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Saillant V, Morey L, Lipuma D, Boëton P, Siponen M, Arnoux P, Lechardeur D. HssS activation by membrane heme defines a paradigm for two-component system signaling in Staphylococcus aureus. mBio 2024:e0023024. [PMID: 38682935 DOI: 10.1128/mbio.00230-24] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2024] [Accepted: 04/02/2024] [Indexed: 05/01/2024] Open
Abstract
Strict management of intracellular heme pools, which are both toxic and beneficial, is crucial for bacterial survival during infection. The human pathogen Staphylococcus aureus uses a two-component heme sensing system (HssRS), which counteracts environmental heme toxicity by triggering expression of the efflux transporter HrtBA. The HssS heme sensor is a HisKA-type histidine kinase, characterized as a membrane-bound homodimer containing an extracellular sensor and a cytoplasmic conserved catalytic domain. To elucidate HssS heme-sensing mechanism, a structural simulation of the HssS dimer based on Alphafold2 was docked with heme. In this model, a heme-binding site is present in the HssS dimer between the membrane and extracellular domains. Heme is embedded in the membrane bilayer with its two protruding porphyrin propionates interacting with two conserved Arg94 and Arg163 that are located extracellularly. Single substitutions of these arginines and two highly conserved phenylalanines, Phe25 and Phe128, in the predicted hydrophobic pocket limited the ability of HssS to induce HrtBA synthesis. Combination of the four substitutions abolished HssS activation. Wild-type (WT) HssS copurified with heme from Escherichia coli, whereas heme binding was strongly attenuated in the variants. This study gives evidence that exogenous heme interacts with HssS at the membrane/extracellular interface to initiate HssS activation and induce HrtBA-mediated heme extrusion from the membrane. This "gatekeeper" mechanism could limit intracellular diffusion of exogenous heme in S. aureus and may serve as a paradigm for how efflux transporters control detoxification of exogenous hydrophobic stressors.IMPORTANCEIn the host blood, pathogenic bacteria are exposed to the red pigment heme that concentrates in their lipid membranes, generating cytotoxicity. To overcome heme toxicity, Staphylococcus aureus expresses a membrane sensor protein, HssS. Activation of HssS by heme triggers a phosphotransfer mechanism leading to the expression of a heme efflux system, HrtBA. This detoxification system prevents intracellular accumulation of heme. Our structural and functional data reveal a heme-binding hydrophobic cavity in HssS within the transmembrane domains (TM) helices at the interface with the extracellular domain. This structural pocket is important for the function of HssS as a heme sensor. Our findings provide a new basis for the elucidation of pathogen-sensing mechanisms as a prerequisite to the discovery of inhibitors.
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Affiliation(s)
- Vincent Saillant
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, Jouy-en-Josas, France, Jouy-en-Josas, France
| | - Léo Morey
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, Jouy-en-Josas, France, Jouy-en-Josas, France
| | - Damien Lipuma
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, Jouy-en-Josas, France, Jouy-en-Josas, France
| | - Pierre Boëton
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, Jouy-en-Josas, France, Jouy-en-Josas, France
| | - Marina Siponen
- Aix Marseille Univ., CEA, CNRS, BIAM, Saint Paul-Lez-Durance, France
| | - Pascal Arnoux
- Aix Marseille Univ., CEA, CNRS, BIAM, Saint Paul-Lez-Durance, France
| | - Delphine Lechardeur
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, Jouy-en-Josas, France, Jouy-en-Josas, France
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2
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Weber L, Gilat A, Maillot N, Byrne D, Arnoux P, Giudici-Orticoni MT, Méjean V, Ilbert M, Genest O, Rosenzweig R, Dementin S. Bacterial adaptation to cold: Conservation of a short J-domain co-chaperone and its protein partners in environmental proteobacteria. Environ Microbiol 2023; 25:2447-2464. [PMID: 37549929 DOI: 10.1111/1462-2920.16478] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [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: 03/08/2023] [Accepted: 07/20/2023] [Indexed: 08/09/2023]
Abstract
Bacterial genomes are a huge reservoir of genes encoding J-domain protein co-chaperones that recruit the molecular chaperone DnaK to assist protein substrates involved in survival, adaptation, or fitness. The atc operon of the aquatic mesophilic bacterium Shewanella oneidensis encodes the proteins AtcJ, AtcA, AtcB, and AtcC, and all of them, except AtcA, are required for growth at low temperatures. AtcJ is a short J-domain protein that interacts with DnaK, but also with AtcC through its 21 amino acid C-terminal domain. This interaction network is critical for cold growth. Here, we show that AtcJ represents a subfamily of short J-domain proteins that (i) are found in several environmental, mostly aquatic, β- or ɣ-proteobacteria and (ii) contain a conserved PX7 W motif in their C-terminal extension. Using a combination of NMR, biochemical and genetic approaches, we show that the hydrophobic nature of the tryptophan of the S. oneidensis AtcJ PX7 W motif determines the strong AtcJ-AtcC interaction essential for cold growth. The AtcJ homologues are encoded by operons containing at least the S. oneidensis atcA, atcB, and atcC homologues. These findings suggest a conserved network of DnaK and Atc proteins necessary for low-temperature growth and, given the variation in the atc operons, possibly for other biological functions.
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Affiliation(s)
- Lana Weber
- Laboratory of Bioenergetics and Protein Engineering (BIP UMR 7281), Aix-Marseille University, French National Center for Scientific Research (CNRS), Marseille, France
| | - Atar Gilat
- Department of Chemical and Structural Biology, Weizmann Institute of Science, Rehovot, Israel
| | - Nathanael Maillot
- Laboratory of Bioenergetics and Protein Engineering (BIP UMR 7281), Aix-Marseille University, French National Center for Scientific Research (CNRS), Marseille, France
| | - Deborah Byrne
- Protein Expression Facility, Aix-Marseille University, French National Center for Scientific Research (CNRS), IMM FR3479, Marseille, France
| | - Pascal Arnoux
- Institute of Biosciences and Biotechnologies of Aix-Marseille (BIAM UMR7265), Aix-Marseille University, French Alternative Energies and Atomic Energy Commission (CEA), French National Center for Scientific Research (CNRS), Saint Paul-Lez-Durance, France
| | - Marie-Thérèse Giudici-Orticoni
- Laboratory of Bioenergetics and Protein Engineering (BIP UMR 7281), Aix-Marseille University, French National Center for Scientific Research (CNRS), Marseille, France
| | - Vincent Méjean
- Laboratory of Bioenergetics and Protein Engineering (BIP UMR 7281), Aix-Marseille University, French National Center for Scientific Research (CNRS), Marseille, France
| | - Marianne Ilbert
- Laboratory of Bioenergetics and Protein Engineering (BIP UMR 7281), Aix-Marseille University, French National Center for Scientific Research (CNRS), Marseille, France
| | - Olivier Genest
- Laboratory of Bioenergetics and Protein Engineering (BIP UMR 7281), Aix-Marseille University, French National Center for Scientific Research (CNRS), Marseille, France
| | - Rina Rosenzweig
- Department of Chemical and Structural Biology, Weizmann Institute of Science, Rehovot, Israel
| | - Sébastien Dementin
- Laboratory of Bioenergetics and Protein Engineering (BIP UMR 7281), Aix-Marseille University, French National Center for Scientific Research (CNRS), Marseille, France
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3
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Park Y, Eyal Z, Pekker P, Chevrier DM, Lefèvre CT, Arnoux P, Armengaud J, Monteil CL, Gal A, Pósfai M, Faivre D. Periplasmic Bacterial Biomineralization of Copper Sulfide Nanoparticles. Adv Sci (Weinh) 2022; 9:e2203444. [PMID: 35975419 PMCID: PMC9534983 DOI: 10.1002/advs.202203444] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Indexed: 06/15/2023]
Abstract
Metal sulfides are a common group of extracellular bacterial biominerals. However, only a few cases of intracellular biomineralization are reported in this group, mostly limited to greigite (Fe3 S4 ) in magnetotactic bacteria. Here, a previously unknown periplasmic biomineralization of copper sulfide produced by the magnetotactic bacterium Desulfamplus magnetovallimortis strain BW-1, a species known to mineralize greigite (Fe3 S4 ) and magnetite (Fe3 O4 ) in the cytoplasm is reported. BW-1 produces hundreds of spherical nanoparticles, composed of 1-2 nm substructures of a poorly crystalline hexagonal copper sulfide structure that remains in a thermodynamically unstable state. The particles appear to be surrounded by an organic matrix as found from staining and electron microscopy inspection. Differential proteomics suggests that periplasmic proteins, such as a DegP-like protein and a heavy metal-binding protein, could be involved in this biomineralization process. The unexpected periplasmic formation of copper sulfide nanoparticles in BW-1 reveals previously unknown possibilities for intracellular biomineralization that involves intriguing biological control and holds promise for biological metal recovery in times of copper shortage.
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Affiliation(s)
- Yeseul Park
- Aix‐Marseille UniversityFrench Alternative Energies and Atomic Energy Commission (CEA)French National Center for Scientific Research (CNRS)UMR7265 Institute of Biosciences and Biotechnologies of Aix‐Marseille (BIAM)Saint‐Paul‐lez‐Durance13108France
| | - Zohar Eyal
- Department of Plant and Environmental SciencesWeizmann Institute of ScienceRehovot7610001Israel
| | - Péter Pekker
- Nanolab, Research Institute of Biomolecular and Chemical EngineeringUniversity of PannoniaEgyetem st. 10Veszprém8200Hungary
| | - Daniel M. Chevrier
- Aix‐Marseille UniversityFrench Alternative Energies and Atomic Energy Commission (CEA)French National Center for Scientific Research (CNRS)UMR7265 Institute of Biosciences and Biotechnologies of Aix‐Marseille (BIAM)Saint‐Paul‐lez‐Durance13108France
| | - Christopher T. Lefèvre
- Aix‐Marseille UniversityFrench Alternative Energies and Atomic Energy Commission (CEA)French National Center for Scientific Research (CNRS)UMR7265 Institute of Biosciences and Biotechnologies of Aix‐Marseille (BIAM)Saint‐Paul‐lez‐Durance13108France
| | - Pascal Arnoux
- Aix‐Marseille UniversityFrench Alternative Energies and Atomic Energy Commission (CEA)French National Center for Scientific Research (CNRS)UMR7265 Institute of Biosciences and Biotechnologies of Aix‐Marseille (BIAM)Saint‐Paul‐lez‐Durance13108France
| | - Jean Armengaud
- Medicines and Healthcare Technologies Department (DMTS) University of Paris‐SaclayFrench Alternative Energies and Atomic Energy Commission (CEA)National Research Institute for Agriculture, Food and the Environment (INRAE)Pharmacology and Immunoanalysis unit (SPI)Bagnols‐sur‐Cèze30200France
| | - Caroline L. Monteil
- Aix‐Marseille UniversityFrench Alternative Energies and Atomic Energy Commission (CEA)French National Center for Scientific Research (CNRS)UMR7265 Institute of Biosciences and Biotechnologies of Aix‐Marseille (BIAM)Saint‐Paul‐lez‐Durance13108France
| | - Assaf Gal
- Department of Plant and Environmental SciencesWeizmann Institute of ScienceRehovot7610001Israel
| | - Mihály Pósfai
- Nanolab, Research Institute of Biomolecular and Chemical EngineeringUniversity of PannoniaEgyetem st. 10Veszprém8200Hungary
- ELKH‐PE Environmental Mineralogy Research GroupEgyetem st. 10Veszprém8200Hungary
| | - Damien Faivre
- Aix‐Marseille UniversityFrench Alternative Energies and Atomic Energy Commission (CEA)French National Center for Scientific Research (CNRS)UMR7265 Institute of Biosciences and Biotechnologies of Aix‐Marseille (BIAM)Saint‐Paul‐lez‐Durance13108France
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4
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Gallois N, Alpha-Bazin B, Bremond N, Ortet P, Barakat M, Piette L, Mohamad Ali A, Lemaire D, Legrand P, Theodorakopoulos N, Floriani M, Février L, Den Auwer C, Arnoux P, Berthomieu C, Armengaud J, Chapon V. Discovery and characterization of UipA, a uranium- and iron-binding PepSY protein involved in uranium tolerance by soil bacteria. ISME J 2022; 16:705-716. [PMID: 34556817 PMCID: PMC8857325 DOI: 10.1038/s41396-021-01113-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2021] [Revised: 09/01/2021] [Accepted: 09/08/2021] [Indexed: 02/08/2023]
Abstract
Uranium is a naturally occurring radionuclide. Its redistribution, primarily due to human activities, can have adverse effects on human and non-human biota, which poses environmental concerns. The molecular mechanisms of uranium tolerance and the cellular response induced by uranium exposure in bacteria are not yet fully understood. Here, we carried out a comparative analysis of four actinobacterial strains isolated from metal and radionuclide-rich soils that display contrasted uranium tolerance phenotypes. Comparative proteogenomics showed that uranyl exposure affects 39-47% of the total proteins, with an impact on phosphate and iron metabolisms and membrane proteins. This approach highlighted a protein of unknown function, named UipA, that is specific to the uranium-tolerant strains and that had the highest positive fold-change upon uranium exposure. UipA is a single-pass transmembrane protein and its large C-terminal soluble domain displayed a specific, nanomolar binding affinity for UO22+ and Fe3+. ATR-FTIR and XAS-spectroscopy showed that mono and bidentate carboxylate groups of the protein coordinated both metals. The crystal structure of UipA, solved in its apo state and bound to uranium, revealed a tandem of PepSY domains in a swapped dimer, with a negatively charged face where uranium is bound through a set of conserved residues. This work reveals the importance of UipA and its PepSY domains in metal binding and radionuclide tolerance.
