-19 treatment.

JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2021)

Review Biochemistry & Molecular Biology

Overview of antiviral drug candidates targeting coronaviral 3C-like main proteases

Chun-Chi Chen et al.

Summary: Coronaviruses are RNA viruses that cause severe respiratory syndromes, with SARS-CoV-2 causing the COVID-19 pandemic. The 3CLpro enzyme is a crucial target in the virus life cycle, with inhibitors showing promise in treating CoV diseases.

FEBS JOURNAL (2021)

Article Multidisciplinary Sciences

An oral SARS-CoV-2 Mpro inhibitor clinical candidate for the treatment of COVID-19

Dafydd R. Owen et al.

Summary: PF-07321332, an orally bioavailable SARS-CoV-2 main protease inhibitor, has been discovered with in vitro pan-human coronavirus antiviral activity and excellent off-target selectivity and in vivo safety profiles. This new drug has shown promise in countering the threat of COVID-19 with its oral activity and safety in clinical trials.

SCIENCE (2021)

Review Medicine, Research & Experimental

An update review of emerging small-molecule therapeutic options for COVID-19

Dengke Tian et al.

Summary: The SARS-CoV-2 outbreak since late 2019 has presented a global health challenge, but multiple therapeutic drugs have been developed to combat it. Host-targeted drugs inhibiting TMPRSS2 prevent virus entry into cells, while small molecule therapeutics targeting RNA polymerase and proteases play crucial roles in treatment.

BIOMEDICINE & PHARMACOTHERAPY (2021)

Article Biochemistry & Molecular Biology

Exploring the Binding Mechanism of PF-07321332 SARS-CoV-2 Protease Inhibitor through Molecular Dynamics and Binding Free Energy Simulations

Bilal Ahmad et al.

Summary: The study elucidated the binding mechanism of potent PF-07321332 to 3CL(pro) and the low potency of lopinavir and ritonavir due to weak binding affinity demonstrated by the binding energy data.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

Article Biochemistry & Molecular Biology

Supervised Molecular Dynamics (SuMD) Insights into the mechanism of action of SARS-CoV-2 main protease inhibitor PF-07321332

Matteo Pavan et al.

Summary: The chemical structure of the first orally available Covid-19 clinical candidate, PF-07321332, has been revealed by Pfizer. In this study, Supervised Molecular Dynamics (SuMD) simulations were used to elucidate the interaction between PF-07321332 and the SARS-CoV-2 main protease, providing insights that may inspire the discovery of other potent and selective protease inhibitors.

JOURNAL OF ENZYME INHIBITION AND MEDICINAL CHEMISTRY (2021)

Article Chemistry, Multidisciplinary

Mechanism of inhibition of SARS-CoV-2 Mpro by N3 peptidyl Michael acceptor explained by QM/MM simulations and design of new derivatives with tunable chemical reactivity

Kemel Arafet et al.

Summary: By simulating the inhibition process of SARS-CoV-2 main protease, researchers have identified two potential drug leads against COVID-19, one as an irreversible inhibitor and one as a potential reversible inhibitor. These findings suggest promising candidates for drug development.

CHEMICAL SCIENCE (2021)

Article Virology

Cross-species transmission of the newly identified coronavirus 2019-nCoV

Wei Ji et al.

JOURNAL OF MEDICAL VIROLOGY (2020)

Article Medicine, General & Internal

A Novel Coronavirus from Patients with Pneumonia in China, 2019

Na Zhu et al.

NEW ENGLAND JOURNAL OF MEDICINE (2020)

Article Multidisciplinary Sciences

Structure of Mpro from SARS-CoV-2 and discovery of its inhibitors

Zhenming Jin et al.

NATURE (2020)

Article Biochemistry & Molecular Biology

Structural basis for the inhibition of SARS-CoV-2 main protease by antineoplastic drug carmofur

Zhenming Jin et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2020)

Article Spectroscopy

Binding interaction of potent HIV-1 NNRTIs, amino-oxy-diarylquinoline with the transport protein using spectroscopic and molecular docking

Suwicha Patnin et al.

SPECTROCHIMICA ACTA PART A-MOLECULAR AND BIOMOLECULAR SPECTROSCOPY (2020)

Article Multidisciplinary Sciences

Structural plasticity of SARS-CoV-2 3CL Mpro active site cavity revealed by room temperature X-ray crystallography

Daniel W. Kneller et al.

NATURE COMMUNICATIONS (2020)

Review Endocrinology & Metabolism

Hydroxychloroquine in patients with COVID-19: A Systematic Review and meta-analysis

Awadhesh Kumar Singh et al.

DIABETES & METABOLIC SYNDROME-CLINICAL RESEARCH & REVIEWS (2020)

Article Chemistry, Physical

C-H center dot center dot center dot S interaction exhibits all the characteristics of conventional hydrogen bonds

Sanat Ghosh et al.

PHYSICAL CHEMISTRY CHEMICAL PHYSICS (2020)

Review Biotechnology & Applied Microbiology

Coronaviruses - drug discovery and therapeutic options

Alimuddin Zumla et al.

NATURE REVIEWS DRUG DISCOVERY (2016)

Article Biochemistry & Molecular Biology

Key interactions of the mutant HIV-1 reverse transcriptase/efavirenz: an evidence obtained from ONIOM method

Pornthip Boonsri et al.

MEDCHEMCOMM (2011)

Article Chemistry, Multidisciplinary

AutoDock4 and AutoDockTools4: Automated Docking with Selective Receptor Flexibility

Garrett M. Morris et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2009)

Review Microbiology

Severe acute respiratory syndrome coronavirus as an agent of emerging and reemerging infection

Vincent C. C. Cheng et al.

CLINICAL MICROBIOLOGY REVIEWS (2007)

Article Medicine, General & Internal

A novel coronavirus associated with severe acute respiratory syndrome

TG Ksiazek et al.

NEW ENGLAND JOURNAL OF MEDICINE (2003)

Article Medicine, General & Internal

Identification of a novel coronavirus in patients with severe acute respiratory syndrome

C Drosten et al.

NEW ENGLAND JOURNAL OF MEDICINE (2003)

Article Chemistry, Medicinal

Molecular properties that influence the oral bioavailability of drug candidates

DF Veber et al.

JOURNAL OF MEDICINAL CHEMISTRY (2002)

Article Pharmacology & Pharmacy

Drug-like properties and the causes of poor solubility and poor permeability

CA Lipinski

JOURNAL OF PHARMACOLOGICAL AND TOXICOLOGICAL METHODS (2000)