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  1. Article ; Online: Three-Dimensional-QSAR and Relative Binding Affinity Estimation of Focal Adhesion Kinase Inhibitors.

    Ghosh, Suparna / Cho, Seung Joo

    Molecules (Basel, Switzerland)

    2023  Volume 28, Issue 3

    Abstract: Precise binding affinity predictions are essential for structure-based drug discovery (SBDD). Focal adhesion kinase (FAK) is a member of the tyrosine kinase protein family and is overexpressed in a variety of human malignancies. Inhibition of FAK using ... ...

    Abstract Precise binding affinity predictions are essential for structure-based drug discovery (SBDD). Focal adhesion kinase (FAK) is a member of the tyrosine kinase protein family and is overexpressed in a variety of human malignancies. Inhibition of FAK using small molecules is a promising therapeutic option for several types of cancer. Here, we conducted computational modeling of FAK-targeting inhibitors using three-dimensional structure-activity relationship (3D-QSAR), molecular dynamics (MD), and hybrid topology-based free energy perturbation (FEP) methods. The structure-activity relationship (SAR) studies between the physicochemical descriptors and inhibitory activities of the chemical compounds were performed with reasonable statistical accuracy using CoMFA and CoMSIA. These are two well-known 3D-QSAR methods based on the principle of supervised machine learning (ML). Essential information regarding residue-specific binding interactions was determined using MD and MM-PB/GBSA methods. Finally, physics-based relative binding free energy (ΔΔGRBFEA→B) terms of analogous ligands were estimated using alchemical FEP simulation. An acceptable agreement was observed between the experimental and computed relative binding free energies. Overall, the results suggested that using ML and physics-based hybrid approaches could be useful in synergy for the rational optimization of accessible lead compounds with similar scaffolds targeting the FAK receptor.
    MeSH term(s) Humans ; Binding Sites ; Entropy ; Focal Adhesion Protein-Tyrosine Kinases/antagonists & inhibitors ; Ligands ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Protein Binding ; Quantitative Structure-Activity Relationship ; Tyrosine Kinase Inhibitors/chemistry ; Tyrosine Kinase Inhibitors/pharmacology
    Chemical Substances Focal Adhesion Protein-Tyrosine Kinases (EC 2.7.10.2) ; Ligands ; Tyrosine Kinase Inhibitors
    Language English
    Publishing date 2023-02-02
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 1413402-0
    ISSN 1420-3049 ; 1431-5165 ; 1420-3049
    ISSN (online) 1420-3049
    ISSN 1431-5165 ; 1420-3049
    DOI 10.3390/molecules28031464
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Structural Insights from Molecular Modeling of Isoindolin-1-One Derivatives as PI3Kγ Inhibitors against Gastric Carcinoma.

    Ghosh, Suparna / Cho, Seung Joo

    Biomedicines

    2022  Volume 10, Issue 4

    Abstract: The upregulation of phosphoinositol-3-kinase γ (PI3Kγ) is deemed to be positively correlated with tumor-associated-macrophage (TAM)-mediated gastric carcinoma (GC). PI3Kγ suppresses tumor necrosis factor-alpha (TNF-α) and interleukin-12 (IL-12) through ... ...

