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Lahyaoui M, Haoudi A, Kartah BE, Mazzah A, Hökelek T, Mague JT, Kandri Rodi Y, Sebbar NK. Crystal structure, Hirshfeld surface analysis, inter-molecular inter-action energies, energy frameworks and DFT calculations of 4-amino-1-(prop-2-yn-1-yl)pyrimidin-2(1 H)-one. Acta Crystallogr E Crystallogr Commun 2023; 79:1183-1189. [PMID: 38313136 PMCID: PMC10833410 DOI: 10.1107/s2056989023009933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Accepted: 11/15/2023] [Indexed: 02/06/2024]
Abstract
In the title mol-ecule, C7H7N3O, the pyrimidine ring is essentially planar, with the propynyl group rotated out of this plane by 15.31 (4)°. In the crystal, a tri-periodic network is formed by N-H⋯O, N-H⋯N and C-H⋯O hydrogen-bonding and slipped π-π stacking inter-actions, leading to narrow channels extending parallel to the c axis. Hirshfeld surface analysis of the crystal structure reveals that the most important contributions for the crystal packing are from H⋯H (36.2%), H⋯C/C⋯H (20.9%), H⋯O/O⋯H (17.8%) and H⋯N/N⋯H (12.2%) inter-actions, showing that hydrogen-bonding and van der Waals inter-actions are the dominant inter-actions in the crystal packing. Evaluation of the electrostatic, dispersion and total energy frameworks indicates that the stabilization is dominated by the electrostatic energy contributions. The mol-ecular structure optimized by density functional theory (DFT) calculations at the B3LYP/6-311 G(d,p) level is compared with the experimentally determined structure in the solid state. The HOMO-LUMO behaviour was also elucidated to determine the energy gap.
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Affiliation(s)
- Mouad Lahyaoui
- Laboratoire de Chimie Organique Appliquée, Université Sidi Mohamed Ben Abdallah, Faculté des Sciences et Techniques, Route d’Immouzzer, BP 2202 Fez, Morocco
| | - Amal Haoudi
- Laboratory Of Applied Organic Chemistry, Sidi Mohamed Ben Abdellah University, Faculty Of Science And Technology, Road Immouzer, BP 2202 Fez, Morocco
| | - Badr Eddine Kartah
- Laboratory of Plant Chemistry, Organic and Bioorganic Synthesis, Faculty of Sciences, Mohammed V University in Rabat, 4 Avenue Ibn Battouta, BP 1014 RP, Morocco
| | - Ahmed Mazzah
- Science and Technology of Lille USR 3290, Villeneuve d’ascq cedex, France
| | - Tuncer Hökelek
- Department of Physics, Hacettepe University, 06800 Beytepe, Ankara, Türkiye
| | - Joel T. Mague
- Department of Chemistry, Tulane University, New Orleans, LA 70118, USA
| | - Youssef Kandri Rodi
- Laboratoire de Chimie Organique Appliquée, Université Sidi Mohamed Ben Abdallah, Faculté des Sciences et Techniques, Route dImmouzzer, BP 2202 Fez, Morocco
| | - Nada Kheira Sebbar
- Laboratory of Plant Chemistry, Organic and Bioorganic Synthesis, Faculty of Sciences, Mohammed V University in Rabat, 4 Avenue Ibn Battouta, BP 1014 RP, Morocco
- Laboratory of Organic and Physical Chemistry, Applied Bioorganic Chemistry Team, Faculty of Sciences, Ibn Zohr University, Agadir, Morocco
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2
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Maity S, Hande M, Lönnberg T. Metal-Mediated Base Pairing of Rigid and Flexible Benzaldoxime Metallacycles. Chembiochem 2020; 21:2321-2328. [PMID: 32232965 PMCID: PMC7496235 DOI: 10.1002/cbic.202000135] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2020] [Revised: 03/30/2020] [Indexed: 01/02/2023]
Abstract
Oligonucleotides incorporating a central C-nucleoside with either a rigid or flexible benzaldoxime base moiety have been synthesized, and the hybridization properties of their metallacyclic derivatives have been studied by UV melting experiments. In all cases, the metallated duplexes were less stable than their unmetallated counterparts, and the metallacyclic nucleobases did not show a clear preference for any of the canonical nucleobases as a base-pairing partner. With palladated oligonucleotides, increased flexibility translated to less severe destabilization, whereas the opposite was true for the mercurated oligonucleotides; this reflects the greater difficulties in accommodating a rigid PdII -mediated base pair than a rigid HgII -mediated base pair within the base stack of a double helix.
