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Rietmeyer L, Li De La Sierra-Gallay I, Schepers G, Dorchêne D, Iannazzo L, Patin D, Touzé T, van Tilbeurgh H, Herdewijn P, Ethève-Quelquejeu M, Fonvielle M. Amino-acyl tXNA as inhibitors or amino acid donors in peptide synthesis. Nucleic Acids Res 2022; 50:11415-11425. [PMID: 36350642 PMCID: PMC9723616 DOI: 10.1093/nar/gkac1023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Revised: 10/17/2022] [Accepted: 10/21/2022] [Indexed: 11/10/2022] Open
Abstract
Xenobiotic nucleic acids (XNAs) offer tremendous potential for synthetic biology, biotechnology, and molecular medicine but their ability to mimic nucleic acids still needs to be explored. Here, to study the ability of XNA oligonucleotides to mimic tRNA, we synthesized three L-Ala-tXNAs analogs. These molecules were used in a non-ribosomal peptide synthesis involving a bacterial Fem transferase. We compared the ability of this enzyme to use amino-acyl tXNAs containing 1',5'-anhydrohexitol (HNA), 2'-fluoro ribose (2'F-RNA) and 2'-fluoro arabinose. L-Ala-tXNA containing HNA or 2'F-RNA were substrates of the Fem enzyme. The synthesis of peptidyl-XNA and the resolution of their structures in complex with the enzyme show the impact of the XNA on protein binding. For the first time we describe functional tXNA in an in vitro assay. These results invite to test tXNA also as substitute for tRNA in translation.
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Affiliation(s)
| | | | - Guy Schepers
- Laboratory of Medicinal Chemistry, Rega Institute for Biomedical Research, KU Leuven, Herestraat 49, Box 1041, 3000 Leuven, Belgium
| | - Delphine Dorchêne
- INSERM UMR-S 1138, Centre de Recherche des Cordeliers, Sorbonne Université, Université Paris Cité, F-75006 Paris, France
| | - Laura Iannazzo
- Université Paris Cité, CNRS UMR 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, F-75006Paris, France
| | - Delphine Patin
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Saclay 91198, Gif-sur-Yvette, France
| | - Thierry Touzé
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Saclay 91198, Gif-sur-Yvette, France
| | - Herman van Tilbeurgh
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Saclay 91198, Gif-sur-Yvette, France
| | - Piet Herdewijn
- Laboratory of Medicinal Chemistry, Rega Institute for Biomedical Research, KU Leuven, Herestraat 49, Box 1041, 3000 Leuven, Belgium
| | - Mélanie Ethève-Quelquejeu
- Université Paris Cité, CNRS UMR 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, F-75006Paris, France
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2
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Li De La Sierra Gallay I, Rietmeyer L, Schepers G, Dorchêne D, Iannazzo L, Patin D, Touzé T, Van Tilbeurgh H, Herdewijn P, Ethève-Quelquejeu M, Fonvielle M. Structural exploration of FemX interaction with tXNA conjugates : identification of one potential antibiotic. Acta Cryst Sect A 2022. [DOI: 10.1107/s2053273322093585] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/19/2023]
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3
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Meynier V, Iannazzo L, Catala M, Oerum S, Braud E, Atdjian C, Barraud P, Fonvielle M, Tisné C, Ethève-Quelquejeu M. Synthesis of RNA-cofactor conjugates and structural exploration of RNA recognition by an m6A RNA methyltransferase. Nucleic Acids Res 2022; 50:5793-5806. [PMID: 35580049 PMCID: PMC9178011 DOI: 10.1093/nar/gkac354] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2022] [Revised: 04/22/2022] [Accepted: 05/10/2022] [Indexed: 11/14/2022] Open
Abstract
Chemical synthesis of RNA conjugates has opened new strategies to study enzymatic mechanisms in RNA biology. To gain insights into poorly understood RNA nucleotide methylation processes, we developed a new method to synthesize RNA-conjugates for the study of RNA recognition and methyl-transfer mechanisms of SAM-dependent m6A RNA methyltransferases. These RNA conjugates contain a SAM cofactor analogue connected at the N6-atom of an adenosine within dinucleotides, a trinucleotide or a 13mer RNA. Our chemical route is chemo- and regio-selective and allows flexible modification of the RNA length and sequence. These compounds were used in crystallization assays with RlmJ, a bacterial m6A rRNA methyltransferase. Two crystal structures of RlmJ in complex with RNA–SAM conjugates were solved and revealed the RNA-specific recognition elements used by RlmJ to clamp the RNA substrate in its active site. From these structures, a model of a trinucleotide bound in the RlmJ active site could be built and validated by methyltransferase assays on RlmJ mutants. The methyl transfer by RlmJ could also be deduced. This study therefore shows that RNA-cofactor conjugates are potent molecular tools to explore the active site of RNA modification enzymes.
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Affiliation(s)
- Vincent Meynier
- Expression Génétique Microbienne, UMR 8261, CNRS, Université Paris Cité, Institut de Biologie Physico-Chimique (IBPC), 75005, Paris, France
| | - Laura Iannazzo
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601, CNRS, Université Paris Cité, 75006, Paris, France
| | - Marjorie Catala
- Expression Génétique Microbienne, UMR 8261, CNRS, Université Paris Cité, Institut de Biologie Physico-Chimique (IBPC), 75005, Paris, France
| | - Stephanie Oerum
- Expression Génétique Microbienne, UMR 8261, CNRS, Université Paris Cité, Institut de Biologie Physico-Chimique (IBPC), 75005, Paris, France
| | - Emmanuelle Braud
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601, CNRS, Université Paris Cité, 75006, Paris, France
| | - Colette Atdjian
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601, CNRS, Université Paris Cité, 75006, Paris, France
| | - Pierre Barraud
- Expression Génétique Microbienne, UMR 8261, CNRS, Université Paris Cité, Institut de Biologie Physico-Chimique (IBPC), 75005, Paris, France
| | - Matthieu Fonvielle
- Sorbonne Université, Université Paris Cité, Centre de recherche des Cordeliers, 75006, Paris, France
| | - Carine Tisné
- Expression Génétique Microbienne, UMR 8261, CNRS, Université Paris Cité, Institut de Biologie Physico-Chimique (IBPC), 75005, Paris, France
| | - Mélanie Ethève-Quelquejeu
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601, CNRS, Université Paris Cité, 75006, Paris, France
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4
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Abstract
Staudinger ligation is an attractive bioorthogonal reaction for use in studying biomolecules due to its capacity to form a native amide bond between a tag and a biomolecule. Here, we explore the traceless variant of the Staudinger ligation for 3'-end modification of oligoribonucleotides. The procedure involves (i) synthesis of phosphine-containing reactive groups, affinity purification tags, or photoactivatable benzophenone probe, (ii) synthesis of 2'-azido dinucleotides and 24-nt RNA, and (iii) traceless Staudinger ligation experiments. Each phosphine was characterized by 1 H, 13 C, and 31 P NMR and high-resolution spectrometry and the functionalized nucleotides were characterized by LC/MS. © 2021 Wiley Periodicals LLC. Basic Protocol 1: Synthesis of phosphines Basic Protocol 2: Synthesis of dinucleotides 4 and 5 Basic Protocol 3: Synthesis of modified RNA 6 Basic Protocol 4: Traceless Staudinger reactions on a dinucleotide Basic Protocol 5: Traceless Staudinger reaction on RNA.
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Affiliation(s)
- Camélia Kitoun
- Université de Paris, UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Paris, France
| | - Matthieu Fonvielle
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), Paris, France
| | - Michel Arthur
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), Paris, France
| | - Mélanie Etheve-Quelquejeu
- Université de Paris, UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Paris, France
| | - Laura Iannazzo
- Université de Paris, UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Paris, France
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5
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Saidjalolov S, Braud E, Edoo Z, Iannazzo L, Rusconi F, Riomet M, Sallustrau A, Taran F, Arthur M, Fonvielle M, Etheve‐Quelquejeu M. Cover Feature: Click and Release Chemistry for Activity‐Based Purification of β‐Lactam Targets (Chem. Eur. J. 28/2021). Chemistry 2021. [DOI: 10.1002/chem.202101355] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Saidbakhrom Saidjalolov
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS Université de Paris 45, rue des saints-pères Paris 75006 France
| | - Emmanuelle Braud
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS Université de Paris 45, rue des saints-pères Paris 75006 France
| | - Zainab Edoo
- INSERM UMRS 1138 Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité Université de Paris Centre de recherche des Cordeliers Paris 75006 France
| | - Laura Iannazzo
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS Université de Paris 45, rue des saints-pères Paris 75006 France
| | - Filippo Rusconi
- PAPPSO Université Paris-Saclay INRAE CNRS AgroParisTech GQE - Le Moulon Gif-sur-Yvette 91190 France
| | - Margaux Riomet
- Université Paris Saclay CEA INRAE Département Médicaments et Technologies pour la Santé (DMTS), SCBM Gif-sur-Yvette 91191 France
| | - Antoine Sallustrau
- Université Paris Saclay CEA INRAE Département Médicaments et Technologies pour la Santé (DMTS), SCBM Gif-sur-Yvette 91191 France
| | - Frédéric Taran
- Université Paris Saclay CEA INRAE Département Médicaments et Technologies pour la Santé (DMTS), SCBM Gif-sur-Yvette 91191 France
| | - Michel Arthur
- INSERM UMRS 1138 Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité Université de Paris Centre de recherche des Cordeliers Paris 75006 France
| | - Matthieu Fonvielle
- INSERM UMRS 1138 Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité Université de Paris Centre de recherche des Cordeliers Paris 75006 France
| | - Mélanie Etheve‐Quelquejeu
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS Université de Paris 45, rue des saints-pères Paris 75006 France
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6
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Saidjalolov S, Braud E, Edoo Z, Iannazzo L, Rusconi F, Riomet M, Sallustrau A, Taran F, Arthur M, Fonvielle M, Etheve-Quelquejeu M. Click and Release Chemistry for Activity-Based Purification of β-Lactam Targets. Chemistry 2021; 27:7687-7695. [PMID: 33792096 DOI: 10.1002/chem.202100653] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [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: 02/21/2021] [Indexed: 12/30/2022]
Abstract
β-Lactams, the cornerstone of antibiotherapy, inhibit multiple and partially redundant targets referred to as transpeptidases or penicillin-binding proteins. These enzymes catalyze the essential cross-linking step of the polymerization of cell wall peptidoglycan. The understanding of the mechanisms of action of β-lactams and of resistance to these drugs requires the development of reliable methods to characterize their targets. Here, we describe an activity-based purification method of β-lactam targets based on click and release chemistry. We synthesized alkyne-carbapenems with suitable properties with respect to the kinetics of acylation of a model target, the Ldtfm L,D-transpeptidase, the stability of the resulting acylenzyme, and the reactivity of the alkyne for the cycloaddition of an azido probe containing a biotin moiety for affinity purification and a bioorthogonal cleavable linker. The probe provided access to the fluorescent target in a single click and release step.