    Abstract The upregulation of phosphoinositol-3-kinase γ (PI3Kγ) is deemed to be positively correlated with tumor-associated-macrophage (TAM)-mediated gastric carcinoma (GC). PI3Kγ suppresses tumor necrosis factor-alpha (TNF-α) and interleukin-12 (IL-12) through activation of the AKT/mTOR pathway, which promotes the immunosuppressant phenotype of TAM. Unlike α and β isoforms, δ and γ isoforms are primarily distributed in leucocytes and macrophages. Dual inhibitors against PI3Kδ and PI3Kγ have been proven to have merits in targeting solid tumors. Furthermore, it has been found that PI3Kδ is activated by cytokines, while PI3Kγ is activated by G-protein-coupled receptors (GPCRs). This facilitates determining the functional difference between these two isoforms. For this goal, selective inhibitors would be immensely helpful. In the current manuscript, we conducted various molecular modeling studies with a series of isoindolin-1-one derivatives as potent PI3Kγ inhibitors by combining molecular docking, molecular dynamics (MD), molecular mechanics, Poisson-Boltzmann/generalized Born surface area (MM-PB/GBSA) binding free energy calculation, and three-dimensional structure-activity relationship (3D-QSAR) study. To evaluate the selectivity of γ isoform over δ, the molecular modeling studies of idelalisib analogs reported as PI3Kδ inhibitors were also investigated. The contour polyhedrons were generated from the comparative molecular field analysis (CoMFA) and comparative molecular similarity index analysis (CoMSIA) around the ligand-bound active site for both isoforms, which could emphasize plausible explanations for the physicochemical factors that affect selective ligand recognition. The binding modalities of the two isoforms using CoMFA and MD models were compared, which suggested some key differences in the molecular interactions with the ligands and could be summarized as three subsites (one affinity subsite near the C-helix and DFG and two hydrophobic subsites). In the context of the structure-activity relationship (SAR), several new compounds were designed using a fragment-substitution strategy with the aim of selectively targeting PI3Kγ. The pIC
    Language English
    Publishing date 2022-03-30
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2720867-9
    ISSN 2227-9059
    ISSN 2227-9059
    DOI 10.3390/biomedicines10040813
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Binding Studies and Lead Generation of Pteridin-7(8

    Ghosh, Suparna / Cho, Seung Joo

    International journal of molecular sciences

    2022  Volume 23, Issue 14

    Abstract: Ligand modification by substituting chemical groups within the binding pocket is a popular strategy for kinase drug development. In this study, a series of pteridin-7( ... ...

    Abstract Ligand modification by substituting chemical groups within the binding pocket is a popular strategy for kinase drug development. In this study, a series of pteridin-7(8
    MeSH term(s) Binding Sites ; Ligands ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Protein Binding ; Pteridines ; Quantitative Structure-Activity Relationship ; fms-Like Tyrosine Kinase 3/genetics
    Chemical Substances Ligands ; Pteridines ; fms-Like Tyrosine Kinase 3 (EC 2.7.10.1)
    Language English
    Publishing date 2022-07-12
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms23147696
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Molecular Modeling Studies of

    Ghosh, Suparna / Keretsu, Seketoulie / Cho, Seung Joo

    International journal of molecular sciences

    2021  Volume 22, Issue 22

    Abstract: Overexpression and frequent mutations in FMS-like tyrosine kinase-3 (FLT3) are considered risk factors for severe acute myeloid leukemia (AML). Hyperactive FLT3 induces premature activation of multiple intracellular signaling pathways, resulting in cell ... ...

    Abstract Overexpression and frequent mutations in FMS-like tyrosine kinase-3 (FLT3) are considered risk factors for severe acute myeloid leukemia (AML). Hyperactive FLT3 induces premature activation of multiple intracellular signaling pathways, resulting in cell proliferation and anti-apoptosis. We conducted the computational modeling studies of 40 pyrimidine-4,6-diamine-based compounds by integrating docking, molecular dynamics, and three-dimensional structure-activity relationship (3D-QSAR). Molecular docking showed that K644, C694, F691, E692, N701, D829, and F830 are critical residues for the binding of ligands at the hydrophobic active site. Molecular dynamics (MD), together with Molecular Mechanics Poison-Boltzmann/Generalized Born Surface Area, i.e., MM-PB(GB)SA, and linear interaction energy (LIE) estimation, provided critical information on the stability and binding affinity of the selected docked compounds. The MD study suggested that the mutation in the gatekeeper residue F691 exhibited a lower binding affinity to the ligand. Although, the mutation in D835 in the activation loop did not exhibit any significant change in the binding energy to the most active compound. We developed the ligand-based comparative molecular field analysis (CoMFA) and comparative molecular similarity index analysis (CoMSIA) models. CoMFA (
    MeSH term(s) Amines/chemistry ; Amines/therapeutic use ; Binding Sites/drug effects ; Catalytic Domain/drug effects ; Computer Simulation ; Humans ; Leukemia, Myeloid, Acute/drug therapy ; Leukemia, Myeloid, Acute/genetics ; Leukemia, Myeloid, Acute/pathology ; Ligands ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Protein Kinase Inhibitors/chemistry ; Protein Kinase Inhibitors/therapeutic use ; Pyrimidines/chemistry ; Pyrimidines/therapeutic use ; Quantitative Structure-Activity Relationship ; Signal Transduction/drug effects ; Structure-Activity Relationship ; fms-Like Tyrosine Kinase 3/antagonists & inhibitors ; fms-Like Tyrosine Kinase 3/chemistry ; fms-Like Tyrosine Kinase 3/genetics
    Chemical Substances Amines ; Ligands ; Protein Kinase Inhibitors ; Pyrimidines ; fms-Like Tyrosine Kinase 3 (EC 2.7.10.1) ; pyrimidine (K8CXK5Q32L)
    Language English
    Publishing date 2021-11-19
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms222212511
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article: Designing of the N-ethyl-4-(pyridin-4-yl)benzamide based potent ROCK1 inhibitors using docking, molecular dynamics, and 3D-QSAR.