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Affiliation(s)
- Sajal Maity
- Department of ChemistryUniversity of TurkuVatselankatu 220014TurkuFinland
| | - Madhuri Hande
- Department of ChemistryUniversity of TurkuVatselankatu 220014TurkuFinland
| | - Tuomas Lönnberg
- Department of ChemistryUniversity of TurkuVatselankatu 220014TurkuFinland
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3
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Carnero A, Martín-Nieves V, Sanghvi YS, Russel OO, Bassit L, Schinazi RF, Fernández S, Ferrero M. Novel 1′-homo-N-2′-deoxy-α-nucleosides: synthesis, characterization and biological activity. RSC Adv 2020; 10:15815-15824. [PMID: 34603689 PMCID: PMC8486263 DOI: 10.1039/d0ra03254a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023] Open
Abstract
For the first time, a series of novel 1′-homo-N-2′-deoxy-α-nucleosides containing natural nucleobases as well as 5-fluoro and 5-iodopyrimidine analogs have been synthesized in an efficient manner. Additionally, a high yield protocol for the assembly of a dimeric scaffold containing two sugar moieties linked to the N-1 and N-3 positions of a single pyrimidine base has been accomplished. The structures of the novel homonucleosides were established by a single crystal X-ray structure of 1′-homo-N-2′-deoxy-α-adenosine and NMR studies. The biological activity of these 1′-homo-N-2′-deoxy-α-nucleosides as antiviral (HIV-1 and HBV) and cytotoxic studies was measured in multiple cell systems. The unique structure and easy accessibility of these compounds may allow their use in the design of new nucleoside analogs with potential biological activity and as a scaffold for combinatorial chemistry. Novel 1′-homo-N-2′-deoxy-α-nucleosides and dimers.![]()
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Affiliation(s)
- Alejandro Carnero
- Departamento de Química Orgánica e Inorgánica
- Universidad de Oviedo
- 33006-Oviedo
- Spain
| | | | | | - Olivia O. Russel
- Center for AIDS Research
- Laboratory of Biochemical Pharmacology
- Department of Pediatrics
- Emory University School of Medicine
- Atlanta
| | - Leda Bassit
- Center for AIDS Research
- Laboratory of Biochemical Pharmacology
- Department of Pediatrics
- Emory University School of Medicine
- Atlanta
| | - Raymond F. Schinazi
- Center for AIDS Research
- Laboratory of Biochemical Pharmacology
- Department of Pediatrics
- Emory University School of Medicine
- Atlanta
| | - Susana Fernández
- Departamento de Química Orgánica e Inorgánica
- Universidad de Oviedo
- 33006-Oviedo
- Spain
| | - Miguel Ferrero
- Departamento de Química Orgánica e Inorgánica
- Universidad de Oviedo
- 33006-Oviedo
- Spain
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4
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Kobayashi Y, Tanahashi R, Yamaguchi Y, Hatae N, Kobayashi M, Ueno Y, Yoshimatsu M. Ni-Pd Catalyzed Cyclization of Sulfanyl 1,6-Diynes: Synthesis of 1'-Homonucleoside Analogues. J Org Chem 2017; 82:2436-2449. [PMID: 28151664 DOI: 10.1021/acs.joc.6b02841] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The Ni-Pd catalyzed addition-cyclization of sulfanyl 1,6-diynes 2-9 with nucleobases is described. The reactions of N-tethered 1,6-diynes with N3-benzoylthymine, N4,N4-bis(Boc)cytosine, N3-benzoyluracil and N6,N6-bis(Boc)adenine exclusively afforded the pyrrolylmethyl and furylmethyl nucleotides in good yields. Deprotection of nucleobases was completed by treatment with acids or bases. Furthermore, the reactions of pyrroles and furans with nucleophiles such as alkoxides and amines underwent detosylation and conversion to the alkoxymethyl- and arylaminomethyl-pyrroles and furans in good yields.
