1
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Jaeschke SO, Lindhorst TK. Versatile Synthesis of Diaminoxylosides via Iodosulfonamidation of Xylal Derivatives. European J Org Chem 2021. [DOI: 10.1002/ejoc.202100792] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Sven Ole Jaeschke
- Otto Diels Institute of Organic Chemistry Christiana Albertina University of Kiel Otto-Hahn-Platz 3–4 24118 Kiel Germany
| | - Thisbe K. Lindhorst
- Otto Diels Institute of Organic Chemistry Christiana Albertina University of Kiel Otto-Hahn-Platz 3–4 24118 Kiel Germany
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2
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Kolahdouzan K, Ogba OM, O'Leary DJ. 1H NMR Studies of Intramolecular OH/OH Hydrogen Bonds via Titratable Isotope Shifts. J Org Chem 2021; 87:1732-1744. [PMID: 34783564 DOI: 10.1021/acs.joc.1c01910] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Methanol titrations of partially deuterated 1,4- and 1,3-diols dissolved in nonpolar solvents such as CD2Cl2 and benzene-d6 have provided 1H NMR measurements of OH/OD isotope shifts, diagnostic for intact intramolecular hydrogen bonds, under conditions of increasing protic solvent concentration. 1,4- and 1,3-diols with conformationally favored intramolecular OH/OH hydrogen bonds can be titrated to constant isotope shift values, albeit with variable sign, in the presence of excess methanol equivalents, providing evidence for intact intramolecular hydrogen bonds under these conditions. Conversely, the isotope shift in a 1,3-diol with a conformationally labile intramolecular hydrogen bond titrated to zero when in the presence of excess equivalents methanol, consistent with intramolecular hydrogen bond rupture under these conditions. Additionally, the titration behavior of hydroxyl chemical shifts in diols and protected derivatives has revealed significant OH/OD isotope shifts in the absence of chemical shift differences (δOHin = δOHout) that are necessary for an equilibrium isotope effect, lending evidence for an intrinsic contribution to the isotope effect. OH/OD isotope shift titration thus provides a means for understanding the origins of these isotope effects and for probing the intact or nonintact nature of intramolecular OH/OH hydrogen bonds in response to intermolecular hydrogen bonds provided by a protic solvent.
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Affiliation(s)
- Kavoos Kolahdouzan
- Department of Chemistry, Pomona College, 645 North College Avenue, Claremont, California 91711, United States
| | - O Maduka Ogba
- Chemistry and Biochemistry Program, Schmid College of Science and Technology, Chapman University, Orange, California 92886, United States
| | - Daniel J O'Leary
- Department of Chemistry, Pomona College, 645 North College Avenue, Claremont, California 91711, United States
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3
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Fogarty CA, Harbison AM, Dugdale AR, Fadda E. How and why plants and human N-glycans are different: Insight from molecular dynamics into the "glycoblocks" architecture of complex carbohydrates. Beilstein J Org Chem 2020; 16:2046-2056. [PMID: 32874351 PMCID: PMC7445399 DOI: 10.3762/bjoc.16.171] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Accepted: 08/05/2020] [Indexed: 01/01/2023] Open
Abstract
The N-glycosylation is one of the most abundant and diverse post-translational modifications of proteins, implicated in protein folding and structural stability, and mediating interactions with receptors and with the environment. All N-glycans share a common core from which linear or branched arms stem from, with functionalization specific to different species and to the cells’ health and disease state. This diversity generates a rich collection of structures, all diversely able to trigger molecular cascades and to activate pathways, which also include adverse immunogenic responses. These events are inherently linked to the N-glycans’ 3D architecture and dynamics, which remain for the large part unresolved and undetected because of their intrinsic structural disorder. In this work we use molecular dynamics (MD) simulations to provide insight into N-glycans’ 3D structure by analysing the effects of a set of very specific modifications found in plants and invertebrate N-glycans, which are immunogenic in humans. We also compare these structural motifs and combine them with mammalian N-glycan motifs to devise strategies for the control of the N-glycan 3D structure through sequence. Our results suggest that the N-glycans’ architecture can be described in terms of the local spatial environment of groups of monosaccharides. We define these “glycoblocks” as self-contained 3D units, uniquely identified by the nature of the residues they comprise, their linkages and structural/dynamic features. This alternative description of glycans’ 3D architecture can potentially lead to an easier prediction of sequence-to-structure relationships in complex carbohydrates, with important implications in glycoengineering design.