    Ghosh, Suparna / Keretsu, Seketoulie / Cho, Seung Joo

    PeerJ

    2021  Volume 9, Page(s) e11951

    Abstract: Rho-associated kinase-1 (ROCK1) has been recognized for its pivotal role in heart diseases, different types of malignancy, and many neurological disorders. Hyperactivity of ROCK phosphorylates the protein kinase-C (PKC), which ultimately induces smooth ... ...

    Abstract Rho-associated kinase-1 (ROCK1) has been recognized for its pivotal role in heart diseases, different types of malignancy, and many neurological disorders. Hyperactivity of ROCK phosphorylates the protein kinase-C (PKC), which ultimately induces smooth muscle cell contraction in the vascular system. Inhibition of ROCK1 has been shown to be a promising therapy for patients with cardiovascular disease. In this study, we have conducted molecular modeling techniques such as docking, molecular dynamics (MD), and 3-Dimensional structure-activity relationship (3D-QSAR) on a series of N-ethyl-4-(pyridin-4-yl)benzamide-based compounds. Docking and MD showed critical interactions and binding affinities between ROCK1 and its inhibitors. To establish the structure-activity relationship (SAR) of the compounds, 3D-QSAR techniques such as Comparative Molecular Field Analysis (CoMFA) and Comparative Molecular Similarity Indices Analysis (CoMSIA) were used. The CoMFA (
    Language English
    Publishing date 2021-08-09
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2703241-3
    ISSN 2167-8359
    ISSN 2167-8359
    DOI 10.7717/peerj.11951
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Computer aided designing of novel pyrrolopyridine derivatives as JAK1 inhibitors.

    Keretsu, Seketoulie / Ghosh, Suparna / Cho, Seung Joo

    Scientific reports

    2021  Volume 11, Issue 1, Page(s) 23051

    Abstract: Janus kinases (JAKs) are a family of non-receptor kinases that play a key role in cytokine signaling and their aberrant activities are associated with the pathogenesis of various immune diseases. The JAK1 isoform plays an essential role in the types 1 ... ...