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Affiliation(s)
- Nicolas Gallois
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - Béatrice Alpha-Bazin
- grid.5583.b0000 0001 2299 8025Département Médicaments et Technologies pour la Santé (DMTS), Université Paris-Saclay, CEA, INRAE, SPI, 30200 Bagnols-sur-Cèze, France
| | - Nicolas Bremond
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - Philippe Ortet
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - Mohamed Barakat
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - Laurie Piette
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - Abbas Mohamad Ali
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - David Lemaire
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - Pierre Legrand
- grid.426328.9Synchrotron SOLEIL. L’Orme des Merisiers Saint-Aubin. BP 48, 91192 Gif-sur-Yvette, France
| | - Nicolas Theodorakopoulos
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France ,grid.418735.c0000 0001 1414 6236IRSN, PSE-ENV/SRTE/LR2T, B.P. 3, 13115 Saint Paul-lez-Durance, Cedex France
| | - Magali Floriani
- grid.418735.c0000 0001 1414 6236IRSN, PSE-ENV/SRTE/LECO, B.P. 3, 13115 Saint Paul-lez-Durance, Cedex France
| | - Laureline Février
- grid.418735.c0000 0001 1414 6236IRSN, PSE-ENV/SRTE/LR2T, B.P. 3, 13115 Saint Paul-lez-Durance, Cedex France
| | - Christophe Den Auwer
- grid.462124.70000 0004 0384 8488Université Côte d’Azur, CNRS, ICN, 06108 Nice, France
| | - Pascal Arnoux
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - Catherine Berthomieu
- grid.5399.60000 0001 2176 4817Aix Marseille Université, CEA, CNRS, BIAM, 13108 Saint Paul-Lez-Durance, France
| | - Jean Armengaud
- grid.5583.b0000 0001 2299 8025Département Médicaments et Technologies pour la Santé (DMTS), Université Paris-Saclay, CEA, INRAE, SPI, 30200 Bagnols-sur-Cèze, France
| | - Virginie Chapon
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France.
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5
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Gallois N, Alpha-Bazin B, Bremond N, Ortet P, Barakat M, Piette L, Mohamad Ali A, Lemaire D, Legrand P, Theodorakopoulos N, Floriani M, Février L, Den Auwer C, Arnoux P, Berthomieu C, Armengaud J, Chapon V. Correction: Discovery and characterization of UipA, a uranium- and iron-binding PepSY protein involved in uranium tolerance by soil bacteria. ISME J 2022; 16:902-903. [PMID: 34980889 PMCID: PMC8857231 DOI: 10.1038/s41396-021-01164-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Affiliation(s)
- Nicolas Gallois
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - Béatrice Alpha-Bazin
- Département Médicaments et Technologies pour la Santé (DMTS), Université Paris-Saclay, CEA, INRAE, SPI, 30200, Bagnols-sur-Cèze, France
| | - Nicolas Bremond
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - Philippe Ortet
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - Mohamed Barakat
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - Laurie Piette
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - Abbas Mohamad Ali
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - David Lemaire
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - Pierre Legrand
- Synchrotron SOLEIL. L'Orme des Merisiers Saint-Aubin. BP 48, 91192, Gif-sur-Yvette, France
| | - Nicolas Theodorakopoulos
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
- IRSN, PSE-ENV/SRTE/LR2T, B.P. 3, 13115, Saint Paul-lez-Durance, Cedex, France
| | - Magali Floriani
- IRSN, PSE-ENV/SRTE/LECO, B.P. 3, 13115, Saint Paul-lez-Durance, Cedex, France
| | - Laureline Février
- IRSN, PSE-ENV/SRTE/LR2T, B.P. 3, 13115, Saint Paul-lez-Durance, Cedex, France
| | | | - Pascal Arnoux
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - Catherine Berthomieu
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France
| | - Jean Armengaud
- Département Médicaments et Technologies pour la Santé (DMTS), Université Paris-Saclay, CEA, INRAE, SPI, 30200, Bagnols-sur-Cèze, France
| | - Virginie Chapon
- Aix Marseille Université, CEA, CNRS, BIAM, 13108, Saint Paul-Lez-Durance, France.
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6
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Sorigué D, Hadjidemetriou K, Blangy S, Gotthard G, Legrand P, Nurizzo D, Royant A, Berthomieu C, Weik M, Domratcheva T, Brettel K, Vos MH, Schlichting I, Müller P, Beisson F, Arnoux P. High-resolution structure and reaction cycle of fatty acid photodecarboxylase: anatomy of a crime scene. Acta Crystallogr A Found Adv 2021. [DOI: 10.1107/s0108767321094356] [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: 11/10/2022] Open
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7
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Sorigué D, Hadjidemetriou K, Blangy S, Gotthard G, Bonvalet A, Coquelle N, Samire P, Aleksandrov A, Antonucci L, Benachir A, Boutet S, Byrdin M, Cammarata M, Carbajo S, Cuiné S, Doak RB, Foucar L, Gorel A, Grünbein M, Hartmann E, Hienerwadel R, Hilpert M, Kloos M, Lane TJ, Légeret B, Legrand P, Li-Beisson Y, Moulin SLY, Nurizzo D, Peltier G, Schirò G, Shoeman RL, Sliwa M, Solinas X, Zhuang B, Barends TRM, Colletier JP, Joffre M, Royant A, Berthomieu C, Weik M, Domratcheva T, Brettel K, Vos MH, Schlichting I, Arnoux P, Müller P, Beisson F. Mechanism and dynamics of fatty acid photodecarboxylase. Science 2021; 372:372/6538/eabd5687. [PMID: 33833098 DOI: 10.1126/science.abd5687] [Citation(s) in RCA: 73] [Impact Index Per Article: 24.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Accepted: 02/17/2021] [Indexed: 12/21/2022]
Abstract
Fatty acid photodecarboxylase (FAP) is a photoenzyme with potential green chemistry applications. By combining static, time-resolved, and cryotrapping spectroscopy and crystallography as well as computation, we characterized Chlorella variabilis FAP reaction intermediates on time scales from subpicoseconds to milliseconds. High-resolution crystal structures from synchrotron and free electron laser x-ray sources highlighted an unusual bent shape of the oxidized flavin chromophore. We demonstrate that decarboxylation occurs directly upon reduction of the excited flavin by the fatty acid substrate. Along with flavin reoxidation by the alkyl radical intermediate, a major fraction of the cleaved carbon dioxide unexpectedly transformed in 100 nanoseconds, most likely into bicarbonate. This reaction is orders of magnitude faster than in solution. Two strictly conserved residues, R451 and C432, are essential for substrate stabilization and functional charge transfer.
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Affiliation(s)
- D Sorigué
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France
| | - K Hadjidemetriou
- Université Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38000 Grenoble, France
| | - S Blangy
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France
| | - G Gotthard
- European Synchrotron Radiation Facility, 38043 Grenoble, France
| | - A Bonvalet
- LOB, CNRS, INSERM, Ecole Polytechnique, Institut Polytechnique de Paris, 91128 Palaiseau, France
| | - N Coquelle
- Large-Scale Structures Group, Institut Laue Langevin, 38042 Grenoble Cedex 9, France
| | - P Samire
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France.,Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France
| | - A Aleksandrov
- LOB, CNRS, INSERM, Ecole Polytechnique, Institut Polytechnique de Paris, 91128 Palaiseau, France
| | - L Antonucci
- LOB, CNRS, INSERM, Ecole Polytechnique, Institut Polytechnique de Paris, 91128 Palaiseau, France
| | - A Benachir
- LOB, CNRS, INSERM, Ecole Polytechnique, Institut Polytechnique de Paris, 91128 Palaiseau, France
| | - S Boutet
- Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, Menlo Park, CA 94025, USA
| | - M Byrdin
- Université Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38000 Grenoble, France
| | - M Cammarata
- Department of Physics, UMR UR1-CNRS 6251, University of Rennes 1, F-Rennes, France.
| | - S Carbajo
- Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, Menlo Park, CA 94025, USA
| | - S Cuiné
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France
| | - R B Doak
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - L Foucar
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - A Gorel
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - M Grünbein
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - E Hartmann
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - R Hienerwadel
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France
| | - M Hilpert
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - M Kloos
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany.
| | - T J Lane
- Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, Menlo Park, CA 94025, USA
| | - B Légeret
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France
| | - P Legrand
- Synchrotron SOLEIL. L'Orme des Merisiers Saint-Aubin, BP 48, 91192 Gif-sur-Yvette, France
| | - Y Li-Beisson
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France
| | - S L Y Moulin
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France
| | - D Nurizzo
- European Synchrotron Radiation Facility, 38043 Grenoble, France
| | - G Peltier
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France
| | - G Schirò
- Université Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38000 Grenoble, France
| | - R L Shoeman
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - M Sliwa
- Univ. Lille, CNRS, UMR 8516, LASIRE, LAboratoire de Spectroscopie pour les Interactions, la Réactivité et l'Environnement, 59000 Lille, France
| | - X Solinas
- LOB, CNRS, INSERM, Ecole Polytechnique, Institut Polytechnique de Paris, 91128 Palaiseau, France
| | - B Zhuang
- LOB, CNRS, INSERM, Ecole Polytechnique, Institut Polytechnique de Paris, 91128 Palaiseau, France.,Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France
| | - T R M Barends
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - J-P Colletier
- Université Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38000 Grenoble, France
| | - M Joffre
- LOB, CNRS, INSERM, Ecole Polytechnique, Institut Polytechnique de Paris, 91128 Palaiseau, France
| | - A Royant
- Université Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38000 Grenoble, France.,European Synchrotron Radiation Facility, 38043 Grenoble, France
| | - C Berthomieu
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France.
| | - M Weik
- Université Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38000 Grenoble, France.
| | - T Domratcheva
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany. .,Department of Chemistry, Lomonosov Moscow State University, Moscow 119991, Russia
| | - K Brettel
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France
| | - M H Vos
- LOB, CNRS, INSERM, Ecole Polytechnique, Institut Polytechnique de Paris, 91128 Palaiseau, France.
| | - I Schlichting
- Max-Planck-Institut für medizinische Forschung, Jahnstrasse 29, 69120 Heidelberg, Germany.
| | - P Arnoux
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France.
| | - P Müller
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France.
| | - F Beisson
- Aix-Marseille University, CEA, CNRS, Institute of Biosciences and Biotechnologies, BIAM Cadarache, 13108 Saint-Paul-lez-Durance, France.
