Targeting COVID-19 pandemic: in silico evaluation of 2-hydroxy-1, 2-diphenylethanone N(4)-methyl-N(4)-phenylthiosemicarbazone as a potential inhibitor of SARS-CoV-2
The global spread of the COVID-19 pandemic caused by the etiological agent, severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), triggered researchers to identify and develop novel antiviral therapeutics. Herein, we report a new molecule 2-hydroxy-1,2-diphenylethanone N(4)-methyl-N(4)-pheny...
Gespeichert in:
Veröffentlicht in: | Structural chemistry 2023-10, Vol.34 (5), p.1667-1683 |
---|---|
Hauptverfasser: | , , , , , |
Format: | Artikel |
Sprache: | eng |
Schlagworte: | |
Online-Zugang: | Volltext |
Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
container_end_page | 1683 |
---|---|
container_issue | 5 |
container_start_page | 1667 |
container_title | Structural chemistry |
container_volume | 34 |
creator | Jeevana, Rajan Kavitha, Abu Pilakkaveettil Abi, Thoppilan G. Sajith, Pookkottu K. Varughese, Jibin K. Aravindakshan, Kuttamath Kunniyur |
description | The global spread of the COVID-19 pandemic caused by the etiological agent, severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), triggered researchers to identify and develop novel antiviral therapeutics. Herein, we report a new molecule 2-hydroxy-1,2-diphenylethanone N(4)-methyl-N(4)-phenyl thiosemicarbazone (BMPTSC), as a potential inhibitor of SARS-CoV-2. BMPTSC was synthesized, characterized by IR and NMR studies, and the structural parameters were analyzed computationally by B3LYP/cc-pVDZ method. Molecular docking studies were performed to get insights into the energetics and compatibility of BMPTSC against various SARS-CoV-2 drug targets. The best docking poses of target protein-BMPTSC complex structures were further subjected to molecular dynamics (MD) simulations. Molecular mechanics Poisson–Boltzmann surface area (MM-PBSA) calculations on the binding of BMPTSC with the target proteins viz. spike glycoprotein and ACE-2 protein showed energy values of −179.87 and −145.61 kJ/mol, respectively. Moreover, BMPTSC obeys Lipinski’s rule, and further in silico assessment of oral bioavailability, bioactivity scores, ADME, drug-likeness, and medicinal chemistry friendliness suggests that this molecule is a promising candidate for the COVID-19 drug discovery process. |
doi_str_mv | 10.1007/s11224-022-02033-8 |
format | Article |
fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_9574830</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2728146187</sourcerecordid><originalsourceid>FETCH-LOGICAL-c474t-38a5339e160d84de14c4f37dd85f080cc832cd404d28facd818c9e669ed9c7d03</originalsourceid><addsrcrecordid>eNp9Ustu1TAQjRCIlsIPsECW2BQJg1-JnS6QqsurUkUlWrq1fG3nxlViBzupCN_Dh-I0pTwWLEaex5kzM_IpiqcYvcII8dcJY0IYRIRkQ5RCca_YxyUnsEYI388-YghmQ3vFo5SuchJXtHxY7NGKcFYTtl_8uFBxZ0fnd2BzdnnyFuIaDMob2zt9BJwHyXVOB2CvVTep0QUPQgMIbGcTw7cZ4pc5MG5orZ87O7bKB2_Bp0P2AvY5nDt446_1sXUhLcwqbtX3BagSUGAIo_WjU12e17qtG0Nchpwffz6Hm3AJyePiQaO6ZJ_cvgfFl_fvLjYf4enZh5PN8SnUjLMRUqFKSmuLK2QEMxYzzRrKjRFlgwTSWlCiDUPMENEobQQWurZVVVtTa24QPSjerLzDtO2t0XmrqDo5RNerOMugnPy74l0rd-Fa1iVngi4Eh7cEMXydbBpl75K2Xae8DVOShBOBWYUFz9Dn_0CvwhR9Pk8SUXFeCVHTjCIrSseQUrTN3TIYyUUEchWBzCKQNyKQIjc9-_OMu5Zfv54BdAWkXPI7G3_P_g_tT-ZhvUk</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2867768893</pqid></control><display><type>article</type><title>Targeting COVID-19 pandemic: in silico evaluation of 2-hydroxy-1, 2-diphenylethanone N(4)-methyl-N(4)-phenylthiosemicarbazone as a potential inhibitor of SARS-CoV-2</title><source>SpringerLink Journals</source><creator>Jeevana, Rajan ; Kavitha, Abu Pilakkaveettil ; Abi, Thoppilan G. ; Sajith, Pookkottu K. ; Varughese, Jibin K. ; Aravindakshan, Kuttamath Kunniyur</creator><creatorcontrib>Jeevana, Rajan ; Kavitha, Abu Pilakkaveettil ; Abi, Thoppilan G. ; Sajith, Pookkottu K. ; Varughese, Jibin K. ; Aravindakshan, Kuttamath Kunniyur</creatorcontrib><description>The global spread of the COVID-19 pandemic caused by the etiological