    Abstract Janus kinases (JAKs) are a family of non-receptor kinases that play a key role in cytokine signaling and their aberrant activities are associated with the pathogenesis of various immune diseases. The JAK1 isoform plays an essential role in the types 1 and II interferon signaling and elicits signals from the interleukin-2, interleukin-4, gp130, and class 2 receptor families. It is ubiquitously expressed in humans and its overexpression has been linked with autoimmune diseases such as myeloproliferative neoplasm. Although JAK1 inhibitors such as Tofacitinib have been approved for medical use, the low potency and off-target effects of these inhibitors have limited their use and calls for the development of novel JAK1 inhibitors. In this study, we used computational methods on a series of pyrrolopyridine derivatives to design new JAK1 inhibitors. Molecular docking and molecular dynamics simulation methods were used to study the protein-inhibitor interactions. 3D-quantitative structure-activity relationship models were developed and were used to predict the activity of newly designed compounds. Free energy calculation methods were used to study the binding affinity of the inhibitors with JAK1. Of the designed compounds, seventeen of the compounds showed a higher binding energy value than the most active compound in the dataset and at least six of the compounds showed higher binding energy value than the pan JAK inhibitor Tofacitinib. The findings made in this study could be utilized for the further development of JAK1 inhibitors.
    MeSH term(s) Chemistry, Pharmaceutical/methods ; Computational Biology ; Computer Simulation ; Drug Design ; Gene Expression Regulation, Neoplastic ; Humans ; Hydrogen Bonding ; Inhibitory Concentration 50 ; Janus Kinase 1/chemistry ; Janus Kinase Inhibitors ; Janus Kinases/metabolism ; Ligands ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Piperidines/pharmacology ; Protein Isoforms ; Protein Kinase Inhibitors/pharmacology ; Pyridines/chemistry ; Pyrimidines/pharmacology ; Quantitative Structure-Activity Relationship ; Software ; Static Electricity
    Chemical Substances Janus Kinase Inhibitors ; Ligands ; Piperidines ; Protein Isoforms ; Protein Kinase Inhibitors ; Pyridines ; Pyrimidines ; tofacitinib (87LA6FU830) ; JAK1 protein, human (EC 2.7.10.2) ; Janus Kinase 1 (EC 2.7.10.2) ; Janus Kinases (EC 2.7.10.2)
    Language English
    Publishing date 2021-11-29
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-021-02364-2
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Molecular Modelling Studies on Pyrazole Derivatives for the Design of Potent Rearranged during Transfection Kinase Inhibitors.

    Bhujbal, Swapnil P / Keretsu, Seketoulie / Cho, Seung Joo

    Molecules (Basel, Switzerland)

    2021  Volume 26, Issue 3

    Abstract: RET (rearranged during transfection) kinase, one of the receptor tyrosine kinases, plays a crucial role in the development of the human nervous system. It is also involved in various cell signaling networks responsible for the normal cell division, ... ...

    Abstract RET (rearranged during transfection) kinase, one of the receptor tyrosine kinases, plays a crucial role in the development of the human nervous system. It is also involved in various cell signaling networks responsible for the normal cell division, growth, migration, and survival. Previously reported clinical studies revealed that deregulation or aberrant activation of RET signaling can cause several types of human cancer. For example, medullary thyroid carcinoma (MTC) and multiple endocrine neoplasia (MEN2A, MEN2B) occur due to sporadic mutation or germline RET mutation. A number of RET kinase inhibitors have been approved by the FDA for the treatment of cancer, such as cabozantinib, vandetanib, lenvatinib, and sorafenib. However, each of these drugs is a multikinase inhibitor. Hence, RET is an important therapeutic target for cancer drug design. In this work, we have performed various molecular modelling studies, such as molecular docking and dynamics simulation for the most active compound of the pyrazole series as RET kinase inhibitors. Furthermore, molecular mechanics Poisson-Boltzmann surface area (MM/PBSA) free energy calculation and 3-dimensional quantitative structure-activity relationship (3D-QSAR) were performed using g_mmpbsa and SYBYL-X 2.1 package. The results of this study revealed the crucial binding site residues at the active site of RET kinase and contour map analysis showed important structural characteristics for the design of new highly active inhibitors. Therefore, we have designed ten RET kinase inhibitors, which showed higher inhibitory activity than the most active compound of the series. The results of our study provide insights to design more potent and selective RET kinase inhibitors.
    MeSH term(s) Antineoplastic Agents/pharmacology ; Carcinoma, Neuroendocrine/drug therapy ; Carcinoma, Neuroendocrine/metabolism ; Cell Line, Tumor ; Humans ; Molecular Docking Simulation/methods ; Protein Kinase Inhibitors/pharmacology ; Pyrazoles/pharmacology ; Quantitative Structure-Activity Relationship ; Receptor Protein-Tyrosine Kinases/metabolism ; Signal Transduction/drug effects ; Thyroid Neoplasms/drug therapy ; Thyroid Neoplasms/metabolism ; Transfection/methods
    Chemical Substances Antineoplastic Agents ; Protein Kinase Inhibitors ; Pyrazoles ; Receptor Protein-Tyrosine Kinases (EC 2.7.10.1)
    Language English
    Publishing date 2021-01-28
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 1413402-0
    ISSN 1420-3049 ; 1431-5165 ; 1420-3049
    ISSN (online) 1420-3049
    ISSN 1431-5165 ; 1420-3049
    DOI 10.3390/molecules26030691
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  8. Article ; Online: Molecular Modeling Study of c-KIT/PDGFRα Dual Inhibitors for the Treatment of Gastrointestinal Stromal Tumors.