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8
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Gomez NO, Tetard A, Ouerdane L, Laffont C, Brutesco C, Ball G, Lobinski R, Denis Y, Plésiat P, Llanes C, Arnoux P, Voulhoux R. Involvement of the Pseudomonas aeruginosa MexAB-OprM efflux pump in the secretion of the metallophore pseudopaline. Mol Microbiol 2020; 115:84-98. [PMID: 32896017 DOI: 10.1111/mmi.14600] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2020] [Revised: 08/07/2020] [Accepted: 08/28/2020] [Indexed: 12/16/2022]
Abstract
To overcome the metal restriction imposed by the host's nutritional immunity, pathogenic bacteria use high metal affinity molecules called metallophores. Metallophore-mediated metal uptake pathways necessitate complex cycles of synthesis, secretion, and recovery of the metallophore across the bacterial envelope. We recently discovered staphylopine and pseudopaline, two members of a new family of broad-spectrum metallophores important for bacterial survival during infections. Here, we are expending the molecular understanding of the pseudopaline transport cycle across the diderm envelope of the Gram-negative bacterium Pseudomonas aeruginosa. We first explored pseudopaline secretion by performing in vivo quantifications in various genetic backgrounds and revealed the specific involvement of the MexAB-OprM efflux pump in pseudopaline transport across the outer membrane. We then addressed the recovery part of the cycle by investigating the fate of the recaptured metal-loaded pseudopaline. To do so, we combined in vitro reconstitution experiments and in vivo phenotyping in absence of pseudopaline transporters to reveal the existence of a pseudopaline modification mechanism, possibly involved in the metal release following pseudopaline recovery. Overall, our data allowed us to provide an improved molecular model of secretion, recovery, and fate of this important metallophore by P. aeruginosa.
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Affiliation(s)
- Nicolas Oswaldo Gomez
- Laboratoire de Chimie Bactérienne (LCB) UMR7283, Institut de Microbiologie de la Méditerranée (IMM), CNRS, Aix-Marseille Université, Marseille, France
| | - Alexandre Tetard
- Laboratoire de Bactériologie, UMR CNRS 6249 Chrono-Environnement, Faculté de Médecine-Pharmacie, Université de Bourgogne Franche-Comté, Besançon, France
| | - Laurent Ouerdane
- Université de Pau et des Pays de l'Adour, e2s UPPA, CNRS, IPREM-UMR5254, Hélioparc, Pau, France
| | - Clémentine Laffont
- CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR, CEA Cadarache, Saint-Paul-lez Durance, France
| | - Catherine Brutesco
- CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR, CEA Cadarache, Saint-Paul-lez Durance, France
| | - Geneviève Ball
- Laboratoire de Chimie Bactérienne (LCB) UMR7283, Institut de Microbiologie de la Méditerranée (IMM), CNRS, Aix-Marseille Université, Marseille, France
| | - Ryszard Lobinski
- Université de Pau et des Pays de l'Adour, e2s UPPA, CNRS, IPREM-UMR5254, Hélioparc, Pau, France
| | - Yann Denis
- CNRS, Aix-Marseille Université, Institut de Microbiologie de la Méditerranée (IMM), Marseille, France
| | - Patrick Plésiat
- Laboratoire de Bactériologie, UMR CNRS 6249 Chrono-Environnement, Faculté de Médecine-Pharmacie, Université de Bourgogne Franche-Comté, Besançon, France
| | - Catherine Llanes
- Laboratoire de Bactériologie, UMR CNRS 6249 Chrono-Environnement, Faculté de Médecine-Pharmacie, Université de Bourgogne Franche-Comté, Besançon, France
| | - Pascal Arnoux
- CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR, CEA Cadarache, Saint-Paul-lez Durance, France
| | - Romé Voulhoux
- Laboratoire de Chimie Bactérienne (LCB) UMR7283, Institut de Microbiologie de la Méditerranée (IMM), CNRS, Aix-Marseille Université, Marseille, France
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9
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Affiliation(s)
- Gregorio Cullia
- Institut des Biomolécules Max Mousseron, IBMM; UMR-5247, CNRS; Université Montpellier; Place Eugène Bataillon 34095 Montpellier cedex 5 France
| | - Roberto Fanelli
- Institut des Biomolécules Max Mousseron, IBMM; UMR-5247, CNRS; Université Montpellier; Place Eugène Bataillon 34095 Montpellier cedex 5 France
| | - Romé Voulhoux
- Institut de Microbiologie de la Méditerranée; CNRS LCB UMR-7283; Aix Marseille Université; 31 Chemin Joseph Aiguier 13009 Marseille France
| | - Pascal Arnoux
- CEA, CNRS, BIAM; Aix Marseille Université; 13108 Saint Paul-Lez-Durance France
| | - Florine Cavelier
- Institut des Biomolécules Max Mousseron, IBMM; UMR-5247, CNRS; Université Montpellier; Place Eugène Bataillon 34095 Montpellier cedex 5 France
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10
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de Groot A, Siponen MI, Magerand R, Eugénie N, Martin-Arevalillo R, Doloy J, Lemaire D, Brandelet G, Parcy F, Dumas R, Roche P, Servant P, Confalonieri F, Arnoux P, Pignol D, Blanchard L. Crystal structure of the transcriptional repressor DdrO: insight into the metalloprotease/repressor-controlled radiation response in Deinococcus. Nucleic Acids Res 2020; 47:11403-11417. [PMID: 31598697 PMCID: PMC6868357 DOI: 10.1093/nar/gkz883] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [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: 06/08/2019] [Revised: 09/25/2019] [Accepted: 10/01/2019] [Indexed: 12/13/2022] Open
Abstract
Exposure to harmful conditions such as radiation and desiccation induce oxidative stress and DNA damage. In radiation-resistant Deinococcus bacteria, the radiation/desiccation response is controlled by two proteins: the XRE family transcriptional repressor DdrO and the COG2856 metalloprotease IrrE. The latter cleaves and inactivates DdrO. Here, we report the biochemical characterization and crystal structure of DdrO, which is the first structure of a XRE protein targeted by a COG2856 protein. DdrO is composed of two domains that fold independently and are separated by a flexible linker. The N-terminal domain corresponds to the DNA-binding domain. The C-terminal domain, containing three alpha helices arranged in a novel fold, is required for DdrO dimerization. Cleavage by IrrE occurs in the loop between the last two helices of DdrO and abolishes dimerization and DNA binding. The cleavage site is hidden in the DdrO dimer structure, indicating that IrrE cleaves DdrO monomers or that the interaction with IrrE induces a structural change rendering accessible the cleavage site. Predicted COG2856/XRE regulatory protein pairs are found in many bacteria, and available data suggest two different molecular mechanisms for stress-induced gene expression: COG2856 protein-mediated cleavage or inhibition of oligomerization without cleavage of the XRE repressor.
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Affiliation(s)
- Arjan de Groot
- Aix Marseille Univ, CEA, CNRS, BIAM, Molecular and Environmental Microbiology Team, Saint Paul-Lez-Durance, F-13108, France
| | - Marina I Siponen
- Aix Marseille Univ, CEA, CNRS, BIAM, Molecular and Environmental Microbiology Team, Saint Paul-Lez-Durance, F-13108, France
| | - Romaric Magerand
- Aix Marseille Univ, CEA, CNRS, BIAM, Molecular and Environmental Microbiology Team, Saint Paul-Lez-Durance, F-13108, France
| | - Nicolas Eugénie
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Univ. Paris-Saclay, Gif-sur-Yvette cedex, F-91198, France
| | | | - Jade Doloy
- Aix Marseille Univ, CEA, CNRS, BIAM, Molecular and Environmental Microbiology Team, Saint Paul-Lez-Durance, F-13108, France
| | - David Lemaire
- Aix Marseille Univ, CEA, CNRS, BIAM, Interaction Protein Metal Team, Saint Paul-Lez-Durance, F-13108, France
| | - Géraldine Brandelet
- Aix Marseille Univ, CEA, CNRS, BIAM, Molecular and Environmental Microbiology Team, Saint Paul-Lez-Durance, F-13108, France
| | - François Parcy
- Univ. Grenoble Alpes, CNRS, CEA, INRA, IRIG-DBSCI-LPCV, Grenoble, F-38000, France
| | - Renaud Dumas
- Univ. Grenoble Alpes, CNRS, CEA, INRA, IRIG-DBSCI-LPCV, Grenoble, F-38000, France
| | - Philippe Roche
- Aix Marseille Univ, CNRS, Inserm, Institut Paoli Calmettes, CRCM, Marseille CEDEX 09, F-13273, France
| | - Pascale Servant
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Univ. Paris-Saclay, Gif-sur-Yvette cedex, F-91198, France
| | - Fabrice Confalonieri
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Univ. Paris-Saclay, Gif-sur-Yvette cedex, F-91198, France
| | - Pascal Arnoux
- Aix Marseille Univ, CEA, CNRS, BIAM, Molecular and Environmental Microbiology Team, Saint Paul-Lez-Durance, F-13108, France
| | - David Pignol
- Aix Marseille Univ, CEA, CNRS, BIAM, Molecular and Environmental Microbiology Team, Saint Paul-Lez-Durance, F-13108, France
| | - Laurence Blanchard
- Aix Marseille Univ, CEA, CNRS, BIAM, Molecular and Environmental Microbiology Team, Saint Paul-Lez-Durance, F-13108, France
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11
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Laffont C, Arnoux P. The ancient roots of nicotianamine: diversity, role, regulation and evolution of nicotianamine-like metallophores. Metallomics 2020; 12:1480-1493. [PMID: 33084706 DOI: 10.1039/d0mt00150c] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Nicotianamine (NA) is a metabolite synthesized by all plants, in which it is involved in the homeostasis of different micronutrients such as iron, nickel or zinc. In some plants it also serves as a precursor of phytosiderophores, which are used for extracellular iron scavenging. Previous studies have also established the presence of NA in filamentous fungi and some mosses, whereas an analogue of NA was inferred in an archaeon. More recently, opine-type metallophores with homology to NA were uncovered in bacteria, especially in human pathogens such as Staphylococcus aureus, Pseudomonas aeruginosa or Yersinia pestis, synthesizing respectively staphylopine, pseudopaline and yersinopine. Here, we review the current state of knowledge regarding the discovery, biosynthesis, function and regulation of these metallophores. We also discuss the genomic environment of the cntL gene, which is homologous to the plant NA synthase (NAS) gene, and plays a central role in the synthesis of NA-like metallophores. This reveals a large diversity of biosynthetic, export and import pathways. Using sequence similarity networks, we uncovered that these metallophores are widespread in numerous bacteria thriving in very different environments, such as those living at the host-pathogen interface, but also in the soil. We additionally established a phylogeny of the NAS/cntL gene and, as a result, we propose that this gene is an ancient gene and NA, or its derivatives, is an ancient metallophore that played a prominent role in metal acquisition or metal resistance. Indeed, our phylogenetic analysis suggests an evolutionary model where the possibility to synthesize this metallophore was present early in the appearance of life, although it was later lost by most living microorganisms, unless facing metal starvation such as at the host-pathogen interface or in some soils. According to our model, NA then re-emerged as a central metabolite for metal homeostasis in fungi, mosses and all known higher plants.
