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Asahara H, Hiraishi M, Nishiwaki N. One-pot and metal-free synthesis of 3-arylated-4-nitrophenols via polyfunctionalized cyclohexanones from β-nitrostyrenes. Beilstein J Org Chem 2020; 16:1830-1836. [PMID: 32765798 PMCID: PMC7385393 DOI: 10.3762/bjoc.16.150] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Accepted: 07/15/2020] [Indexed: 12/28/2022] Open
Abstract
β-Nitrostyrenes underwent a Diels-Alder reaction with Danishefsky's diene to afford cyclohexenes together with the corresponding hydrolyzed products, 3-arylated-5-methoxy-4-nitrocyclohexanones. When the reaction was conducted in the presence of water, the cyclohexenes were efficiently hydrolyzed into cyclohexanones. Subsequent aromatization by heating the cyclohexanone with a catalytic amount of iodine in dimethyl sulfoxide gave 3-arylated-4-nitrophenols. The reaction of nitrostyrenes with Danishefsky's diene could be conducted in one pot to directly afford the corresponding nitrophenols. Moreover, a heteroaryl group, e.g., a thienyl group could be introduced into the nitrophenol framework.
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Affiliation(s)
- Haruyasu Asahara
- School of Environmental Science and Engineering, Kochi University of Technology, Tosayamada, Kami, Kochi 782-8502, Japan
- Research Center for Molecular Design, Kochi University of Technology, Tosayamada, Kami, Kochi 782-8502, Japan
- Graduate School of Pharmaceutical Sciences, Osaka University, Yamadaoka 1-6, Suita, Osaka 565-0871, Japan
| | - Minami Hiraishi
- School of Environmental Science and Engineering, Kochi University of Technology, Tosayamada, Kami, Kochi 782-8502, Japan
| | - Nagatoshi Nishiwaki
- School of Environmental Science and Engineering, Kochi University of Technology, Tosayamada, Kami, Kochi 782-8502, Japan
- Research Center for Molecular Design, Kochi University of Technology, Tosayamada, Kami, Kochi 782-8502, Japan
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2
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Martins PGA, Mori M, Chiaradia-Delatorre LD, Menegatti ACO, Mascarello A, Botta B, Benítez J, Gambino D, Terenzi H. Exploring Oxidovanadium(IV) Complexes as YopH Inhibitors: Mechanism of Action and Modeling Studies. ACS Med Chem Lett 2015; 6:1035-40. [PMID: 26617957 PMCID: PMC4641580 DOI: 10.1021/acsmedchemlett.5b00267] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2015] [Accepted: 08/31/2015] [Indexed: 12/13/2022] Open
Abstract
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YopH
tyrosine phosphatase, a virulence factor produced by pathogenic species
of Yersinia, is an attractive drug target. In this
work, three oxidovanadium(IV) complexes were assayed against recombinant
YopH and showed strong inhibition of the enzyme in the nanomolar range.
Molecular modeling indicated that their binding is reinforced by H-bond,
cation−π, and π–π interactions conferring
specificity toward YopH. These complexes are thus interesting lead
molecules for phosphatase inhibitor drug discovery.
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Affiliation(s)
- Priscila G. A. Martins
- Centro
de Biologia Molecular Estrutural−CEBIME, Universidade Federal de Santa Catarina, Campus Trindade, 88040-900 Florianópolis, Santa Catarina, Brasil
| | - Mattia Mori
- Center
for Life NanoScience@Sapienza, Istituto Italiano di Tecnologia, viale Regina Elena 291, 00161 Roma, Italy
| | - Louise D. Chiaradia-Delatorre
- Centro
de Biologia Molecular Estrutural−CEBIME, Universidade Federal de Santa Catarina, Campus Trindade, 88040-900 Florianópolis, Santa Catarina, Brasil
| | - Angela C. O. Menegatti
- Centro
de Biologia Molecular Estrutural−CEBIME, Universidade Federal de Santa Catarina, Campus Trindade, 88040-900 Florianópolis, Santa Catarina, Brasil
| | - Alessandra Mascarello
- Centro
de Biologia Molecular Estrutural−CEBIME, Universidade Federal de Santa Catarina, Campus Trindade, 88040-900 Florianópolis, Santa Catarina, Brasil
- Dipartimento di Chimica
e Tecnologia del Farmaco, Sapienza, Università di Roma, Piazzale Aldo
Moro 5, 00185 Roma, Italy
| | - Bruno Botta
- Dipartimento di Chimica
e Tecnologia del Farmaco, Sapienza, Università di Roma, Piazzale Aldo
Moro 5, 00185 Roma, Italy
| | - Julio Benítez
- Cátedra de Química Inorgánica,
Facultad de Química, Universidad de la República, Gral. Flores 2124, 11800 Montevideo, Uruguay
| | - Dinorah Gambino
- Cátedra de Química Inorgánica,
Facultad de Química, Universidad de la República, Gral. Flores 2124, 11800 Montevideo, Uruguay
| | - Hernán Terenzi
- Centro
de Biologia Molecular Estrutural−CEBIME, Universidade Federal de Santa Catarina, Campus Trindade, 88040-900 Florianópolis, Santa Catarina, Brasil
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3
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Leyva MJ, Kim YS, Peach ML, Schneekloth JS. Synthetic derivatives of the SUMO consensus sequence provide a basis for improved substrate recognition. Bioorg Med Chem Lett 2015; 25:2146-51. [PMID: 25881829 PMCID: PMC6341477 DOI: 10.1016/j.bmcl.2015.03.069] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2015] [Revised: 03/21/2015] [Accepted: 03/24/2015] [Indexed: 12/21/2022]
Abstract
Protein sumoylation is a dynamic posttranslational modification that regulates a diverse subset of the proteome. The mechanism by which sumoylation enzymes recognize their cognate substrates is unclear, and the consequences of sumoylation remain difficult to predict. While small molecule probes of the sumoylation process could be valuable for understanding SUMO biology, few small molecules that modulate this process exist. Here, we report the synthesis and evaluation of over 600 oxime-containing peptide sumoylation substrates. Our work demonstrates that higher modification efficiency can be achieved with non-natural side chains that deviate substantially from the consensus site requirement of a hydrophobic substituent. Furthermore, docking studies suggest that these improved substrates mimic binding interactions that are used by other endogenous protein sequences through tertiary interactions. The development of these high efficiency substrates provides key mechanistic insights toward specific recognition of low molecular weight species in the sumoylation pathway.
