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Zhu YY, Niu Y, Niu YN, Yang SD. Recent advances in the synthesis and applications of phosphoramides. Org Biomol Chem 2021; 19:10296-10313. [PMID: 34812834 DOI: 10.1039/d1ob01566d] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Phosphoramide, as an important framework of many biologically active molecules, has attracted widespread attention in recent decades. It is not only widely used in pharmaceuticals because of its excellent biological activities, but it also shows good performance in organic dyes, flame retardants and extractors. Thus, it is of great significance to develop effective and convenient methods for the synthesis of phosphoramides. In this review, the recent advancements made in the synthesis routes and applications of phosphoramides are discussed. The synthetic strategies of phosphoramides can be separated into five categories: phosphorus halides as the substrate, phosphates as the substrate, phosphorus hydrogen as the substrate, azides as the substrate and other methods. The latest examples of these methods are provided and some representative mechanisms are also described.
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Affiliation(s)
- Yuan-Yuan Zhu
- State Key Laboratory of Applied Organic Chemistry, Lanzhou University, Lanzhou 730000, China.
| | - Yuan Niu
- State Key Laboratory of Applied Organic Chemistry, Lanzhou University, Lanzhou 730000, China.
| | - Yan-Ning Niu
- Department of Teaching and Research, Nanjing Forestry University, Huaian 223003, P. R. China
| | - Shang-Dong Yang
- State Key Laboratory of Applied Organic Chemistry, Lanzhou University, Lanzhou 730000, China.
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2
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Chudasama NA, Sequeira RA, Moradiya K, Prasad K. Seaweed Polysaccharide Based Products and Materials: An Assessment on Their Production from a Sustainability Point of View. Molecules 2021; 26:2608. [PMID: 33947023 PMCID: PMC8124237 DOI: 10.3390/molecules26092608] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2021] [Revised: 04/22/2021] [Accepted: 04/26/2021] [Indexed: 11/21/2022] Open
Abstract
Among the various natural polymers, polysaccharides are one of the oldest biopolymers present on the Earth. They play a very crucial role in the survival of both animals and plants. Due to the presence of hydroxyl functional groups in most of the polysaccharides, it is easy to prepare their chemical derivatives. Several polysaccharide derivatives are widely used in a number of industrial applications. The polysaccharides such as cellulose, starch, chitosan, etc., have several applications but due to some distinguished characteristic properties, seaweed polysaccharides are preferred in a number of applications. This review covers published literature on the seaweed polysaccharides, their origin, and extraction from seaweeds, application, and chemical modification. Derivatization of the polysaccharides to impart new functionalities by chemical modification such as esterification, amidation, amination, C-N bond formation, sulphation, acetylation, phosphorylation, and graft copolymerization is discussed. The suitability of extraction of seaweed polysaccharides such as agar, carrageenan, and alginate using ionic solvent systems from a sustainability point of view and future prospects for efficient extraction and functionalization of seaweed polysaccharides is also included in this review article.
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Affiliation(s)
- Nishith A. Chudasama
- P. D. Patel Institute of Applied Sciences, CHARUSAT Campus, Charotar University of Sciences and Technology, Changa 388421, India;
- Natural Products & Green Chemistry Division, CSIR-Central Salt and Marine Chemicals Research Institute, Gijubhai Badheka Marg, Bhavnagar 364002, India; (R.A.S.); (K.M.)
| | - Rosy Alphons Sequeira
- Natural Products & Green Chemistry Division, CSIR-Central Salt and Marine Chemicals Research Institute, Gijubhai Badheka Marg, Bhavnagar 364002, India; (R.A.S.); (K.M.)
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Kinjal Moradiya
- Natural Products & Green Chemistry Division, CSIR-Central Salt and Marine Chemicals Research Institute, Gijubhai Badheka Marg, Bhavnagar 364002, India; (R.A.S.); (K.M.)
| | - Kamalesh Prasad
- Natural Products & Green Chemistry Division, CSIR-Central Salt and Marine Chemicals Research Institute, Gijubhai Badheka Marg, Bhavnagar 364002, India; (R.A.S.); (K.M.)