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Affiliation(s)
- Clémentine Laffont
- Aix Marseille Univ, CEA, CNRS, BIAM, Saint Paul-Lez-Durance, F-13108, France.
| | - Pascal Arnoux
- Aix Marseille Univ, CEA, CNRS, BIAM, Saint Paul-Lez-Durance, F-13108, France.
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12
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Zeamari K, Gerbaud G, Grosse S, Fourmond V, Chaspoul F, Biaso F, Arnoux P, Sabaty M, Pignol D, Guigliarelli B, Burlat B. Tuning the redox properties of a [4Fe-4S] center to modulate the activity of Mo-bisPGD periplasmic nitrate reductase. Biochimica et Biophysica Acta (BBA) - Bioenergetics 2019; 1860:402-413. [DOI: 10.1016/j.bbabio.2019.01.003] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2018] [Revised: 11/30/2018] [Accepted: 01/25/2019] [Indexed: 11/15/2022]
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13
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Hajjar C, Fanelli R, Laffont C, Brutesco C, Cullia G, Tribout M, Nurizzo D, Borezée-Durant E, Voulhoux R, Pignol D, Lavergne J, Cavelier F, Arnoux P. Control by Metals of Staphylopine Dehydrogenase Activity during Metallophore Biosynthesis. J Am Chem Soc 2019; 141:5555-5562. [DOI: 10.1021/jacs.9b01676] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Christine Hajjar
- Aix Marseille Université, CEA, CNRS,
BIAM, F-13108 Saint Paul-Lez-Durance, France
| | - Roberto Fanelli
- Institut des Biomolécules Max Mousseron, IBMM, UMR-5247, CNRS, Université Montpellier, ENSCM, Place Eugène Bataillon, 34095 Montpellier Cedex 5, France
| | - Clémentine Laffont
- Aix Marseille Université, CEA, CNRS,
BIAM, F-13108 Saint Paul-Lez-Durance, France
| | - Catherine Brutesco
- Aix Marseille Université, CEA, CNRS,
BIAM, F-13108 Saint Paul-Lez-Durance, France
| | - Gregorio Cullia
- Institut des Biomolécules Max Mousseron, IBMM, UMR-5247, CNRS, Université Montpellier, ENSCM, Place Eugène Bataillon, 34095 Montpellier Cedex 5, France
| | - Mathilde Tribout
- Aix Marseille Université, CEA, CNRS,
BIAM, F-13108 Saint Paul-Lez-Durance, France
| | - Didier Nurizzo
- European Synchrotron Radiation Facility, 71 Avenue des Martyrs, CS 40220, 38043 Grenoble, France
| | - Elise Borezée-Durant
- Micalis Institute, INRA, AgroParisTech, University Paris-Saclay, 78350 Jouy-en-Josas, France
| | - Romé Voulhoux
- Institut de Microbiologie de la Méditerranée, CNRS LCB UMR 7283, Aix Marseille Université, 31 Chemin Joseph Aiguier, 13009 Marseille, France
| | - David Pignol
- Aix Marseille Université, CEA, CNRS,
BIAM, F-13108 Saint Paul-Lez-Durance, France
| | - Jérôme Lavergne
- Aix Marseille Université, CEA, CNRS,
BIAM, F-13108 Saint Paul-Lez-Durance, France
| | - Florine Cavelier
- Institut des Biomolécules Max Mousseron, IBMM, UMR-5247, CNRS, Université Montpellier, ENSCM, Place Eugène Bataillon, 34095 Montpellier Cedex 5, France
| | - Pascal Arnoux
- Aix Marseille Université, CEA, CNRS,
BIAM, F-13108 Saint Paul-Lez-Durance, France
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14
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Braiek Z, Roques-Carmes T, Assaker IB, Gannouni M, Arnoux P, Corbel S, Chtourou R. Enhanced solar and visible light photocatalytic activity of In2S3-decorated ZnO nanowires for water purification. J Photochem Photobiol A Chem 2019. [DOI: 10.1016/j.jphotochem.2018.09.032] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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15
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Sorigué D, Légeret B, Cuiné S, Blangy S, Moulin S, Billon E, Richaud P, Brugière S, Couté Y, Nurizzo D, Müller P, Brettel K, Pignol D, Arnoux P, Li-Beisson Y, Peltier G, Beisson F. An algal photoenzyme converts fatty acids to hydrocarbons. Science 2018; 357:903-907. [PMID: 28860382 DOI: 10.1126/science.aan6349] [Citation(s) in RCA: 221] [Impact Index Per Article: 36.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2017] [Accepted: 07/20/2017] [Indexed: 12/31/2022]
Abstract
Although many organisms capture or respond to sunlight, few enzymes are known to be driven by light. Among these are DNA photolyases and the photosynthetic reaction centers. Here, we show that the microalga Chlorella variabilis NC64A harbors a photoenzyme that acts in lipid metabolism. This enzyme belongs to an algae-specific clade of the glucose-methanol-choline oxidoreductase family and catalyzes the decarboxylation of free fatty acids to n-alkanes or -alkenes in response to blue light. Crystal structure of the protein reveals a fatty acid-binding site in a hydrophobic tunnel leading to the light-capturing flavin adenine dinucleotide (FAD) cofactor. The decarboxylation is initiated through electron abstraction from the fatty acid by the photoexcited FAD with a quantum yield >80%. This photoenzyme, which we name fatty acid photodecarboxylase, may be useful in light-driven, bio-based production of hydrocarbons.
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Affiliation(s)
- Damien Sorigué
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Bertrand Légeret
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Stéphan Cuiné
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Stéphanie Blangy
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Solène Moulin
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Emmanuelle Billon
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Pierre Richaud
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Sabine Brugière
- University Grenoble Alpes, CEA and INSERM, BIG-BGE, F-38000, Grenoble, France
| | - Yohann Couté
- University Grenoble Alpes, CEA and INSERM, BIG-BGE, F-38000, Grenoble, France
| | - Didier Nurizzo
- European Synchrotron Radiation Facility, 71 Avenue des Martyrs, CS 40220, F-38043 Grenoble, France
| | - Pavel Müller
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, University Paris-Sud, University Paris-Saclay, F-91198, Gif-sur-Yvette cedex, France
| | - Klaus Brettel
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, University Paris-Sud, University Paris-Saclay, F-91198, Gif-sur-Yvette cedex, France
| | - David Pignol
- BIAM, CEA, CNRS and Aix-Marseille University, UMR 7265 LBC, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Pascal Arnoux
- BIAM, CEA, CNRS and Aix-Marseille University, UMR 7265 LBC, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Yonghua Li-Beisson
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Gilles Peltier
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France
| | - Fred Beisson
- Biosciences and Biotechnologies Institute of Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), CNRS and Aix-Marseille University, UMR 7265 LB3M, CEA Cadarache, F-13108, Saint-Paul-lez-Durance, France.
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16
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Fojcik C, Arnoux P, Ouerdane L, Aigle M, Alfonsi L, Borezée-Durant E. Independent and cooperative regulation of staphylopine biosynthesis and trafficking by Fur and Zur. Mol Microbiol 2018; 108:159-177. [DOI: 10.1111/mmi.13927] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 02/07/2018] [Indexed: 11/25/2022]
Affiliation(s)
- Clémentine Fojcik
- Micalis Institute, INRA, AgroParisTech; University Paris-Saclay; 78350 Jouy-en-Josas France
| | - Pascal Arnoux
- CEA, DRF, BIAM, Laboratoire de Bioénergétique Cellulaire; Saint-Paul-lez-Durance France
- CNRS, UMR 7265 Biologie Végétale et Microbiologie Environnementales; Saint-Paul-lez-Durance France
- Aix Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales; Saint Paul-Lez-Durance 13108 France
| | - Laurent Ouerdane
- CNRS-UPPA, Laboratoire de Chimie Analytique Bio-inorganique et Environnement, UMR 5254, Hélioparc, 2; Av. Angot 64053 Pau France
| | - Marina Aigle
- Micalis Institute, INRA, AgroParisTech; University Paris-Saclay; 78350 Jouy-en-Josas France
| | - Laura Alfonsi
- Micalis Institute, INRA, AgroParisTech; University Paris-Saclay; 78350 Jouy-en-Josas France
| | - Elise Borezée-Durant
- Micalis Institute, INRA, AgroParisTech; University Paris-Saclay; 78350 Jouy-en-Josas France
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Larue L, Ben Mihoub A, Youssef Z, Colombeau L, Acherar S, André JC, Arnoux P, Baros F, Vermandel M, Frochot C. Using X-rays in photodynamic therapy: an overview. Photochem Photobiol Sci 2018; 17:1612-1650. [DOI: 10.1039/c8pp00112j] [Citation(s) in RCA: 72] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Photodynamic therapy is a therapeutic option to treat cancer and other diseases.
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18
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Lhospice S, Gomez NO, Ouerdane L, Brutesco C, Ghssein G, Hajjar C, Liratni A, Wang S, Richaud P, Bleves S, Ball G, Borezée-Durant E, Lobinski R, Pignol D, Arnoux P, Voulhoux R. Pseudomonas aeruginosa zinc uptake in chelating environment is primarily mediated by the metallophore pseudopaline. Sci Rep 2017; 7:17132. [PMID: 29214991 PMCID: PMC5719457 DOI: 10.1038/s41598-017-16765-9] [Citation(s) in RCA: 84] [Impact Index Per Article: 12.0] [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: 08/09/2017] [Accepted: 11/16/2017] [Indexed: 11/09/2022] Open
Abstract
Metal uptake is vital for all living organisms. In metal scarce conditions a common bacterial strategy consists in the biosynthesis of metallophores, their export in the extracellular medium and the recovery of a metal-metallophore complex through dedicated membrane transporters. Staphylopine is a recently described metallophore distantly related to plant nicotianamine that contributes to the broad-spectrum metal uptake capabilities of Staphylococcus aureus. Here we characterize a four-gene operon (PA4837-PA4834) in Pseudomonas aeruginosa involved in the biosynthesis and trafficking of a staphylopine-like metallophore named pseudopaline. Pseudopaline differs from staphylopine with regard to the stereochemistry of its histidine moiety associated with an alpha ketoglutarate moiety instead of pyruvate. In vivo, the pseudopaline operon is regulated by zinc through the Zur repressor. The pseudopaline system is involved in nickel uptake in poor media, and, most importantly, in zinc uptake in metal scarce conditions mimicking a chelating environment, thus reconciling the regulation of the cnt operon by zinc with its function as the main zinc importer under these metal scarce conditions.
