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Wawrzyniak D, Framski G, Januszczyk P, Ostrowski T, Baraniak D, Jahnz‐Wechmann Z, Fogt J, Manikowski A, Baranowski D, Rolle K, Boryski J. 7‐(β‐
D
‐Ribofuranosyl)guanine and its Analogues Modified in the Sugar Portion: Synthesis and Antiglioma Properties. ChemistrySelect 2020. [DOI: 10.1002/slct.202003393] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Dariusz Wawrzyniak
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Grzegorz Framski
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Piotr Januszczyk
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Tomasz Ostrowski
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Dagmara Baraniak
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Zofia Jahnz‐Wechmann
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Joanna Fogt
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Andrzej Manikowski
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Daniel Baranowski
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Katarzyna Rolle
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
| | - Jerzy Boryski
- Institute of Bioorganic Chemistry Polish Academy of Sciences Noskowskiego 12/14, postCode/>61-704 <Poznan Poland
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Toma M, Božičević L, Lapić J, Djaković S, Šakić D, Tandarić T, Vianello R, Vrček V. Transacylation in Ferrocenoyl-Purines. NMR and Computational Study of the Isomerization Mechanism. J Org Chem 2019; 84:12471-12480. [PMID: 31479271 DOI: 10.1021/acs.joc.9b01944] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
In the reaction of purines with ferrocenoyl chloride in dimethylformamide (DMF), a regioselective acylation occurred. The two products have been isolated and, according to detailed NMR analysis, identified as N7- and N9-ferrocenoylated isomers. In a more polar solvent, for example, in dimethylsulfoxide (DMSO), the two isomers interconvert to each other. The N7/N9 isomerization was followed by 1H NMR spectroscopy, until dynamic equilibrium was reached. Both kinetics and thermodynamics of the transacylation process are governed by a C6-substituent on the purine ring (R = NH2, Me, NHBz, OBz). The observed rate constant for the N7/N9-isomerization in the adenine system (R = NH2) is kobs = 0.3668 h-1, whereas the corresponding process in the C6-benzyloxypurine is 56 times slower. By use of density functional theory calculations and molecular dynamics simulations, several reaction pathways were considered and explored. Only the reaction mechanism involving DMSO as a nucleophilic reactant is in harmony with the experimental kinetic data. The calculated barrier (ΔG⧧ = 107.9 kJ/mol; at the M06L/6-311+G(d,p)/SDD level of theory) for this SN2-like reaction in the adenine system agrees well with the experimental value of 102.7 kJ/mol. No isomerization was detected in other organic solvents, for example, acetonitrile, N,N-dimethylformamide, or acetone, which indicated the exceptional nucleophilicity of DMSO. Our results raise a warning when treating or dissolving acylated purines in DMSO as they are prone to isomerization. We observed that the N7/N9-group transfer was specific not only for the organometallic moiety only, but for other acyl groups in purines as well. The relevance of this isomerization may be expected for a series of nucleobases and heterocyclic systems in general.