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Affiliation(s)
- Saidbakhrom Saidjalolov
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS, Université de Paris, 45, rue des saints-pères, Paris, 75006, France
| | - Emmanuelle Braud
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS, Université de Paris, 45, rue des saints-pères, Paris, 75006, France
| | - Zainab Edoo
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité, Université de Paris, Centre de recherche des Cordeliers, Paris, 75006, France
| | - Laura Iannazzo
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS, Université de Paris, 45, rue des saints-pères, Paris, 75006, France
| | - Filippo Rusconi
- PAPPSO, Université Paris-Saclay, INRAE, CNRS, AgroParisTech GQE - Le Moulon, Gif-sur-Yvette, 91190, France
| | - Margaux Riomet
- Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, Gif-sur-Yvette, 91191, France
| | - Antoine Sallustrau
- Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, Gif-sur-Yvette, 91191, France
| | - Frédéric Taran
- Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SCBM, Gif-sur-Yvette, 91191, France
| | - Michel Arthur
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité, Université de Paris, Centre de recherche des Cordeliers, Paris, 75006, France
| | - Matthieu Fonvielle
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité, Université de Paris, Centre de recherche des Cordeliers, Paris, 75006, France
| | - Mélanie Etheve-Quelquejeu
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS, Université de Paris, 45, rue des saints-pères, Paris, 75006, France
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7
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Rietmeyer L, Fix-Boulier N, Le Fournis C, Iannazzo L, Kitoun C, Patin D, Mengin-Lecreulx D, Ethève-Quelquejeu M, Arthur M, Fonvielle M. Partition of tRNAGly isoacceptors between protein and cell-wall peptidoglycan synthesis in Staphylococcus aureus. Nucleic Acids Res 2021; 49:684-699. [PMID: 33367813 PMCID: PMC7826273 DOI: 10.1093/nar/gkaa1242] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Revised: 12/04/2020] [Accepted: 12/09/2020] [Indexed: 11/21/2022] Open
Abstract
The sequence of tRNAs is submitted to evolutionary constraints imposed by their multiple interactions with aminoacyl-tRNA synthetases, translation elongation factor Tu in complex with GTP (EF-Tu•GTP), and the ribosome, each being essential for accurate and effective decoding of messenger RNAs. In Staphylococcus aureus, an additional constraint is imposed by the participation of tRNAGly isoacceptors in the addition of a pentaglycine side chain to cell-wall peptidoglycan precursors by transferases FmhB, FemA and FemB. Three tRNAGly isoacceptors poorly interacting with EF-Tu•GTP and the ribosome were previously identified. Here, we show that these ‘non-proteogenic’ tRNAs are preferentially recognized by FmhB based on kinetic analyses and on synthesis of stable aminoacyl-tRNA analogues acting as inhibitors. Synthesis of chimeric tRNAs and of helices mimicking the tRNA acceptor arms revealed that this discrimination involves identity determinants exclusively present in the D and T stems and loops of non-proteogenic tRNAs, which belong to an evolutionary lineage only present in the staphylococci. EF-Tu•GTP competitively inhibited FmhB by sequestration of ‘proteogenic’ aminoacyl-tRNAs in vitro. Together, these results indicate that competition for the Gly-tRNAGly pool is restricted by both limited recognition of non-proteogenic tRNAs by EF-Tu•GTP and limited recognition of proteogenic tRNAs by FmhB.
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Affiliation(s)
- Lauriane Rietmeyer
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
| | - Nicolas Fix-Boulier
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
| | - Chloé Le Fournis
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
| | - Laura Iannazzo
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS UMR 8601, Paris F-75006 France
| | - Camelia Kitoun
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS UMR 8601, Paris F-75006 France
| | - Delphine Patin
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France
| | - Dominique Mengin-Lecreulx
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France
| | - Mélanie Ethève-Quelquejeu
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Université de Paris, CNRS UMR 8601, Paris F-75006 France
| | - Michel Arthur
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
| | - Matthieu Fonvielle
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
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8
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Saidjalolov S, Edoo Z, Fonvielle M, Mayer L, Iannazzo L, Arthur M, Etheve-Quelquejeu M, Braud E. Synthesis of Carbapenems Containing Peptidoglycan Mimetics and Inhibition of the Cross-Linking Activity of a Transpeptidase of l,d Specificity. Chemistry 2021; 27:3542-3551. [PMID: 33336443 DOI: 10.1002/chem.202004831] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2020] [Revised: 12/15/2020] [Indexed: 11/07/2022]
Abstract
The carbapenem class of β-lactams has been optimized against Gram-negative bacteria producing extended-spectrum β-lactamases by introducing substituents at position C2. Carbapenems are currently investigated for the treatment of tuberculosis as these drugs are potent covalent inhibitors of l,d-transpeptidases involved in mycobacterial cell wall assembly. The optimization of carbapenems for inactivation of these unusual targets is sought herein by exploiting the nucleophilicity of the C8 hydroxyl group to introduce chemical diversity. As β-lactams are structure analogs of peptidoglycan precursors, the substituents were chosen to increase similarity between the drug and the substrate. Fourteen peptido-carbapenems were efficiently synthesized. They were more effective than the reference drug, meropenem, owing to the positive impact of a phenethylthio substituent introduced at position C2 but the peptidomimetics added at position C8 did not further improve the activity. Thus, position C8 can be modified to modulate the pharmacokinetic properties of highly efficient carbapenems.
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Affiliation(s)
- Saidbakhrom Saidjalolov
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS, Université de Paris, 45, rue des saints-pères, Paris, 75006, France
| | - Zainab Edoo
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité, Université de Paris, Centre de recherche des Cordeliers, Paris, 75006, France
| | - Matthieu Fonvielle
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité, Université de Paris, Centre de recherche des Cordeliers, Paris, 75006, France
| | - Louis Mayer
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité, Université de Paris, Centre de recherche des Cordeliers, Paris, 75006, France
| | - Laura Iannazzo
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS, Université de Paris, 45, rue des saints-pères, Paris, 75006, France
| | - Michel Arthur
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06, Sorbonne Paris Cité, Université de Paris, Centre de recherche des Cordeliers, Paris, 75006, France
| | - Mélanie Etheve-Quelquejeu
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS, Université de Paris, 45, rue des saints-pères, Paris, 75006, France
| | - Emmanuelle Braud
- Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, UMR 8601 CNRS, Université de Paris, 45, rue des saints-pères, Paris, 75006, France
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9
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Kitoun C, Fonvielle M, Sakkas N, Lefresne M, Djago F, Blancart Remaury Q, Poinot P, Arthur M, Etheve-Quelquejeu M, Iannazzo L. Phosphine-Mediated Bioconjugation of the 3′-End of RNA. Org Lett 2020; 22:8034-8038. [DOI: 10.1021/acs.orglett.0c02982] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Camélia Kitoun
- UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Université de Paris, F-75006 Paris, France
| | - Matthieu Fonvielle
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006, Paris, France
| | - Nicolas Sakkas
- UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Université de Paris, F-75006 Paris, France
| | - Manon Lefresne
- UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Université de Paris, F-75006 Paris, France
| | - Fabiola Djago
- Institut de Chimie des Milieux et Matériaux de Poitiers IC2MP, Université de Poitiers, UMR 7285, 86073, Poitiers, France
| | - Quentin Blancart Remaury
- Institut de Chimie des Milieux et Matériaux de Poitiers IC2MP, Université de Poitiers, UMR 7285, 86073, Poitiers, France
| | - Pauline Poinot
- Institut de Chimie des Milieux et Matériaux de Poitiers IC2MP, Université de Poitiers, UMR 7285, 86073, Poitiers, France
| | - Michel Arthur
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006, Paris, France
| | - Mélanie Etheve-Quelquejeu
- UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Université de Paris, F-75006 Paris, France
| | - Laura Iannazzo
- UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, Université de Paris, F-75006 Paris, France
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10
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Bouchet F, Atze H, Fonvielle M, Edoo Z, Arthur M, Ethève-Quelquejeu M, Iannazzo L. Diazabicyclooctane Functionalization for Inhibition of β-Lactamases from Enterobacteria. J Med Chem 2020; 63:5257-5273. [DOI: 10.1021/acs.jmedchem.9b02125] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Flavie Bouchet
- Université de Paris, UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, 45 rue des Saints-Péres, F-75006 Paris, France
| | - Heiner Atze
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
| | - Matthieu Fonvielle
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
| | - Zainab Edoo
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
| | - Michel Arthur
- INSERM, Sorbonne Université, Université de Paris, Centre de Recherche des Cordeliers (CRC), F-75006 Paris, France
| | - Mélanie Ethève-Quelquejeu
- Université de Paris, UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, 45 rue des Saints-Péres, F-75006 Paris, France
| | - Laura Iannazzo
- Université de Paris, UMR CNRS 8601, Laboratoire de Chimie et Biochimie Pharmacologiques et Toxicologiques, 45 rue des Saints-Péres, F-75006 Paris, France
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11
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Iannazzo L, Fonvielle M, Braud E, Hřebabecký H, Procházková E, Nencka R, Mathé C, Arthur M, Etheve-Quelquejeu M. Synthesis of tRNA analogues containing a terminal ribose locked in the South conformation to study tRNA-dependent enzymes. Org Biomol Chem 2019; 16:1903-1911. [PMID: 29484333 DOI: 10.1039/c8ob00019k] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We report here the synthetic route of two constrained dinucleotides and the determination of the sugar puckering by NMR analyses of the starting nucleosides. Enzymatic ligation to microhelix-RNAs provide access to tRNA analogues containing a 3' terminal A76 locked in South conformation. Biological evaluation of our tRNA analogues has been performed using amino-acyl tRNA-dependent transferase FemXWv, which mediates non-ribosomal incorporation of amino acids into the bacterial cell wall. We have shown that our tRNA analogues inhibited the aminoacyl transfer reaction catalyzed by FemXWv with IC50s of 10 and 8 μM. These results indicate that FemXWv displays a moderate preference for tRNAs containing a terminal A76 locked in the South conformation and that a South to North switch in the conformation of the terminal ribose might contribute to the release of the uncharged tRNAAla product of the aminoacyl transfer reaction catalyzed by FemXwv.