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Affiliation(s)
- Sébastien Lhospice
- CNRS et Aix-Marseille Université, Laboratoire d'Ingénierie des Systèmes Macromoléculaires (UMR7255), Institut de Microbiologie de la Méditerranée, Marseille, France
| | - Nicolas Oswaldo Gomez
- CNRS et Aix-Marseille Université, Laboratoire d'Ingénierie des Systèmes Macromoléculaires (UMR7255), Institut de Microbiologie de la Méditerranée, Marseille, France
| | - Laurent Ouerdane
- Université de Pau et des Pays de l'Adour/CNRS, Laboratoire de Chimie Analytique Bio-inorganique et Environnement, IPREM-UMR5254, Hélioparc, 2, Avenue Angot, 64053, Pau, France
| | - Catherine Brutesco
- CEA, CNRS and Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR 7265 LBC, CEA Cadarache, Saint-Paul-lez-Durance, F-13108, France
| | - Ghassan Ghssein
- CEA, CNRS and Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR 7265 LBC, CEA Cadarache, Saint-Paul-lez-Durance, F-13108, France
| | - Christine Hajjar
- CEA, CNRS and Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR 7265 LBC, CEA Cadarache, Saint-Paul-lez-Durance, F-13108, France
| | - Ahmed Liratni
- CNRS et Aix-Marseille Université, Laboratoire d'Ingénierie des Systèmes Macromoléculaires (UMR7255), Institut de Microbiologie de la Méditerranée, Marseille, France
| | - Shuanglong Wang
- Université de Pau et des Pays de l'Adour/CNRS, Laboratoire de Chimie Analytique Bio-inorganique et Environnement, IPREM-UMR5254, Hélioparc, 2, Avenue Angot, 64053, Pau, France
| | - Pierre Richaud
- CEA, CNRS and Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR 7265 LB3M, CEA Cadarache, Saint-Paul-lez Durance, F-13108, France
| | - Sophie Bleves
- CNRS et Aix-Marseille Université, Laboratoire d'Ingénierie des Systèmes Macromoléculaires (UMR7255), Institut de Microbiologie de la Méditerranée, Marseille, France
| | - Geneviève Ball
- CNRS et Aix-Marseille Université, Laboratoire d'Ingénierie des Systèmes Macromoléculaires (UMR7255), Institut de Microbiologie de la Méditerranée, Marseille, France
| | - Elise Borezée-Durant
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350, Jouy-en-Josas, France
| | - Ryszard Lobinski
- Université de Pau et des Pays de l'Adour/CNRS, Laboratoire de Chimie Analytique Bio-inorganique et Environnement, IPREM-UMR5254, Hélioparc, 2, Avenue Angot, 64053, Pau, France
| | - David Pignol
- CEA, CNRS and Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR 7265 LBC, CEA Cadarache, Saint-Paul-lez-Durance, F-13108, France
| | - Pascal Arnoux
- CEA, CNRS and Aix-Marseille Université, Institut de Biosciences et Biotechnologies d'Aix-Marseille, UMR 7265 LBC, CEA Cadarache, Saint-Paul-lez-Durance, F-13108, France.
| | - Romé Voulhoux
- CNRS et Aix-Marseille Université, Laboratoire d'Ingénierie des Systèmes Macromoléculaires (UMR7255), Institut de Microbiologie de la Méditerranée, Marseille, France.
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Achard M, Acherar S, Althuser P, André J, Arnoux P, Barberi-Heyob M, Baros F, Bastogne T, Bonisegna C, Boura C, Colombeau L, Frochot C, Jouan-Hureaux V, Goria S, Landon J, Gazzali AM, Pinel S, Roques-Carmes T, Thomas N, Toussaint M, Vanderesse R, Youssef Z. PDTeam's project: Targeting to improve PDT selectivity. Photodiagnosis Photodyn Ther 2017. [DOI: 10.1016/j.pdpdt.2017.01.116] [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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20
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Stallivieri A, Devy J, Colombeau L, Etique N, Myrzakhmetov B, Achard M, Baros F, Arnoux P, Vanderesse R, Frochot C. New photodynamic molecular beacons as cancer-targeted agents in PDT. Photodiagnosis Photodyn Ther 2017. [DOI: 10.1016/j.pdpdt.2017.01.160] [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: 11/17/2022]
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21
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Stallivieri A, Le Guern F, Vanderesse R, Meledge E, Jori G, Arnoux P, Frochot C, Acherar S. Synthesis and photophysical properties of photoactivable cationic porphyrin 5-(4- N -dodecylpyridyl)-10,15,20-tri(4- N -methylpyridyl)-21 H , 23 H -porphyrin tetraiodide for anti PDT. Photodiagnosis Photodyn Ther 2017. [DOI: 10.1016/j.pdpdt.2017.01.134] [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: 11/16/2022]
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22
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Pramual S, Lirdprapamongkol K, Svasti J, Bergkvist M, Arnoux P, Frochot C, Jouan-Hureaux V, Barberi-Heyob M, Niamsiri N. Photosensitizer loaded polymer-lipid-peg nanoparticles: Preparation, characterization, photophysical properties and in vitro evaluations. Photodiagnosis Photodyn Ther 2017. [DOI: 10.1016/j.pdpdt.2017.01.059] [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: 10/19/2022]
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23
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Youssef Z, Arnoux P, Colombeau L, Moussaron A, Toufaily J, Hamieh T, Frochot C, Roques-Carmes T. Two approaches for elaborating sensitized TiO 2 nanoparticles of potential effect in photodynamic therapy. Photodiagnosis Photodyn Ther 2017. [DOI: 10.1016/j.pdpdt.2017.01.138] [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: 10/19/2022]
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Ghssein G, Brutesco C, Ouerdane L, Fojcik C, Izaute A, Wang S, Hajjar C, Lobinski R, Lemaire D, Richaud P, Voulhoux R, Espaillat A, Cava F, Pignol D, Borezée-Durant E, Arnoux P. Biosynthesis of a broad-spectrum nicotianamine-like metallophore in Staphylococcus aureus. Science 2016; 352:1105-9. [PMID: 27230378 DOI: 10.1126/science.aaf1018] [Citation(s) in RCA: 133] [Impact Index Per Article: 16.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2015] [Accepted: 04/12/2016] [Indexed: 12/11/2022]
Abstract
Metal acquisition is a vital microbial process in metal-scarce environments, such as inside a host. Using metabolomic exploration, targeted mutagenesis, and biochemical analysis, we discovered an operon in Staphylococcus aureus that encodes the different functions required for the biosynthesis and trafficking of a broad-spectrum metallophore related to plant nicotianamine (here called staphylopine). The biosynthesis of staphylopine reveals the association of three enzyme activities: a histidine racemase, an enzyme distantly related to nicotianamine synthase, and a staphylopine dehydrogenase belonging to the DUF2338 family. Staphylopine is involved in nickel, cobalt, zinc, copper, and iron acquisition, depending on the growth conditions. This biosynthetic pathway is conserved across other pathogens, thus underscoring the importance of this metal acquisition strategy in infection.
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Affiliation(s)
- Ghassan Ghssein
- Laboratoire de Bioénergétique Cellulaire, Institut de Biosciences et Biotechnology Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 13108 Saint-Paul-lès-Durance, France. UMR 7265, Centre National de Recherche Scientifique, Saint-Paul-lès-Durance, France. Aix Marseille Université, Marseille, France
| | - Catherine Brutesco
- Laboratoire de Bioénergétique Cellulaire, Institut de Biosciences et Biotechnology Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 13108 Saint-Paul-lès-Durance, France. UMR 7265, Centre National de Recherche Scientifique, Saint-Paul-lès-Durance, France. Aix Marseille Université, Marseille, France
| | - Laurent Ouerdane
- Université de Pau et des Pays de l'Adour/CNRS, Laboratoire de Chimie Analytique Bio-inorganique et Environnement, IPREM-UMR5254, Hélioparc, 2, Avenue Angot, 64053 Pau, France
| | - Clémentine Fojcik
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France
| | - Amélie Izaute
- Laboratoire de Bioénergétique Cellulaire, Institut de Biosciences et Biotechnology Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 13108 Saint-Paul-lès-Durance, France. UMR 7265, Centre National de Recherche Scientifique, Saint-Paul-lès-Durance, France. Aix Marseille Université, Marseille, France
| | - Shuanglong Wang
- Université de Pau et des Pays de l'Adour/CNRS, Laboratoire de Chimie Analytique Bio-inorganique et Environnement, IPREM-UMR5254, Hélioparc, 2, Avenue Angot, 64053 Pau, France
| | - Christine Hajjar
- Laboratoire de Bioénergétique Cellulaire, Institut de Biosciences et Biotechnology Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 13108 Saint-Paul-lès-Durance, France. UMR 7265, Centre National de Recherche Scientifique, Saint-Paul-lès-Durance, France. Aix Marseille Université, Marseille, France
| | - Ryszard Lobinski
- Université de Pau et des Pays de l'Adour/CNRS, Laboratoire de Chimie Analytique Bio-inorganique et Environnement, IPREM-UMR5254, Hélioparc, 2, Avenue Angot, 64053 Pau, France
| | - David Lemaire
- UMR 7265, Centre National de Recherche Scientifique, Saint-Paul-lès-Durance, France. Aix Marseille Université, Marseille, France. Lab Interact Protein Metal, BIAM, CEA, 13108 Saint-Paul-lès-Durance, France
| | - Pierre Richaud
- UMR 7265, Centre National de Recherche Scientifique, Saint-Paul-lès-Durance, France. Aix Marseille Université, Marseille, France. Lab Bioenerget Biotechnol Bacteries et Microalgues, BIAM, CEA, 13108 Saint-Paul-lès-Durance, France
| | - Romé Voulhoux
- CNRS et Aix-Marseille Université, Laboratoire d'Ingénierie des Systèmes Macromoléculaires (UMR7255), Institut de Microbiologie de la Méditerranée, Marseille, France
| | - Akbar Espaillat
- Laboratory for Molecular Infection Medicine Sweden, Department of Molecular Biology, Umeå Centre for Microbial Research, Umeå University, Umeå, Sweden
| | - Felipe Cava
- Laboratory for Molecular Infection Medicine Sweden, Department of Molecular Biology, Umeå Centre for Microbial Research, Umeå University, Umeå, Sweden
| | - David Pignol
- Laboratoire de Bioénergétique Cellulaire, Institut de Biosciences et Biotechnology Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 13108 Saint-Paul-lès-Durance, France. UMR 7265, Centre National de Recherche Scientifique, Saint-Paul-lès-Durance, France. Aix Marseille Université, Marseille, France
| | - Elise Borezée-Durant
- Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France
| | - Pascal Arnoux
- Laboratoire de Bioénergétique Cellulaire, Institut de Biosciences et Biotechnology Aix-Marseille (BIAM), Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), 13108 Saint-Paul-lès-Durance, France. UMR 7265, Centre National de Recherche Scientifique, Saint-Paul-lès-Durance, France. Aix Marseille Université, Marseille, France.
