Design, synthesis, and biological evaluation of novel dipeptide-type SARS-CoV 3CL protease inhibitors: Structure–activity relationship study
Identifieur interne : 000F91 ( Pmc/Curation ); précédent : 000F90; suivant : 000F92Design, synthesis, and biological evaluation of novel dipeptide-type SARS-CoV 3CL protease inhibitors: Structure–activity relationship study
Auteurs : Pillaiyar Thanigaimalai [Japon] ; Sho Konno [Japon] ; Takehito Yamamoto [Japon] ; Yuji Koiwai [Japon] ; Akihiro Taguchi [Japon] ; Kentaro Takayama [Japon] ; Fumika Yakushiji [Japon] ; Kenichi Akaji [Japon] ; Yoshiaki Kiso [Japon] ; Yuko Kawasaki [États-Unis] ; Shen-En Chen [États-Unis] ; Aurash Naser-Tavakolian [États-Unis] ; Arne Schön [États-Unis] ; Ernesto Freire [États-Unis] ; Yoshio Hayashi [Japon]Source :
- European Journal of Medicinal Chemistry [ 0223-5234 ] ; 2013.
Abstract
This work describes the design, synthesis, and evaluation of low-molecular weight peptidic SARS-CoV 3CL protease inhibitors. The inhibitors were designed based on the potent tripeptidic Z-Val-Leu-Ala(pyrrolidone-3-yl)-2-benzothiazole (
Url:
DOI: 10.1016/j.ejmech.2013.05.005
PubMed: 23747811
PubMed Central: 7115367
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<author><name sortKey="Yamamoto, Takehito" sort="Yamamoto, Takehito" uniqKey="Yamamoto T" first="Takehito" last="Yamamoto">Takehito Yamamoto</name>
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<author><name sortKey="Yakushiji, Fumika" sort="Yakushiji, Fumika" uniqKey="Yakushiji F" first="Fumika" last="Yakushiji">Fumika Yakushiji</name>
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<author><name sortKey="Akaji, Kenichi" sort="Akaji, Kenichi" uniqKey="Akaji K" first="Kenichi" last="Akaji">Kenichi Akaji</name>
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<author><name sortKey="Kiso, Yoshiaki" sort="Kiso, Yoshiaki" uniqKey="Kiso Y" first="Yoshiaki" last="Kiso">Yoshiaki Kiso</name>
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</affiliation>
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<author><name sortKey="Chen, Shen En" sort="Chen, Shen En" uniqKey="Chen S" first="Shen-En" last="Chen">Shen-En Chen</name>
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<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Department of Biology, Johns Hopkins University, Baltimore, MD</wicri:regionArea>
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<author><name sortKey="Naser Tavakolian, Aurash" sort="Naser Tavakolian, Aurash" uniqKey="Naser Tavakolian A" first="Aurash" last="Naser-Tavakolian">Aurash Naser-Tavakolian</name>
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<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Department of Biology, Johns Hopkins University, Baltimore, MD</wicri:regionArea>
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<author><name sortKey="Schon, Arne" sort="Schon, Arne" uniqKey="Schon A" first="Arne" last="Schön">Arne Schön</name>
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<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Department of Biology, Johns Hopkins University, Baltimore, MD</wicri:regionArea>
</affiliation>
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<author><name sortKey="Freire, Ernesto" sort="Freire, Ernesto" uniqKey="Freire E" first="Ernesto" last="Freire">Ernesto Freire</name>
<affiliation wicri:level="1"><nlm:aff id="aff3">Department of Biology, Johns Hopkins University, Baltimore, MD, USA</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>Department of Biology, Johns Hopkins University, Baltimore, MD</wicri:regionArea>
</affiliation>
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<author><name sortKey="Hayashi, Yoshio" sort="Hayashi, Yoshio" uniqKey="Hayashi Y" first="Yoshio" last="Hayashi">Yoshio Hayashi</name>
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<country xml:lang="fr">Japon</country>
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<series><title level="j">European Journal of Medicinal Chemistry</title>
<idno type="ISSN">0223-5234</idno>
<idno type="eISSN">1768-3254</idno>
<imprint><date when="2013">2013</date>
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<front><div type="abstract" xml:lang="en"><p>This work describes the design, synthesis, and evaluation of low-molecular weight peptidic SARS-CoV 3CL protease inhibitors. The inhibitors were designed based on the potent tripeptidic Z-Val-Leu-Ala(pyrrolidone-3-yl)-2-benzothiazole (<bold>8</bold>
; <italic>K</italic>
<sub><italic>i</italic>
</sub>