agent, severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), triggered researchers to identify and develop novel antiviral therapeutics. Herein, we report a new molecule 2-hydroxy-1,2-diphenylethanone N(4)-methyl-N(4)-phenyl thiosemicarbazone (BMPTSC), as a potential inhibitor of SARS-CoV-2. BMPTSC was synthesized, characterized by IR and NMR studies, and the structural parameters were analyzed computationally by B3LYP/cc-pVDZ method. Molecular docking studies were performed to get insights into the energetics and compatibility of BMPTSC against various SARS-CoV-2 drug targets. The best docking poses of target protein-BMPTSC complex structures were further subjected to molecular dynamics (MD) simulations. Molecular mechanics Poisson–Boltzmann surface area (MM-PBSA) calculations on the binding of BMPTSC with the target proteins viz. spike glycoprotein and ACE-2 protein showed energy values of −179.87 and −145.61 kJ/mol, respectively. Moreover, BMPTSC obeys Lipinski’s rule, and further in silico assessment of oral bioavailability, bioactivity scores, ADME, drug-likeness, and medicinal chemistry friendliness suggests that this molecule is a promising candidate for the COVID-19 drug discovery process.</description><identifier>ISSN: 1040-0400</identifier><identifier>EISSN: 1572-9001</identifier><identifier>DOI: 10.1007/s11224-022-02033-8</identifier><identifier>PMID: 36274924</identifier><language>eng</language><publisher>New York: Springer US</publisher><subject>Bioavailability ; Biocompatibility ; Chemistry ; Chemistry and Materials Science ; Computer Applications in Chemistry ; COVID-19 ; Energy value ; Glycoproteins ; Mathematical analysis ; Molecular docking ; Molecular dynamics ; NMR ; Nuclear magnetic resonance ; Original Research ; Pandemics ; Physical Chemistry ; Proteins ; Severe acute respiratory syndrome coronavirus 2 ; Theoretical and Computational Chemistry ; Viral diseases</subject><ispartof>Structural chemistry, 2023-10, Vol.34 (5), p.1667-1683</ispartof><rights>The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature 2022. Springer Nature or its licensor holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><rights>The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature 2022, Springer Nature or its licensor holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c474t-38a5339e160d84de14c4f37dd85f080cc832cd404d28facd818c9e669ed9c7d03</citedby><cites>FETCH-LOGICAL-c474t-38a5339e160d84de14c4f37dd85f080cc832cd404d28facd818c9e669ed9c7d03</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s11224-022-02033-8$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11224-022-02033-8$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>230,314,776,780,881,27903,27904,41467,42536,51297</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/36274924$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Jeevana, Rajan</creatorcontrib><creatorcontrib>Kavitha, Abu Pilakkaveettil</creatorcontrib><creatorcontrib>Abi, Thoppilan G.</creatorcontrib><creatorcontrib>Sajith, Pookkottu K.</creatorcontrib><creatorcontrib>Varughese, Jibin K.</creatorcontrib><creatorcontrib>Aravindakshan, Kuttamath Kunniyur</creatorcontrib><title>Targeting COVID-19 pandemic: in silico evaluation of 2-hydroxy-1, 2-diphenylethanone N(4)-methyl-N(4)-phenylthiosemicarbazone as a potential inhibitor of SARS-CoV-2</title><title>Structural chemistry</title><addtitle>Struct Chem</addtitle><addtitle>Struct Chem</addtitle><description>The global spread of the COVID-19 pandemic caused by the etiological agent, severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), triggered researchers to identify and develop novel antiviral therapeutics. Herein, we report a new molecule 2-hydroxy-1,2-diphenylethanone N(4)-methyl-N(4)-phenyl thiosemicarbazone (BMPTSC), as a potential inhibitor of SARS-CoV-2. BMPTSC was synthesized, characterized by IR and NMR studies, and the structural parameters were analyzed computationally by B3LYP/cc-pVDZ method. Molecular docking studies were