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Affiliation(s)
- Mateja Toma
- Faculty of Pharmacy and Biochemistry , University of Zagreb , Ante Kovačića 1 , 10000 Zagreb , Croatia
| | - Lucija Božičević
- Faculty of Pharmacy and Biochemistry , University of Zagreb , Ante Kovačića 1 , 10000 Zagreb , Croatia
| | - Jasmina Lapić
- Faculty of Food Technology and Biotechnology , University of Zagreb , Pierottijeva 6 , 10000 Zagreb , Croatia
| | - Senka Djaković
- Faculty of Food Technology and Biotechnology , University of Zagreb , Pierottijeva 6 , 10000 Zagreb , Croatia
| | - Davor Šakić
- Faculty of Pharmacy and Biochemistry , University of Zagreb , Ante Kovačića 1 , 10000 Zagreb , Croatia
| | - Tana Tandarić
- Computational Organic Chemistry and Biochemistry Group, Division of Organic Chemistry and Biochemistry , Rud̵er Bošković Institute , Bijenička cesta 54 , 10000 Zagreb , Croatia
| | - Robert Vianello
- Computational Organic Chemistry and Biochemistry Group, Division of Organic Chemistry and Biochemistry , Rud̵er Bošković Institute , Bijenička cesta 54 , 10000 Zagreb , Croatia
| | - Valerije Vrček
- Faculty of Pharmacy and Biochemistry , University of Zagreb , Ante Kovačića 1 , 10000 Zagreb , Croatia
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Okamoto K, Shoji T, Tsutsui M, Shida N, Chiba K. Synthesis of Ribo-Azanucleosides by Anodic Oxidation: Reactivity Control of Intermediate for Efficient Access to Pharmacophores. Chemistry 2018; 24:17902-17905. [PMID: 30216580 DOI: 10.1002/chem.201804285] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2018] [Indexed: 11/11/2022]
Abstract
Azanucleosides, the sugar-modified nucleoside analogues, have various biological activities, while their efficient synthetic strategy is still under development. Herein, a novel method for the synthesis of pharmaceutically relevant azanucleosides, β-anomers of ribo-azanucleosides, by means of site-specific anodic C-H activation by using a nitroalkane-lithium perchlorate medium is reported. A mechanistic study of the electrochemical reaction and the armed/disarmed concept from traditional glycochemistry revealed that the 2'-substituent has a significant effect on the reactivity of prolinol derivative, and suitable carboxylic acid additives can control the reactivity of the intermediate species, an iminium cation equivalent. Finally, this method was demonstrated to be applicable for the synthesis of β-anomers of ribo-azanucleosides with all four nucleobases in a stereoselective manner.
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Affiliation(s)
- Kazuhiro Okamoto
- Department of Applied Biological Science, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu, Tokyo, 183-8509, Japan
| | - Takao Shoji
- Department of Applied Biological Science, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu, Tokyo, 183-8509, Japan
| | - Mizuki Tsutsui
- Department of Applied Biological Science, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu, Tokyo, 183-8509, Japan
| | - Naoki Shida
- Department of Applied Biological Science, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu, Tokyo, 183-8509, Japan
| | - Kazuhiro Chiba
- Department of Applied Biological Science, Tokyo University of Agriculture and Technology, 3-5-8 Saiwai-cho, Fuchu, Tokyo, 183-8509, Japan
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Shoji T, Kim S, Chiba K. Synthesis of Azanucleosides by Anodic Oxidation in a Lithium Perchlorate-Nitroalkane Medium and Diversification at the 4′-Nitrogen Position. Angew Chem Int Ed Engl 2017; 56:4011-4014. [DOI: 10.1002/anie.201700547] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2017] [Indexed: 12/17/2022]
Affiliation(s)
- Takao Shoji
- Department of Applied Biological Science; Tokyo University of Agriculture and Technology; 3-5-8 Saiwai-cho, Fuchu Tokyo 183-8509 Japan
| | - Shokaku Kim
- Department of Applied Biological Science; Tokyo University of Agriculture and Technology; 3-5-8 Saiwai-cho, Fuchu Tokyo 183-8509 Japan
| | - Kazuhiro Chiba
- Department of Applied Biological Science; Tokyo University of Agriculture and Technology; 3-5-8 Saiwai-cho, Fuchu Tokyo 183-8509 Japan
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Shoji T, Kim S, Chiba K. Synthesis of Azanucleosides by Anodic Oxidation in a Lithium Perchlorate-Nitroalkane Medium and Diversification at the 4′-Nitrogen Position. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201700547] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Takao Shoji
- Department of Applied Biological Science; Tokyo University of Agriculture and Technology; 3-5-8 Saiwai-cho, Fuchu Tokyo 183-8509 Japan