= 4.1 nM), in which the P3 valine unit was substituted with a variety of distinct moieties. The resulting series of dipeptide-type inhibitors displayed moderate to good inhibitory activities against 3CL<sup>pro</sup>
. In particular, compounds <bold>26m</bold>
and <bold>26n</bold>
exhibited good inhibitory activities with <italic>K</italic>
<sub><italic>i</italic>
</sub>
values of 0.39 and 0.33 μM, respectively. These low-molecular weight compounds are attractive leads for the further development of potent peptidomimetic inhibitors with pharmaceutical profiles. Docking studies were performed to model the binding interaction of the compound <bold>26m</bold>
with the SARS-CoV 3CL protease. The preliminary SAR study of the peptidomimetic compounds with potent inhibitory activities revealed several structural features that boosted the inhibitory activity: (i) a benzothiazole warhead at the S1′ position, (ii) a γ-lactam unit at the S1-position, (iii) an appropriately hydrophobic leucine moiety at the S2-position, and (iv) a hydrogen bond between the <italic>N</italic>
-arylglycine unit and a backbone hydrogen bond donor at the S3-position.</p>
</div>
</front>
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<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Eur J Med Chem</journal-id>
<journal-id journal-id-type="iso-abbrev">Eur J Med Chem</journal-id>
<journal-title-group><journal-title>European Journal of Medicinal Chemistry</journal-title>
</journal-title-group>
<issn pub-type="ppub">0223-5234</issn>
<issn pub-type="epub">1768-3254</issn>
<publisher><publisher-name>Elsevier Masson SAS.</publisher-name>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">23747811</article-id>
<article-id pub-id-type="pmc">7115367</article-id>
<article-id pub-id-type="publisher-id">S0223-5234(13)00305-X</article-id>
<article-id pub-id-type="doi">10.1016/j.ejmech.2013.05.005</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Article</subject>
</subj-group>
</article-categories>
<title-group><article-title>Design, synthesis, and biological evaluation of novel dipeptide-type SARS-CoV 3CL protease inhibitors: Structure–activity relationship study</article-title>
</title-group>
<contrib-group><contrib contrib-type="author" id="au1"><name><surname>Thanigaimalai</surname>
<given-names>Pillaiyar</given-names>
</name>
<xref rid="aff1" ref-type="aff">a</xref>
</contrib>
<contrib contrib-type="author" id="au2"><name><surname>Konno</surname>
<given-names>Sho</given-names>
</name>
<xref rid="aff1" ref-type="aff">a</xref>
</contrib>
<contrib contrib-type="author" id="au3"><name><surname>Yamamoto</surname>
<given-names>Takehito</given-names>
</name>
<xref rid="aff1" ref-type="aff">a</xref>
</contrib>
<contrib contrib-type="author" id="au4"><name><surname>Koiwai</surname>
<given-names>Yuji</given-names>
</name>
<xref rid="aff1" ref-type="aff">a</xref>
</contrib>
<contrib contrib-type="author" id="au5"><name><surname>Taguchi</surname>
<given-names>Akihiro</given-names>
</name>
<xref rid="aff1" ref-type="aff">a</xref>
</contrib>
<contrib contrib-type="author" id="au6"><name><surname>Takayama</surname>
<given-names>Kentaro</given-names>
</name>
<xref rid="aff1" ref-type="aff">a</xref>
</contrib>
<contrib contrib-type="author" id="au7"><name><surname>Yakushiji</surname>
<given-names>Fumika</given-names>
</name>
<xref rid="aff1" ref-type="aff">a</xref>
</contrib>
<contrib contrib-type="author" id="au8"><name><surname>Akaji</surname>
<given-names>Kenichi</given-names>
</name>
<xref rid="aff2" ref-type="aff">b</xref>
</contrib>
<contrib contrib-type="author" id="au9"><name><surname>Kiso</surname>
<given-names>Yoshiaki</given-names>
</name>
<xref rid="aff2" ref-type="aff">b</xref>
</contrib>
<contrib contrib-type="author" id="au10"><name><surname>Kawasaki</surname>
<given-names>Yuko</given-names>
</name>
<xref rid="aff3" ref-type="aff">c</xref>
</contrib>
<contrib contrib-type="author" id="au11"><name><surname>Chen</surname>
<given-names>Shen-En</given-names>
</name>
<xref rid="aff3" ref-type="aff">c</xref>
</contrib>
<contrib contrib-type="author" id="au12"><name><surname>Naser-Tavakolian</surname>
<given-names>Aurash</given-names>
</name>
<xref rid="aff3" ref-type="aff">c</xref>
</contrib>
<contrib contrib-type="author" id="au13"><name><surname>Schön</surname>
<given-names>Arne</given-names>
</name>
<xref rid="aff3" ref-type="aff">c</xref>
</contrib>
<contrib contrib-type="author" id="au14"><name><surname>Freire</surname>
<given-names>Ernesto</given-names>
</name>
<xref rid="aff3" ref-type="aff">c</xref>