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
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3
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Srivastava A, Yesudhas D, Ramakrishnan C, Ahmad S, Gromiha MM. Role of disordered regions in transferring tyrosine to its cognate tRNA. Int J Biol Macromol 2020; 150:705-713. [PMID: 32057853 DOI: 10.1016/j.ijbiomac.2020.02.070] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Revised: 01/16/2020] [Accepted: 02/08/2020] [Indexed: 10/25/2022]
Abstract
Aminoacyl tRNA synthetase (AARS) plays an important role in transferring each amino acid to its cognate tRNA. Specifically, tyrosyl tRNA synthetase (TyrRS) is involved in various functions including protection from DNA damage due to oxidative stress, protein synthesis and cell signaling and can be an attractive target for controlling the pathogens by early inhibition of translation. TyrRS has two disordered regions, which lack a stable 3D structure in solution, and are involved in tRNA synthetase catalysis and stability. One of the disordered regions undergoes disorder-to-order transition (DOT) upon complex formation with tRNA whereas the other remains disordered (DR). In this work, we have explored the importance of these disordered regions using molecular dynamics simulations of both free and RNA-complexed states. We observed that the DOT and DR regions of the first subunit acts as a flap and interact with the acceptor arm of the tRNA. The DOT-DR flap closes when tyrosine (TyrRSTyr) is present at the active site of the complex and opens in the presence of tyrosine monophosphate (TyrRSYMP). The DOT and DR regions of the second subunit interact with the anticodon stem as well as D-loop of the tRNA, which might be involved in stabilizing the complex. The anticodon loop of the tRNA binds to the structured region present in the C-terminal of the protein, which is observed to be flexible during simulations. Detailed energy calculations also show that TyrRSTyr complex has stronger binding energy between tRNA and protein compared to TyrRSYMP; on the contrary, the anticodon is strongly bound in TyrRSYMP. The results obtained in the present study provide additional insights for understanding catalysis and the involvement of disordered regions in Tyr transfer to cognate tRNA.
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Affiliation(s)
- Ambuj Srivastava
- Department of Biotechnology, Bhupat and Jyoti Mehta School of Biosciences, Indian Institute of Technology Madras, Chennai 600036, Tamil Nadu, India
| | - Dhanusha Yesudhas
- Department of Biotechnology, Bhupat and Jyoti Mehta School of Biosciences, Indian Institute of Technology Madras, Chennai 600036, Tamil Nadu, India
| | - Chandrasekaran Ramakrishnan
- Department of Biotechnology, Bhupat and Jyoti Mehta School of Biosciences, Indian Institute of Technology Madras, Chennai 600036, Tamil Nadu, India
| | - Shandar Ahmad
- School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi 110067, India
| | - M Michael Gromiha
- Department of Biotechnology, Bhupat and Jyoti Mehta School of Biosciences, Indian Institute of Technology Madras, Chennai 600036, Tamil Nadu, India.
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Avula S, Malladi S, Karthik P, Sonti Reddy R, Vasumathi Reddy K. Microwave‐Assisted Synthesis of Novel Spiro Phosphonyl Thiazolo Pyrazole Glycosides as Potential Nematicidal Agents. J Heterocycl Chem 2019. [DOI: 10.1002/jhet.3498] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Srinivas Avula
- Department of Chemistry Vaagdevi Degree & PG College Kishanpura Warangal Telangana 506001 India
| | - Sunitha Malladi
- Department of Chemistry Jayamukhi Institute of Technological Sciences Makdumpuram Telangana 506332 India
| | - Pulluri Karthik
- Department of Chemistry Vaagdevi Degree & PG College Kishanpura Warangal Telangana 506001 India
| | - Rajitha Sonti Reddy
- Department of Chemistry Vaagdevi Degree & PG College Kishanpura Warangal Telangana 506001 India
| | - Koduri Vasumathi Reddy
- Department of Zoology Vaagdevi Degree & PG College Kishanpura Warangal Telangana 506001 India
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Shelke AM, Suryavanshi G. An efficient one pot regioselective synthesis of a 3,3'-spiro-phosphonylpyrazole-oxindole framework via base mediated [1,3]-dipolar cycloaddition reaction of the Bestmann-Ohira reagent with methyleneindolinones. Org Biomol Chem 2015; 13:8669-75. [PMID: 26177837 DOI: 10.1039/c5ob01020a] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A one pot, highly regioselective synthesis of racemic 3,3'-spiro-phosphonylpyrazole-oxindole by 1,3-dipolar cycloaddition of an in situ generated anion of dialkyl 1-diazomethylphosphonate from the Bestmann-Ohira reagent (BOR) & methyleneindolinones has been developed. The synthesis affords the highly functionalized pyrazole scaffolds in good yields with excellent regioselectivity under mild reaction conditions within a short reaction time.