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Affiliation(s)
- Yuka Kobayashi
- Department of Chemistry, Faculty of Education, Gifu University , Yanagido 1-1, Gifu 501-1193, Japan
| | - Rena Tanahashi
- Department of Chemistry, Faculty of Education, Gifu University , Yanagido 1-1, Gifu 501-1193, Japan
| | - Yui Yamaguchi
- Laboratory of Veterinary Microbiology, Faculty of Applied Biological Sciences, Gifu University , Yanagido 1-1, Gifu 501-1193, Japan
| | - Noriyuki Hatae
- School of Pharmaceutical Sciences, Health Science University of Hokkaido , Ishikari-Tobetsu, Hokkaido 061-0293, Japan
| | - Masanori Kobayashi
- Organization for Research and Community Development, Department of Research Promotion, Gifu University , Yanagido 1-1, Gifu 501-1193, Japan
| | - Yoshihito Ueno
- Department of Smart Material Science, The United Graduate School of Agricultural Science, Gifu University , Yanagido 1-1, Gifu 501-1193, Japan
| | - Mitsuhiro Yoshimatsu
- Department of Chemistry, Faculty of Education, Gifu University , Yanagido 1-1, Gifu 501-1193, Japan.,Laboratory of Veterinary Microbiology, Faculty of Applied Biological Sciences, Gifu University , Yanagido 1-1, Gifu 501-1193, Japan
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5
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González-Calderón D, Mejía-Dionicio MG, Morales-Reza MA, Aguirre-de Paz JG, Ramírez-Villalva A, Morales-Rodríguez M, Fuentes-Benítes A, González-Romero C. Antifungal activity of 1'-homo-N-1,2,3-triazol-bicyclic carbonucleosides: A novel type of compound afforded by azide-enolate (3+2) cycloaddition. Bioorg Chem 2016; 69:1-6. [PMID: 27656774 DOI: 10.1016/j.bioorg.2016.09.003] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2016] [Revised: 09/01/2016] [Accepted: 09/14/2016] [Indexed: 01/06/2023]
Abstract
The first report of 1'-homo-N-1,2,3-triazol-bicyclic carbonucleosides (7a and 7b) is described herein. Azide-enolate (3+2) cycloaddition afforded the synthesis of this novel type of compound. Antifungal activity was evaluated in vitro against four filamentous fungi (Aspergillus fumigatus, Trichosporon cutaneum, Rhizopus oryzae and Mucor hiemalis) as well as nine species of Candida spp. as yeast specimens. These pre-clinical studies suggest that compounds 7a and 7b are promising candidates for complementary biological studies due to their good activity against Candida spp.
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Affiliation(s)
- Davir González-Calderón
- Departamento de Química Orgánica, Facultad de Química, Universidad Autónoma del Estado de México, Paseo Colón/Paseo Tollocan s/n, Toluca, Estado de México 50120, Mexico.
| | - María G Mejía-Dionicio
- Departamento de Química Orgánica, Facultad de Química, Universidad Autónoma del Estado de México, Paseo Colón/Paseo Tollocan s/n, Toluca, Estado de México 50120, Mexico
| | - Marco A Morales-Reza
- Departamento de Química Orgánica, Facultad de Química, Universidad Autónoma del Estado de México, Paseo Colón/Paseo Tollocan s/n, Toluca, Estado de México 50120, Mexico
| | - José G Aguirre-de Paz
- Departamento de Química Orgánica, Facultad de Química, Universidad Autónoma del Estado de México, Paseo Colón/Paseo Tollocan s/n, Toluca, Estado de México 50120, Mexico
| | - Alejandra Ramírez-Villalva
- Departamento de Química Orgánica, Facultad de Química, Universidad Autónoma del Estado de México, Paseo Colón/Paseo Tollocan s/n, Toluca, Estado de México 50120, Mexico
| | - Macario Morales-Rodríguez
- Departamento de Microbiología, Facultad de Química, Universidad Autónoma del Estado de México, Paseo Colón/Paseo Tollocan s/n, Toluca, Estado de México 50120, Mexico
| | - Aydeé Fuentes-Benítes
- Departamento de Química Orgánica, Facultad de Química, Universidad Autónoma del Estado de México, Paseo Colón/Paseo Tollocan s/n, Toluca, Estado de México 50120, Mexico
| | - Carlos González-Romero
- Departamento de Química Orgánica, Facultad de Química, Universidad Autónoma del Estado de México, Paseo Colón/Paseo Tollocan s/n, Toluca, Estado de México 50120, Mexico.