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Affiliation(s)
- Melissa J Leyva
- Chemical Biology Laboratory, National Cancer Institute, 376 Boyles St., Frederick, MD 21702, USA
| | - Yeong Sang Kim
- Chemical Biology Laboratory, National Cancer Institute, 376 Boyles St., Frederick, MD 21702, USA
| | - Megan L Peach
- Basic Science Program, Chemical Biology Laboratory, Leidos Biomedical Research, Inc., National Cancer Institute, 376 Boyles St., Frederick, MD 21702, USA
| | - John S Schneekloth
- Chemical Biology Laboratory, National Cancer Institute, 376 Boyles St., Frederick, MD 21702, USA.
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Abstract
SIGNIFICANCE Protein tyrosine phosphatases (PTPs) are important enzymes that are involved in the regulation of cellular signaling. Evidence accumulated over the years has indicated that PTPs present exciting opportunities for drug discovery against diseases such as diabetes, cancer, autoimmune diseases, and tuberculosis. However, the highly conserved and partially positive charge of the catalytic sites of PTPs is a major challenge in the development of potent and highly selective PTP inhibitors. RECENT ADVANCES Here, we examine the strategy of developing bidentate inhibitors for selective inhibition of PTPs. Bidentate inhibitors are small-molecular-weight compounds with the ability to bind to both the active site and a non-conserved secondary phosphate binding site. This secondary phosphate binding site was initially discovered in protein tyrosine phosphatase 1B (PTP1B), and, hence, most of the bidentate inhibitors reported in this review are PTP1B inhibitors. CRITICAL ISSUES Although bidentate inhibition is a good strategy for developing potent and selective inhibitors, the cell membrane permeability and pharmacokinetic properties of the inhibitors are also important for successful drug development. In this review, we will also summarize the various efforts made toward the development of phosphotyrosine (pTyr) mimetics for increasing cellular permeability. FUTURE DIRECTIONS Even though the secondary phosphate binding site was initially found in PTP1B, structural data have shown that a secondary binding site can also be found in other PTPs, albeit with varying degrees of accessibility. Along with improvements in pTyr mimetics, we believe that the future will see an increase in the number of orally bioavailable bidentate inhibitors against the various classes of PTPs.
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Affiliation(s)
- Joo-Leng Low
- 1 Institute of Chemical and Engineering Sciences , Agency for Science Technology and Research, Singapore, Singapore
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5
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Bottorff SC, Kasten BB, Stojakovic J, Moore AL, MacGillivray LR, Benny PD. Cu-free 1,3-dipolar cycloaddition click reactions to form isoxazole linkers in chelating ligands for fac-[M(I)(CO)3]+ centers (M = Re, 99mTc). Inorg Chem 2014; 53:1943-5. [PMID: 24483834 PMCID: PMC3993946 DOI: 10.1021/ic402825t] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
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Isoxazole ring formation was examined
as a potential Cu-free alternative click reaction to CuI-catalyzed alkyne/azide cycloaddition. The isoxazole reaction was
explored at macroscopic and radiotracer concentrations with the fac-[MI(CO)3]+ (M = Re, 99mTc) core for use as a noncoordinating linker strategy between
covalently linked molecules. Two click assembly methods (click,
then chelate and chelate, then click) were
examined to determine the feasibility of isoxazole ring formation
with either alkyne-functionalized tridentate chelates or their respective fac-[MI(CO)3]+ complexes
with a model nitrile oxide generator. Macroscale experiments, alkyne-functionalized
chelates, or Re complexes indicate facile formation of the isoxazole
ring. 99mTc experiments demonstrate efficient radiolabeling
with click, then chelate; however, the chelate,
then click approach led to faster product formation, but
lower yields compared to the Re analogues. Isoxazole ring formation was examined as a potential Cu-free alternative
click scheme to CuAAC reactions at macroscopic and radiotracer concentrations
with fac-[MI(CO)3]+ (M = Re, 99mTc) for use as a noncoordinating linker between
covalently linked molecules. Two click assembly methods (click,
then chelate and chelate, then click) were
examined to determine the feasibility of isoxazole ring formation
with either alkyne-functionalized tridentate chelates or their respective fac-[MI(CO)3]+ complexes
with a model nitrile oxide generator.