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Affiliation(s)
- Laura Iannazzo
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR 8601, Paris, F-75005, France
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12
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Maya-Martinez R, Alexander JAN, Otten CF, Ayala I, Vollmer D, Gray J, Bougault CM, Burt A, Laguri C, Fonvielle M, Arthur M, Strynadka NCJ, Vollmer W, Simorre JP. Recognition of Peptidoglycan Fragments by the Transpeptidase PBP4 From Staphylococcus aureus. Front Microbiol 2019; 9:3223. [PMID: 30713527 PMCID: PMC6346638 DOI: 10.3389/fmicb.2018.03223] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [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: 09/22/2018] [Accepted: 12/11/2018] [Indexed: 11/13/2022] Open
Abstract
Peptidoglycan (PG) is an essential component of the cell envelope, maintaining bacterial cell shape and protecting it from bursting due to turgor pressure. The monoderm bacterium Staphylococcus aureus has a highly cross-linked PG, with ~90% of peptide stems participating in DD-cross-links and up to 15 peptide stems connected with each other. These cross-links are formed in transpeptidation reactions catalyzed by penicillin-binding proteins (PBPs) of classes A and B. Most S. aureus strains have three housekeeping PBPs with this function (PBP1, PBP2, and PBP3) but MRSA strains have acquired a third class B PBP, PBP2a, which is encoded by the mecA gene and required for the expression of high-level resistance to β-lactams. Another housekeeping PBP of S. aureus is PBP4, which belongs to the class C PBPs, and hence would be expected to have PG hydrolase (DD-carboxypeptidase or DD-endopeptidase) activity. However, previous works showed that, unexpectedly, PBP4 has transpeptidase activity that significantly contributes to both the high level of cross-linking in the PG of S. aureus and to the low level of β-lactam resistance in the absence of PBP2a. To gain insights into this unusual activity of PBP4, we studied by NMR spectroscopy its interaction in vitro with different substrates, including intact peptidoglycan, synthetic peptide stems, muropeptides, and long glycan chains with uncross-linked peptide stems. PBP4 showed no affinity for the complex, intact peptidoglycan or the smallest isolated peptide stems. Transpeptidase activity of PBP4 was verified with the disaccharide peptide subunits (muropeptides) in vitro, producing cyclic dimer and multimer products; these assays also showed a designed PBP4(S75C) nucleophile mutant to be inactive. Using this inactive but structurally highly similar variant, liquid-state NMR identified two interaction surfaces in close proximity to the central nucleophile position that can accommodate the potential donor and acceptor stems for the transpeptidation reaction. A PBP4:muropeptide model structure was built from these experimental restraints, which provides new mechanistic insights into mecA independent resistance to β-lactams in S. aureus.
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Affiliation(s)
| | - J Andrew N Alexander
- Department of Biochemistry and Molecular Biology and Centre for Blood Research, The University of British Columbia, Vancouver, BC, Canada
| | - Christian F Otten
- Centre for Bacterial Cell Biology, Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, United Kingdom
| | - Isabel Ayala
- University Grenoble Alpes, CNRS, CEA, IBS, Grenoble, France
| | - Daniela Vollmer
- Centre for Bacterial Cell Biology, Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, United Kingdom
| | - Joe Gray
- Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, United Kingdom
| | | | - Alister Burt
- University Grenoble Alpes, CNRS, CEA, IBS, Grenoble, France
| | - Cédric Laguri
- University Grenoble Alpes, CNRS, CEA, IBS, Grenoble, France
| | - Matthieu Fonvielle
- Centre de Recherche des Cordeliers, LRMA, Equipe 12, Université Sorbone-Paris, Paris, France
| | - Michel Arthur
- Centre de Recherche des Cordeliers, LRMA, Equipe 12, Université Sorbone-Paris, Paris, France
| | - Natalie C J Strynadka
- Department of Biochemistry and Molecular Biology and Centre for Blood Research, The University of British Columbia, Vancouver, BC, Canada
| | - Waldemar Vollmer
- Centre for Bacterial Cell Biology, Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, United Kingdom
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13
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Fonvielle M, Bouhss A, Hoareau C, Patin D, Mengin-Lecreulx D, Iannazzo L, Sakkas N, El Sagheer A, Brown T, Ethève-Quelquejeu M, Arthur M. Synthesis of Lipid-Carbohydrate-Peptidyl-RNA Conjugates to Explore the Limits Imposed by the Substrate Specificity of Cell Wall Enzymes on the Acquisition of Drug Resistance. Chemistry 2018; 24:14911-14915. [PMID: 30020544 DOI: 10.1002/chem.201802360] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [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: 05/11/2018] [Revised: 07/16/2018] [Indexed: 01/10/2023]
Abstract
Conjugation of RNA with multiple partners to obtain mimics of complex biomolecules is limited by the identification of orthogonal reactions. Here, lipid-carbohydrate-peptidyl-RNA conjugates were obtained by post-functionalization reactions, solid-phase synthesis, and enzymatic steps, to generate molecules mimicking the substrates of FmhB, an essential peptidoglycan synthesis enzyme of Staphylococcus aureus. Mimics of Gly-tRNAGly and lipid intermediate II (undecaprenyl-diphospho-disaccharide-pentapeptide) were combined in a single "bi-substrate" inhibitor (IC50 =56 nm). The synthetic route was exploited to generate substrates and inhibitors containing d-lactate residue (d-Lac) instead of d-Ala at the C-terminus of the pentapeptide stem, a modification responsible for vancomycin resistance in the enterococci. The substitution impaired recognition of peptidoglycan precursors by FmhB. The associated fitness cost may account for limited dissemination of vancomycin resistance genes in S. aureus.