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6
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1′-Homonucleosides and their structural analogues: A review. Eur J Med Chem 2016; 118:121-42. [DOI: 10.1016/j.ejmech.2016.04.034] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2015] [Revised: 04/12/2016] [Accepted: 04/12/2016] [Indexed: 11/18/2022]
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7
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Okada Y, Shimada K, Kitano Y, Chiba K. Short-Step Anodic Access to Emissive RNA Homonucleosides. European J Org Chem 2014. [DOI: 10.1002/ejoc.201301604] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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8
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Boutureira O, Isabel Matheu M, Díaz Y, Castillón S. Ruthenium-catalyzed cross-metathesis with electron-rich phenyl vinyl sulfide enables access to 2,3-dideoxy-d-ribopyranose ring system donors. RSC Adv 2014. [DOI: 10.1039/c4ra01668h] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Microwave irradiation effectively accelerates the cross-metathesis reaction of 2-deoxy-d-ribose hydroxyalkene and derivatives with electron-rich phenyl vinyl sulfide using commercially available ruthenium-based catalysts, thus providing a flexible metal-mediated route to 2,3-dideoxy-d-ribopyranose ring system donors.
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Affiliation(s)
- Omar Boutureira
- Departament de Química Analítica i Química Orgànica
- Universitat Rovira i Virgili
- C/Marcel·lí Domingo s/n
- 43007 Tarragona, Spain
| | - M. Isabel Matheu
- Departament de Química Analítica i Química Orgànica
- Universitat Rovira i Virgili
- C/Marcel·lí Domingo s/n
- 43007 Tarragona, Spain
| | - Yolanda Díaz
- Departament de Química Analítica i Química Orgànica
- Universitat Rovira i Virgili
- C/Marcel·lí Domingo s/n
- 43007 Tarragona, Spain
| | - Sergio Castillón
- Departament de Química Analítica i Química Orgànica
- Universitat Rovira i Virgili
- C/Marcel·lí Domingo s/n
- 43007 Tarragona, Spain
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9
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Quintiliani M, Balzarini J, McGuigan C. Design, synthesis, and biological evaluation of C1–phosphonamidate analogues of 2-deoxy-d-ribose-1-phosphate. Tetrahedron 2013. [DOI: 10.1016/j.tet.2013.08.038] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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10
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Głowacka IE, Balzarini J, Wróblewski AE. Synthesis and biological evaluation of novel 1,2,3-triazolonucleotides. Arch Pharm (Weinheim) 2013; 346:278-91. [PMID: 23427010 DOI: 10.1002/ardp.201200421] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2012] [Accepted: 12/21/2012] [Indexed: 11/09/2022]
Abstract
A general procedure for the preparation of 1,2,3-triazole analogs of nucleosides from diethyl 2-azidoethoxymethyl- and 2-azidoethoxyethylphosphonates was elaborated. The application of microwave irradiation shortened the reaction time to 10 min in comparison to ca. 48 h when 1,3-dipolar cycloadditions were performed under standard conditions. All compounds were evaluated in vitro for inhibitory activity against a broad variety of DNA and RNA viruses. None of the compounds were antivirally active at subtoxic concentrations. Compound 17k exhibited moderate inhibitory effects on the proliferation of human T-lymphocyte cells (IC50=64 µM for CEM).
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Affiliation(s)
- Iwona E Głowacka
- Faculty of Pharmacy, Bioorganic Chemistry Laboratory, Medical University of Łódź, Łódź, Poland.
