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Hervin V, Roy V, Agrofoglio LA. Antibiotics and Antibiotic Resistance-Mur Ligases as an Antibacterial Target. Molecules 2023; 28:8076. [PMID: 38138566 PMCID: PMC10745416 DOI: 10.3390/molecules28248076] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2023] [Revised: 11/09/2023] [Accepted: 12/11/2023] [Indexed: 12/24/2023] Open
Abstract
The emergence of Multidrug Resistance (MDR) strains of bacteria has accelerated the search for new antibacterials. The specific bacterial peptidoglycan biosynthetic pathway represents opportunities for the development of novel antibacterial agents. Among the enzymes involved, Mur ligases, described herein, and especially the amide ligases MurC-F are key targets for the discovery of multi-inhibitors, as they share common active sites and structural features.
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Affiliation(s)
| | - Vincent Roy
- ICOA UMR CNRS 7311, Université d’Orléans et CNRS, Rue de Chartres, 45067 Orléans, France;
| | - Luigi A. Agrofoglio
- ICOA UMR CNRS 7311, Université d’Orléans et CNRS, Rue de Chartres, 45067 Orléans, France;
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2
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Gagnot G, Hervin V, Coutant EP, Goyard S, Jacob Y, Rose T, Hibti FE, Quatela A, Janin YL. Core-Modified Coelenterazine Luciferin Analogues: Synthesis and Chemiluminescence Properties. Chemistry 2021; 27:2112-2123. [PMID: 33137225 DOI: 10.1002/chem.202004311] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2020] [Revised: 10/26/2020] [Indexed: 11/10/2022]
Abstract
In this work on the design and studies of luciferins related to the blue-hued coelenterazine, the synthesis of heterocyclic analogues susceptible to produce a photon, possibly at a different wavelength, is undertaken. Here, the synthesis of O-acetylated derivatives of imidazo[1,2-b]pyridazin-3(5 H)-one, imidazo[2,1-f][1,2,4]triazin-7(1 H)-one, imidazo[1,2-a]pyridin-3-ol, imidazo[1,2-a]quinoxalin-1(5 H)-one, benzo[f]imidazo[1,2-a]quinoxalin-3(11 H)-one, imidazo[1',2':1,6]pyrazino[2,3-c]quinolin-3(11 H)-one, and 5,11-dihydro-3 H-chromeno[4,3-e]imidazo[1,2-a]pyrazin-3-one is described thanks to extensive use of the Buchwald-Hartwig N-arylation reaction. The acidic hydrolysis of these derivatives then gave solutions of the corresponding luciferin analogues, which were studied. Not too unexpectedly, even if these were "dressed" with substituents found in actual substrates of the nanoKAZ/NanoLuc luciferase, no bioluminescence was observed with these compounds. However, in a phosphate buffer, all produced a light signal, by chemiluminescence, with extensive variations in their respective intensity and this could be increased by adding a quaternary ammonium salt in the buffer. This aspect was actually instrumental to determine the emission spectra of many of these luciferin analogues.
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Affiliation(s)
- Glwadys Gagnot
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France.,Université de Paris, 12 rue de l'école de Médecine, 75006, Paris, France
| | - Vincent Hervin
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Eloi P Coutant
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Sophie Goyard
- Center for Innovation and Technological Research, Institut Pasteur, 25 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Yves Jacob
- Unité de Génétique Moléculaire des Virus à ARN, Institut Pasteur, UMR 3569, CNRS, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Thierry Rose
- Center for Innovation and Technological Research, Institut Pasteur, 25 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Fatima Ezzahra Hibti
- HORIBA FRANCE SAS, 14 Boulevard Thomas Gobert, Passage Jobin Yvon CS45002, 91120, Palaiseau, France
| | - Alessia Quatela
- HORIBA FRANCE SAS, 14 Boulevard Thomas Gobert, Passage Jobin Yvon CS45002, 91120, Palaiseau, France
| | - Yves L Janin
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
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3
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Coutant EP, Gagnot G, Hervin V, Baatallah R, Goyard S, Jacob Y, Rose T, Janin YL. Bioluminescence Profiling of NanoKAZ/NanoLuc Luciferase Using a Chemical Library of Coelenterazine Analogues. Chemistry 2020; 26:948-958. [PMID: 31765054 DOI: 10.1002/chem.201904844] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2019] [Indexed: 12/11/2022]
Abstract
We describe here an extensive structure-bioluminescence relationship study of a chemical library of analogues of coelenterazine, using nanoKAZ/NanoLuc, a mutated luciferase originated from the catalytic subunit of the deep-sea shrimp Oplophorus gracilirostris. Out of the 135 O-acetylated precursors that were prepared by using our recently reported synthesis and following their hydrolysis to give solutions of the corresponding luciferins, notable bioluminescence improvements were achieved in comparison with furimazine, which is currently amongst the best substrates of nanoKAZ/NanoLuc. For instance, the rather more lipophilic analogue 8-(2,3-difluorobenzyl)-2-((5-methylfuran-2-yl)methyl)-6-phenylimidazo[1,2-a]pyrazin-3(7H)-one provided a 1.5-fold improvement of the total light output over a 2 h period, a close to threefold increase of the initial signal intensity and a signal-to-background ratio five times greater than furimazine. The kinetic parameters for the enzymatic reaction were obtained for a selection of luciferin analogues and provided unexpected insights into the luciferase activity. Most prominently, along with a general substrate-dependent and irreversible inactivation of this enzyme, in the case of the optimized luciferin mentioned above, the consumption of 2664 molecules was found to be required for the detection of a single Relative Light Unit (RLU; a luminometer-dependent fraction of a photon).