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Affiliation(s)
- Matthieu Fonvielle
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06;, 'Sorbonne Paris Cité, Université Paris Descartes, Université Paris Diderot, Centre de Recherche des Cordeliers, 75006, Paris, France
| | - Ahmed Bouhss
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, 91198, Gif-sur-Yvette cedex, France.,Present address: Laboratoire Structure-Activité des Biomolécules, Normales et Pathologiques (SABNP), Univ Evry, INSERM U1204, Université Paris-Saclay, 91025, Evry, France
| | - Coralie Hoareau
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06;, 'Sorbonne Paris Cité, Université Paris Descartes, Université Paris Diderot, Centre de Recherche des Cordeliers, 75006, Paris, France
| | - Delphine Patin
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, 91198, Gif-sur-Yvette cedex, France
| | - Dominique Mengin-Lecreulx
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, 91198, Gif-sur-Yvette cedex, France
| | - Laura Iannazzo
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR 8601, Paris, F-75005, France.,CNRS UMR 8601, Paris, F-75006, France
| | - Nicolas Sakkas
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR 8601, Paris, F-75005, France.,CNRS UMR 8601, Paris, F-75006, France
| | - Affaf El Sagheer
- Chemistry Branch, Dept. of Science and Mathematics, Faculty of Petroleum and Mining Engineering, Suez University, Suez, 43721, Egypt.,Department of Chemistry, University of Oxford, 12 Mansfield Road, Oxford, OX1 3TA, UK
| | - Tom Brown
- Department of Chemistry, University of Oxford, 12 Mansfield Road, Oxford, OX1 3TA, UK
| | - Mélanie Ethève-Quelquejeu
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR 8601, Paris, F-75005, France.,CNRS UMR 8601, Paris, F-75006, France
| | - Michel Arthur
- INSERM UMRS 1138, Sorbonne Universités, UPMC Univ Paris 06;, 'Sorbonne Paris Cité, Université Paris Descartes, Université Paris Diderot, Centre de Recherche des Cordeliers, 75006, Paris, France
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14
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Edoo Z, Iannazzo L, Compain F, Li de la Sierra Gallay I, van Tilbeurgh H, Fonvielle M, Bouchet F, Le Run E, Mainardi JL, Arthur M, Ethève-Quelquejeu M, Hugonnet JE. Synthesis of Avibactam Derivatives and Activity on β-Lactamases and Peptidoglycan Biosynthesis Enzymes of Mycobacteria. Chemistry 2018; 24:8081-8086. [DOI: 10.1002/chem.201800923] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2018] [Indexed: 11/09/2022]
Affiliation(s)
- Zainab Edoo
- Sorbonne Université; Sorbonne Paris Cité; Université Paris Descartes; Université Paris Diderot; INSERM; Centre de Recherche des Cordeliers; CRC; 75006 Paris France
| | - Laura Iannazzo
- Laboratoire de Chimie et de Biochimie, Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; 75005 Paris France
- CNRS UMR 8601; 75006 Paris France
| | - Fabrice Compain
- Sorbonne Université; Sorbonne Paris Cité; Université Paris Descartes; Université Paris Diderot; INSERM; Centre de Recherche des Cordeliers; CRC; 75006 Paris France
- Service de Microbiologie; Assistance Publique-Hôpitaux de Paris; Hôpital Européen Georges Pompidou; Paris France
| | - Inès Li de la Sierra Gallay
- Fonction et Architecture des Assemblages Macromoléculaires; Institute for Integrative Biology of the Cell (I2BC); CEA; CNRS; Univ Paris-Sud; Université Paris-Saclay; 91198 Gif-sur-Yvette cedex France
| | - Herman van Tilbeurgh
- Fonction et Architecture des Assemblages Macromoléculaires; Institute for Integrative Biology of the Cell (I2BC); CEA; CNRS; Univ Paris-Sud; Université Paris-Saclay; 91198 Gif-sur-Yvette cedex France
| | - Matthieu Fonvielle
- Sorbonne Université; Sorbonne Paris Cité; Université Paris Descartes; Université Paris Diderot; INSERM; Centre de Recherche des Cordeliers; CRC; 75006 Paris France
| | - Flavie Bouchet
- Laboratoire de Chimie et de Biochimie, Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; 75005 Paris France
| | - Eva Le Run
- Sorbonne Université; Sorbonne Paris Cité; Université Paris Descartes; Université Paris Diderot; INSERM; Centre de Recherche des Cordeliers; CRC; 75006 Paris France
| | - Jean-Luc Mainardi
- Sorbonne Université; Sorbonne Paris Cité; Université Paris Descartes; Université Paris Diderot; INSERM; Centre de Recherche des Cordeliers; CRC; 75006 Paris France
- Service de Microbiologie; Assistance Publique-Hôpitaux de Paris; Hôpital Européen Georges Pompidou; Paris France
| | - Michel Arthur
- Sorbonne Université; Sorbonne Paris Cité; Université Paris Descartes; Université Paris Diderot; INSERM; Centre de Recherche des Cordeliers; CRC; 75006 Paris France
| | - Mélanie Ethève-Quelquejeu
- Laboratoire de Chimie et de Biochimie, Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; 75005 Paris France
- CNRS UMR 8601; 75006 Paris France
| | - Jean-Emmanuel Hugonnet
- Sorbonne Université; Sorbonne Paris Cité; Université Paris Descartes; Université Paris Diderot; INSERM; Centre de Recherche des Cordeliers; CRC; 75006 Paris France
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15
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Ngadjeua F, Braud E, Saidjalolov S, Iannazzo L, Schnappinger D, Ehrt S, Hugonnet JE, Mengin-Lecreulx D, Patin D, Ethève-Quelquejeu M, Fonvielle M, Arthur M. Critical Impact of Peptidoglycan Precursor Amidation on the Activity ofl,d-Transpeptidases fromEnterococcus faeciumandMycobacterium tuberculosis. Chemistry 2018; 24:5743-5747. [DOI: 10.1002/chem.201706082] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2017] [Indexed: 01/05/2023]
Affiliation(s)
- Flora Ngadjeua
- INSERM UMRS 1138; Sorbonne Universités UPMC Univ Paris 06
- Sorbonne Paris Cité, Université Paris Descartes, Université Paris Diderot
- Centre de Recherche des Cordeliers; 75006 Paris France
| | - Emmanuelle Braud
- Laboratoire de Chimie et de Biochimie, Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; Paris 75005 France
- CNRS UMR 8601; Paris 75006 France
| | - Saidbakhrom Saidjalolov
- Laboratoire de Chimie et de Biochimie, Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; Paris 75005 France
- CNRS UMR 8601; Paris 75006 France
| | - Laura Iannazzo
- Laboratoire de Chimie et de Biochimie, Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; Paris 75005 France
- CNRS UMR 8601; Paris 75006 France
| | - Dirk Schnappinger
- Department of Microbiology and Immunology; Weill Cornell Medical College; New York NY 10021 USA
| | - Sabine Ehrt
- Department of Microbiology and Immunology; Weill Cornell Medical College; New York NY 10021 USA
| | - Jean-Emmanuel Hugonnet
- INSERM UMRS 1138; Sorbonne Universités UPMC Univ Paris 06
- Sorbonne Paris Cité, Université Paris Descartes, Université Paris Diderot
- Centre de Recherche des Cordeliers; 75006 Paris France
| | - Dominique Mengin-Lecreulx
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud; Université Paris-Saclay; 91198 Gif-sur-Yvette cedex France
| | - Delphine Patin
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud; Université Paris-Saclay; 91198 Gif-sur-Yvette cedex France
| | - Mélanie Ethève-Quelquejeu
- Laboratoire de Chimie et de Biochimie, Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; Paris 75005 France
- CNRS UMR 8601; Paris 75006 France
| | - Matthieu Fonvielle
- INSERM UMRS 1138; Sorbonne Universités UPMC Univ Paris 06
- Sorbonne Paris Cité, Université Paris Descartes, Université Paris Diderot
- Centre de Recherche des Cordeliers; 75006 Paris France
| | - Michel Arthur
- INSERM UMRS 1138; Sorbonne Universités UPMC Univ Paris 06
- Sorbonne Paris Cité, Université Paris Descartes, Université Paris Diderot
- Centre de Recherche des Cordeliers; 75006 Paris France
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16
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Fonvielle M, Sakkas N, Iannazzo L, Le Fournis C, Patin D, Mengin-Lecreulx D, El-Sagheer A, Braud E, Cardon S, Brown T, Arthur M, Etheve-Quelquejeu M. Electrophilic RNA for Peptidyl-RNA Synthesis and Site-Specific Cross-Linking with tRNA-Binding Enzymes. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201606843] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Matthieu Fonvielle
- Laboratoire de Recherche Moléculaire sur les Antibiotiques Centre de Recherche des Cordeliers, Equipe 12, UMR S 1138; INSERM; Université Pierre et Marie Curie-Paris 6, Université Paris Descartes; 15 rue de L'Ecole de Médecine Paris F-75006 France
| | - Nicolas Sakkas
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; Paris F-75006 France
- CNRS UMR 8601; Paris F-75006 France
| | - Laura Iannazzo
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; Paris F-75006 France
- CNRS UMR 8601; Paris F-75006 France
| | - Chloé Le Fournis
- Laboratoire de Recherche Moléculaire sur les Antibiotiques Centre de Recherche des Cordeliers, Equipe 12, UMR S 1138; INSERM; Université Pierre et Marie Curie-Paris 6, Université Paris Descartes; 15 rue de L'Ecole de Médecine Paris F-75006 France
| | - Delphine Patin
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud; Université Paris-Saclay; 91198 Gif-sur-Yvette cedex France
| | - Dominique Mengin-Lecreulx
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud; Université Paris-Saclay; 91198 Gif-sur-Yvette cedex France
| | - Afaf El-Sagheer
- Department of Chemistry; University of Oxford, Chemistry Research Laboratory; 12 Mansfield Road Oxford OX1 3TA UK
- Chemistry Branch, Dept. of Science and Mathematics, Faculty of Petroleum and Mining Engineering; Suez Canal University; Suez 43721 Egypt
| | - Emmanuelle Braud
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; Paris F-75006 France
- CNRS UMR 8601; Paris F-75006 France
| | - Sébastien Cardon
- Laboratoire de Recherche Moléculaire sur les Antibiotiques Centre de Recherche des Cordeliers, Equipe 12, UMR S 1138; INSERM; Université Pierre et Marie Curie-Paris 6, Université Paris Descartes; 15 rue de L'Ecole de Médecine Paris F-75006 France
| | - Tom Brown
- Department of Chemistry; University of Oxford, Chemistry Research Laboratory; 12 Mansfield Road Oxford OX1 3TA UK
| | - Michel Arthur
- Laboratoire de Recherche Moléculaire sur les Antibiotiques Centre de Recherche des Cordeliers, Equipe 12, UMR S 1138; INSERM; Université Pierre et Marie Curie-Paris 6, Université Paris Descartes; 15 rue de L'Ecole de Médecine Paris F-75006 France
| | - Mélanie Etheve-Quelquejeu
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques; Université Paris Descartes, UMR 8601; Paris F-75006 France
- CNRS UMR 8601; Paris F-75006 France
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17
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Fonvielle M, Sakkas N, Iannazzo L, Le Fournis C, Patin D, Mengin-Lecreulx D, El-Sagheer A, Braud E, Cardon S, Brown T, Arthur M, Etheve-Quelquejeu M. Electrophilic RNA for Peptidyl-RNA Synthesis and Site-Specific Cross-Linking with tRNA-Binding Enzymes. Angew Chem Int Ed Engl 2016; 55:13553-13557. [PMID: 27667506 DOI: 10.1002/anie.201606843] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2016] [Revised: 09/03/2016] [Indexed: 12/12/2022]
Abstract
RNA functionalization is challenging due to the instability of RNA and the limited range of available enzymatic reactions. We developed a strategy based on solid phase synthesis and post-functionalization to introduce an electrophilic site at the 3' end of tRNA analogues. The squarate diester used as an electrophile enabled sequential amidation and provided asymmetric squaramides with high selectivity. The squaramate-RNAs specifically reacted with the lysine of UDP-MurNAc-pentapeptide, a peptidoglycan precursor used by the aminoacyl-transferase FemXWv for synthesis of the bacterial cell wall. The peptidyl-RNA obtained with squaramate-RNA and unprotected UDP-MurNAc-pentapeptide efficiently inhibited FemXWv . The squaramate unit also promoted specific cross-linking of RNA to the catalytic Lys of FemXWv but not to related transferases recognizing different aminoacyl-tRNAs. Thus, squaramate-RNAs provide specificity for cross-linking with defined groups in complex biomolecules due to its unique reactivity.