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Affiliation(s)
- Carl A Fogarty
- Department of Chemistry and Hamilton Institute, Maynooth University, Maynooth, Kildare, Ireland
| | - Aoife M Harbison
- Department of Chemistry and Hamilton Institute, Maynooth University, Maynooth, Kildare, Ireland
| | - Amy R Dugdale
- Department of Chemistry and Hamilton Institute, Maynooth University, Maynooth, Kildare, Ireland
| | - Elisa Fadda
- Department of Chemistry and Hamilton Institute, Maynooth University, Maynooth, Kildare, Ireland
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4
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Denavit V, St‐Gelais J, Tremblay T, Giguère D. Exploring the Chemistry of Non‐sticky Sugars: Synthesis of Polyfluorinated Carbohydrate Analogues of
d
‐Allopyranose. Chemistry 2019; 25:9272-9279. [DOI: 10.1002/chem.201901346] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2019] [Revised: 05/16/2019] [Indexed: 01/07/2023]
Affiliation(s)
- Vincent Denavit
- Département de Chimie, PROTEO, RQRMUniversité Laval 1045 Avenue de la Médecine Quebec City QC G1V 0A6 Canada
| | - Jacob St‐Gelais
- Département de Chimie, PROTEO, RQRMUniversité Laval 1045 Avenue de la Médecine Quebec City QC G1V 0A6 Canada
| | - Thomas Tremblay
- Département de Chimie, PROTEO, RQRMUniversité Laval 1045 Avenue de la Médecine Quebec City QC G1V 0A6 Canada
| | - Denis Giguère
- Département de Chimie, PROTEO, RQRMUniversité Laval 1045 Avenue de la Médecine Quebec City QC G1V 0A6 Canada
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5
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Álvarez-Calero JM, Ruiz E, López-Pérez JL, Jaraíz M, Rubio JE, Jorge ZD, Suárez M, Massanet GM. 15-Hydroxygermacranolides as Sources of Structural Diversity: Synthesis of Sesquiterpene Lactones by Cyclization and Rearrangement Reactions. Experimental and DFT Study. J Org Chem 2018; 83:5480-5495. [PMID: 29694044 DOI: 10.1021/acs.joc.8b00407] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
A study on the electrophile-induced rearrangement of two 15-hydroxygermacranolides, salonitenolide and artemisiifolin, was carried out. These compounds underwent electrophilic intramolecular cyclizations or acid-mediated rearrangements to give sesquiterpene lactones with different skeletons such as eudesmanolides, guaianolides, amorphanolides, or other germacranolides. The cyclization that gives guaianolides can be considered a biomimetic route to this type of sesquiterpene lactones. The use of acetone as a solvent changes the reactivity of the two starting germacranolides to the acid catalysts, with a 4,15-diol acetonide being the main product obtained. The δ-amorphenolide obtained by intramolecular cyclization of this acetonide is a valuable intermediate for accessing the antimalarials artemisinin and its derivatives. Mechanistic proposals for the transformations are raised, and to provide support them, quantum chemical calculations [DFT B3LYP/6-31+G(d,p) level] were undertaken.