    Keretsu, Seketoulie / Ghosh, Suparna / Cho, Seung Joo

    International journal of molecular sciences

    2020  Volume 21, Issue 21

    Abstract: Gastrointestinal stromal tumors (GISTs) are the most common Mesenchymal Neoplasm of the gastrointestinal tract. The tumorigenesis of GISTs has been associated with the gain-of-function mutation and abnormal activation of the stem cell factor receptor (c- ... ...

    Abstract Gastrointestinal stromal tumors (GISTs) are the most common Mesenchymal Neoplasm of the gastrointestinal tract. The tumorigenesis of GISTs has been associated with the gain-of-function mutation and abnormal activation of the stem cell factor receptor (c-KIT) and platelet-derived growth factor receptor alpha (PDGFRα) kinases. Hence, inhibitors that target c-KIT and PDGFRα could be a therapeutic option for the treatment of GISTs. The available approved c-KIT/PDGFRα inhibitors possessed low efficacy with off-target effects, which necessitated the development of potent inhibitors. We performed computational studies of 48 pyrazolopyridine derivatives that showed inhibitory activity against c-KIT and PDGFRα to study the structural properties important for inhibition of both the kinases. The derivative of phenylurea, which has high activities for both c-KIT (pIC
    MeSH term(s) Amino Acid Substitution ; Antineoplastic Agents/chemistry ; Antineoplastic Agents/isolation & purification ; Antineoplastic Agents/pharmacokinetics ; Antineoplastic Agents/therapeutic use ; Binding Sites ; Drug Screening Assays, Antitumor/methods ; Gastrointestinal Neoplasms/drug therapy ; Gastrointestinal Stromal Tumors/drug therapy ; Humans ; Models, Molecular ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Mutant Proteins/chemistry ; Mutant Proteins/genetics ; Mutant Proteins/metabolism ; Protein Kinase Inhibitors/chemistry ; Protein Kinase Inhibitors/isolation & purification ; Protein Kinase Inhibitors/pharmacokinetics ; Protein Kinase Inhibitors/therapeutic use ; Proto-Oncogene Proteins c-kit/antagonists & inhibitors ; Proto-Oncogene Proteins c-kit/chemistry ; Proto-Oncogene Proteins c-kit/genetics ; Proto-Oncogene Proteins c-kit/metabolism ; Pyrazoles/chemistry ; Pyridines/chemistry ; Quantitative Structure-Activity Relationship ; Receptor, Platelet-Derived Growth Factor alpha/antagonists & inhibitors ; Receptor, Platelet-Derived Growth Factor alpha/chemistry ; Receptor, Platelet-Derived Growth Factor alpha/genetics ; Receptor, Platelet-Derived Growth Factor alpha/metabolism
    Chemical Substances Antineoplastic Agents ; Mutant Proteins ; Protein Kinase Inhibitors ; Pyrazoles ; Pyridines ; pyrazolopyridine ; Proto-Oncogene Proteins c-kit (EC 2.7.10.1) ; Receptor, Platelet-Derived Growth Factor alpha (EC 2.7.10.1)
    Language English
    Publishing date 2020-11-03
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms21218232
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  9. Article ; Online: Molecular modeling studies of pyrrolo[2,3-d]pyrimidin-4-amine derivatives as JAK1 inhibitors based on 3D-QSAR, molecular docking, molecular dynamics (MD) and MM-PBSA calculations.