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Affiliation(s)
- Anil M Shelke
- Chemical Engineering & Process Development Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, Maharashtra, India-411008.
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Samaritoni JG, Copes AT, Crews DK, Glos C, Thompson AL, Wilson C, O'Donnell MJ, Scott WL. Unexpected hydrolytic instability of N-acylated amino acid amides and peptides. J Org Chem 2014; 79:3140-51. [PMID: 24617596 PMCID: PMC3985854 DOI: 10.1021/jo500273f] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
![]()
Remote amide bonds in simple N-acyl
amino acid amide or peptide
derivatives 1 can be surprisingly unstable hydrolytically,
affording, in solution, variable amounts of 3 under mild
acidic conditions, such as trifluoroacetic acid/water mixtures at
room temperature. This observation has important implications for
the synthesis of this class of compounds, which includes N-terminal-acylated
peptides. We describe the factors contributing to this instability
and how to predict and control it. The instability is a function of
the remote acyl group, R2CO, four bonds away from the site
of hydrolysis. Electron-rich acyl R2 groups accelerate
this reaction. In the case of acyl groups derived from substituted
aromatic carboxylic acids, the acceleration is predictable from the
substituent’s Hammett σ value. N-Acyl dipeptides are
also hydrolyzed under typical cleavage conditions. This suggests that
unwanted peptide truncation may occur during synthesis or prolonged
standing in solution when dipeptides or longer peptides are acylated
on the N-terminus with electron-rich aromatic groups. When amide hydrolysis
is an undesired secondary reaction, as can be the case in the trifluoroacetic
acid-catalyzed cleavage of amino acid amide or peptide derivatives 1 from solid-phase resins, conditions are provided to minimize
that hydrolysis.
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Affiliation(s)
- J Geno Samaritoni
- Department of Chemistry and Chemical Biology, Indiana University Purdue University Indianapolis , Indianapolis, Indiana 46202, United States
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7
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Kale RR, Prasad V, Kushwaha D, Tiwari VK. Benzotriazole-Mediated Facile Synthesis of Novel Glycosyl Tetrazole. J Carbohydr Chem 2012. [DOI: 10.1080/07328303.2011.652790] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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8
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Wang Z, Dang L, Han Y, Jiang P, Wei H. Crystallization control of thermal stability and morphology of hen egg white lysozyme crystals by ionic liquids. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2010; 58:5444-5448. [PMID: 20201575 DOI: 10.1021/jf1000343] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Ionic liquids (ILs) exhibit a variety of properties that make them attractive additives for biomaterials. 1-Butyl-3-methylimidazolium tetrafluoroborate ([C(4)mim]BF(4)), 1-butyl-3-methylimidazolium chloride ([C(4)mim]Cl), 1-butyl-3-methylimidazolium bromide ([C(4)mim]Br), and 1,3-dimethylimidazolium iodine([bmim]I), as additives during lysozyme crystallization, were tested for their effects on the thermal stability and morphology of lysozyme crystals obtained. [C(4)mim]Cl was chosen to evaluate the effect of IL addition concentration on the thermal stability of lysozyme. It is shown that the characteristic peak temperature and endothermic enthalpy values (DeltaH) for denaturation increase with increasing addition concentration. As for the degradation, peak temperatures decrease, whereas endothermic enthalpy values markedly increase with the rise of [C(4)mim]Cl addition concentration. In the case of adding [C(4)mim]BF(4), [C(4)mim]Br, and [bmim]I, similar thermal behaviors of lysozyme crystals were observed. The effect of ILs on thermal behaviors of lysozyme can be attributed to enhancing crystal contacts, changing conformational stability, or interaction among molecules, as evidenced by difference in crystal growth morphology. This study is especially helpful in controlling the thermal stability of lysozyme crystals and in gaining initial insight into potential crystallization conditions for prescreening ILs that stabilize the protein and other macromolecule crystals.