performed to get insights into the energetics and compatibility of BMPTSC against various SARS-CoV-2 drug targets. The best docking poses of target protein-BMPTSC complex structures were further subjected to molecular dynamics (MD) simulations. Molecular mechanics Poisson–Boltzmann surface area (MM-PBSA) calculations on the binding of BMPTSC with the target proteins viz. spike glycoprotein and ACE-2 protein showed energy values of −179.87 and −145.61 kJ/mol, respectively. Moreover, BMPTSC obeys Lipinski’s rule, and further in silico assessment of oral bioavailability, bioactivity scores, ADME, drug-likeness, and medicinal chemistry friendliness suggests that this molecule is a promising candidate for the COVID-19 drug discovery process.</description><subject>Bioavailability</subject><subject>Biocompatibility</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Computer Applications in Chemistry</subject><subject>COVID-19</subject><subject>Energy value</subject><subject>Glycoproteins</subject><subject>Mathematical analysis</subject><subject>Molecular docking</subject><subject>Molecular dynamics</subject><subject>NMR</subject><subject>Nuclear magnetic resonance</subject><subject>Original Research</subject><subject>Pandemics</subject><subject>Physical Chemistry</subject><subject>Proteins</subject><subject>Severe acute respiratory syndrome coronavirus 2</subject><subject>Theoretical and Computational Chemistry</subject><subject>Viral diseases</subject><issn>1040-0400</issn><issn>1572-9001</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><recordid>eNp9Ustu1TAQjRCIlsIPsECW2BQJg1-JnS6QqsurUkUlWrq1fG3nxlViBzupCN_Dh-I0pTwWLEaex5kzM_IpiqcYvcII8dcJY0IYRIRkQ5RCca_YxyUnsEYI388-YghmQ3vFo5SuchJXtHxY7NGKcFYTtl_8uFBxZ0fnd2BzdnnyFuIaDMob2zt9BJwHyXVOB2CvVTep0QUPQgMIbGcTw7cZ4pc5MG5orZ87O7bKB2_Bp0P2AvY5nDt446_1sXUhLcwqbtX3BagSUGAIo_WjU12e17qtG0Nchpwffz6Hm3AJyePiQaO6ZJ_cvgfFl_fvLjYf4enZh5PN8SnUjLMRUqFKSmuLK2QEMxYzzRrKjRFlgwTSWlCiDUPMENEobQQWurZVVVtTa24QPSjerLzDtO2t0XmrqDo5RNerOMugnPy74l0rd-Fa1iVngi4Eh7cEMXydbBpl75K2Xae8DVOShBOBWYUFz9Dn_0CvwhR9Pk8SUXFeCVHTjCIrSseQUrTN3TIYyUUEchWBzCKQNyKQIjc9-_OMu5Zfv54BdAWkXPI7G3_P_g_tT-ZhvUk</recordid><startdate>20231001</startdate><enddate>20231001</enddate><creator>Jeevana, Rajan</creator><creator>Kavitha, Abu Pilakkaveettil</creator><creator>Abi, Thoppilan G.</creator><creator>Sajith, Pookkottu K.</creator><creator>Varughese, Jibin K.</creator><creator>Aravindakshan, Kuttamath Kunniyur</creator><general>Springer US</general><general>Springer Nature B.V</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20231001</creationdate><title>Targeting COVID-19 pandemic: in silico evaluation of 2-hydroxy-1, 2-diphenylethanone N(4)-methyl-N(4)-phenylthiosemicarbazone as a potential inhibitor of SARS-CoV-2</title><author>Jeevana, Rajan ; Kavitha, Abu Pilakkaveettil ; Abi, Thoppilan G. ; Sajith, Pookkottu K. ; Varughese, Jibin K. ; Aravindakshan, Kuttamath Kunniyur</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c474t-38a5339e160d84de14c4f37dd85f080cc832cd404d28facd818c9e669ed9c7d03</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Bioavailability</topic><topic>Biocompatibility</topic><topic>Chemistry</topic><topic>Chemistry and Materials Science</topic><topic>Computer Applications in Chemistry</topic><topic>COVID-19</topic><topic>Energy value</topic><topic>Glycoproteins</topic><topic>Mathematical analysis</topic><topic>Molecular docking</topic><topic>Molecular dynamics</topic><topic>NMR</topic><topic>Nuclear magnetic resonance</topic><topic>Original Research</topic><topic>Pandemics</topic><topic>Physical Chemistry</topic><topic>Proteins</topic><topic>Severe acute respiratory syndrome coronavirus 2</topic><topic>Theoretical and Computational Chemistry</topic><topic>Viral diseases</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Jeevana, Rajan</creatorcontrib><creatorcontrib>Kavitha, Abu Pilakkaveettil</creatorcontrib><creatorcontrib>Abi, Thoppilan G.</creatorcontrib><creatorcontrib>Sajith, Pookkottu K.