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Affiliation(s)
- Matthieu Fonvielle
- Laboratoire de Recherche Moléculaire sur les Antibiotiques Centre de Recherche des Cordeliers, Equipe 12, UMR S 1138; INSERM, Université Pierre et Marie Curie-Paris 6, Université Paris Descartes, 15 rue de L'Ecole de Médecine, Paris, F-75006, France
| | - Nicolas Sakkas
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR 8601, Paris, F-75006, France.,CNRS UMR 8601, Paris, F-75006, France
| | - Laura Iannazzo
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR 8601, Paris, F-75006, France.,CNRS UMR 8601, Paris, F-75006, France
| | - Chloé Le Fournis
- Laboratoire de Recherche Moléculaire sur les Antibiotiques Centre de Recherche des Cordeliers, Equipe 12, UMR S 1138; INSERM, Université Pierre et Marie Curie-Paris 6, Université Paris Descartes, 15 rue de L'Ecole de Médecine, Paris, F-75006, France
| | - Delphine Patin
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, 91198, Gif-sur-Yvette cedex, France
| | - Dominique Mengin-Lecreulx
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, Université Paris-Saclay, 91198, Gif-sur-Yvette cedex, France
| | - Afaf El-Sagheer
- Department of Chemistry, University of Oxford, Chemistry Research Laboratory, 12 Mansfield Road, Oxford, OX1 3TA, UK.,Chemistry Branch, Dept. of Science and Mathematics, Faculty of Petroleum and Mining Engineering, Suez Canal University, Suez, 43721, Egypt
| | - Emmanuelle Braud
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR 8601, Paris, F-75006, France.,CNRS UMR 8601, Paris, F-75006, France
| | - Sébastien Cardon
- Laboratoire de Recherche Moléculaire sur les Antibiotiques Centre de Recherche des Cordeliers, Equipe 12, UMR S 1138; INSERM, Université Pierre et Marie Curie-Paris 6, Université Paris Descartes, 15 rue de L'Ecole de Médecine, Paris, F-75006, France
| | - Tom Brown
- Department of Chemistry, University of Oxford, Chemistry Research Laboratory, 12 Mansfield Road, Oxford, OX1 3TA, UK
| | - Michel Arthur
- Laboratoire de Recherche Moléculaire sur les Antibiotiques Centre de Recherche des Cordeliers, Equipe 12, UMR S 1138; INSERM, Université Pierre et Marie Curie-Paris 6, Université Paris Descartes, 15 rue de L'Ecole de Médecine, Paris, F-75006, France.
| | - Mélanie Etheve-Quelquejeu
- Laboratoire de Chimie et de Biochimie Pharmacologiques et Toxicologiques, Université Paris Descartes, UMR 8601, Paris, F-75006, France. .,CNRS UMR 8601, Paris, F-75006, France.
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18
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Iannazzo L, Soroka D, Triboulet S, Fonvielle M, Compain F, Dubée V, Mainardi JL, Hugonnet JE, Braud E, Arthur M, Etheve-Quelquejeu M. Routes of Synthesis of Carbapenems for Optimizing Both the Inactivation of l,d-Transpeptidase LdtMt1 of Mycobacterium tuberculosis and the Stability toward Hydrolysis by β-Lactamase BlaC. J Med Chem 2016; 59:3427-38. [DOI: 10.1021/acs.jmedchem.6b00096] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Laura Iannazzo
- Laboratoire
de Chimie et de Biochimie Pharmacologiques et Toxicologiques, team
CBNIT, Université Paris Descartes, CNRS UMR 8601, Paris F-75006, France
| | | | | | | | | | - Vincent Dubée
- Assistance
Publique-Hôpitaux de Paris, Service de Réanimation Médicale, Hôpital Saint-Antoine, Paris F-75012,France
| | - Jean-Luc Mainardi
- Assistance
Publique-Hôpitaux de Paris, Service de Microbiologie, Hôpital Européen Georges Pompidou, Paris F-75015, France
| | | | - Emmanuelle Braud
- Laboratoire
de Chimie et de Biochimie Pharmacologiques et Toxicologiques, team
CBNIT, Université Paris Descartes, CNRS UMR 8601, Paris F-75006, France
| | | | - Mélanie Etheve-Quelquejeu
- Laboratoire
de Chimie et de Biochimie Pharmacologiques et Toxicologiques, team
CBNIT, Université Paris Descartes, CNRS UMR 8601, Paris F-75006, France
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19
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Iannazzo L, Laisné G, Fonvielle M, Braud E, Herbeuval JP, Arthur M, Etheve-Quelquejeu M. Inside Cover: Synthesis of 3′-Fluoro-tRNA Analogues for Exploring Non-ribosomal Peptide Synthesis in Bacteria (ChemBioChem 3/2015). Chembiochem 2015. [DOI: 10.1002/cbic.201590003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Iannazzo L, Laisné G, Fonvielle M, Braud E, Herbeuval JP, Arthur M, Etheve-Quelquejeu M. Synthesis of 3′-Fluoro-tRNA Analogues for Exploring Non-ribosomal Peptide Synthesis in Bacteria. Chembiochem 2015; 16:477-86. [DOI: 10.1002/cbic.201402523] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2014] [Indexed: 11/08/2022]
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21
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Santarem M, Fonvielle M, Sakkas N, Laisné G, Chemama M, Herbeuval JP, Braud E, Arthur M, Etheve-Quelquejeu M. Synthesis of 3'-triazoyl-dinucleotides as precursors of stable Phe-tRNA(Phe) and Leu-tRNA(Leu) analogues. Bioorg Med Chem Lett 2014; 24:3231-3. [PMID: 24986659 DOI: 10.1016/j.bmcl.2014.06.027] [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] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2014] [Revised: 06/09/2014] [Accepted: 06/10/2014] [Indexed: 11/25/2022]
Abstract
We report here the synthesis of stable Phe-tRNA(Phe) and Leu-tRNA(Leu) analogues containing a 1,2,3-triazole ring instead of the ribose-amino acid ester bond. The 1,2,3-triazole ring is generated by dipolar cycloaddition of alkyne Phe and Leu analogues to 3'-azido-3'-deoxyadenosine via the Cu(I)-catalysed Huisgen, Meldal, Sharpless 1,3-cycloaddition. The corresponding triazoyl pdCpA dinucleotides, obtained by classical phosphoramidite chemistry, were enzymatically ligated to 22-nt or 74-nt RNA generating stable Phe-tRNA(Phe) analogues containing the acceptor stem or full tRNA moieties, respectively. These molecules represent useful tools to study the contribution of the RNA and amino acid moieties in stabilization of aminoacyl-tRNA/protein complexes.