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11
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Saladino R, Neri V, Checconi P, Celestino I, Nencioni L, Palamara AT, Crucianelli M. Synthesis of 2'-deoxy-1'-homo-N-nucleosides with anti-influenza activity by catalytic methyltrioxorhenium (MTO)/H2O2 oxyfunctionalization. Chemistry 2012; 19:2392-404. [PMID: 23225323 DOI: 10.1002/chem.201201285] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2012] [Revised: 10/15/2012] [Indexed: 01/22/2023]
Abstract
This paper describes a new route for the synthesis of 1'-homo-N-nucleoside derivatives by means of either methyltrioxorhenium (MTO) or supported MTO catalysts, with H(2)O(2) as the primary oxidant. Under these selective conditions, the oxyfunctionalization of the heterocyclic ring and the N heteroatom oxidation were operative processes, regardless of the type of substrate used, that is, purine or pyrimidine derivatives. In addition, the oxidation of 1'-homo-N-thionucleosides, showed the occurrence of site-specific oxidative nucleophilic substitutions of the heterocyclic ring. The MTO/H(2)O(2) system showed, in general, high reactivity under both homogeneous and heterogeneous conditions, affording the final products with high conversion values of substrates and from medium to high yields. Many of the novel 1'-homo-N-nucleoside analogues were active against the influenza A virus, without any cytotoxic effects, retaining their activity in both protected and unprotected forms.
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Affiliation(s)
- Raffaele Saladino
- Department of Agrobiology and Agrochemistry, University of Tuscia, via S. Camillo de Lellis, I-01100 Viterbo, Italy.
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12
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Gotkowska J, Balzarini J, Piotrowska DG. Synthesis of novel isoxazolidine analogues of homonucleosides. Tetrahedron Lett 2012. [DOI: 10.1016/j.tetlet.2012.10.074] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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13
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Pryde DC, Middleton DS, Stephenson PT, Wainwright P, Maddaford A, Zhang X, Leese D, Glen R, Hart J, Forrest N, Guyot T. Practical synthetic routes to carbon-substituted nucleosides. Tetrahedron Lett 2011. [DOI: 10.1016/j.tetlet.2011.09.074] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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14
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Sudhakar G, Kadam VD, Bayya S, Pranitha G, Jagadeesh B. Total synthesis and stereochemical revision of acortatarins A and B. Org Lett 2011; 13:5452-5. [PMID: 21955040 DOI: 10.1021/ol202121k] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
A first total synthesis of acortatarins A, B, and an enantiomer of the proposed structure of acortatarin B is described by using readily available d-sugars. This convergent total synthesis revealed the revision of the absolute configuration of acortatarin A and structural revision of acortatarin B. The key steps involved are regioselective epoxide opening with deprotonated 2,5-disubstituted pyrrole and spiroketalization.
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Affiliation(s)
- Gangarajula Sudhakar
- Organic Chemistry Division-II, CSIR-Indian Institute of Chemical Technology, Hyderabad-500 607, India.
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15
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Bhatt B, Thomson RJ, von Itzstein M. An efficient approach to 2,5-anhydro-glucitol-based 1′-homo-N-nucleoside mimetics. Tetrahedron Lett 2011. [DOI: 10.1016/j.tetlet.2011.03.090] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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16
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Doboszewski B. D-Arabinose-based synthesis of homo-C-d4T and homo-C-thymidine. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2010; 28:875-901. [PMID: 20183559 DOI: 10.1080/15257770903306518] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
2,3,5-Tri-O-benzyl-D-arabinofuranosyl halides (chloride, bromide) were reacted with AllMgBr, MeMgBr, and VinMgBr to furnish anomeric mixtures of the C-glycosyl products. The factors that influenced the beta/alpha ratio are discussed. The alpha,beta-C-vinyl derivative was transformed into 1-deoxy-1-C-hydroxymethyl-beta- and -alpha-D-arabinofuranoses (2,5-anhydro-D-glucitol and -mannitol, respectively), separable after isopropylidenation step. 2,5-Anhydro-1,3-O-isopropylidene-D-glucitol was converted into 2,5-anhydro-6-O-triphenylmethyl-D-erythro-hex-3,4-enitol and 2,5-anhydro-4,6-di-O-benzoyl-3-deoxy-D-ribo-hexitol, which were coupled with N-3-benzoylthymine under the Mitsunobu conditions to furnish two analogs of nucleosides with a -CH(2)- insert between sugar moieties and thymine.
