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Tamburrini A, Colombo C, Bernardi A. Design and synthesis of glycomimetics: Recent advances. Med Res Rev 2020; 40:495-531. [DOI: 10.1002/med.21625] [Citation(s) in RCA: 50] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Revised: 06/06/2019] [Accepted: 07/09/2019] [Indexed: 12/16/2022]
Affiliation(s)
- Alice Tamburrini
- Dipartimento di ChimicaUniversita’ degli Studi di Milano Milano Italy
| | - Cinzia Colombo
- Dipartimento di ChimicaUniversita’ degli Studi di Milano Milano Italy
| | - Anna Bernardi
- Dipartimento di ChimicaUniversita’ degli Studi di Milano Milano Italy
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2
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Lu D, Zhu S, Sobala LF, Bernardo-Seisdedos G, Millet O, Zhang Y, Jiménez-Barbero J, Davies GJ, Sollogoub M. From 1,4-Disaccharide to 1,3-Glycosyl Carbasugar: Synthesis of a Bespoke Inhibitor of Family GH99 Endo-α-mannosidase. Org Lett 2018; 20:7488-7492. [PMID: 30427198 DOI: 10.1021/acs.orglett.8b03260] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Understanding the enzyme reaction mechanism can lead to the design of enzyme inhibitors. A Claisen rearrangement was used to allow conversion of an α-1,4-disaccharide into an α-1,3-linked glycosyl carbasugar to target the endo-α-mannosidase from the GH99 glycosidase family, which, unusually, is believed to act through a 1,2-anhydrosugar "epoxide" intermediate. Using NMR and X-ray crystallography, it is shown that glucosyl carbasugar α-aziridines can act as reasonably potent endo-α-mannosidase inhibitors, likely by virtue of their shape mimicry and the interactions of the aziridine nitrogen with the conserved catalytic acid/base of the enzyme active site.
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Affiliation(s)
- Dan Lu
- Sorbonne Université , CNRS, Institut Parisien de Chimie Moléculaire, UMR 8232 , 4 place Jussieu , 75005 Paris , France
| | - Sha Zhu
- Sorbonne Université , CNRS, Institut Parisien de Chimie Moléculaire, UMR 8232 , 4 place Jussieu , 75005 Paris , France
| | - Lukasz F Sobala
- York Structural Biology Laboratory, Department of Chemistry , University of York , York YO10 5DD , U.K
| | | | | | - Yongmin Zhang
- Sorbonne Université , CNRS, Institut Parisien de Chimie Moléculaire, UMR 8232 , 4 place Jussieu , 75005 Paris , France
| | - Jesus Jiménez-Barbero
- Ikerbasque, Basque Foundation for Science , Maria Diaz de Haro 3 , 48013 Bilbao , Spain
| | - Gideon J Davies
- York Structural Biology Laboratory, Department of Chemistry , University of York , York YO10 5DD , U.K
| | - Matthieu Sollogoub
- Sorbonne Université , CNRS, Institut Parisien de Chimie Moléculaire, UMR 8232 , 4 place Jussieu , 75005 Paris , France
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3
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Unione L, Xu B, Díaz D, Martín-Santamaría S, Poveda A, Sardinha J, Rauter AP, Blériot Y, Zhang Y, Cañada FJ, Sollogoub M, Jiménez-Barbero J. Conformational Plasticity in Glycomimetics: Fluorocarbamethyl-L-idopyranosides Mimic the Intrinsic Dynamic Behaviour of Natural Idose Rings. Chemistry 2015; 21:10513-21. [PMID: 26096911 DOI: 10.1002/chem.201501249] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2015] [Revised: 05/08/2015] [Indexed: 11/06/2022]
Abstract
Sugar function, structure and dynamics are intricately correlated. Ring flexibility is intrinsically related to biological activity; actually plasticity in L-iduronic rings modulates their interactions with biological receptors. However, the access to the experimental values of the energy barriers and free-energy difference for conformer interconversion in water solution has been elusive. Here, a new generation of fluorine-containing glycomimetics is presented. We have applied a combination of organic synthesis, NMR spectroscopy and computational methods to investigate the conformational behaviour of idose- and glucose-like rings. We have used low-temperature NMR spectroscopic experiments to slow down the conformational exchange of the idose-like rings. Under these conditions, the exchange rate becomes slow in the (19) F NMR spectroscopic chemical shift timescale and allows shedding light on the thermodynamic and kinetic features of the equilibrium. Despite the minimal structural differences between these compounds, a remarkable difference in their dynamic behaviour indeed occurs. The importance of introducing fluorine atoms in these sugars mimics is also highlighted. Only the use of (19) F NMR spectroscopic experiments has permitted the unveiling of key features of the conformational equilibrium that would have otherwise remained unobserved.