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Affiliation(s)
- Marco Santarem
- Institut Parisien de Chimie Moléculaire, CNRS UMR 7201, Université Pierre et Marie Curie Paris 6, 4, place Jussieu, 75005 Paris, France
| | - Matthieu Fonvielle
- Centre de Recherche des Cordeliers, LRMA, Equipe 12, INSERM UMR S 1138, Université Pierre et Marie Curie-Paris 6, UMR S 1138, Paris F-75006, France; Université Paris Descartes, Sorbonne Paris Cité, UMR S 1138, Paris F-75006 France
| | - Nicolas Sakkas
- Chemistry & Biology Nucleo(s)tides & Immunology for Therapy (CBNIT), CNRS UMR8601, Université Paris Descartes, PRES Sorbonne Paris Cité, 45 rue des Saints-Pères, 75270 Paris Cedex 06, France
| | - Guillaume Laisné
- Chemistry & Biology Nucleo(s)tides & Immunology for Therapy (CBNIT), CNRS UMR8601, Université Paris Descartes, PRES Sorbonne Paris Cité, 45 rue des Saints-Pères, 75270 Paris Cedex 06, France
| | - Maryline Chemama
- Institut Parisien de Chimie Moléculaire, CNRS UMR 7201, Université Pierre et Marie Curie Paris 6, 4, place Jussieu, 75005 Paris, France
| | - Jean-Philippe Herbeuval
- Chemistry & Biology Nucleo(s)tides & Immunology for Therapy (CBNIT), CNRS UMR8601, Université Paris Descartes, PRES Sorbonne Paris Cité, 45 rue des Saints-Pères, 75270 Paris Cedex 06, France
| | - Emmanuelle Braud
- Chemistry & Biology Nucleo(s)tides & Immunology for Therapy (CBNIT), CNRS UMR8601, Université Paris Descartes, PRES Sorbonne Paris Cité, 45 rue des Saints-Pères, 75270 Paris Cedex 06, France
| | - Michel Arthur
- Centre de Recherche des Cordeliers, LRMA, Equipe 12, INSERM UMR S 1138, Université Pierre et Marie Curie-Paris 6, UMR S 1138, Paris F-75006, France; Université Paris Descartes, Sorbonne Paris Cité, UMR S 1138, Paris F-75006 France
| | - Mélanie Etheve-Quelquejeu
- Chemistry & Biology Nucleo(s)tides & Immunology for Therapy (CBNIT), CNRS UMR8601, Université Paris Descartes, PRES Sorbonne Paris Cité, 45 rue des Saints-Pères, 75270 Paris Cedex 06, France.
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22
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Moutiez M, Seguin J, Fonvielle M, Belin P, Jacques IB, Favry E, Arthur M, Gondry M. Specificity determinants for the two tRNA substrates of the cyclodipeptide synthase AlbC from Streptomyces noursei. Nucleic Acids Res 2014; 42:7247-58. [PMID: 24782519 PMCID: PMC4066775 DOI: 10.1093/nar/gku348] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Cyclodipeptide synthases (CDPSs) use two aminoacyl-tRNA substrates in a sequential ping-pong mechanism to form a cyclodipeptide. The crystal structures of three CDPSs have been determined and all show a Rossmann-fold domain similar to the catalytic domain of class-I aminoacyl-tRNA synthetases (aaRSs). Structural features and mutational analyses however suggest that CDPSs and aaRSs interact differently with their tRNA substrates. We used AlbC from Streptomyces noursei that mainly produces cyclo(l-Phe-l-Leu) to investigate the interaction of a CDPS with its substrates. We demonstrate that Phe-tRNAPhe is the first substrate accommodated by AlbC. Its binding to AlbC is dependent on basic residues located in the helix α4 that form a basic patch at the surface of the protein. AlbC does not use all of the Leu-tRNALeu isoacceptors as a second substrate. We show that the G1-C72 pair of the acceptor stem is essential for the recognition of the second substrate. Substitution of D163 located in the loop α6–α7 or D205 located in the loop β6–α8 affected Leu-tRNALeu isoacceptors specificity, suggesting the involvement of these residues in the binding of the second substrate. This is the first demonstration that the two substrates of CDPSs are accommodated in different binding sites.
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MESH Headings
- Bacterial Proteins/chemistry
- Bacterial Proteins/metabolism
- Binding Sites
- Peptide Synthases/chemistry
- Peptide Synthases/metabolism
- RNA, Transfer, Amino Acyl/chemistry
- RNA, Transfer, Amino Acyl/metabolism
- RNA, Transfer, Leu/chemistry
- RNA, Transfer, Leu/metabolism
- RNA, Transfer, Phe/chemistry
- RNA, Transfer, Phe/metabolism
- Streptomyces/enzymology
- Substrate Specificity
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Affiliation(s)
- Mireille Moutiez
- Service d'Ingénierie Moléculaire des Protéines, iBiTec-S, Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 91191 Gif-sur-Yvette Cedex, France
| | - Jérôme Seguin
- Service d'Ingénierie Moléculaire des Protéines, iBiTec-S, Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 91191 Gif-sur-Yvette Cedex, France
| | - Matthieu Fonvielle
- INSERM, U1138, LRMA, Equipe 12 du Centre de Recherche des Cordeliers, Paris 75006, France Université Pierre et Marie Curie, UMR S 1138, Paris, France Université Paris Descartes, Sorbonne Paris Cité, UMR S 1138, Paris, France
| | - Pascal Belin
- Service d'Ingénierie Moléculaire des Protéines, iBiTec-S, Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 91191 Gif-sur-Yvette Cedex, France
| | - Isabelle Béatrice Jacques
- Service d'Ingénierie Moléculaire des Protéines, iBiTec-S, Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 91191 Gif-sur-Yvette Cedex, France
| | - Emmanuel Favry
- Service d'Ingénierie Moléculaire des Protéines, iBiTec-S, Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 91191 Gif-sur-Yvette Cedex, France
| | - Michel Arthur
- INSERM, U1138, LRMA, Equipe 12 du Centre de Recherche des Cordeliers, Paris 75006, France Université Pierre et Marie Curie, UMR S 1138, Paris, France Université Paris Descartes, Sorbonne Paris Cité, UMR S 1138, Paris, France
| | - Muriel Gondry
- Service d'Ingénierie Moléculaire des Protéines, iBiTec-S, Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 91191 Gif-sur-Yvette Cedex, France
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23
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Fonvielle M, Li de La Sierra-Gallay I, El-Sagheer AH, Lecerf M, Patin D, Mellal D, Mayer C, Blanot D, Gale N, Brown T, van Tilbeurgh H, Ethève-Quelquejeu M, Arthur M. The structure of FemX(Wv) in complex with a peptidyl-RNA conjugate: mechanism of aminoacyl transfer from Ala-tRNA(Ala) to peptidoglycan precursors. Angew Chem Int Ed Engl 2013; 52:7278-81. [PMID: 23744707 DOI: 10.1002/anie.201301411] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2013] [Indexed: 11/09/2022]
Affiliation(s)
- Matthieu Fonvielle
- Laboratoire de Recherche Moléculaire sur les Antibiotiques, Centre de Recherche des Cordeliers, Equipe 12, INSERM, U872, 75006 Paris, France
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24
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Fonvielle M, Li de La Sierra-Gallay I, El-Sagheer AH, Lecerf M, Patin D, Mellal D, Mayer C, Blanot D, Gale N, Brown T, van Tilbeurgh H, Ethève-Quelquejeu M, Arthur M. The Structure of FemXWvin Complex with a Peptidyl-RNA Conjugate: Mechanism of Aminoacyl Transfer from Ala-tRNAAlato Peptidoglycan Precursors. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201301411] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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25
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Fonvielle M, Le Du MH, Lequin O, Lecoq A, Jacquet M, Thai R, Dubois S, Grach G, Gondry M, Belin P. Substrate and reaction specificity of Mycobacterium tuberculosis cytochrome P450 CYP121: insights from biochemical studies and crystal structures. J Biol Chem 2013; 288:17347-59. [PMID: 23620594 DOI: 10.1074/jbc.m112.443853] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Cytochrome P450 CYP121 is essential for the viability of Mycobacterium tuberculosis. Studies in vitro show that it can use the cyclodipeptide cyclo(l-Tyr-l-Tyr) (cYY) as a substrate. We report an investigation of the substrate and reaction specificities of CYP121 involving analysis of the interaction between CYP121 and 14 cYY analogues with various modifications of the side chains or the diketopiperazine (DKP) ring. Spectral titration experiments show that CYP121 significantly bound only cyclodipeptides with a conserved DKP ring carrying two aryl side chains in l-configuration. CYP121 did not efficiently or selectively transform any of the cYY analogues tested, indicating a high specificity for cYY. The molecular determinants of this specificity were inferred from both crystal structures of CYP121-analog complexes solved at high resolution and solution NMR spectroscopy of the analogues. Bound cYY or its analogues all displayed a similar set of contacts with CYP121 residues Asn(85), Phe(168), and Trp(182). The propensity of the cYY tyrosyl to point toward Arg(386) was dependent on the presence of the DKP ring that limits the conformational freedom of the ligand. The correct positioning of the hydroxyl of this tyrosyl was essential for conversion of cYY. Thus, the specificity of CYP121 results from both a restricted binding specificity and a fine-tuned P450 substrate relationship. These results document the catalytic mechanism of CYP121 and improve our understanding of its function in vivo. This work contributes to progress toward the design of inhibitors of this essential protein of M. tuberculosis that could be used for antituberculosis therapy.