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25
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Arnoux P, Ruppelt C, Oudouhou F, Lavergne J, Siponen MI, Toci R, Mendel RR, Bittner F, Pignol D, Magalon A, Walburger A. Sulfur shuttling across a chaperone during molybdenum cofactor maturation. Acta Crystallogr A Found Adv 2015. [DOI: 10.1107/s2053273315096485] [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] Open
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26
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Zeytuni N, Cronin S, Lefèvre CT, Arnoux P, Baran D, Shtein Z, Davidov G, Zarivach R. MamA as a Model Protein for Structure-Based Insight into the Evolutionary Origins of Magnetotactic Bacteria. PLoS One 2015; 10:e0130394. [PMID: 26114501 PMCID: PMC4482739 DOI: 10.1371/journal.pone.0130394] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [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] [Received: 03/02/2015] [Accepted: 05/20/2015] [Indexed: 02/01/2023] Open
Abstract
MamA is a highly conserved protein found in magnetotactic bacteria (MTB), a diverse group of prokaryotes capable of navigating according to magnetic fields – an ability known as magnetotaxis. Questions surround the acquisition of this magnetic navigation ability; namely, whether it arose through horizontal or vertical gene transfer. Though its exact function is unknown, MamA surrounds the magnetosome, the magnetic organelle embedding a biomineralised nanoparticle and responsible for magnetotaxis. Several structures for MamA from a variety of species have been determined and show a high degree of structural similarity. By determining the structure of MamA from Desulfovibrio magneticus RS-1 using X-ray crystallography, we have opened up the structure-sequence landscape. As such, this allows us to perform structural- and phylogenetic-based analyses using a variety of previously determined MamA from a diverse range of MTB species across various phylogenetic groups. We found that MamA has remained remarkably constant throughout evolution with minimal change between different taxa despite sequence variations. These findings, coupled with the generation of phylogenetic trees using both amino acid sequences and 16S rRNA, indicate that magnetotaxis likely did not spread via horizontal gene transfer and instead has a significantly earlier, primordial origin.
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Affiliation(s)
- Natalie Zeytuni
- Department of Life Sciences and The National Institute for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer Sheva, Israel
| | - Samuel Cronin
- Department of Life Sciences and The National Institute for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer Sheva, Israel
| | - Christopher T. Lefèvre
- CEA/CNRS/Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire de Bioénergétique Cellulaire, Saint Paul les Durance, France
| | - Pascal Arnoux
- CEA/CNRS/Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire de Bioénergétique Cellulaire, Saint Paul les Durance, France
| | - Dror Baran
- Department of Life Sciences and The National Institute for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer Sheva, Israel
| | - Zvi Shtein
- Department of Life Sciences and The National Institute for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer Sheva, Israel
| | - Geula Davidov
- Department of Life Sciences and The National Institute for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer Sheva, Israel
| | - Raz Zarivach
- Department of Life Sciences and The National Institute for Biotechnology in the Negev, Ben-Gurion University of the Negev, Beer Sheva, Israel
- * E-mail:
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27
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Jacques JG, Burlat B, Arnoux P, Sabaty M, Guigliarelli B, Léger C, Pignol D, Fourmond V. Kinetics of substrate inhibition of periplasmic nitrate reductase. Biochimica et Biophysica Acta (BBA) - Bioenergetics 2014; 1837:1801-9. [DOI: 10.1016/j.bbabio.2014.05.357] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2014] [Revised: 05/14/2014] [Accepted: 05/22/2014] [Indexed: 11/26/2022]
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Arnoux P, Siponen MI, Lefèvre CT, Ginet N, Pignol D. Structure and evolution of the magnetochrome domains: no longer alone. Front Microbiol 2014; 5:117. [PMID: 24723915 PMCID: PMC3971196 DOI: 10.3389/fmicb.2014.00117] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [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: 12/03/2013] [Accepted: 03/08/2014] [Indexed: 11/13/2022] Open
Abstract
Magnetotactic bacteria (MTB) can swim along Earth's magnetic field lines, thanks to the alignment of dedicated cytoplasmic organelles. These organelles, termed magnetosomes, are proteolipidic vesicles filled by a 35–120 nm crystal of either magnetite or greigite. The formation and alignment of magnetosomes are mediated by a group of specific genes, the mam genes, encoding the magnetosome-associated proteins. The whole process of magnetosome biogenesis can be divided into four sequential steps; (i) cytoplasmic membrane invagination, (ii) magnetosomes alignment, (iii) iron crystal nucleation and (iv) species-dependent mineral size and shape control. Since both magnetite and greigite are a mix of iron (III) and iron (II), iron redox state management within the magnetosome vesicle is a key issue. Recently, studies have started pointing out the importance of a MTB-specific c-type cytochrome domain found in several magnetosome-associated proteins (MamE, P, T, and X). This magnetochrome (MCR) domain is almost always found in tandem, and this tandem is either found alone (MamT), in combination with a PDZ domain (MamP), a domain of unknown function (MamX) or with a trypsin combined to one or two PDZ domains (MamE). By taking advantage of new genomic data available on MTB and a recent structural study of MamP, which helped define the MCR domain boundaries, we attempt to retrace the evolutionary history within and between the different MCR-containing proteins. We propose that the observed tandem repeat of MCR is the result of a convergent evolution and attempt to explain why this domain is rarely found alone.
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Affiliation(s)
- Pascal Arnoux
- Commissariat à l'énergie Atomique, DSV, IBEB, Lab Bioenerget Cellulaire Saint-Paul-lez-Durance, France ; Centre National de la Recherche Scientifique, UMR Biol Veget and Microbiol Environ Saint-Paul-lez-Durance, France ; Aix-Marseille Université Saint-Paul-lez-Durance, France
| | - Marina I Siponen
- Commissariat à l'énergie Atomique, DSV, IBEB, Lab Bioenerget Cellulaire Saint-Paul-lez-Durance, France ; Centre National de la Recherche Scientifique, UMR Biol Veget and Microbiol Environ Saint-Paul-lez-Durance, France ; Aix-Marseille Université Saint-Paul-lez-Durance, France
| | - Christopher T Lefèvre
- Commissariat à l'énergie Atomique, DSV, IBEB, Lab Bioenerget Cellulaire Saint-Paul-lez-Durance, France ; Centre National de la Recherche Scientifique, UMR Biol Veget and Microbiol Environ Saint-Paul-lez-Durance, France ; Aix-Marseille Université Saint-Paul-lez-Durance, France
| | - Nicolas Ginet
- Commissariat à l'énergie Atomique, DSV, IBEB, Lab Bioenerget Cellulaire Saint-Paul-lez-Durance, France ; Centre National de la Recherche Scientifique, UMR Biol Veget and Microbiol Environ Saint-Paul-lez-Durance, France ; Aix-Marseille Université Saint-Paul-lez-Durance, France
| | - David Pignol
- Commissariat à l'énergie Atomique, DSV, IBEB, Lab Bioenerget Cellulaire Saint-Paul-lez-Durance, France ; Centre National de la Recherche Scientifique, UMR Biol Veget and Microbiol Environ Saint-Paul-lez-Durance, France ; Aix-Marseille Université Saint-Paul-lez-Durance, France
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Blériot C, Gault M, Gueguen E, Arnoux P, Pignol D, Mandrand-Berthelot MA, Rodrigue A. Cu binding by the Escherichia coli metal-efflux accessory protein RcnB. Metallomics 2014; 6:1400-9. [DOI: 10.1039/c4mt00036f] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
RcnB is a novel Cu-binding protein involved in Ni and Co detoxification.
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Affiliation(s)
- Camille Blériot
- Microbiologie, Adaptation et Pathogénie
- UMR5240 CNRS INSA Lyon Université Lyon 1
- F-69622 Villeurbanne Cedex, France
| | - Manon Gault
- Microbiologie, Adaptation et Pathogénie
- UMR5240 CNRS INSA Lyon Université Lyon 1
- F-69622 Villeurbanne Cedex, France
| | - Erwan Gueguen
- Microbiologie, Adaptation et Pathogénie
- UMR5240 CNRS INSA Lyon Université Lyon 1
- F-69622 Villeurbanne Cedex, France
| | - Pascal Arnoux
- CEA
- DSV
- IBEB
- Lab Bioenerget Cellulaire
- Saint-Paul-lez-Durance, France
| | - David Pignol
- CEA
- DSV
- IBEB
- Lab Bioenerget Cellulaire
- Saint-Paul-lez-Durance, France
| | | | - Agnès Rodrigue
- Microbiologie, Adaptation et Pathogénie
- UMR5240 CNRS INSA Lyon Université Lyon 1
- F-69622 Villeurbanne Cedex, France
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30
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Ji B, Zhang SD, Arnoux P, Rouy Z, Alberto F, Philippe N, Murat D, Zhang WJ, Rioux JB, Ginet N, Sabaty M, Mangenot S, Pradel N, Tian J, Yang J, Zhang L, Zhang W, Pan H, Henrissat B, Coutinho PM, Li Y, Xiao T, Médigue C, Barbe V, Pignol D, Talla E, Wu LF. Comparative genomic analysis provides insights into the evolution and niche adaptation of marine Magnetospira sp. QH-2 strain. Environ Microbiol 2013; 16:525-44. [PMID: 23841906 DOI: 10.1111/1462-2920.12180] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2013] [Revised: 05/17/2013] [Accepted: 06/02/2013] [Indexed: 11/30/2022]
Abstract
Magnetotactic bacteria (MTB) are capable of synthesizing intracellular organelles, the magnetosomes, that are membrane-bounded magnetite or greigite crystals arranged in chains. Although MTB are widely spread in various ecosystems, few axenic cultures are available, and only freshwater Magnetospirillum spp. have been genetically analysed. Here, we present the complete genome sequence of a marine magnetotactic spirillum, Magnetospira sp. QH-2. The high number of repeats and transposable elements account for the differences in QH-2 genome structure compared with other relatives. Gene cluster synteny and gene correlation analyses indicate that the insertion of the magnetosome island in the QH-2 genome occurred after divergence between freshwater and marine magnetospirilla. The presence of a sodium-quinone reductase, sodium transporters and other functional genes are evidence of the adaptive evolution of Magnetospira sp. QH-2 to the marine ecosystem. Genes well conserved among freshwater magnetospirilla for nitrogen fixation and assimilatory nitrate respiration are absent from the QH-2 genome. Unlike freshwater Magnetospirillum spp., marine Magnetospira sp. QH-2 neither has TonB and TonB-dependent receptors nor does it grow on trace amounts of iron. Taken together, our results show a distinct, adaptive evolution of Magnetospira sp. QH-2 to marine sediments in comparison with its closely related freshwater counterparts.