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Affiliation(s)
- Luca Unione
- Chemical and Physical Biology Department, Centro de Investigaciones Biológicas, CIB-CSIC, Ramiro de Maeztu 9, 28040 Madrid (Spain).,Infectious Disease Programme, CIC bioGUNE, 48160 Derio, Bizkaia (Spain)
| | - Bixue Xu
- Sorbonne Universités, UPMC Univ Paris 06, Institut Universitaire de France, UMR CNRS 8232, IPCM, 4, place Jussieu, 75005 Paris (France).,Present address: The Key Laboratory of Chemistry for Natural Products of Guizhou Province and Chinese Academy of Sciences, 202 Shachong South Road, Guiyang, 550002 (P. R. China)
| | - Dolores Díaz
- Chemical and Physical Biology Department, Centro de Investigaciones Biológicas, CIB-CSIC, Ramiro de Maeztu 9, 28040 Madrid (Spain)
| | - Sonsoles Martín-Santamaría
- Chemical and Physical Biology Department, Centro de Investigaciones Biológicas, CIB-CSIC, Ramiro de Maeztu 9, 28040 Madrid (Spain)
| | - Ana Poveda
- Infectious Disease Programme, CIC bioGUNE, 48160 Derio, Bizkaia (Spain)
| | - João Sardinha
- Sorbonne Universités, UPMC Univ Paris 06, Institut Universitaire de France, UMR CNRS 8232, IPCM, 4, place Jussieu, 75005 Paris (France).,Centro de Química e Bioquímica, Faculdade de Ciências da Universidade de Lisboa, Edifício C8, 1749-016 Lisboa (Portugal)
| | - Amelia Pilar Rauter
- Centro de Química e Bioquímica, Faculdade de Ciências da Universidade de Lisboa, Edifício C8, 1749-016 Lisboa (Portugal)
| | - Yves Blériot
- Université de Poitiers, UMR CNRS 7285, IC2MP, Equipe Synthèse organique, Groupe Glycochimie, 4, avenue Michel Brunet, 86022 Poitiers Cedex (France)
| | - Yongmin Zhang
- Sorbonne Universités, UPMC Univ Paris 06, Institut Universitaire de France, UMR CNRS 8232, IPCM, 4, place Jussieu, 75005 Paris (France)
| | - F Javier Cañada
- Chemical and Physical Biology Department, Centro de Investigaciones Biológicas, CIB-CSIC, Ramiro de Maeztu 9, 28040 Madrid (Spain)
| | - Matthieu Sollogoub
- Sorbonne Universités, UPMC Univ Paris 06, Institut Universitaire de France, UMR CNRS 8232, IPCM, 4, place Jussieu, 75005 Paris (France).
| | - Jesus Jiménez-Barbero
- Chemical and Physical Biology Department, Centro de Investigaciones Biológicas, CIB-CSIC, Ramiro de Maeztu 9, 28040 Madrid (Spain). .,Infectious Disease Programme, CIC bioGUNE, 48160 Derio, Bizkaia (Spain). .,IKERBASQUE, Basque Foundation for Science, 48011 Bilbao (Spain).