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Affiliation(s)
- Zhanzhong Wang
- School of Agriculture and Bioengineering, Tianjin University, Tianjin, People's Republic of China
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Mohanan K, Martin A, Toupet L, Smietana M, Vasseur JJ. Three-Component Reaction Using the Bestmann-Ohira Reagent: A Regioselective Synthesis of Phosphonyl Pyrazole Rings. Angew Chem Int Ed Engl 2010; 49:3196-9. [DOI: 10.1002/anie.200906781] [Citation(s) in RCA: 103] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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10
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Mohanan K, Martin A, Toupet L, Smietana M, Vasseur JJ. Three-Component Reaction Using the Bestmann-Ohira Reagent: A Regioselective Synthesis of Phosphonyl Pyrazole Rings. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.200906781] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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11
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Dabkowski W, Kazimierczak Ł. O-Methyl-bis-O-(4-nitrophenyl)phosphite: a novel chemoselective O-phosphitylating reagent. Tetrahedron Lett 2009. [DOI: 10.1016/j.tetlet.2009.06.102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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12
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Toumi M, Rincheval V, Young A, Gergeres D, Turos E, Couty F, Mignotte B, Evano G. A General Route to Cyclopeptide Alkaloids: Total Syntheses and Biological Evaluation of Paliurines E and F, Ziziphines N and Q, Abyssenine A, Mucronine E, and Analogues. European J Org Chem 2009. [DOI: 10.1002/ejoc.200900122] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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13
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Qu GR, Xia R, Yang XN, Li JG, Wang DC, Guo HM. Synthesis of Novel C6-Phosphonated Purine Nucleosides under Microwave Irradiation by SNAr−Arbuzov Reaction. J Org Chem 2008; 73:2416-9. [DOI: 10.1021/jo702680p] [Citation(s) in RCA: 58] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Gui-Rong Qu
- College of Chemistry and Environmental Science, Henan Normal University, Xinxiang 453007, Henan, P. R. China
| | - Ran Xia
- College of Chemistry and Environmental Science, Henan Normal University, Xinxiang 453007, Henan, P. R. China
| | - Xi-Ning Yang
- College of Chemistry and Environmental Science, Henan Normal University, Xinxiang 453007, Henan, P. R. China
| | - Jian-Guo Li
- College of Chemistry and Environmental Science, Henan Normal University, Xinxiang 453007, Henan, P. R. China
| | - Dong-Chao Wang
- College of Chemistry and Environmental Science, Henan Normal University, Xinxiang 453007, Henan, P. R. China
| | - Hai-Ming Guo
- College of Chemistry and Environmental Science, Henan Normal University, Xinxiang 453007, Henan, P. R. China
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Tsunoda M, Kusakabe Y, Tanaka N, Ohno S, Nakamura M, Senda T, Moriguchi T, Asai N, Sekine M, Yokogawa T, Nishikawa K, Nakamura KT. Structural basis for recognition of cognate tRNA by tyrosyl-tRNA synthetase from three kingdoms. Nucleic Acids Res 2007; 35:4289-300. [PMID: 17576676 PMCID: PMC1934993 DOI: 10.1093/nar/gkm417] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2007] [Revised: 05/08/2007] [Accepted: 05/08/2007] [Indexed: 11/13/2022] Open
Abstract
The specific aminoacylation of tRNA by tyrosyl-tRNA synthetases (TyrRSs) relies on the identity determinants in the cognate tRNA(Tyr)s. We have determined the crystal structure of Saccharomyces cerevisiae TyrRS (SceTyrRS) complexed with a Tyr-AMP analog and the native tRNA(Tyr)(GPsiA). Structural information for TyrRS-tRNA(Tyr) complexes is now full-line for three kingdoms. Because the archaeal/eukaryotic TyrRSs-tRNA(Tyr)s pairs do not cross-react with their bacterial counterparts, the recognition modes of the identity determinants by the archaeal/eukaryotic TyrRSs were expected to be similar to each other but different from that by the bacterial TyrRSs. Interestingly, however, the tRNA(Tyr) recognition modes of SceTyrRS have both similarities and differences compared with those in the archaeal TyrRS: the recognition of the C1-G72 base pair by SceTyrRS is similar to that by the archaeal TyrRS, whereas the recognition of the A73 by SceTyrRS is different from that by the archaeal TyrRS but similar to that by the bacterial TyrRS. Thus, the lack of cross-reactivity between archaeal/eukaryotic and bacterial TyrRS-tRNA(Tyr) pairs most probably lies in the different sequence of the last base pair of the acceptor stem (C1-G72 vs G1-C72) of tRNA(Tyr). On the other hand, the recognition mode of Tyr-AMP is conserved among the TyrRSs from the three kingdoms.