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Affiliation(s)
- Bogdan Doboszewski
- Departmento de Química, Universidade Federal Rural de Pernambuco, Recife, Pernambuco, Brazil.
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17
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Ludek OR, Marquez VE. A greener enantioselective synthesis of the antiviral agent North-methanocarbathymidine (N-MCT) from 2-deoxy-d-ribose. Tetrahedron 2009; 65:8461-8467. [PMID: 20625519 PMCID: PMC2900805 DOI: 10.1016/j.tet.2009.08.035] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
An enantioselective synthesis of suitably protected (1R,2S,4S,5S)-4-amino-1-(hydroxymethyl)bicyclo[3.1.0]hexan-2-ol, a key starting material for the synthesis of conformationally locked carbocyclic nucleosides, including the antiviral active North-methanocarba thymidine, is reported. Starting from 2-deoxyribose the target Boc-protected amine was prepared in 33% overall yield under condition that are ecologically friendlier than previous methods.
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Affiliation(s)
- Olaf R. Ludek
- Laboratory of Medicinal Chemistry, Center for Cancer Research, National Cancer Institute at Frederick, National Institutes of Health, Frederick, MD 21702, USA
| | - Victor E. Marquez
- Laboratory of Medicinal Chemistry, Center for Cancer Research, National Cancer Institute at Frederick, National Institutes of Health, Frederick, MD 21702, USA
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18
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Yu Q, Schwidom D, Exner A, Carlsen P. Synthesis of novel homo-N-nucleoside analogs composed of a homo-1,4-dioxane sugar analog and substituted 1,3,5-triazine base equivalents. Molecules 2008; 13:3092-106. [PMID: 19078851 PMCID: PMC6245424 DOI: 10.3390/molecules13123092] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2008] [Revised: 11/21/2008] [Accepted: 12/03/2008] [Indexed: 11/23/2022] Open
Abstract
Enantioselective syntheses from dimethyl tartrate of 1,3,5-triazine homo-N-nucleoside analogs, containing a 1,4-dioxane moiety replacing the sugar unit in natural nucleosides, were accomplished. The triazine heterocycle in the nucleoside analogs was further substituted with combinations of NH2, OH and Cl in the 2,4-triazine positions.
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Affiliation(s)
- Qiang Yu
- Department of Chemistry, Norwegian University of Science and Technology (NTNU), N-7491 Trondheim, Norway; E-mail: (Q. Y.)
| | - Dirk Schwidom
- Socrates exchange student: Department of Chemistry, University of Hamburg, D-20146 Hamburg, Germany
| | - Alexander Exner
- Socrates exchange student: Department of Chemistry, University of Hamburg, D-20146 Hamburg, Germany
| | - Per Carlsen
- Department of Chemistry, Norwegian University of Science and Technology (NTNU), N-7491 Trondheim, Norway; E-mail: (Q. Y.)
- Author to whom correspondence should be addressed; E-mail: ; Fax: +47-73594256
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19
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Enantioselective synthesis of homo-N-nucleosides containing a 1,4-dioxane sugar analog. Molecules 2008; 13:2962-74. [PMID: 19052521 PMCID: PMC6245387 DOI: 10.3390/molecules13122962] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2008] [Revised: 10/30/2008] [Accepted: 11/07/2008] [Indexed: 11/17/2022] Open
Abstract
A dioxane homo-sugar analog, (2S,5S)-and (2R,5S)-5-[(4S)-2,2-dimethyl-1,3-dioxolan-4-yl]-2-iodomethyl-1,4-dioxane was prepared from (2R,3R)-dimethyl tartrate, and further elaborated into the corresponding homo-N-nucleoside analogs by its reactions with uracil and adenine, respectively.