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4
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Xu B, Unione L, Sardinha J, Wu S, Ethève-Quelquejeu M, Pilar Rauter A, Blériot Y, Zhang Y, Martín-Santamaría S, Díaz D, Jiménez-Barbero J, Sollogoub M. gem-Difluorocarbadisaccharides: Restoring theexo-Anomeric Effect. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201405008] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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5
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Xu B, Unione L, Sardinha J, Wu S, Ethève-Quelquejeu M, Pilar Rauter A, Blériot Y, Zhang Y, Martín-Santamaría S, Díaz D, Jiménez-Barbero J, Sollogoub M. gem-Difluorocarbadisaccharides: Restoring theexo-Anomeric Effect. Angew Chem Int Ed Engl 2014; 53:9597-602. [DOI: 10.1002/anie.201405008] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2014] [Revised: 06/06/2014] [Indexed: 11/06/2022]
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6
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Jongkees SAK, Yoo H, Withers SG. Mechanistic investigations of unsaturated glucuronyl hydrolase from Clostridium perfringens. J Biol Chem 2014; 289:11385-11395. [PMID: 24573682 DOI: 10.1074/jbc.m113.545293] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Experiments were carried out to probe the details of the hydration-initiated hydrolysis catalyzed by the Clostridium perfringens unsaturated glucuronyl hydrolase of glycoside hydrolase family 88 in the CAZy classification system. Direct (1)H NMR monitoring of the enzymatic reaction detected no accumulated reaction intermediates in solution, suggesting that rearrangement of the initial hydration product occurs on-enzyme. An attempt at mechanism-based trapping of on-enzyme intermediates using a 1,1-difluoro-substrate was unsuccessful because the probe was too deactivated to be turned over by the enzyme. Kinetic isotope effects arising from deuterium-for-hydrogen substitution at carbons 1 and 4 provide evidence for separate first-irreversible and overall rate-determining steps in the hydration reaction, with two potential mechanisms proposed to explain these results. Based on the positioning of catalytic residues in the enzyme active site, the lack of efficient turnover of a 2-deoxy-2-fluoro-substrate, and several unsuccessful attempts at confirmation of a simpler mechanism involving a covalent glycosyl-enzyme intermediate, the most plausible mechanism is one involving an intermediate bearing an epoxide on carbons 1 and 2.
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Affiliation(s)
- Seino A K Jongkees
- Departments of Chemistry and Biochemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Hayoung Yoo
- Departments of Chemistry and Biochemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Stephen G Withers
- Departments of Chemistry and Biochemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada.
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Liu L, Pohl NLB. Synthesis of a series of maltotriose phosphates with an evaluation of the utility of a fluorous phosphate protecting group. Carbohydr Res 2013; 369:14-24. [PMID: 23376679 DOI: 10.1016/j.carres.2012.12.015] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2012] [Revised: 12/13/2012] [Accepted: 12/15/2012] [Indexed: 01/21/2023]
Abstract
A series of methyl maltotrioside phosphates were synthesized for application in the determination of the actual molecular substrate of the Lafora enzyme involved in Lafora disease. Several different synthetic routes were applied for the successful synthesis of six methyl maltotrioside phosphate regioisomers. The utility of a new fluorous phosphate protecting group was also evaluated, but its utility was found to be limited in this particular late stage introduction.