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Affiliation(s)
- Masaru Tsunoda
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Yoshio Kusakabe
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Nobutada Tanaka
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Satoshi Ohno
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Masashi Nakamura
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Toshiya Senda
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Tomohisa Moriguchi
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Norio Asai
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Mitsuo Sekine
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Takashi Yokogawa
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Kazuya Nishikawa
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
| | - Kazuo T. Nakamura
- School of Pharmaceutical Sciences, Showa University, 1-5-8 Hatanodai, Shinagawa-ku, Tokyo 142-8555, Japan, Department of Biomolecular Science, Faculty of Engineering, Gifu University, 1-1 Yanagido, Gifu 501-1193, Japan, Biological Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-41-6 Aomi, Koto-ku, Tokyo 135-0064, Japan and Department of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259 Nagatsuda-cho, Midori-ku, Yokohama 226-8501, Japan
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15
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Rauter AP, Padilha M, Figueiredo JA, Ismael MI, Justino J, Ferreira H, Ferreira MJ, Rajendran C, Wilkins R, Vaz PD, Calhorda MJ. Bioactive Pseudo‐C‐nucleosides Containing Thiazole, Thiazolidinone, and Tetrazole Rings. J Carbohydr Chem 2006. [DOI: 10.1081/car-200060396] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Amélia P. Rauter
- a Departamento de Química e Bioquímica , Faculdade de Ciências da Universidade de Lisboa , Campo Grande, Lisboa, Portugal
| | - Mária Padilha
- a Departamento de Química e Bioquímica , Faculdade de Ciências da Universidade de Lisboa , Campo Grande, Lisboa, Portugal
| | - José A. Figueiredo
- b Departamento de Química da Universidade da Beira Interior , Unidade I&D de Materiais Têxteis e Papeleiros , Covilhã, Portugal
| | - Maria I. Ismael
- b Departamento de Química da Universidade da Beira Interior , Unidade I&D de Materiais Têxteis e Papeleiros , Covilhã, Portugal
| | - Jorge Justino
- c Escola Superior Agrária—Instituto Politécnico de Santarém , Santarém, Portugal
| | - Humberto Ferreira
- d Centro de Química Estrutural do Instituto Superior Técnico , Lisboa, Portugal
| | - Maria J. Ferreira
- d Centro de Química Estrutural do Instituto Superior Técnico , Lisboa, Portugal
| | | | - Richard Wilkins
- e School of Biology , University of Newcastle , Newcastle upon Tyne, UK
| | - Pedro D. Vaz
- a Departamento de Química e Bioquímica , Faculdade de Ciências da Universidade de Lisboa , Campo Grande, Lisboa, Portugal
- f ITQB, UNL , Oeiras, Portugal
| | - M. J. Calhorda
- a Departamento de Química e Bioquímica , Faculdade de Ciências da Universidade de Lisboa , Campo Grande, Lisboa, Portugal
- f ITQB, UNL , Oeiras, Portugal
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16
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Metlitskaya A, Kazakov T, Kommer A, Pavlova O, Praetorius-Ibba M, Ibba M, Krasheninnikov I, Kolb V, Khmel I, Severinov K. Aspartyl-tRNA Synthetase Is the Target of Peptide Nucleotide Antibiotic Microcin C. J Biol Chem 2006; 281:18033-42. [PMID: 16574659 DOI: 10.1074/jbc.m513174200] [Citation(s) in RCA: 122] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Microcin C is a ribosome-synthesized heptapeptide that contains a modified adenosine monophosphate covalently attached to the C-terminal aspartate. Microcin C is a potent inhibitor of bacterial cell growth. Based on the in vivo kinetics of inhibition of macromolecular synthesis, Microcin C targets translation, through a mechanism that remained undefined. Here, we show that Microcin C is a subject of specific degradation inside the sensitive cell. The product of degradation, a modified aspartyl-adenylate containing an N-acylphosphoramidate linkage, strongly inhibits translation by blocking the function of aspartyl-tRNA synthetase.