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Affiliation(s)
- Matthieu Fonvielle
- Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), iBiTec-S, Service d'Ingénierie Moléculaire des Protéines, 91191 Gif-sur-Yvette Cedex, France
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26
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Mellal D, Fonvielle M, Santarem M, Chemama M, Schneider Y, Iannazzo L, Braud E, Arthur M, Etheve-Quelquejeu M. Synthesis and biological evaluation of non-isomerizable analogues of Ala-tRNAAla. Org Biomol Chem 2013; 11:6161-9. [DOI: 10.1039/c3ob41206g] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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27
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Fonvielle M, Mellal D, Patin D, Lecerf M, Blanot D, Bouhss A, Santarem M, Mengin-Lecreulx D, Sollogoub M, Arthur M, Ethève-Quelquejeu M. Efficient access to peptidyl-RNA conjugates for picomolar inhibition of non-ribosomal FemX(Wv) aminoacyl transferase. Chemistry 2012. [PMID: 23197408 DOI: 10.1002/chem.201201999] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Peptidyl-RNA conjugates have various applications in studying the ribosome and enzymes participating in tRNA-dependent pathways such as Fem transferases in peptidoglycan synthesis. Herein a convergent synthesis of peptidyl-RNAs based on Huisgen-Sharpless cycloaddition for the final ligation step is developed. Azides and alkynes are introduced into tRNA and UDP-MurNAc-pentapeptide, respectively. Synthesis of 2'-azido RNA helix starts from 2'-azido-2'-deoxyadenosine that is coupled to deoxycytidine by phosphoramidite chemistry. The resulting dinucleotide is deprotected and ligated to a 22-nt RNA helix mimicking the acceptor arm of Ala-tRNA(Ala) by T4 RNA ligase. For alkyne UDP-MurNAc-pentapeptide, meso-cystine is enzymatically incorporated into the peptidoglycan precursor and reduced, and L-Cys is converted to dehydroalanine with O-(mesitylenesulfonyl)hydroxylamine. Reaction of but-3-yne-1-thiol with dehydroalanine affords the alkyne-containing UDP-MurNAc-pentapeptide. The Cu(I)-catalyzed azide alkyne cycloaddition reaction in the presence of tris[(1-hydroxypropyl-1H-1,2,3-triazol-4-yl)methyl]amine provided the peptidyl-RNA conjugate, which was tested as an inhibitor of non-ribosomal FemX(Wv) aminoacyl transferase. The bi-substrate analogue was found to inhibit FemX(Wv) with an IC(50) of (89±9) pM, as both moieties of the peptidyl-RNA conjugate contribute to high-affinity binding.
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Affiliation(s)
- Matthieu Fonvielle
- Centre de Recherche des Cordeliers, LRMA, Equipe 12, Université Pierre et Marie Curie - Paris 6, UMR S 872, Paris 75006, France
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28
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Seguin J, Moutiez M, Li Y, Belin P, Lecoq A, Fonvielle M, Charbonnier JB, Pernodet JL, Gondry M. Nonribosomal peptide synthesis in animals: the cyclodipeptide synthase of Nematostella. ACTA ACUST UNITED AC 2012; 18:1362-8. [PMID: 22118670 DOI: 10.1016/j.chembiol.2011.09.010] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2011] [Revised: 09/02/2011] [Accepted: 09/23/2011] [Indexed: 01/10/2023]
Abstract
Cyclodipeptide synthases (CDPSs) are small enzymes structurally related to class-I aminoacyl-tRNA synthetases (aaRSs). They divert aminoacylated tRNAs from their canonical role in ribosomal protein synthesis, for cyclodipeptide formation. All the CDPSs experimentally characterized to date are bacterial. We show here that a predicted CDPS from the sea anemone Nematostella vectensis is an active CDPS catalyzing the formation of various cyclodipeptides, preferentially containing tryptophan. Our findings demonstrate that eukaryotes encode active CDPSs and suggest that all CDPSs have a similar aminoacyl-tRNA synthetase-like architecture and ping-pong mechanism. They also raise questions about the biological roles of the cyclodipeptides produced in bacteria and eukaryotes.
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Affiliation(s)
- Jérôme Seguin
- CEA, Institut de Biologie et Technologies de Saclay, F-91191 Gif-sur-Yvette, France
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29
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Chemama M, Fonvielle M, Lecerf M, Mellal D, Fief H, Arthur M, Etheve-Quelquejeu M. Synthesis of stable aminoacyl-tRNA analogs. Curr Protoc Nucleic Acid Chem 2011; Chapter 4:Unit 4.44. [PMID: 21400704 DOI: 10.1002/0471142700.nc0444s44] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Abstract
Aminoacyl-tRNAs have important roles in a variety of biological processes. Here, we describe the synthesis of stable aminoacyl-tRNA analogs containing 1,4-substituted 1,2,3-triazole rings. The procedure involves (i) copper-catalyzed cycloadditions of 3'-or 2'-azido-adenosine and alkynes, (ii) coupling between the resulting triazole-deoxyadenosine derivatives and a deoxycytidine phosphoramidite, and (iii) the enzymatic ligation of the 2'- or 3'-triazole-dinucleotides with a 22-nt RNA microhelix that mimics the acceptor arm of tRNA. Each nucleoside and nucleotide intermediate was characterized by MS spectrometry and (1)H, (31)P, and (13)C NMR spectroscopy, and the tRNA-analogs were assayed for inhibition of FemXWv, an alanyl-transferase essential for the formation of the peptidoglycan network of Gram-positive bacterial pathogens. The low IC(50) values obtained (2 to 4 µM) indicate that the five-membered triazole rings acted as an isosteres of esters and can be used for the design of stable aminoacyl-tRNA analogs.
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Affiliation(s)
- Maryline Chemama
- Institut Parisien de Chimie Moléculaire, Université Pierre et Marie Curie, Paris, France
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30
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Sauguet L, Moutiez M, Li Y, Belin P, Seguin J, Le Du MH, Thai R, Masson C, Fonvielle M, Pernodet JL, Charbonnier JB, Gondry M. Cyclodipeptide synthases, a family of class-I aminoacyl-tRNA synthetase-like enzymes involved in non-ribosomal peptide synthesis. Nucleic Acids Res 2011; 39:4475-89. [PMID: 21296757 PMCID: PMC3105412 DOI: 10.1093/nar/gkr027] [Citation(s) in RCA: 64] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Cyclodipeptide synthases (CDPSs) belong to a newly defined family of enzymes that use aminoacyl-tRNAs (aa-tRNAs) as substrates to synthesize the two peptide bonds of various cyclodipeptides, which are the precursors of many natural products with noteworthy biological activities. Here, we describe the crystal structure of AlbC, a CDPS from Streptomyces noursei. The AlbC structure consists of a monomer containing a Rossmann-fold domain. Strikingly, it is highly similar to the catalytic domain of class-I aminoacyl-tRNA synthetases (aaRSs), especially class-Ic TyrRSs and TrpRSs. AlbC contains a deep pocket, highly conserved among CDPSs. Site-directed mutagenesis studies indicate that this pocket accommodates the aminoacyl moiety of the aa-tRNA substrate in a way similar to that used by TyrRSs to recognize their tyrosine substrates. These studies also suggest that the tRNA moiety of the aa-tRNA interacts with AlbC via at least one patch of basic residues, which is conserved among CDPSs but not present in class-Ic aaRSs. AlbC catalyses its two-substrate reaction via a ping-pong mechanism with a covalent intermediate in which l-Phe is shown to be transferred from Phe-tRNAPhe to an active serine. These findings provide insight into the molecular bases of the interactions between CDPSs and their aa-tRNAs substrates, and the catalytic mechanism used by CDPSs to achieve the non-ribosomal synthesis of cyclodipeptides.
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Affiliation(s)
- Ludovic Sauguet
- CEA, IBITECS, Service d'Ingénierie Moléculaire des Protéines, F-91191 Gif-sur-Yvette, France
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31
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Daher R, Coinçon M, Fonvielle M, Gest PM, Guerin ME, Jackson M, Sygusch J, Therisod M. Rational design, synthesis, and evaluation of new selective inhibitors of microbial class II (zinc dependent) fructose bis-phosphate aldolases. J Med Chem 2010; 53:7836-42. [PMID: 20929256 DOI: 10.1021/jm1009814] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We report the synthesis and biochemical evaluation of several selective inhibitors of class II (zinc dependent) fructose bis-phosphate aldolases (Fba). The products were designed as transition-state analogues of the catalyzed reaction, structurally related to the substrate fructose bis-phosphate (or sedoheptulose bis-phosphate) and based on an N-substituted hydroxamic acid, as a chelator of the zinc ion present in active site. The compounds synthesized were tested on class II Fbas from various pathogenic microorganisms and, by comparison, on a mammalian class I Fba. The best inhibitor shows K(i) against class II Fbas from various pathogens in the nM range, with very high selectivity (up to 10(5)). Structural analyses of inhibitors in complex with aldolases rationalize and corroborate the enzymatic kinetics results. These inhibitors represent lead compounds for the preparation of new synthetic antibiotics, notably for tuberculosis prophylaxis.