    Keretsu, Seketoulie / Bhujbal, Swapnil P / Cho, Seung Joo

    Journal of biomolecular structure & dynamics

    2020  Volume 39, Issue 3, Page(s) 753–765

    Abstract: Rheumatoid Arthritis (RA) is an autoimmune disease caused by overproduction of pro-inflammatory cytokines. Janus Kinases (JAKs) mediate cytokines signaling through the Janus Kinase (JAK)/signal transducer and activator of transcription (STAT) signaling ... ...

    Abstract Rheumatoid Arthritis (RA) is an autoimmune disease caused by overproduction of pro-inflammatory cytokines. Janus Kinases (JAKs) mediate cytokines signaling through the Janus Kinase (JAK)/signal transducer and activator of transcription (STAT) signaling pathways. Clinical studies have shown that Janus kinase 1 (JAK1) mediated signaling plays a key role in synovial response in rheumatoid arthritis. Hence, the inhibition JAK1 is considered as an important therapeutic route for treatment of rheumatoid arthritis. In this study, we have performed three-dimensional quantitative structure-activity relationship (3 D-QSAR), molecular docking, molecular dynamics (MD) and free energy calculations on a series of pyrrolo[
    MeSH term(s) Amines ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Quantitative Structure-Activity Relationship
    Chemical Substances Amines
    Language English
    Publishing date 2020-01-21
    Publishing country England
    Document type Journal Article
    ZDB-ID 49157-3
    ISSN 1538-0254 ; 0739-1102
    ISSN (online) 1538-0254
    ISSN 0739-1102
    DOI 10.1080/07391102.2020.1714483
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  10. Article ; Online: Rational approach toward COVID-19 main protease inhibitors via molecular docking, molecular dynamics simulation and free energy calculation.

    Keretsu, Seketoulie / Bhujbal, Swapnil P / Cho, Seung Joo

    Scientific reports

    2020  Volume 10, Issue 1, Page(s) 17716

    Abstract: In the rapidly evolving coronavirus disease (COVID-19) pandemic, repurposing existing drugs and evaluating commercially available inhibitors against druggable targets of the virus could be an effective strategy to accelerate the drug discovery process. ... ...

    Abstract In the rapidly evolving coronavirus disease (COVID-19) pandemic, repurposing existing drugs and evaluating commercially available inhibitors against druggable targets of the virus could be an effective strategy to accelerate the drug discovery process. The 3C-Like proteinase (3CL
    MeSH term(s) Aclarubicin/chemistry ; Aclarubicin/metabolism ; Aminoisobutyric Acids ; Betacoronavirus/enzymology ; Betacoronavirus/isolation & purification ; Binding Sites ; COVID-19 ; Coronavirus 3C Proteases ; Coronavirus Infections/pathology ; Coronavirus Infections/virology ; Cysteine Endopeptidases/metabolism ; Databases, Factual ; Humans ; Hydrogen Bonding ; Leucine/analogs & derivatives ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Oligopeptides/chemistry ; Oligopeptides/metabolism ; Pandemics ; Pneumonia, Viral/pathology ; Pneumonia, Viral/virology ; Proline/analogs & derivatives ; Protease Inhibitors/chemistry ; Protease Inhibitors/metabolism ; Quinolines ; SARS-CoV-2 ; Thermodynamics ; Thiazoles/chemistry ; Thiazoles/metabolism ; Viral Nonstructural Proteins/antagonists & inhibitors ; Viral Nonstructural Proteins/metabolism
    Chemical Substances Aminoisobutyric Acids ; Oligopeptides ; Protease Inhibitors ; Quinolines ; Thiazoles ; Viral Nonstructural Proteins ; Aclarubicin (74KXF8I502) ; faldaprevir (958X4J301A) ; Proline (9DLQ4CIU6V) ; Cysteine Endopeptidases (EC 3.4.22.-) ; Coronavirus 3C Proteases (EC 3.4.22.28) ; Leucine (GMW67QNF9C)
    Keywords covid19
    Language English
    Publishing date 2020-10-19
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-020-74468-0
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