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17
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Abstract
Modern clinical treatments of childhood acute lymphoblastic leukemia (ALL) employ enzyme-based methods for depletion of blood asparagine in combination with standard chemotherapeutic agents. Significant side effects can arise in these protocols and, in many cases, patients develop drug-resistant forms of the disease that may be correlated with up-regulation of the enzyme glutamine-dependent asparagine synthetase (ASNS). Though the precise molecular mechanisms that result in the appearance of drug resistance are the subject of active study, potent ASNS inhibitors may have clinical utility in treating asparaginase-resistant forms of childhood ALL. This review provides an overview of recent developments in our understanding of (a) the structure and catalytic mechanism of ASNS, and (b) the role that ASNS may play in the onset of drug-resistant childhood ALL. In addition, the first successful, mechanism-based efforts to prepare and characterize nanomolar ASNS inhibitors are discussed, together with the implications of these studies for future efforts to develop useful drugs.
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Affiliation(s)
| | - Michael S. Kilberg
- Department of Biochemistry and Molecular Biology, University of Florida, Gainesville, Florida 32611;
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18
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Sekine M, Okada K, Seio K, Obata T, Sasaki T, Kakeya H, Osada H. Synthesis of a biotin-conjugate of phosmidosine O-ethyl ester as a G1 arrest antitumor drug. Bioorg Med Chem 2005; 12:6343-9. [PMID: 15556753 DOI: 10.1016/j.bmc.2004.09.037] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2004] [Revised: 09/22/2004] [Accepted: 09/22/2004] [Indexed: 11/21/2022]
Abstract
This paper deals with the synthesis of a stable biotin-phosmidosine conjugate molecule 3 that is required for isolation of biomolecules that bind to phosmidosine (1). It was found that introduction of a biotin residue into the 6-N position of phosmidosine could be carried out by reaction of an N7-Boc-7,8-dihydro-8-oxoadenosine derivative 13 with phenyl chloroformate followed by displacement with a diamine derivative 6 along with the simultaneous removal of the Boc group and one of the two phenoxycarbonyl groups and the successive condensation with an N-tritylated biotin derivative 5. The condensation of an N-prolylphosphorodiamidite derivative 4 with an appropriately protected 7,8-dihydro-8-oxoadenosine derivative 17 having the biotin residue gave the coupling product 18, which was deprotected to give the biotin-phosmidosine (O-ethyl ester) conjugate 3.
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Affiliation(s)
- Mitsuo Sekine
- Department of Life Science, Tokyo Institute of Technology, 4259 Nagatsuta, Midori-ku, Yokohama 226-8503, Japan.
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19
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Structure-activity relationship of phosmidosine: importance of the 7,8-dihydro-8-oxoadenosine residue for antitumor activity. Bioorg Med Chem 2005; 12:5193-201. [PMID: 15351402 DOI: 10.1016/j.bmc.2004.07.021] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2004] [Revised: 07/08/2004] [Accepted: 07/08/2004] [Indexed: 10/26/2022]
Abstract
To study the structure-activity relationship of phosmidosine, a variety of phosmidosine derivatives 9a-g were synthesized by condensation of N-diisopropyl N'-(N-tritylprolyl)phosphorodiamidite 6 with appropriately protected nucleoside derivatives 7a-g. As the result, replacement of the 7,8-dihydro-8-oxoadenine base by adenine and 6-N-acetyladenine did not affect the antitumor activity. However, phosmidosine derivatives containing uracil, cytosine, and guanine in place of the 7,8-dihydro-8-oxoadenine base did not show significant activity. A plausible explanation for the selective expression of phosmidosine compared with that of phosmidosine analogs having other amino acids in place of proline is also discussed. These results suggest that phosmidosine serves as an inhibitor of prolyl adenosine 5'-phosphate (prolyl-AMP) to inhibit the peptide synthesis in cancer-related cells.
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20
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Ohkubo A, Ezawa Y, Seio K, Sekine M. O-selectivity and utility of phosphorylation mediated by phosphite triester intermediates in the N-unprotected phosphoramidite method. J Am Chem Soc 2004; 126:10884-96. [PMID: 15339173 DOI: 10.1021/ja048125h] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Previously, O-selective phosphorylation on polymer supports in the N-unprotected phosphoramidite method could not be carried out because the amino groups of dA and dC have high reactivity toward tervalent phosphorus(III)-type phosphitylating reagents. In this paper, we developed a new coupling strategy named the "activated phosphite method" in which the phosphitylation is mediated by phosphite triester intermediates 1. Application of 1-hydroxybenzotriazole as the promoter to the solid-phase synthesis resulted in excellent O-selectivity of more than 99.7%. This O-selectivity was explained by the frontier molecular orbital interactions between the reactive intermediates and the nucleophiles such as the amino or hydroxyl groups of nucleosides. Furthermore, longer oligonucleotides were synthesized not only by a manual operation but also by a DNA synthesizer. The utility of our new method was demonstrated by the successful synthesis of a base-labile modified oligodeoxyribonucleotide having 4-N-acetyldeoxycytidine residues. Finally, DNA 20-mers containing dA or dC could be synthesized in good yields by use of a combined reagent of 6-trifluoromethyl-1-hydroxybenzotriazole and benzimidazolium triflate.