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Affiliation(s)
- Shalina C Bottorff
- Department of Chemistry, Washington State University , P.O. Box 644630, Pullman, Washington 99164, United States
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6
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Integrating virtual and biochemical screening for protein tyrosine phosphatase inhibitor discovery. Methods 2013; 65:219-28. [PMID: 23969317 DOI: 10.1016/j.ymeth.2013.08.013] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2013] [Revised: 08/09/2013] [Accepted: 08/13/2013] [Indexed: 12/14/2022] Open
Abstract
Protein tyrosine phosphatases (PTPs) represent an important class of enzymes that mediate signal transduction and control diverse aspects of cell behavior. The importance of their activity is exemplified by their significant contribution to disease etiology with over half of all human PTP genes implicated in at least one disease. Small molecule inhibitors targeting individual PTPs are important biological tools, and are needed to fully characterize the function of these enzymes. Moreover, potent and selective PTP inhibitors hold the promise to transform the treatment of many diseases. While numerous methods exist to develop PTP-directed small molecules, we have found that complimentary use of both virtual (in silico) and biochemical (in vitro) screening approaches expedite compound identification and drug development. Here, we summarize methods pertinent to our work and others. Focusing on specific challenges and successes we have experienced, we discuss the considerable caution that must be taken to avoid enrichment of inhibitors that function by non-selective oxidation. We also discuss the utility of using "open" PTP structures to identify active-site directed compounds, a rather unconventional choice for virtual screening. When integrated closely, virtual and biochemical screening can be used in a productive workflow to identify small molecules targeting PTPs.
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Thirumurugan P, Matosiuk D, Jozwiak K. Click Chemistry for Drug Development and Diverse Chemical–Biology Applications. Chem Rev 2013; 113:4905-79. [DOI: 10.1021/cr200409f] [Citation(s) in RCA: 1309] [Impact Index Per Article: 119.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Prakasam Thirumurugan
- Laboratory
of Medical Chemistry and Neuroengineering, Department of Chemistry, and ‡Department of
Synthesis and Chemical Technology of Pharmaceutical Substances, Medical University of Lublin, Lublin
20093, Poland
| | - Dariusz Matosiuk
- Laboratory
of Medical Chemistry and Neuroengineering, Department of Chemistry, and ‡Department of
Synthesis and Chemical Technology of Pharmaceutical Substances, Medical University of Lublin, Lublin
20093, Poland
| | - Krzysztof Jozwiak
- Laboratory
of Medical Chemistry and Neuroengineering, Department of Chemistry, and ‡Department of
Synthesis and Chemical Technology of Pharmaceutical Substances, Medical University of Lublin, Lublin
20093, Poland
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8
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Nguyen LTT, Devroede J, Plasschaert K, Jonckheere L, Haucourt N, Du Prez FE. Providing polyurethane foams with functionality: a kinetic comparison of different “click” and coupling reaction pathways. Polym Chem 2013. [DOI: 10.1039/c2py20970e] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Bahta M, Liu F, Kim SE, Stephen AG, Fisher RJ, Burke TR. Oxime-based linker libraries as a general approach for the rapid generation and screening of multidentate inhibitors. Nat Protoc 2012; 7:686-702. [PMID: 22422315 PMCID: PMC3727389 DOI: 10.1038/nprot.2012.007] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
The described oxime-based library protocol provides detailed procedures for the linkage of aminooxy functionality with aldehyde building blocks that result in the generation of libraries of multidentate inhibitors. Synthesis of inhibitors for protein tyrosine phosphatases (PTPs) and antagonists directed against the human tumor susceptibility gene 101 (TSG101) are shown as examples. Three steps are involved: (i) the design and synthesis of aminooxy platforms; (ii) tethering with aldehydes to form oxime-based linkages with sufficient purity; and (iii) direct in vitro biological evaluation of oxime products without purification. Each coupling reaction is (i) performed in capped microtubes at room temperature (20-23 °C); (ii) diluted for inhibitory evaluation; and (iii) screened with targets in microplates to provide IC(50) or K(d) values. The synthesis of the aminooxy platforms takes 3-5 d; tethering with the aldehydes takes 24 h; and inhibition assay of enzymes and protein-protein interactions takes 30 min and 2 h, respectively.
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Affiliation(s)
- Medhanit Bahta
- Chemical Biology Laboratory, Molecular Discovery Program, Center for Cancer Research, National Cancer Institute, US National Institutes of Health, National Cancer Institute-Frederick, Frederick, Maryland, USA
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