| | - Shokaku Kim
- Department of Applied Biological Science; Tokyo University of Agriculture and Technology; 3-5-8 Saiwai-cho, Fuchu Tokyo 183-8509 Japan
| | - Kazuhiro Chiba
- Department of Applied Biological Science; Tokyo University of Agriculture and Technology; 3-5-8 Saiwai-cho, Fuchu Tokyo 183-8509 Japan
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Catalano MJ, Liu S, Andersen N, Yang Z, Johnson KM, Price NE, Wang Y, Gates KS. Chemical structure and properties of interstrand cross-links formed by reaction of guanine residues with abasic sites in duplex DNA. J Am Chem Soc 2015; 137:3933-45. [PMID: 25710271 DOI: 10.1021/jacs.5b00669] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
A new type of interstrand cross-link resulting from the reaction of a DNA abasic site with a guanine residue on the opposing strand of the double helix was recently identified, but the chemical connectivity of the cross-link was not rigorously established. The work described here was designed to characterize the chemical structure and properties of dG-AP cross-links generated in duplex DNA. The approach involved characterization of the nucleoside cross-link "remnant" released by enzymatic digestion of DNA duplexes containing the dG-AP cross-link. We first carried out a chemical synthesis and complete spectroscopic structure determination of the putative cross-link remnant 9b composed of a 2-deoxyribose adduct attached to the exocyclic N(2)-amino group of dG. A reduced analogue of the cross-link remnant was also prepared (11b). Liquid chromatography-tandem mass spectrometric (LC-MS/MS) analysis revealed that the retention times and mass spectral properties of synthetic standards 9b and 11b matched those of the authentic cross-link remnants released by enzymatic digestion of duplexes containing the native and reduced dG-AP cross-link, respectively. These results establish the chemical connectivity of the dG-AP cross-link released from duplex DNA and provide a foundation for detection of this lesion in biological samples. The dG-AP cross-link in duplex DNA was remarkably stable, decomposing with a half-life of 22 days at pH 7 and 23 °C. The intrinsic chemical stability of the dG-AP cross-link suggests that this lesion in duplex DNA may have the power to block DNA-processing enzymes involved in transcription and replication.
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Affiliation(s)
| | - Shuo Liu
- ‡Environmental Toxicology Graduate Program and Department of Chemistry, University of California-Riverside, Riverside, California 92521-0403, United States
| | - Nisana Andersen
- ‡Environmental Toxicology Graduate Program and Department of Chemistry, University of California-Riverside, Riverside, California 92521-0403, United States
| | | | | | | | - Yinsheng Wang
- ‡Environmental Toxicology Graduate Program and Department of Chemistry, University of California-Riverside, Riverside, California 92521-0403, United States
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Núñez MC, Pavani MG, Díaz-Gavilán M, Rodríguez-Serrano F, Gómez-Vidal JA, Marchal JA, Aránega A, Gallo MA, Espinosa A, Campos JM. Synthesis and anticancer activity studies of novel 1-(2,3-dihydro-5H-1,4-benzodioxepin-3-yl)uracil and (6′-substituted)-7- or 9-(2,3-dihydro-5H-1,4-benzodioxepin-3-yl)-7H- or 9H-purines. Tetrahedron 2006. [DOI: 10.1016/j.tet.2006.09.039] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Mereyala HB, Mamidyala SK. The synthesis of [([beta-D-ribofuranosyloxy)methyl]nucleosides. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2005; 23:655-69. [PMID: 15200029 DOI: 10.1081/ncn-120030722] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
The coupling reaction of acetoxymethoxy ribofuranoside 4 with nucleic acid bases 5a-f to synthesize novel (ribofuranosyloxy)methyl uracil, thymine, cytosine, adenine, guanine derivatives 6a-g respectively in preference to the expected formation of natural nucleosides 2',3',5'-tri-O-benzoyl uridine, methyluridine, cytidine, adenosine and guanosine 7a-g is described. Detailed study of these reactions catalysed by Lewis acids TMSOTf and SnCl4 is described. TMSOTf exhibited selectivity for the formation of ribofuranosyloxy methyl derivatives 6a-g rather than 7a-g. Reason for formation of 6a-g is explained by HSAB principle.
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Affiliation(s)
- Hari Babu Mereyala
- Gas Based Chemicals and Processes Division, Indian Institute of Chemical Technology, Tarnaka, Hyderabad, India.
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