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Affiliation(s)
- Lin Liu
- Department of Chemistry, Department of Chemical and Biological Engineering, and the Plant Sciences Institute, Hach Hall, Iowa State University, Ames, IA 50011-3111, USA
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8
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Afarinkia K, Abdullahi MH, Scowen IJ. A Synthesis of Carbasugar−Sugar Pseudodisaccharides via a Cycloaddition−Cycloreversion Reaction of 2H-Pyran-2-ones. Org Lett 2010; 12:5564-6. [DOI: 10.1021/ol102358s] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Kamyar Afarinkia
- Institute of Cancer Therapeutics and Analytical Center, University of Bradford, Richmond Road, Bradford BD7 1DP, United Kingdom
| | - Mohamed Haji Abdullahi
- Institute of Cancer Therapeutics and Analytical Center, University of Bradford, Richmond Road, Bradford BD7 1DP, United Kingdom
| | - Ian J. Scowen
- Institute of Cancer Therapeutics and Analytical Center, University of Bradford, Richmond Road, Bradford BD7 1DP, United Kingdom
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9
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Matsumura F, Tatsumi S, Oka N, Wada T. Rapid glycosylations under extremely mild acidic conditions. Use of ammonium salts to activate glycosyl phosphites via P-protonation. Carbohydr Res 2010; 345:1211-5. [DOI: 10.1016/j.carres.2010.03.009] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2009] [Revised: 02/16/2010] [Accepted: 03/10/2010] [Indexed: 11/26/2022]
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Carbohydrate mimetics and scaffolds: sweet spots in medicinal chemistry. Future Med Chem 2010; 2:587-99. [DOI: 10.4155/fmc.10.8] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
Several glycoprocessing enzymes and glycoreceptors have been recognized as important targets for therapeutic intervention. This concept has inspired the development of important classes of therapeutics, such as anti-influenza drugs inhibiting influenza virus neuraminidase, anti-inflammatory drugs targeting lectin-sialyl-Lewis X interaction and glycosidase inhibitors against HIV, Gaucher’s disease, hepatitis and cancer. These therapeutics are mainly carbohydrate mimics in which proper modifications permit stronger interactions with the target protein, higher stability, better pharmacokinetic properties and easier synthesis. Furthermore, the conformational rigidity and polyfunctionality of carbohydrates stimulate their use as scaffolds for the generation of libraries by combinatorial decoration with different pharmacophores. This mini-review will present examples of how to exploit carbohydrates mimics and scaffolds in drug research.
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11
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Du Roizel B, Henriques AMP, Pearce AJ, Sinaÿ P. Application of the triisobutylaluminum-promoted reductive rearrangement to sucrose-5-enes. Isr J Chem 2010. [DOI: 10.1560/djyx-kn0a-fgnw-teqm] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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12
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Cumpstey I. Synthesis of carbasugar-containing non-glycosidically linked pseudodisaccharides and higher pseudooligosaccharides. Carbohydr Res 2009; 344:2285-310. [DOI: 10.1016/j.carres.2009.09.008] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2009] [Revised: 09/02/2009] [Accepted: 09/09/2009] [Indexed: 12/01/2022]
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13
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Sardinha J, Rauter AP, Sollogoub M. First synthesis of 5-fluoro-(+)-MK7607, its 1-epimer and 6-deoxy derivative. Tetrahedron Lett 2008. [DOI: 10.1016/j.tetlet.2008.07.070] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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14
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Chaise T, Cardinael P, Tisse S, Combret JC, Bouillon JP. Indirect and direct approaches in the synthesis of a new mono-6-O-benzyl methylated γ-cyclodextrin as chiral selector for enantioselective gas chromatography. ACTA ACUST UNITED AC 2008. [DOI: 10.1016/j.tetasy.2008.01.015] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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15
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López-Méndez B, Jia C, Zhang Y, Zhang LH, Sinaÿ P, Jiménez-Barbero J, Sollogoub M. Hemicarbasucrose: Turning off the Exoanomeric Effect Induces Less Flexibility. Chem Asian J 2008; 3:51-8. [DOI: 10.1002/asia.200700281] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Nasveschuk CG, Rovis T. The [1, 3] O-to-C rearrangement: opportunities for stereoselective synthesis. Org Biomol Chem 2007; 6:240-54. [PMID: 18174990 DOI: 10.1039/b714881j] [Citation(s) in RCA: 68] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The relay of stereochemistry of a breaking C-O bond into a forming C-C bond is well-known in the context of [3, 3] sigmatropic shifts; however, this useful strategy is less well-known in other types of molecular rearrangements. Though the first successful example of a [1, 3] O-to-C rearrangement was reported more than 100 years ago, this class of reactions has received less attention than its [3, 3] counterpart. This perspective analyzes the various methods used for the activation and [1, 3] rearrangement of vinyl ethers with an emphasis on mechanism and applications to stereoselective synthesis. We also highlight our own contributions to this area.