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Affiliation(s)
- Racha Daher
- ECBB, ICMMO, Univ Paris-Sud, UMR 8182, F-91405 Orsay, France
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32
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Fonvielle M, Chemama M, Lecerf M, Villet R, Busca P, Bouhss A, Ethève-Quelquejeu M, Arthur M. Decoding the Logic of the tRNA Regiospecificity of Nonribosomal FemXWv Aminoacyl Transferase. Angew Chem Int Ed Engl 2010; 49:5115-9. [DOI: 10.1002/anie.201001473] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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33
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Fonvielle M, Chemama M, Lecerf M, Villet R, Busca P, Bouhss A, Ethève-Quelquejeu M, Arthur M. Decoding the Logic of the tRNA Regiospecificity of Nonribosomal FemXWv Aminoacyl Transferase. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.201001473] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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34
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Chemama M, Fonvielle M, Arthur M, Valéry JM, Etheve-Quelquejeu M. Synthesis of Stable Aminoacyl-tRNA Analogues Containing Triazole as a Bioisoster of Esters. Chemistry 2009; 15:1929-38. [DOI: 10.1002/chem.200801563] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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35
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Fonvielle M, Chemama M, Villet R, Lecerf M, Bouhss A, Valéry JM, Ethève-Quelquejeu M, Arthur M. Aminoacyl-tRNA recognition by the FemXWv transferase for bacterial cell wall synthesis. Nucleic Acids Res 2009; 37:1589-601. [PMID: 19151092 PMCID: PMC2655667 DOI: 10.1093/nar/gkn1039] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Transferases of the Fem family catalyse peptide-bond formation by using aminoacyl-tRNAs and peptidoglycan precursors as donor and acceptor substrates, respectively. The specificity of Fem transferases is essential since mis-incorporated amino acids could act as chain terminators thereby preventing formation of a functional stress-bearing peptidoglycan network. Here we have developed chemical acylation of RNA helices with natural and non-proteinogenic amino acids to gain insight into the specificity of the model transferase FemX(Wv). Combining modifications in the RNA and aminoacyl moieties of the donor substrate revealed that unfavourable interactions of FemX(Wv) with the acceptor arm of tRNA(Gly) and with L-Ser or larger residues quantitatively accounts for the preferential transfer of L-Ala observed with complete aminoacyl-tRNAs. The main FemX(Wv) identity determinant was identified as the penultimate base pair (G(2)-C(71)) of the acceptor arm instead of G(3)*U(70) for the alanyl-tRNA synthetase. FemX(Wv) tolerated a configuration inversion of the Calpha of L-Ala but not the introduction of a second methyl on this atom. These results indicate that aminoacyl-tRNA recognition by FemX(Wv) is distinct from other components of the translation machinery and relies on the exclusion of bulky amino acids and of the sequence of tRNA(Gly) from the active site.
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Affiliation(s)
- Matthieu Fonvielle
- Centre de Recherche des Cordeliers, LRMA, Equipe 12, INSERM, Université Pierre et Marie Curie - Paris 6, France
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36
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Fonvielle M, Coinçon M, Daher R, Desbenoit N, Kosieradzka K, Barilone N, Gicquel B, Sygusch J, Jackson M, Therisod M. Synthesis and biochemical evaluation of selective inhibitors of class II fructose bisphosphate aldolases: towards new synthetic antibiotics. Chemistry 2008; 14:8521-9. [PMID: 18688832 DOI: 10.1002/chem.200800857] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
We report the synthesis and biochemical evaluation of selective inhibitors of class II (zinc-dependent) fructose bisphosphate aldolases. The most active compound is a simplified analogue of fructose bisphosphate, bearing a well-positioned metal chelating group. It is a powerful and highly selective competitive inhibitor of isolated class II aldolases. We report crystallographic studies of this inhibitor bound in the active site of the Helicobacter pylori enzyme. The compound also shows activity against Mycobacterium tuberculosis isolates.
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Chemama M, Fonvielle M, Villet R, Arthur M, Valéry JM, Etheve-Quelquejeu M. Stable Analogues of Aminoacyl-tRNA for Inhibition of an Essential Step of Bacterial Cell-Wall Synthesis [ J. Am. Chem. Soc. 2007, 129, 12642−12643]. J Am Chem Soc 2008. [DOI: 10.1021/ja710232g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Villet R, Fonvielle M, Busca P, Chemama M, Maillard AP, Hugonnet JE, Dubost L, Marie A, Josseaume N, Mesnage S, Mayer C, Valéry JM, Ethève-Quelquejeu M, Arthur M. Idiosyncratic features in tRNAs participating in bacterial cell wall synthesis. Nucleic Acids Res 2007; 35:6870-83. [PMID: 17932062 PMCID: PMC2175331 DOI: 10.1093/nar/gkm778] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
The FemX(Wv) aminoacyl transferase of Weissella viridescens initiates the synthesis of the side chain of peptidoglycan precursors by transferring l-Ala from Ala-tRNA(Ala) to UDP-MurNAc-pentadepsipeptide. FemX(Wv) is an attractive target for the development of novel antibiotics, since the side chain is essential for the last cross-linking step of peptidoglycan synthesis. Here, we show that FemX(Wv) is highly specific for incorporation of l-Ala in vivo based on extensive analysis of the structure of peptidoglycan. Comparison of various natural and in vitro-transcribed tRNAs indicated that the specificity of FemX(Wv) depends mainly upon the sequence of the tRNA although additional specificity determinants may include post-transcriptional modifications and recognition of the esterified amino acid. Site-directed mutagenesis identified cytosines in the G1-C72 and G2-C71 base pairs of the acceptor stem as critical for FemX(Wv) activity in agreement with modeling of tRNA(Ala) in the catalytic cavity of the enzyme. In contrast, semi-synthesis of Ala-tRNA(Ala) harboring nucleotide substitutions in the G3-U70 wobble base pair showed that this main identity determinant of alanyl-tRNA synthetase is non-essential for FemX(Wv). The different modes of recognition of the acceptor stem indicate that specific inhibition of FemX(Wv) could be achieved by targeting the distal portion of tRNA(Ala) for the design of substrate analogues.
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Affiliation(s)
- Régis Villet
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Matthieu Fonvielle
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Patricia Busca
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Maryline Chemama
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Antoine P. Maillard
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Jean-Emmanuel Hugonnet
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Lionel Dubost
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Arul Marie
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Nathalie Josseaume
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Stéphane Mesnage
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Claudine Mayer
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Jean-Marc Valéry
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Mélanie Ethève-Quelquejeu
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
| | - Michel Arthur
- INSERM, U872, LRMA, Centre de Recherche des Cordeliers, Pôle 4, Equipe 12, Paris, F-75006, Université Pierre et Marie Curie—Paris6, UMR S 872, Paris, F-75006, Université Paris Descartes, UMR S 872, Paris, F-75006, CNRS UMR 7613, Synthèse, Structure et Fonction de Molécules Bioactives, Paris, F-75005, Université Pierre et Marie Curie—Paris6, UMR 7613, Paris, F-75005, Muséum National d’Histoire Naturelle, Plateforme de Spectrométrie de Masse et de Protéomique, Département Recherche Développement et Diversité Moléculaire, Paris, F-75005 and UMR5154,CNRS-MNHN, Paris, F-75005 France
- * To whom correspondence should be addressed. +33 01 43 25 00 33+33 01 43 25 68 12
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Chemama M, Fonvielle M, Villet R, Arthur M, Valéry JM, Etheve-Quelquejeu M. Stable analogues of aminoacyl-tRNA for inhibition of an essential step of bacterial cell-wall synthesis. J Am Chem Soc 2007; 129:12642-3. [PMID: 17910455 DOI: 10.1021/ja0749946] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Maryline Chemama
- Université Pierre et Marie Curie, UMR CNRS 7613, Synthèse, Structure et Fonction de Molécules Bioactives 4 place Jussieu, case 179, Paris, France
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Fonvielle M, Therisod H, Hemery M, Therisod M. New competitive inhibitors of cytosolic (NADH-dependent) rabbit muscle glycerophosphate dehydrogenase. Bioorg Med Chem Lett 2006; 17:410-3. [PMID: 17088060 DOI: 10.1016/j.bmcl.2006.10.030] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2006] [Revised: 10/10/2006] [Accepted: 10/13/2006] [Indexed: 10/24/2022]
Abstract
We report the synthesis and biochemical evaluation of new competitive inhibitors of the cytosolic (NADH-dependent) glycerophosphate dehydrogenase. The best tested compound, phosphono-propionohydroxamic acid, with a Ki of 6 microM, might be of interest as an anti-obesity drug.
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Affiliation(s)
- Matthieu Fonvielle
- Equipe Chimie Bioorganique et Bioinorganique, ICMMO, Univ Paris-Sud, UMR 8182, F-91405 Orsay, France
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Fonvielle M, Mariano S, Therisod M. New inhibitors of rabbit muscle triose-phosphate isomerase. Bioorg Med Chem Lett 2005; 15:2906-9. [PMID: 15911278 DOI: 10.1016/j.bmcl.2005.03.061] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2005] [Revised: 03/08/2005] [Accepted: 03/17/2005] [Indexed: 10/25/2022]
Abstract
We describe the synthesis and evaluation of three new competitive inhibitors of triose-phosphate isomerase. One of them (phosphoglycoloamidoxime: K(i) = 4.5 microM) is among the best reversible inhibitors so far reported for this enzyme.
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Affiliation(s)
- M Fonvielle
- LCBB, ICMMO, Bat. 420, Université Paris-Sud, Orsay, France
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Fonvielle M, Weber P, Dabkowska K, Therisod M. New highly selective inhibitors of class II fructose-1,6-bisphosphate aldolases. Bioorg Med Chem Lett 2004; 14:2923-6. [PMID: 15125960 DOI: 10.1016/j.bmcl.2004.03.040] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2004] [Revised: 03/10/2004] [Accepted: 03/12/2004] [Indexed: 10/26/2022]
Abstract
Phosphoglycolo amidoxime and phosphoglycolo hydrazide, two new derivatives of phosphoglycolic acid, were synthesised and successfully tested as selective competitive inhibitors of class II FBP-aldolases.
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Affiliation(s)
- Matthieu Fonvielle
- Laboratoire de Chimie Bioorganique et Bioinorganique, Institut de Chimie Moléculaire et de Matériaux d'Orsay, CNRS UMR 8124, Université Paris-Sud, F-91405 Orsay, France
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Weber P, Fonvielle M, Therisod M. New facile synthesis of phosphoglycolohydroxamic acid and other phosphoglycolic acid derivatives. Tetrahedron Lett 2003. [DOI: 10.1016/j.tetlet.2003.09.210] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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