</contrib>
<contrib contrib-type="author" id="au15"><name><surname>Hayashi</surname>
<given-names>Yoshio</given-names>
</name>
<email>yhayashi@toyaku.ac.jp</email>
<xref rid="aff1" ref-type="aff">a</xref>
<xref rid="cor1" ref-type="corresp">∗</xref>
</contrib>
</contrib-group>
<aff id="aff1"><label>a</label>
Department of Medicinal Chemistry, Tokyo University of Pharmacy and Life Sciences, Tokyo 192-0392, Japan</aff>
<aff id="aff2"><label>b</label>
Department of Medicinal Chemistry, Kyoto Pharmaceutical University, Kyoto 607-8412, Japan</aff>
<aff id="aff3"><label>c</label>
Department of Biology, Johns Hopkins University, Baltimore, MD, USA</aff>
<author-notes><corresp id="cor1"><label>∗</label>
Corresponding author. Tel./fax: +81 42 676 3275. <email>yhayashi@toyaku.ac.jp</email>
</corresp>
</author-notes>
<pub-date pub-type="pmc-release"><day>20</day>
<month>5</month>
<year>2013</year>
</pub-date>
<pmc-comment> PMC Release delay is 0 months and 0 days and was based on .</pmc-comment>
<pub-date pub-type="ppub"><month>7</month>
<year>2013</year>
</pub-date>
<pub-date pub-type="epub"><day>20</day>
<month>5</month>
<year>2013</year>
</pub-date>
<volume>65</volume>
<fpage>436</fpage>
<lpage>447</lpage>
<history><date date-type="received"><day>11</day>
<month>3</month>
<year>2013</year>
</date>
<date date-type="rev-recd"><day>20</day>
<month>4</month>
<year>2013</year>
</date>
<date date-type="accepted"><day>7</day>
<month>5</month>
<year>2013</year>
</date>
</history>
<permissions><copyright-statement>Copyright © 2013 Elsevier Masson SAS. All rights reserved.</copyright-statement>
<copyright-year>2013</copyright-year>
<copyright-holder>Elsevier Masson SAS</copyright-holder>
<license><license-p>Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.</license-p>
</license>
</permissions>
<abstract id="abs0010"><p>This work describes the design, synthesis, and evaluation of low-molecular weight peptidic SARS-CoV 3CL protease inhibitors. The inhibitors were designed based on the potent tripeptidic Z-Val-Leu-Ala(pyrrolidone-3-yl)-2-benzothiazole (<bold>8</bold>
; <italic>K</italic>
<sub><italic>i</italic>
</sub>
= 4.1 nM), in which the P3 valine unit was substituted with a variety of distinct moieties. The resulting series of dipeptide-type inhibitors displayed moderate to good inhibitory activities against 3CL<sup>pro</sup>
. In particular, compounds <bold>26m</bold>
and <bold>26n</bold>
exhibited good inhibitory activities with <italic>K</italic>
<sub><italic>i</italic>
</sub>
values of 0.39 and 0.33 μM, respectively. These low-molecular weight compounds are attractive leads for the further development of potent peptidomimetic inhibitors with pharmaceutical profiles. Docking studies were performed to model the binding interaction of the compound <bold>26m</bold>
with the SARS-CoV 3CL protease. The preliminary SAR study of the peptidomimetic compounds with potent inhibitory activities revealed several structural features that boosted the inhibitory activity: (i) a benzothiazole warhead at the S1′ position, (ii) a γ-lactam unit at the S1-position, (iii) an appropriately hydrophobic leucine moiety at the S2-position, and (iv) a hydrogen bond between the <italic>N</italic>
-arylglycine unit and a backbone hydrogen bond donor at the S3-position.</p>
</abstract>
<abstract abstract-type="graphical" id="abs0015"><title>Graphical abstract</title>
<fig id="undfig1" position="anchor"><graphic xlink:href="fx1"></graphic>
</fig>
</abstract>
<abstract abstract-type="author-highlights" id="abs0020"><title>Highlights</title>
<p><list list-type="simple" id="ulist0010"><list-item id="u0010"><label>•</label>
<p id="p0010">A series of dipeptide-type SARS CoV 3CL<sup>pro</sup>
inhibitors were synthesized.</p>
</list-item>
<list-item id="u0015"><label>•</label>
<p id="p0015">Compounds have shown significant inhibitory activity.</p>
</list-item>
<list-item id="u0020"><label>•</label>
<p id="p0020">A potent compound was discovered by changing the P3 position.</p>
</list-item>
<list-item id="u0025"><label>•</label>
<p id="p0025">Compounds <bold>26m</bold>
and <bold>26n</bold>
displayed potent inhibitory activities.</p>
</list-item>
</list>
</p>
</abstract>
<kwd-group id="kwrds0010"><title>Keywords</title>
<kwd>SARS</kwd>
<kwd>SARS-CoV 3CL protease</kwd>
<kwd>Peptidomimetics</kwd>
<kwd>Dipeptide</kwd>
<kwd>Cysteine protease inhibitors</kwd>
<kwd>Docking study</kwd>
</kwd-group>
</article-meta>
</front>
</pmc>
</record>
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