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Affiliation(s)
- José María Álvarez-Calero
- Departamento de Química Orgánica, Facultad de Ciencias , Universidad de Cádiz , Puerto Real, Cádiz 11510 , Spain
| | - Enrique Ruiz
- Departamento de Química, Instituto de Ciencias Básicas , Universidad Técnica de Manabí (UTM) , Avenida Urbina y Che Guevara , Portoviejo , Manabí 130103 , Ecuador.,Laboratorio de Síntesis Orgánica, Facultad de Química , Universidad de La Habana , La Habana 10400 , Cuba
| | - José Luis López-Pérez
- Departamento de Farmacología, Facultad de Medicina , Universidad de Panamá , Ciudad de Panamá 3366 , República de Panamá.,Departamento de Ciencias Farmacéuticas, IBSAL-CIETUS , Universidad de Salamanca , Avda. Campo Charro s/n , Salamanca 37007 , Spain
| | - Martín Jaraíz
- Departamento de Electrónica , Universidad de Valladolid , Paseo Belén 15 , Valladolid 47011 , Spain
| | - José E Rubio
- Departamento de Electrónica , Universidad de Valladolid , Paseo Belén 15 , Valladolid 47011 , Spain
| | - Zacarías D Jorge
- Departamento de Química Orgánica, Facultad de Ciencias , Universidad de Cádiz , Puerto Real, Cádiz 11510 , Spain
| | - Margarita Suárez
- Laboratorio de Síntesis Orgánica, Facultad de Química , Universidad de La Habana , La Habana 10400 , Cuba
| | - Guillermo M Massanet
- Departamento de Química Orgánica, Facultad de Ciencias , Universidad de Cádiz , Puerto Real, Cádiz 11510 , Spain
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6
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Goulart PN, da Silva CO, Widmalm G. The importance of orientation of exocyclic groups in a naphthoxyloside: A specific rotation calculation study. J PHYS ORG CHEM 2017. [DOI: 10.1002/poc.3708] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
| | | | - Göran Widmalm
- Department of Organic Chemistry, Arrhenius Laboratory; Stockholm University; Stockholm Sweden
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7
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Dahbi S, Jacquinet JC, Bertin-Jung I, Robert A, Ramalanjaona N, Gulberti S, Fournel-Gigleux S, Lopin-Bon C. Synthesis of a library of variously modified 4-methylumbelliferyl xylosides and a structure-activity study of human β4GalT7. Org Biomol Chem 2017; 15:9653-9669. [PMID: 29116283 DOI: 10.1039/c7ob02530k] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Proteoglycans (PGs) are complex macromolecules that are composed of glycosaminoglycan (GAG) chains covalently attached to a core protein through a tetrasaccharide linker. The biosynthesis of PGs is complex and involves a large number of glycosyltranferases. Here we present a structure-activity study of human β4GalT7, which transfers the first Gal residue onto a xyloside moiety of the linkage region. An efficient and regiocontrolled synthesis of a library of modified analogs of 4-methylumbelliferyl xyloside (XylMU) is reported herein. Hydroxyl groups at the position C-2, C-3 or C-4 have been epimerized and/or replaced by a hydrogen or a fluorine, while the anomeric oxygen was replaced by either a sulfur or a sulfone. The effect of these compounds on human β4GalT7 activity in vitro and on GAG biosynthesis in cellulo was then evaluated.
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Affiliation(s)
- Samir Dahbi
- Univ. Orléans et CNRS, ICOA, UMR 7311, F-45067 Orléans, France.
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8
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9
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Rasool F, Mukherjee D. Pd-Catalyzed Regio- and Stereoselective C-Nucleoside Synthesis from Unactivated Uracils and Pyranoid Glycals. Org Lett 2017; 19:4936-4939. [DOI: 10.1021/acs.orglett.7b02402] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Faheem Rasool
- Academy of Scientific and
Innovative Research, Indian Institute of Integrative Medicine (CSIR), Jammu 180001, India
| | - Debaraj Mukherjee
- Academy of Scientific and
Innovative Research, Indian Institute of Integrative Medicine (CSIR), Jammu 180001, India
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10
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Quiquempoix L, Bogdan E, Wells NJ, Le Questel JY, Graton J, Linclau B. A Study of Intramolecular Hydrogen Bonding in Levoglucosan Derivatives. Molecules 2017; 22:E518. [PMID: 28338623 PMCID: PMC6154293 DOI: 10.3390/molecules22040518] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2017] [Revised: 03/09/2017] [Accepted: 03/21/2017] [Indexed: 11/17/2022] Open
Abstract
Organofluorine is a weak hydrogen-bond (HB) acceptor. Bernet et al. have demonstrated its capability to perturb OH···O intramolecular hydrogen bonds (IMHBs), using conformationally rigid carbohydrate scaffolds including levoglucosan derivatives. These investigations are supplemented here by experimental and theoretical studies involving six new levoglucosan derivatives, and complement the findings of Bernet et al. However, it is shown that conformational analysis is instrumental in interpreting the experimental data, due to the occurrence of non-intramolecular hydrogen-bonded populations which, although minor, cannot be neglected and appears surprisingly significant. The DFT conformational analysis, together with the computation of NMR parameters (coupling constants and chemical shifts) and wavefunction analyses (AIM, NBO), provides a full picture. Thus, for all compounds, the most stabilized structures show the OH groups in a conformation allowing IMHB with O5 and O6, when possible. Furthermore, the combined approach points out the occurrence of various IMHBs and the effect of the chemical modulations on their features. Thus, two-center or three-center IMHB interactions are observed in these compounds, depending on the presence or absence of additional HB acceptors, such as methoxy or fluorine.