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Sardinha J, Guieu S, Deleuze A, Fernández-Alonso MC, Rauter AP, Sinaÿ P, Marrot J, Jiménez-Barbero J, Sollogoub M. gem-Difluoro-carbasugars, the cases of mannopyranose and galactopyranose. Carbohydr Res 2007; 342:1689-703. [PMID: 17559817 DOI: 10.1016/j.carres.2007.05.021] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2007] [Revised: 05/07/2007] [Accepted: 05/11/2007] [Indexed: 10/23/2022]
Abstract
5a-Difluoro-5a-carbamannopyranose (gem-difluoro-carbamannopyranose) and 5a-difluoro-5a-carbagalactopyranose (gem-difluoro-carbagalactopyranose), close congeners of their respective natural sugars, in which the endocyclic oxygen atom has been replaced by a gem-difluoromethylene group, were synthesized from D-mannose and D-galactose, using a rearrangement strategy.
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Affiliation(s)
- João Sardinha
- Université Pierre et Marie Curie-Paris 6, Institut de Chimie Moléculaire (FR 2769), ENS, UMR CNRS 8642, 75005 Paris, France
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Arjona O, Gómez AM, López JC, Plumet J. Synthesis and Conformational and Biological Aspects of Carbasugars. Chem Rev 2007; 107:1919-2036. [PMID: 17488060 DOI: 10.1021/cr0203701] [Citation(s) in RCA: 277] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Odón Arjona
- Departamento de Química Orgánica, Facultad de Química, Universidad Complutense, 28040 Madrid, Spain
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20
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Affiliation(s)
- Robert J Ferrier
- Industrial Research Ltd., P.O. Box 31 310, Lower Hutt, New Zealand
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Pearce A, Chevalier R, Mallet J, Sinaÿ P. Cascade Rearrangements of Polyunsaturated Sugars: A Novel Approach to the Synthesis of Oligosaccharide Mimetics. European J Org Chem 2000. [DOI: 10.1002/1099-0690(200006)2000:12<2203::aid-ejoc2203>3.0.co;2-#] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Alan J. Pearce
- École Normale Supérieure, Département de Chimie, associé au CNRS, 24 rue Lhomond, F‐75231 Paris Cedex 05, France, Fax: (internat.) + 33‐1/44323397
| | - Reynald Chevalier
- École Normale Supérieure, Département de Chimie, associé au CNRS, 24 rue Lhomond, F‐75231 Paris Cedex 05, France, Fax: (internat.) + 33‐1/44323397
| | - Jean‐Maurice Mallet
- École Normale Supérieure, Département de Chimie, associé au CNRS, 24 rue Lhomond, F‐75231 Paris Cedex 05, France, Fax: (internat.) + 33‐1/44323397
| | - Pierre Sinaÿ
- École Normale Supérieure, Département de Chimie, associé au CNRS, 24 rue Lhomond, F‐75231 Paris Cedex 05, France, Fax: (internat.) + 33‐1/44323397
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Sinaÿ P, James Pearce A, Mallet JM, Sinay P. One-Step Synthesis of Disaccharide Mimetics via Tandem Rearrangement of Unsaturated Disaccharides. HETEROCYCLES 2000. [DOI: 10.3987/com-99-s92] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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