</creatorcontrib><creatorcontrib>Varughese, Jibin K.</creatorcontrib><creatorcontrib>Aravindakshan, Kuttamath Kunniyur</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Structural chemistry</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Jeevana, Rajan</au><au>Kavitha, Abu Pilakkaveettil</au><au>Abi, Thoppilan G.</au><au>Sajith, Pookkottu K.</au><au>Varughese, Jibin K.</au><au>Aravindakshan, Kuttamath Kunniyur</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Targeting COVID-19 pandemic: in silico evaluation of 2-hydroxy-1, 2-diphenylethanone N(4)-methyl-N(4)-phenylthiosemicarbazone as a potential inhibitor of SARS-CoV-2</atitle><jtitle>Structural chemistry</jtitle><stitle>Struct Chem</stitle><addtitle>Struct Chem</addtitle><date>2023-10-01</date><risdate>2023</risdate><volume>34</volume><issue>5</issue><spage>1667</spage><epage>1683</epage><pages>1667-1683</pages><issn>1040-0400</issn><eissn>1572-9001</eissn><abstract>The global spread of the COVID-19 pandemic caused by the etiological agent, severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), triggered researchers to identify and develop novel antiviral therapeutics. Herein, we report a new molecule 2-hydroxy-1,2-diphenylethanone N(4)-methyl-N(4)-phenyl thiosemicarbazone (BMPTSC), as a potential inhibitor of SARS-CoV-2. BMPTSC was synthesized, characterized by IR and NMR studies, and the structural parameters were analyzed computationally by B3LYP/cc-pVDZ method. Molecular docking studies were performed to get insights into the energetics and compatibility of BMPTSC against various SARS-CoV-2 drug targets. The best docking poses of target protein-BMPTSC complex structures were further subjected to molecular dynamics (MD) simulations. Molecular mechanics Poisson–Boltzmann surface area (MM-PBSA) calculations on the binding of BMPTSC with the target proteins viz. spike glycoprotein and ACE-2 protein showed energy values of −179.87 and −145.61 kJ/mol, respectively. Moreover, BMPTSC obeys Lipinski’s rule, and further in silico assessment of oral bioavailability, bioactivity scores, ADME, drug-likeness, and medicinal chemistry friendliness suggests that this molecule is a promising candidate for the COVID-19 drug discovery process.</abstract><cop>New York</cop><pub>Springer US</pub><pmid>36274924</pmid><doi>10.1007/s11224-022-02033-8</doi><tpages>17</tpages><oa>free_for_read</oa></addata></record> |
fulltext | fulltext |
identifier | ISSN: 1040-0400 |
ispartof | Structural chemistry, 2023-10, Vol.34 (5), p.1667-1683 |
issn | 1040-0400 1572-9001 |
language | eng |
recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_9574830 |
source | SpringerLink Journals |
subjects | Bioavailability Biocompatibility Chemistry Chemistry and Materials Science Computer Applications in Chemistry COVID-19 Energy value Glycoproteins Mathematical analysis Molecular docking Molecular dynamics NMR Nuclear magnetic resonance Original Research Pandemics Physical Chemistry Proteins Severe acute respiratory syndrome coronavirus 2 Theoretical and Computational Chemistry Viral diseases |
title | Targeting COVID-19 pandemic: in silico evaluation of 2-hydroxy-1, 2-diphenylethanone N(4)-methyl-N(4)-phenylthiosemicarbazone as a potential inhibitor of SARS-CoV-2 |
url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-25T08%3A42%3A18IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_pubme&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Targeting%20COVID-19%20pandemic:%20in%20silico%20evaluation%20of%202-hydroxy-1,%202-diphenylethanone%20N(4)-methyl-N(4)-phenylthiosemicarbazone%20as%20a%20potential%20inhibitor%20of%20SARS-CoV-2&rft.jtitle=Structural%20chemistry&rft.au=Jeevana,%20Rajan&rft.date=2023-10-01&rft.volume=34&rft.issue=5&rft.spage=1667&rft.epage=1683&rft.pages=1667-1683&rft.issn=1040-0400&rft.eissn=1572-9001&rft_id=info:doi/10.1007/s11224-022-02033-8&rft_dat=%3Cproquest_pubme%3E2728146187%3C/proquest_pubme%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=2867768893&rft_id=info:pmid/36274924&rfr_iscdi=true |