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Affiliation(s)
- Eloi P Coutant
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Glwadys Gagnot
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France.,Université Paris Descartes, Sorbonne Paris Cité, 12 rue de l'Ecole de Médecine, 75006, Paris, France
| | - Vincent Hervin
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Racha Baatallah
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Sophie Goyard
- Center for Innovation and Technological Research, Institut Pasteur, 25 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Yves Jacob
- Unité de Génétique Moléculaire des Virus à ARN, Institut Pasteur, UMR 3569, CNRS, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Thierry Rose
- Center for Innovation and Technological Research, Institut Pasteur, 25 rue du Dr. Roux, 75724, Paris Cedex 15, France
| | - Yves L Janin
- Institut Pasteur, UMR 3523, CNRS, Unité de Chimie et Biocatalyse, 28 rue du Dr. Roux, 75724, Paris Cedex 15, France
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Coutant EP, Goyard S, Hervin V, Gagnot G, Baatallah R, Jacob Y, Rose T, Janin YL. Gram-scale synthesis of luciferins derived from coelenterazine and original insights into their bioluminescence properties. Org Biomol Chem 2019; 17:3709-3713. [DOI: 10.1039/c9ob00459a] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
An original three component synthetic access to coelenterazine and analogues can lead to grams of marine luciferins which are extensively used in bioluminescence-based assays.
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Affiliation(s)
- Eloi P. Coutant
- Unité de Chimie et Biocatalyse
- Institut Pasteur
- UMR 3523
- CNRS
- 75724 Paris cedex 15
| | - Sophie Goyard
- Center for Innovation and Technological Research
- Institut Pasteur
- 75724 Paris cedex 15
- France
| | - Vincent Hervin
- Unité de Chimie et Biocatalyse
- Institut Pasteur
- UMR 3523
- CNRS
- 75724 Paris cedex 15
| | - Glwadys Gagnot
- Unité de Chimie et Biocatalyse
- Institut Pasteur
- UMR 3523
- CNRS
- 75724 Paris cedex 15
| | - Racha Baatallah
- Unité de Chimie et Biocatalyse
- Institut Pasteur
- UMR 3523
- CNRS
- 75724 Paris cedex 15
| | - Yves Jacob
- Unité de Génétique Moléculaire des Virus à ARN
- Institut Pasteur
- UMR 3569
- CNRS
- 75724 Paris cedex 15
| | - Thierry Rose
- Center for Innovation and Technological Research
- Institut Pasteur
- 75724 Paris cedex 15
- France
| | - Yves L. Janin
- Unité de Chimie et Biocatalyse
- Institut Pasteur
- UMR 3523
- CNRS
- 75724 Paris cedex 15
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5
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Coutant EP, Hervin V, Gagnot G, Ford C, Baatallah R, Janin YL. Unnatural α-amino ethyl esters from diethyl malonate or ethyl β-bromo-α-hydroxyiminocarboxylate. Beilstein J Org Chem 2018; 14:2853-2860. [PMID: 30498536 PMCID: PMC6244313 DOI: 10.3762/bjoc.14.264] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2018] [Accepted: 11/08/2018] [Indexed: 11/23/2022] Open
Abstract
We have explored here the scope of the age-old diethyl malonate-based accesses to α-amino esters involving Knoevenagel condensations of diethyl malonate on aldehydes, reductions of the resulting alkylidenemalonates, the preparation of the corresponding α-hydroxyimino esters and their final reduction. This synthetic pathway turned out to be general although some unexpected limitations were encountered. The synthetic modifications of some of the intermediates - using Suzuki-Miyaura coupling or cycloadditions - before undertaking the oximation step - provided accesses to further α-amino esters. Moreover, other pathways to α-hydroxyimino esters were explored including an attempt to improve the cycloadditions between ethyl β-bromo-α-hydroxyiminocarboxylate and various alkylfuranes.