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Affiliation(s)
- Akihiro Ohkubo
- Contribution from the Department of Life Science, Tokyo Institute of Technology, Division of Bioscience and Biotechnology, Frontier Collaborative Research Center, 4259 Nagatsuta, Midoriku, Yokohama 226-8501, Japan
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21
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Baraniak J, Kaczmarek R, Wasilewska E, Korczyński D, Stec WJ. New approach to preparation of N-acylphosphoramido(thio)(seleno)ates. Tetrahedron Lett 2004. [DOI: 10.1016/j.tetlet.2004.04.023] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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22
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Rahier NJ, Eisenhauer BM, Gao R, Jones SH, Hecht SM. Water-Soluble Camptothecin Derivatives that Are Intrinsic Topoisomerase I Poisons. Org Lett 2004; 6:321-4. [PMID: 14748583 DOI: 10.1021/ol030119n] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
[structure: see text] In an effort to improve the water solubility of camptothecin, four 20-O-phosphate and phosphonate analogues have been prepared. These analogues are freely water soluble, stable at physiological pH, and stabilize the human topoisomerase I-DNA covalent binary complex with the same sequence selectivity as camptothecin itself. All four compounds inhibited the growth of yeast expressing human topoisomerase I in an enzyme-dependent fashion.
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Affiliation(s)
- Nicolas J Rahier
- Department of Chemistry, University of Virginia, Charlottesville, Virginia 22901, USA
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23
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Skropeta D, Schwörer R, Schmidt RR. Stereoselective synthesis of phosphoramidate alpha(2-6)sialyltransferase transition-state analogue inhibitors. Bioorg Med Chem Lett 2003; 13:3351-4. [PMID: 12951124 DOI: 10.1016/s0960-894x(03)00672-3] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The asymmetric synthesis of novel, potent phosphoramidate alpha(2-6)sialyltransferase transition-state analogue inhibitors such as (R)-9 (K(i)=68 microM) is described, via condensation of cytidine phosphitamide 6 with key chiral, non-racemic alpha-aminophosphonates, prepared in >98% ee by Mitsunobu azidation followed by Staudinger reduction of the corresponding chiral, non-racemic alpha-hydroxyphosphonates.
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Affiliation(s)
- Danielle Skropeta
- Fachbereich Chemie, Universitaet Konstanz, Fach M 725, D-78457 Konstanz, Germany.
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24
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Oh MK, Yang H, Roberts MF. Using O-(n-alkyl)-N-(N,N'-dimethylethyl)phosphoramidates to investigate the role of Ca2+ and interfacial binding in a bacterial phospholipase D. BIOCHIMICA ET BIOPHYSICA ACTA 2003; 1649:146-53. [PMID: 12878033 DOI: 10.1016/s1570-9639(03)00166-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
O-(n-alkyl)-N-(N,N'-dimethylethyl)phosphoramidates (n=6, 8, and 10; CnPNC) were synthesized and characterized as inhibitors of phospholipase D (PLD) activity toward phosphatidylcholine presented as monomers, micelles, and bilayers. Detailed studies with recombinant Streptomyces chromofuscus PLD, a Ca(2+)-activated enzyme that does not show large changes in catalytic activity toward the same substrate as a monomer or micelle, showed that the longer the inhibitor chain length, the more potent CnPNC is as a competitive inhibitor toward all the substrates. However, the physical state of the inhibitor did affect the maximum inhibition attainable. For a fixed concentration of diC4PC (monomer substrate), CnPNC inhibition reached a maximum around the CMC of the inhibitor; the inhibition was reduced at higher inhibitor concentrations, in part caused by the lower solubility of the aggregated inhibitor. With diC4PC as the substrate and using concentrations of C10PNC that were below its CMC, the Ki for C10PNC was 0.030+/-0.003 mM, approximately 13-fold less than the Km for substrate. Aggregated substrates showed significant inhibition of PLD by CnPNC, although as the substrate chain length increased, inhibition by a given CnPNC was diminished. With POPC vesicles, the apparent Ki for C10PNC was 0.030 of the apparent Km. The availability of these inhibitors allowed us to show that PC analogues can bind to the active site of S. chromofuscus PLD in the absence of Ca2+. Once bound at the active site, the inhibitor does not significantly affect the divalent ion-dependent partitioning of the enzyme to PC surfaces. Of the two other PLD enzymes examined, cabbage PLD, but not Streptomyces sp. PMF, was able to catalyze the cleavage of the P-N bond. Differential susceptibility of PLDs to these phosphoramidates may eventually be useful in studying PLD isozymes in cells.