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Affiliation(s)
- Lucas Quiquempoix
- Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, UK.
| | - Elena Bogdan
- CEISAM UMR CNRS 6230, Faculté des Sciences et des Techniques, Université de Nantes, 2 rue de la Houssinière-BP 92208, 44322 Nantes CEDEX 3, France.
| | - Neil J Wells
- Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, UK.
| | - Jean-Yves Le Questel
- CEISAM UMR CNRS 6230, Faculté des Sciences et des Techniques, Université de Nantes, 2 rue de la Houssinière-BP 92208, 44322 Nantes CEDEX 3, France.
| | - Jérôme Graton
- CEISAM UMR CNRS 6230, Faculté des Sciences et des Techniques, Université de Nantes, 2 rue de la Houssinière-BP 92208, 44322 Nantes CEDEX 3, France.
| | - Bruno Linclau
- Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, UK.
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11
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Gaweda K, Plazinski W. Pyranose ring conformations in mono- and oligosaccharides: a combined MD and DFT approach. Phys Chem Chem Phys 2017; 19:20760-20772. [DOI: 10.1039/c7cp02920a] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
A two-step computational protocol is proposed to efficiently study the conformational properties of hexopyranoses with a special emphasis on their ring-inversion-properties. By applying it, the errors resulting from overestimating the contribution of the hydrogen bond-rich, low-energy structures that are not abundant in aqueous solutions are avoided.
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Affiliation(s)
- Karolina Gaweda
- Jerzy Haber Institute of Catalysis and Surface Chemistry
- Polish Academy of Sciences
- 30-239 Cracow
- Poland
| | - Wojciech Plazinski
- Jerzy Haber Institute of Catalysis and Surface Chemistry
- Polish Academy of Sciences
- 30-239 Cracow
- Poland
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12
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Horník Š, Červenková Šťastná L, Cuřínová P, Sýkora J, Káňová K, Hrstka R, Císařová I, Dračínský M, Karban J. Synthesis and in vitro cytotoxicity of acetylated 3-fluoro, 4-fluoro and 3,4-difluoro analogs of D-glucosamine and D-galactosamine. Beilstein J Org Chem 2016; 12:750-9. [PMID: 27340467 PMCID: PMC4901990 DOI: 10.3762/bjoc.12.75] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2016] [Accepted: 03/30/2016] [Indexed: 11/23/2022] Open
Abstract
Background: Derivatives of D-glucosamine and D-galactosamine represent an important family of the cell surface glycan components and their fluorinated analogs found use as metabolic inhibitors of complex glycan biosynthesis, or as probes for the study of protein–carbohydrate interactions. This work is focused on the synthesis of acetylated 3-deoxy-3-fluoro, 4-deoxy-4-fluoro and 3,4-dideoxy-3,4-difluoro analogs of D-glucosamine and D-galactosamine via 1,6-anhydrohexopyranose chemistry. Moreover, the cytotoxicity of the target compounds towards selected cancer cells is determined. Results: Introduction of fluorine at C-3 was achieved by the reaction of 1,6-anhydro-2-azido-2-deoxy-4-O-benzyl-β-D-glucopyranose or its 4-fluoro analog with DAST. The retention of configuration in this reaction is discussed. Fluorine at C-4 was installed by the reaction of 1,6:2,3-dianhydro-β-D-talopyranose with DAST, or by fluoridolysis of 1,6:3,4-dianhydro-2-azido-β-D-galactopyranose with KHF2. The amino group was introduced and masked as an azide in the synthesis. The 1-O-deacetylated 3-fluoro and 4-fluoro analogs of acetylated D-galactosamine inhibited proliferation of the human prostate cancer cell line PC-3 more than cisplatin and 5-fluorouracil (IC50 28 ± 3 μM and 54 ± 5 μM, respectively). Conclusion: A complete series of acetylated 3-fluoro, 4-fluoro and 3,4-difluoro analogs of D-glucosamine and D-galactosamine is now accessible by 1,6-anhydrohexopyranose chemistry. Intermediate fluorinated 1,6-anhydro-2-azido-hexopyranoses have potential as synthons in oligosaccharide assembly.