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Affiliation(s)
- Eloi P Coutant
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Vincent Hervin
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Glwadys Gagnot
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Université Paris Descartes, Sorbonne Paris Cité, 12 rue de l'École de Médecine, 75006 Paris, France
| | - Candice Ford
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Racha Baatallah
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Yves L Janin
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
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Gagnot G, Hervin V, Coutant EP, Desmons S, Baatallah R, Monnot V, Janin YL. Synthesis of unnatural α-amino esters using ethyl nitroacetate and condensation or cycloaddition reactions. Beilstein J Org Chem 2018; 14:2846-2852. [PMID: 30498535 PMCID: PMC6244114 DOI: 10.3762/bjoc.14.263] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2018] [Accepted: 10/26/2018] [Indexed: 11/23/2022] Open
Abstract
We report here on the use of ethyl nitroacetate as a glycine template to produce α-amino esters. This started with a study of its condensation with various arylacetals to give ethyl 3-aryl-2-nitroacrylates followed by a reduction (NaBH4 and then zinc/HCl) into α-amino esters. The scope of this method was explored as well as an alternative with arylacylals instead. We also focused on various [2 + 3] cycloadditions, one leading to a spiroacetal, which led to the undesired ethyl 5-(benzamidomethyl)isoxazole-3-carboxylate. The addition of ethyl nitroacetate on a 5-methylene-4,5-dihydrooxazole using cerium(IV) ammonium nitrate was also explored and the synthesis of other oxazole-bearing α-amino esters was achieved using gold(I) chemistry.
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Affiliation(s)
- Glwadys Gagnot
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Université Paris Descartes, Sorbonne Paris Cité, 12 rue de l'École de Médecine, 75006 Paris, France
| | - Vincent Hervin
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Eloi P Coutant
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Sarah Desmons
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Racha Baatallah
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Victor Monnot
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
| | - Yves L Janin
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France.,Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique, 28 rue du Dr. Roux, 75724 Paris Cedex 15, France
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Bessières M, Hervin V, Roy V, Chartier A, Snoeck R, Andrei G, Lohier JF, Agrofoglio LA. Highly convergent synthesis and antiviral activity of (E)-but-2-enyl nucleoside phosphonoamidates. Eur J Med Chem 2018; 146:678-686. [PMID: 29407990 PMCID: PMC7115695 DOI: 10.1016/j.ejmech.2018.01.086] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2017] [Revised: 01/11/2018] [Accepted: 01/26/2018] [Indexed: 01/04/2023]
Abstract
Several hitherto unknown (E)-but-2-enyl nucleoside phosphonoamidate analogs (ANPs) were prepared directed with nitrogen reagents by cross-metathesis in water-under ultrasound irradiation. Two diastereoisomers were formally identified by X-ray diffraction. These compounds were evaluated against a large spectrum of DNA and RNA viruses. Among them, the phosphonoamidate thymine analogue 19 emerged as the best prodrug against varicella-zoster virus (VZV) with EC50 values of 0.33 and 0.39 μM for wild-type and thymidine kinase deficient strains, respectively, and a selectivity index ≥200 μM. This breakthrough approach paves the way for new purine and pyrimidine (E)-but-2-enyl phosphonoamidate analogs. Phosphonoamidate prodrugs acyclic nucleosides were synthesized by convergent approach. Metathesis reaction in water was used between pyrimidic bases and a new phosphonoamidate synthons. EC50 values of any molecules were in (sub)micromolar range against DNA viruses.
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Affiliation(s)
| | - Vincent Hervin
- Univ. Orléans, CNRS, ICOA, UMR 7311, F-45067 Orléans, France
| | - Vincent Roy
- Univ. Orléans, CNRS, ICOA, UMR 7311, F-45067 Orléans, France.
| | - Agnès Chartier
- Univ. Orléans, CNRS, ICOA, UMR 7311, F-45067 Orléans, France
| | - Robert Snoeck
- Rega Institute for Medical Research, KU Leuven, B-3000 Leuven, Belgium
| | - Graciela Andrei
- Rega Institute for Medical Research, KU Leuven, B-3000 Leuven, Belgium
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Abstract
This review is an in-depth survey of the reported synthetic approaches for the preparation of racemic α-amino esters via the reduction of α-nitro or α-oxime ester intermediates. Accordingly, it describes the many pathways that have been designed to prepare such intermediates. This includes synthesis starting with α-nitroacetates, dialkyl malonates, acetoacetates, diethyl oxalates as well as [2+3] or [2+4] cycloadditions using, respectively, alkyl carbonocyanidate N-oxides or alkyl 2-nitrosoacrylates. This review also contains the description of a myriad of side reactions which can occur when working with α-nitro esters.1 Introduction2 α-Amino Esters from α-Nitroacetates via Condensation Reactions3 α-Amino Esters via C-Alkylation or C-Arylation of α-Nitroacetates4 α-Amino Esters from α-Nitroacetates Using Other Reactions5 Synthesis of α-Amino Esters via α-Oxime Esters6 Synthesis of α-Amino Esters via [2+3] Cycloadditions7 Synthesis of α-Amino Esters via [2+4] Cycloadditions8 On the Reduction of α-Oxime Esters9 Conclusion
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Affiliation(s)
- Yves Janin
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur
- Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique
| | - Vincent Hervin
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur
- Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique
| | - Eloi Coutant
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur
- Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique
| | - Glwadys Gagnot
- Unité de Chimie et Biocatalyse, Département de Biologie Structurale et Chimie, Institut Pasteur
- Unité Mixte de Recherche 3523, Centre National de la Recherche Scientifique
- Université Paris Descartes, Sorbonne Paris Cité
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