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Affiliation(s)
- Mi-Kyung Oh
- Department of Chemistry, E.F. Merkert Chemistry Center, Boston College, Chestnut Hill, MA 02167, USA
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25
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Debéthune L, Marchán V, Fàbregas G, Pedroso E, Grandas A. Towards nucleopeptides containing any trifunctional amino acid (II). Tetrahedron 2002. [DOI: 10.1016/s0040-4020(02)00793-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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26
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Abstract
Stable analogues of acyladenylate intermediates, such as N-acylphosphoramidates, are useful probes of tRNA aminoacylation and enzyme mechanism, and have potential application as enzyme inhibitors. We now report a concise, "one-pot" synthesis of beta-asparaginyladenylate using a novel coupling protocol that yields the target N-acylphosphoramidate in three reactions from readily available precursors. This simple synthetic procedure may represent a general approach for the preparation of functionalized N-acylphosphoramidates from amides that do not undergo coupling under the conditions of existing literature protocols.
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Affiliation(s)
- Yun Ding
- Department of Chemistry, University of Florida, Gainesville 32611, USA
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27
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Moriguchi T, Asai N, Okada K, Seio K, Sasaki T, Sekine M. First synthesis and anticancer activity of phosmidosine and its related compounds. J Org Chem 2002; 67:3290-300. [PMID: 12003538 DOI: 10.1021/jo016176g] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
This paper describes the first synthesis of phosmidosine and phosmidosine B, i.e., nucleotide antibiotics composed of 8-oxoadenosine and L-proline which are connected via a unique N-acyl phosphoramidate linkage. Phosmidosine has a yet-undetermined chiral center at the phosphorus atom of the N-acyl phosphoramidate linkage. Phosmidosine B is a demethylated phosmidosine derivative with no chirality on the phosphorus. Phosmidosine B was successfully synthesized by the reaction of an N-acetyl-8-oxoadenosine 5'-O-phosphoramidite derivative with an N-protected prolinamide in the presence of 5-(3,5-dinitrophenyl)-1H-tetrazole. The successful synthesis of phosmidosine was achieved by use of a tert-butoxycarbonyl (Boc) group, which was found to be selectively introduced into the 7-NH function of 8-oxoadenosine and to serve as a pseudo-protecting group due to its steric effect in such manner that the unmasked 6-amino group was not phosphitylated. Final coupling reaction of the 8-oxoadenosine 5'-phosphoramidite derivative with N-tritylprolinamide followed by full deprotection gave a mixture of phosmidosine and its diastereoisomer. The (13)C NMR spectra of the diastereomers suggest that the slow-eluted diastereomer 1b is the naturally occurring phosmidosine. The growth inhibitory activity of phosmidosine 1b, its diastereomer 1a, and phosmidosine B in various tumor cell lines was evaluated by the MTT assay. As the result, phosmidosine B showed high anticancer activities and both the diastereomers 1a and 1b of phosmidosine isolated were found to have similar but approximately 10 times higher anticancer activities than phosmidosine B. Moreover, it turned out that these phosmidosine derivatives showed characteristic inhibitory activities against cancer cells independent of their p53 phenotypes. These results suggest that phosmidosine and its related compounds would be promising as a new type of anticancer agents having a wide range of inhibitory activities against tumor cells.
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Affiliation(s)
- Tomohisa Moriguchi
- Faculty of Life Science, Tokyo Institute of Technology, Nagatsuta, Midoriku, Yokohama 226-8501, Japan
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28
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Effect of molecular sieves in the liquid-phase synthesis of nucleotides via the phosphoramidite method. Tetrahedron 2001. [DOI: 10.1016/s0040-4020(01)00880-8] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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