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Affiliation(s)
- Štěpán Horník
- Institute of Chemical Process Fundamentals of the CAS, Rozvojová 135, 165 02 Praha, Czech Republic
| | - Lucie Červenková Šťastná
- Institute of Chemical Process Fundamentals of the CAS, Rozvojová 135, 165 02 Praha, Czech Republic
| | - Petra Cuřínová
- Institute of Chemical Process Fundamentals of the CAS, Rozvojová 135, 165 02 Praha, Czech Republic
| | - Jan Sýkora
- Institute of Chemical Process Fundamentals of the CAS, Rozvojová 135, 165 02 Praha, Czech Republic
| | - Kateřina Káňová
- Regional Centre for Applied and Molecular Oncology, Masaryk Memorial Cancer Institute, Žlutý kopec 7, 656 53 Brno, Czech Republic
| | - Roman Hrstka
- Regional Centre for Applied and Molecular Oncology, Masaryk Memorial Cancer Institute, Žlutý kopec 7, 656 53 Brno, Czech Republic
| | - Ivana Císařová
- Department of Inorganic Chemistry, Charles University, Hlavova 2030, 128 43 Praha 2, Czech Republic
| | - Martin Dračínský
- Institute of Organic Chemistry and Biochemistry, Flemingovo nám. 2, 166 10 Praha 6, Czech Republic
| | - Jindřich Karban
- Institute of Chemical Process Fundamentals of the CAS, Rozvojová 135, 165 02 Praha, Czech Republic
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13
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Plazinski W, Lonardi A, Hünenberger PH. Revision of the GROMOS 56A6(CARBO) force field: Improving the description of ring-conformational equilibria in hexopyranose-based carbohydrates chains. J Comput Chem 2015; 37:354-65. [PMID: 26525424 DOI: 10.1002/jcc.24229] [Citation(s) in RCA: 71] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2015] [Revised: 10/03/2015] [Accepted: 10/06/2015] [Indexed: 01/19/2023]
Abstract
This article describes a revised version 56A6(CARBO_R) of the GROMOS 56A6(CARBO) force field for hexopyranose-based carbohydrates. The simulated properties of unfunctionalized hexopyranoses are unaltered with respect to 56A6CARBO . In the context of both O1 -alkylated hexopyranoses and oligosaccharides, the revision stabilizes the regular (4) C1 chair for α-anomers, with the opposite effect for β-anomers. As a result, spurious ring inversions observed in α(1→4)-linked chains when using the original 56A6(CARBO) force field are alleviated. The (4) C1 chair is now the most stable conformation for all d-hexopyranose residues, irrespective of the linkage type and anomery, and of the position of the residue along the chain. The methylation of a d-hexopyranose leads to a systematic shift in the ring-inversion free energy ((4) C1 to (1) C4 ) by 7-8 kJ mol(-1), positive for the α-anomers and negative for the β-anomers, which is qualitatively compatible with the expected enhancement of the anomeric effect upon methylation at O1. The ring-inversion free energies for residues within chains are typically smaller in magnitude compared to those of the monomers, and correlate rather poorly with the latter. This suggests that the crowding of ring substituents upon chain formation alters the ring flexibility in a nonsystematic fashion. In general, the description of carbohydrate chains afforded by 56A6(CARBO_R) suggests a significant extent of ring flexibility, i.e., small but often non-negligible equilibrium populations of inverted chairs, and challenges the "textbook" picture of conformationally locked carbohydrate rings.