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20
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Hossain N, Herdewijn P. Facile Synthesis of 3′-C-Branched 1,5-Anhydrohexitol Nucleosides. ACTA ACUST UNITED AC 2006. [DOI: 10.1080/07328319808004714] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- Nafizal Hossain
- a Department of Medicinal Chemistry , Rega Institute for Medical Research , K. U. Leuven, Minderbroedersstraat 10, Leuven , Belgium
| | - Piet Herdewijn
- a Department of Medicinal Chemistry , Rega Institute for Medical Research , K. U. Leuven, Minderbroedersstraat 10, Leuven , Belgium
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21
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Chun MW, Kim JH, Kim MJ, Kim BR, Jeong LS. Synthesis of homo-N-nucleoside with 1,2,4-triazole-3-carboxamide. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2005; 24:979-81. [PMID: 16248076 DOI: 10.1081/ncn-200059368] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
On the basis of potent biological activities of ribavirin and homo-N-nucleosides, a novel homo-N-1,2,4-triazole-3-carboxamide derivative 1 was synthesized starting from 2,3,5-tri-O-benzoylribofuranosyl-1-acetate as a potential antiviral agent.
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Affiliation(s)
- Moon Woo Chun
- Research Institute of Pharmaceutical Sciences, College of Pharmacy, Seoul National University, Seoul 151-742, Korea
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22
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Mertz E, Mattei S, Zimmerman SC. Synthesis and duplex DNA recognition studies of oligonucleotides containing a ureido isoindolin-1-one homo-N-nucleoside. A comparison of host-guest and DNA recognition studies. Bioorg Med Chem 2004; 12:1517-26. [PMID: 15018925 DOI: 10.1016/j.bmc.2003.12.022] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2003] [Accepted: 12/18/2003] [Indexed: 11/28/2022]
Abstract
In an effort to construct non-natural bases to be used in triplex-based antigene DNA recognition strategies, a uriedo-isoindolin-1-one homo-N-nucleoside base was designed to bind the cytosine-guanine (CG) base pair. An organic soluble analogue of this base was shown to effectively complex CG (K(assoc)=740M(-1)) in chloroform through formation of three hydrogen bonds (Mertz, E.; Mattei, S.; Zimmerman, S. C. Org. Lett. 2000, 2, 2931-2934). The novel nucleoside base was synthesized and successfully incorporated into oligonucleotides which were used in triple helix melting temperature studies. Low melting temperatures were observed when the isoindolin-1-one base was paired opposite CG as well as GC, TA, and AT, thus indicating that despite favorable recognition in model studies, the artificial base did not effectively recognize duplex DNA to form pyrimidine-purine-pyrimidine type triple helices.
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Affiliation(s)
- Eric Mertz
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 South Matthews Avenue, Urbana, IL 61801, USA
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23
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Evans GB. The Synthesis of N-Ribosyl Transferase Inhibitors Based on a Transition State Blueprint. Aust J Chem 2004. [DOI: 10.1071/ch04112] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
A quarter of a century ago transition state analysis and transition state analogue design promised the prospect of extraordinarily potent enzyme inhibitors. The present overview describes the transition state analysis of a variety of N-ribosyl transferases, the design and synthesis of extremely powerful transition state analogue inhibitors of these nucleoside processing enzymes, and their current therapeutic uses and potentials.
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24
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Chiacchio U, Genovese F, Iannazzo D, Librando V, Merino P, Rescifina A, Romeo R, Procopio A, Romeo G. Diastereoselective synthesis of homo-N,O-nucleosides. Tetrahedron 2004. [DOI: 10.1016/j.tet.2003.11.007] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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25
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Lamberth C. NUCLEOSIDES WITH A CARBON BRIDGE BETWEEN SUGAR AND NUCLEOBASE: THE CHEMISTRY OF 1′-HOMONUCLEOSIDES AND REVERSED NUCLEOSIDES. A REVIEW. ORG PREP PROCED INT 2002. [DOI: 10.1080/00304940209355752] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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26
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Sekino Y, Bruner SD, Verdine GL. Selective inhibition of herpes simplex virus type-1 uracil-DNA glycosylase by designed substrate analogs. J Biol Chem 2000; 275:36506-8. [PMID: 11084051 DOI: 10.1074/jbc.c000585200] [Citation(s) in RCA: 43] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Cytosine deamination and the misincorporation of 2'-dUrd into DNA during replication result in the presence of uracil in DNA. Uracil-DNA glycosylases (UDGs) initiate the excision repair of this aberrant base by catalyzing the hydrolysis of the N-glycosidic bond. UDGs are expressed by nearly all known organisms, including some viruses, in which the functional role of the UDG protein remains unresolved. This issue could in principle be addressed by the availability of designed synthetic inhibitors that target the viral UDG without affecting the endogenous human UDG. Here, we report that double-stranded and single-stranded oligonucleotides incorporating either of two dUrd analogs tightly bind and inhibit the activity of herpes simplex virus type-1 (HSV-1) UDG. Both inhibitors are exquisitely specific for the HSV-1 UDG over the human UDG. These inhibitors should prove useful in structural studies aimed at understanding substrate recognition and catalysis by UDGs, as well as in elucidating the biologic role of UDGs in the life cycle of herpesviruses.