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Affiliation(s)
- Boyang Ji
- Laboratoire de Chimie Bactérienne, Aix-Marseille Université, Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7283, F-13402, Marseille Cedex 20, France
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Assowe O, Politano O, Vignal V, Arnoux P, Diawara B, Verners O, van Duin ACT. Reactive Molecular Dynamics of the Initial Oxidation Stages of Ni(111) in Pure Water: Effect of an Applied Electric Field. J Phys Chem A 2012; 116:11796-805. [DOI: 10.1021/jp306932a] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- O. Assowe
- ICB, Université de Bourgogne,
UMR 6303 CNRS, 9 Avenue A. Savary, Dijon, France
| | - O. Politano
- ICB, Université de Bourgogne,
UMR 6303 CNRS, 9 Avenue A. Savary, Dijon, France
| | - V. Vignal
- ICB, Université de Bourgogne,
UMR 6303 CNRS, 9 Avenue A. Savary, Dijon, France
| | - P. Arnoux
- CEA, DEN, DPC, SCCME, Laboratoire
d’Etude de la Corrosion Aqueuse, F-91191 Gif-sur-Yvette, France
| | - B. Diawara
- LPCS, ENSCP-CNRS (UMR 7045), 11
rue Pierre et Marie Curie, 75231 Paris Cedex 05, France
| | - O. Verners
- Department of Mechanical and
Nuclear Engineering, Pennsylvania State University, University Park, Pennsylvania 16802, United States
| | - A. C. T. van Duin
- Department of Mechanical and
Nuclear Engineering, Pennsylvania State University, University Park, Pennsylvania 16802, United States
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Verhille M, Benachour H, Ibrahim A, Achard M, Arnoux P, Barberi-Heyob M, Andre JC, Allonas X, Baros F, Vanderesse R, Frochot C. Photodynamic Molecular Beacons Triggered by MMP-2 and MMP-9: Influence of the Distance Between Photosensitizer and Quencher onto Photophysical Properties and Enzymatic Activation. Curr Med Chem 2012; 19:5580-94. [DOI: 10.2174/092986712803833128] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2012] [Revised: 09/04/2012] [Accepted: 09/10/2012] [Indexed: 11/22/2022]
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Arias-Cartin R, Grimaldi S, Arnoux P, Guigliarelli B, Magalon A. Cardiolipin binding in bacterial respiratory complexes: structural and functional implications. Biochim Biophys Acta 2012; 1817:1937-49. [PMID: 22561115 DOI: 10.1016/j.bbabio.2012.04.005] [Citation(s) in RCA: 69] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2012] [Revised: 04/10/2012] [Accepted: 04/10/2012] [Indexed: 10/28/2022]
Abstract
The structural and functional integrity of biological membranes is vital to life. The interplay of lipids and membrane proteins is crucial for numerous fundamental processes ranging from respiration, photosynthesis, signal transduction, solute transport to motility. Evidence is accumulating that specific lipids play important roles in membrane proteins, but how specific lipids interact with and enable membrane proteins to achieve their full functionality remains unclear. X-ray structures of membrane proteins have revealed tight and specific binding of lipids. For instance, cardiolipin, an anionic phospholipid, has been found to be associated to a number of eukaryotic and prokaryotic respiratory complexes. Moreover, polar and septal accumulation of cardiolipin in a number of prokaryotes may ensure proper spatial segregation and/or activity of proteins. In this review, we describe current knowledge of the functions associated with cardiolipin binding to respiratory complexes in prokaryotes as a frame to discuss how specific lipid binding may tune their reactivity towards quinone and participate to supercomplex formation of both aerobic and anaerobic respiratory chains. This article is part of a Special Issue entitled: 17th European Bioenergetics Conference (EBEC 2012).
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Affiliation(s)
- Rodrigo Arias-Cartin
- Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT 06520, USA
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Verméglio A, Nagashima S, Alric J, Arnoux P, Nagashima KVP. Photo-induced electron transfer in intact cells of Rubrivivax gelatinosus mutants deleted in the RC-bound tetraheme cytochrome: insight into evolution of photosynthetic electron transport. Biochim Biophys Acta 2012; 1817:689-96. [PMID: 22305913 DOI: 10.1016/j.bbabio.2012.01.011] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2011] [Revised: 01/18/2012] [Accepted: 01/18/2012] [Indexed: 11/25/2022]
Abstract
Deletion of two of the major electron carriers, the reaction center-bound tetrahemic cytochrome and the HiPIP, involved in the light-induced cyclic electron transfer pathway of the purple photosynthetic bacterium, Rubrivivax gelatinosus, significantly impairs its anaerobic photosynthetic growth. Analysis on the light-induced absorption changes of the intact cells of the mutants shows, however, a relatively efficient photo-induced cyclic electron transfer. For the single mutant lacking the reaction center-bound cytochrome, we present evidence that the electron carrier connecting the reaction center and the cytochrome bc(1) complex is the High Potential Iron-sulfur Protein. In the double mutant lacking both the reaction center-bound cytochrome and the High Potential Iron-sulfur Protein, this connection is achieved by the high potential cytochrome c(8). Under anaerobic conditions, the halftime of re-reduction of the photo-oxidized primary donor by these electron donors is 3 to 4 times faster than the back reaction between P(+) and the reduced primary quinone acceptor. This explains the photosynthetic growth of these two mutants. The results are discussed in terms of evolution of the type II RCs and their secondary electron donors.
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Affiliation(s)
- André Verméglio
- CEA, DSV, IBEB, Laboratoire de Bioénergétique Cellulaire, Saint-Paul-lez-Durance, France.
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Verhille M, Benachour H, Vanderesse R, Barberi-Heyob M, Arnoux P, Frochot C. Selective antitumor effect in photodynamic therapy mediated by photo-activable molecules, activated by endopeptidases. Photodiagnosis Photodyn Ther 2011. [DOI: 10.1016/j.pdpdt.2011.03.046] [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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Dreyfus C, Larrouy M, Cavelier F, Martinez J, Pignol D, Arnoux P. The crystallographic structure of thermoNicotianamine synthase with a synthetic reaction intermediate highlights the sequential processing mechanism. Chem Commun (Camb) 2011; 47:5825-7. [DOI: 10.1039/c1cc10565e] [Citation(s) in RCA: 4] [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: 12/24/2022]
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Fourmond V, Burlat B, Dementin S, Sabaty M, Arnoux P, Étienne É, Guigliarelli B, Bertrand P, Pignol D, Léger C. Dependence of Catalytic Activity on Driving Force in Solution Assays and Protein Film Voltammetry: Insights from the Comparison of Nitrate Reductase Mutants. Biochemistry 2010; 49:2424-32. [DOI: 10.1021/bi902140e] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Vincent Fourmond
- Centre National de la Recherche Scientifique, UPR 9036, Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, and Aix-Marseille Université, 31 chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Bénédicte Burlat
- Centre National de la Recherche Scientifique, UPR 9036, Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, and Aix-Marseille Université, 31 chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Sébastien Dementin
- Centre National de la Recherche Scientifique, UPR 9036, Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, and Aix-Marseille Université, 31 chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Monique Sabaty
- Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, 13108 Saint-Paul-lez-Durance, France, and Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, and Aix-Marseille Université, 13108 Saint-Paul-lez-Durance, France
| | - Pascal Arnoux
- Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, 13108 Saint-Paul-lez-Durance, France, and Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, and Aix-Marseille Université, 13108 Saint-Paul-lez-Durance, France
| | - Émilien Étienne
- Centre National de la Recherche Scientifique, UPR 9036, Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, and Aix-Marseille Université, 31 chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Bruno Guigliarelli
- Centre National de la Recherche Scientifique, UPR 9036, Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, and Aix-Marseille Université, 31 chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Patrick Bertrand
- Centre National de la Recherche Scientifique, UPR 9036, Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, and Aix-Marseille Université, 31 chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - David Pignol
- Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, 13108 Saint-Paul-lez-Durance, France, and Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, and Aix-Marseille Université, 13108 Saint-Paul-lez-Durance, France
| | - Christophe Léger
- Centre National de la Recherche Scientifique, UPR 9036, Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, and Aix-Marseille Université, 31 chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
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Fourmond V, Sabaty M, Arnoux P, Bertrand P, Pignol D, Léger C. Reassessing the Strategies for Trapping Catalytic Intermediates during Nitrate Reductase Turnover. J Phys Chem B 2010; 114:3341-7. [DOI: 10.1021/jp911443y] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- Vincent Fourmond
- Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, Centre National de la Recherche Scientifique, UPR 9036, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France, Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, F-13108 Saint-Paul-lez-Durance, France, Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, 13108 Saint-Paul-lez-Durance, France, and Aix-Marseille
| | - Monique Sabaty
- Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, Centre National de la Recherche Scientifique, UPR 9036, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France, Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, F-13108 Saint-Paul-lez-Durance, France, Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, 13108 Saint-Paul-lez-Durance, France, and Aix-Marseille
| | - Pascal Arnoux
- Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, Centre National de la Recherche Scientifique, UPR 9036, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France, Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, F-13108 Saint-Paul-lez-Durance, France, Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, 13108 Saint-Paul-lez-Durance, France, and Aix-Marseille
| | - Patrick Bertrand
- Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, Centre National de la Recherche Scientifique, UPR 9036, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France, Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, F-13108 Saint-Paul-lez-Durance, France, Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, 13108 Saint-Paul-lez-Durance, France, and Aix-Marseille
| | - David Pignol
- Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, Centre National de la Recherche Scientifique, UPR 9036, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France, Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, F-13108 Saint-Paul-lez-Durance, France, Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, 13108 Saint-Paul-lez-Durance, France, and Aix-Marseille
| | - Christophe Léger
- Unité de Bioénergétique et Ingénierie des Protéines, Institut de Microbiologie de la Méditerranée, Centre National de la Recherche Scientifique, UPR 9036, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France, Laboratoire de Bioénergétique Cellulaire, Commissariat à l’Energie Atomique, DSV, IBEB, F-13108 Saint-Paul-lez-Durance, France, Centre National de la Recherche Scientifique, UMR 6191, Biologie Végétale et Microbiologie Environnementale, 13108 Saint-Paul-lez-Durance, France, and Aix-Marseille
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Dreyfus C, Lemaire D, Pignol D, Arnoux P. Crystallographic snapshots of iterative substrate translocations during nicotianamine synthesis in archaea. Acta Crystallogr A 2009. [DOI: 10.1107/s0108767309099693] [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: 11/10/2022] Open
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Arnoux P, Morosinotto T, Saga G, Bassi R, Pignol D. A structural basis for the pH-dependant xanthophyll cycle. Acta Crystallogr A 2009. [DOI: 10.1107/s0108767309097360] [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: 11/10/2022] Open
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Arnoux P, Morosinotto T, Saga G, Bassi R, Pignol D. A structural basis for the pH-dependent xanthophyll cycle in Arabidopsis thaliana. Plant Cell 2009; 21:2036-44. [PMID: 19638474 PMCID: PMC2729612 DOI: 10.1105/tpc.109.068007] [Citation(s) in RCA: 115] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2009] [Revised: 06/25/2009] [Accepted: 07/13/2009] [Indexed: 05/18/2023]
Abstract
Plants adjust their photosynthetic activity to changing light conditions. A central regulation of photosynthesis depends on the xanthophyll cycle, in which the carotenoid violaxanthin is converted into zeaxanthin in strong light, thus activating the dissipation of the excess absorbed energy as heat and the scavenging of reactive oxygen species. Violaxanthin deepoxidase (VDE), the enzyme responsible for zeaxanthin synthesis, is activated by the acidification of the thylakoid lumen when photosynthetic electron transport exceeds the capacity of assimilatory reactions: at neutral pH, VDE is a soluble and inactive enzyme, whereas at acidic pH, it attaches to the thylakoid membrane where it binds its violaxanthin substrate. VDE also uses ascorbate as a cosubstrate with a pH-dependent Km that may reflect a preference for ascorbic acid. We determined the structures of the central lipocalin domain of VDE (VDEcd) at acidic and neutral pH. At neutral pH, VDEcd is monomeric with its active site occluded within a lipocalin barrel. Upon acidification, the barrel opens up and the enzyme appears as a dimer. A channel linking the two active sites of the dimer can harbor the entire carotenoid substrate and thus may permit the parallel deepoxidation of the two violaxanthin beta-ionone rings, making VDE an elegant example of the adaptation of an asymmetric enzyme to its symmetric substrate.