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Affiliation(s)
- Wojciech Plazinski
- Laboratory of Physical Chemistry, ETH Hönggerberg, HCI, Zürich, CH-8093, Switzerland.,J. Haber Institute of Catalysis and Surface Chemistry, Polish Academy of Sciences, Ul. Niezapominajek 8, Cracow, 30-239, Poland
| | - Alice Lonardi
- Laboratory of Physical Chemistry, ETH Hönggerberg, HCI, Zürich, CH-8093, Switzerland
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14
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Thorsheim K, Siegbahn A, Johnsson RE, Stålbrand H, Manner S, Widmalm G, Ellervik U. Chemistry of xylopyranosides. Carbohydr Res 2015; 418:65-88. [PMID: 26580709 DOI: 10.1016/j.carres.2015.10.004] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2015] [Revised: 10/09/2015] [Accepted: 10/10/2015] [Indexed: 12/22/2022]
Abstract
Xylose is one of the few monosaccharidic building blocks that are used by mammalian cells. In comparison with other monosaccharides, xylose is rather unusual and, so far, only found in two different mammalian structures, i.e. in the Notch receptor and as the linker between protein and glycosaminoglycan (GAG) chains in proteoglycans. Interestingly, simple soluble xylopyranosides can not only initiate the biosynthesis of soluble GAG chains but also function as inhibitors of important enzymes in the biosynthesis of proteoglycans. Furthermore, xylose is a major constituent of hemicellulosic xylans and thus one of the most abundant carbohydrates on Earth. Altogether, this has spurred a strong interest in xylose chemistry. The scope of this review is to describe synthesis of xylopyranosyl donors, as well as protective group chemistry, modifications, and conformational analysis of xylose.
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Affiliation(s)
- Karin Thorsheim
- Centre for Analysis and Synthesis, Centre for Chemistry and Chemical Engineering, Lund University, P.O. Box 124, SE-221 00 Lund, Sweden
| | - Anna Siegbahn
- Centre for Analysis and Synthesis, Centre for Chemistry and Chemical Engineering, Lund University, P.O. Box 124, SE-221 00 Lund, Sweden
| | - Richard E Johnsson
- Centre for Analysis and Synthesis, Centre for Chemistry and Chemical Engineering, Lund University, P.O. Box 124, SE-221 00 Lund, Sweden
| | - Henrik Stålbrand
- Centre for Molecular Protein Science, Centre for Chemistry and Chemical Engineering, Lund University, P.O. Box 124, SE-221 00 Lund, Sweden
| | - Sophie Manner
- Centre for Analysis and Synthesis, Centre for Chemistry and Chemical Engineering, Lund University, P.O. Box 124, SE-221 00 Lund, Sweden
| | - Göran Widmalm
- Department of Organic Chemistry, Arrhenius Laboratory, Stockholm University, SE-106 91 Stockholm, Sweden
| | - Ulf Ellervik
- Centre for Analysis and Synthesis, Centre for Chemistry and Chemical Engineering, Lund University, P.O. Box 124, SE-221 00 Lund, Sweden.
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15
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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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Ring- and side-group conformational properties of di-O-acylated xylopyranosides: A computational study. COMPUT THEOR CHEM 2015. [DOI: 10.1016/j.comptc.2014.11.004] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Rönnols J, Manner S, Ellervik U, Widmalm G. Conformational effects due to stereochemistry and C3-substituents in xylopyranoside derivatives as studied by NMR spectroscopy. Org Biomol Chem 2014; 12:8031-5. [DOI: 10.1039/c4ob01422g] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Mayes HB, Broadbelt LJ, Beckham GT. How Sugars Pucker: Electronic Structure Calculations Map the Kinetic Landscape of Five Biologically Paramount Monosaccharides and Their Implications for Enzymatic Catalysis. J Am Chem Soc 2014; 136:1008-22. [DOI: 10.1021/ja410264d] [Citation(s) in RCA: 117] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Heather B. Mayes
- Department
of Chemical and Biological Engineering, Northwestern University, Evanston, Illinois 60208, United States
- National
Bioenergy Center, National Renewable Energy Laboratory, Golden, Colorado 80401, United States
| | - Linda J. Broadbelt
- Department
of Chemical and Biological Engineering, Northwestern University, Evanston, Illinois 60208, United States
| | - Gregg T. Beckham
- National
Bioenergy Center, National Renewable Energy Laboratory, Golden, Colorado 80401, United States
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