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Affiliation(s)
- Y Sekino
- Department of Chemistry and Chemical Biology, Harvard University, Cambridge, Massachusetts 02138, USA
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27
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Furneaux RH, Schramm VL, Tyler PC. Transition state analogue inhibitors of protozoan nucleoside hydrolases. Bioorg Med Chem 1999; 7:2599-606. [PMID: 10632070 DOI: 10.1016/s0968-0896(99)00210-2] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Abstract
Protozoan parasites are unable to synthesize purines de novo and must rely on purine salvage pathways for their requirements. Nucleoside hydrolases, which are not found in mammals, function as key enzymes in purine salvage in protozoa. Inhibition of these enzymes may disrupt purine supply and specific inhibitors are potential therapeutic agents for the control of protozoan infections. A series of 1,4-dideoxy-1,4-imino-D-ribitols bearing C-bonded aromatic substituents at C-1 have been synthesized, following carbanion additions to the imine 2, and tested as potential nucleoside hydrolase inhibitors. Nucleoside analogues 8, 11, 14, 17, 20, 24-26, 28 exhibit Ki values in the range 0.2-22 microM against two representative isozymes of protozoan nucleoside hydrolases.
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Affiliation(s)
- R H Furneaux
- Carbohydrate Chemistry, Industrial Research Limited, Lower Hutt, New Zealand
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28
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Chattopadhyay A, Dhotare B, Hassarajani S. (R)-2,3-Cyclohexylideneglyceraldehyde: A Potential Intermediate for Convenient Synthesis of 2-C-Branched 2-Deoxypentofuranoses. J Org Chem 1999; 64:6874-6878. [PMID: 11674698 DOI: 10.1021/jo982130k] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- A. Chattopadhyay
- Bio-organic Division, Bhabha Atomic Research Centre, Mumbai 400085, India
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29
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Adams DR, Boyd AS, Ferguson R, Grierson DS, Monneret C. Heterocyclic nucleoside analogues by cycloaddition reactions of 1-vinylthymine with 1,3-dipoles. NUCLEOSIDES & NUCLEOTIDES 1998; 17:1053-75. [PMID: 9708322 DOI: 10.1080/07328319808004220] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
1,3-Dipolar cycloaddition of 1-vinylthymine to azides, nitrile oxides, nitrones and nitronates has been investigated as a route to heterocyclic nucleoside analogues in which the nucleoside ribose moiety has been replaced by an alternative heterocycle. Reaction of 1-vinylthymine with highly reactive nitrile oxides affords 1-(isoxazolin-5-yl)thymine products in excellent yield at room temperature. The less reactive nitrone dipoles undergo cycloaddition to 1-vinylthymine at elevated temperature to afford 1-(isoxazolidin-5-yl)thymine cycloadducts in good-to-moderate yields, but show a tendency to eliminate thymine from the cycloaddition products over long reaction times. Azide cycloadditions to 1-vinylthymine proceed only under forcing conditions to which the fragile triazoline products are unstable.
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Affiliation(s)
- D R Adams
- Chemistry Department, Heriot-Watt University, Riccarton, Edinburgh, UK
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30
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Synthesis and antiviral activity of acyclic analogues of 1,5-anhydrohexitol nucleosides using Mitsunobu reaction. Tetrahedron 1996. [DOI: 10.1016/0040-4020(96)00818-6] [Citation(s) in RCA: 22] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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31
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Hossain N, Hendrix C, Lescrinier E, Van Aerschot A, Busson R, De Clercq E, Herdewijn P. Homo-N-nucleosides: Incorporation into oligonucleotides and antiviral activity. Bioorg Med Chem Lett 1996. [DOI: 10.1016/s0960-894x(96)00254-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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