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Affiliation(s)
- Pascal Arnoux
- Commissariat à l'Energie Atomique, Direction des Sciences du Vivant, Institut de Biologie Environementale et de Biotechnologie, Laboratoire de Bioénergétique Cellulaire, Saint-Paul-lez-Durance, F-13108, France
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Fourmond V, Lautier T, Baffert C, Leroux F, Liebgott PP, Dementin S, Rousset M, Arnoux P, Pignol D, Meynial-Salles I, Soucaille P, Bertrand P, Léger C. Correcting for electrocatalyst desorption and inactivation in chronoamperometry experiments. Anal Chem 2009; 81:2962-8. [PMID: 19298055 DOI: 10.1021/ac8025702] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Chronoamperometric experiments with adsorbed electrocatalysts are commonly performed either for analytical purposes or for studying the catalytic mechanism of a redox enzyme. In the context of amperometric sensors, the current may be recorded as a function of time while the analyte concentration is being increased to determine a linearity range. In mechanistic studies of redox enzymes, chronoamperometry proved powerful for untangling the effects of electrode potential and time, which are convoluted in cyclic voltammetric measurements, and for studying the energetics and kinetics of inhibition. In all such experiments, the fact that the catalyst's coverage and/or activity decreases over time distorts the data. This may hide meaningful features, introduce systematic errors, and limit the accuracy of the measurements. We propose a general and surprisingly simple method for correcting for electrocatalyst desorption and inactivation, which greatly increases the precision of chronoamperometric experiments. Rather than subtracting a baseline, this consists in dividing the current, either by a synthetic signal that is proportional to the instant electroactive coverage or by the signal recorded in a control experiment. In the latter, the change in current may result from film loss only or from film loss plus catalyst inactivation. We describe the different strategies for obtaining the control signal by analyzing various data recorded with adsorbed redox enzymes: nitrate reductase, NiFe hydrogenase, and FeFe hydrogenase. In each case we discuss the trustfulness and the benefit of the correction. This method also applies to experiments where electron transfer is mediated, rather than direct, providing the current is proportional to the time-dependent concentration of catalyst.
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Affiliation(s)
- Vincent Fourmond
- Unité de Bioénergétique et Ingénierie des Protéines, IMM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France
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Fourmond V, Burlat B, Dementin S, Arnoux P, Sabaty M, Boiry S, Guigliarelli B, Bertrand P, Pignol D, Léger C. Major Mo(V) EPR Signature of Rhodobacter sphaeroides Periplasmic Nitrate Reductase Arising from a Dead-End Species That Activates upon Reduction. Relation to Other Molybdoenzymes from the DMSO Reductase Family. J Phys Chem B 2008; 112:15478-86. [DOI: 10.1021/jp807092y] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.7] [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)
- Vincent Fourmond
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - Bénédicte Burlat
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - Sébastien Dementin
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - Pascal Arnoux
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - Monique Sabaty
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - Séverine Boiry
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - Bruno Guigliarelli
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - Patrick Bertrand
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - David Pignol
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
| | - Christophe Léger
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM, UPR 9036, CNRS, 31 Chemin Joseph Aiguier, F-13402 Marseille Cedex 20, France, Aix-Marseille Université, 3 Place Victor Hugo, F-13333 Marseilles Cedex 3, France, Laboratoire de Bioénergétique Cellulaire, SBVME, IBEB, CEA, F-13108 Saint-Paul-lez-Durance, France, and Laboratoire de Biologie Végétale et Microbiologie Environnementales, UMR 6191, CNRS, F-13108 Saint-Paul-lez-Durance, France
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Dreyfus C, Pignol D, Arnoux P. Expression, purification, crystallization and preliminary X-ray analysis of an archaeal protein homologous to plant nicotianamine synthase. Acta Crystallogr Sect F Struct Biol Cryst Commun 2008; 64:933-5. [PMID: 18931439 PMCID: PMC2564876 DOI: 10.1107/s1744309108027796] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [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: 06/05/2008] [Accepted: 08/29/2008] [Indexed: 05/07/2023]
Abstract
In plants, nicotianamine synthase (NAS) plays a key role in metal homeostasis as it catalyzes the formation of nicotianamine, an important iron and nickel chelator and a precursor of plant phytosiderophores. Here, the crystallization of a protein from Methanothermobacter thermoautotrophicus (MTH675; referred to here as MtNAS) that appears to be homologous to plant NAS is reported. Purification of this protein showed a monomer-dimer equilibrium that could be displaced by using a reducing agent such as DTT. Crystals belonging to space group P2(1)2(1)2(1) and containing dimers of MtNAS were grown by the vapour-diffusion method using polyethylene glycol 3350 as precipitant. A complete native X-ray data set was collected to 1.7 A resolution at a synchrotron source.
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Affiliation(s)
- Cyril Dreyfus
- CEA, DSV, IBEB, Laboratoire de Bioénergétique Cellulaire, 13108 Saint Paul Lez Durance, France
| | - David Pignol
- CEA, DSV, IBEB, Laboratoire de Bioénergétique Cellulaire, 13108 Saint Paul Lez Durance, France
| | - Pascal Arnoux
- CEA, DSV, IBEB, Laboratoire de Bioénergétique Cellulaire, 13108 Saint Paul Lez Durance, France
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45
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Bertrand P, Frangioni B, Dementin S, Sabaty M, Arnoux P, Guigliarelli B, Pignol D, Léger C. Effects of Slow Substrate Binding and Release in Redox Enzymes: Theory and Application to Periplasmic Nitrate Reductase. J Phys Chem B 2007; 111:10300-11. [PMID: 17676894 DOI: 10.1021/jp074340j] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
For redox enzymes, the technique called protein film voltammetry makes it possible to determine the entire profile of activity against driving force by having the enzyme exchanging directly electrons with the rotating-disc electrode onto which it is adsorbed. Both the potential location of the catalytic response and its detailed shape report on the sequence of catalytic events, electron transfers and chemical steps, but the models that have been used so far to decipher this signal lack generality. For example, it was often proposed that substrate binding to multiple redox states of the active site may explain that turnover is greater in a certain window of electrode potential, but no fully analytical treatment has been given. Here, we derive (i) the general current equation for the case of reversible substrate binding to any redox states of a two-electron active site (as exemplified by flavins and Mo cofactors), (ii) the quantitative conditions for an extremum in activity to occur, and (iii) the expressions from which the substrate-concentration dependence of the catalytic potential can be interpreted to learn about the kinetics of substrate binding and how this affects the reduction potential of the active site. Not only does slow substrate binding and release make the catalytic wave shape highly complex, but we also show that it can have important consequences which will escape detection in traditional experiments: the position of the wave (this is the driving force that is required to elicit catalysis) departs from the reduction potential of the active site even at the lowest substrate concentration, and this deviation may be large if substrate binding is irreversible. This occurs in the reductive half-cycle of periplasmic nitrate reductase where irreversibility lowers the driving force required to reduce the active site under turnover conditions and favors intramolecular electron transfer from the proximal [4Fe4S]+ cluster to the active site Mo(V).
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Affiliation(s)
- Patrick Bertrand
- Laboratoire de Bioénergétique et Ingénierie des Protéines, CNRS UPR 9036, IBSM, France
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46
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Dementin S, Arnoux P, Frangioni B, Grosse S, Léger C, Burlat B, Guigliarelli B, Sabaty M, Pignol D. Access to the Active Site of Periplasmic Nitrate Reductase: Insights from Site-Directed Mutagenesis and Zinc Inhibition Studies. Biochemistry 2007; 46:9713-21. [PMID: 17676770 DOI: 10.1021/bi700928m] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The periplasmic nitrate reductase (NapAB), a member of the DMSO reductase superfamily, catalyzes the first step of the denitrification process in bacteria. In this heterodimer, a di-heme NapB subunit is associated to the catalytic NapA subunit that binds a [4Fe-4S] cluster and a bis(molybdopterin guanine dinucleotide) cofactor. Here, we report the kinetic characterization of purified mutated heterodimers from Rhodobacter sphaeroides. By combining site-directed mutagenesis, redox potentiometry, EPR spectroscopy, and enzymatic characterization, we investigate the catalytic role of two conserved residues (M153 and R392) located in the vicinity of the molybdenum active site. We demonstrate that M153 and R392 are involved in nitrate binding: the Vm measured on the M153A and R392A mutants are similar to that measured on the wild-type enzyme, whereas the Km for nitrate is increased 10-fold and 200-fold, respectively. The use of an alternative enzymatic assay led us to discover that NapAB is uncompetitively inhibited by Zn2+ ions (Ki' = 1 microM). We used this property to further probe the active site access in the mutant enzymes. It is proposed that R392 acts as a filter by preventing a direct reduction of the Mo atom by small reducing molecules and partially protecting the active site against zinc inhibition. In addition, we show that M153 is a key residue mediating this inhibition likely by coordinating Zn2+ ions via its sulfur atom. This residue is not conserved in the DMSO reductase superfamily while it is conserved in the periplasmic nitrate reductase family. Zinc inhibition is therefore likely to be specific and restricted to periplasmic nitrate reductases.
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Affiliation(s)
- Sébastien Dementin
- Laboratoire de Bioénergétique Cellulaire, CEA/Cadarache, DSV/IBEB/SBVME, 13108 St Paul lez Durance Cedex, France.
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47
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Marty P, Arnoux P, Cano JP. Micromethod for Determination of Thiopental in Biological Fluids by High Performance Liquid Chromatography. Application to Therapeutic Follow-Up and Pharmacokinetic Study. ANAL LETT 2006. [DOI: 10.1080/00032718808059906] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- P. Marty
- a Laboratoire de Pharmacocinetique. INSERM U278. Faculte de Pharmacie , 27. Bd Jean Moulin - 13385, Marseille cedex , 3 , France
| | - P. Arnoux
- a Laboratoire de Pharmacocinetique. INSERM U278. Faculte de Pharmacie , 27. Bd Jean Moulin - 13385, Marseille cedex , 3 , France
| | - J. P. Cano
- a Laboratoire de Pharmacocinetique. INSERM U278. Faculte de Pharmacie , 27. Bd Jean Moulin - 13385, Marseille cedex , 3 , France
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48
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Pak JE, Arnoux P, Zhou S, Sivarajah P, Satkunarajah M, Xing X, Rini JM. X-ray crystal structure of leukocyte type core 2 beta1,6-N-acetylglucosaminyltransferase. Evidence for a convergence of metal ion-independent glycosyltransferase mechanism. J Biol Chem 2006; 281:26693-701. [PMID: 16829524 DOI: 10.1074/jbc.m603534200] [Citation(s) in RCA: 54] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Leukocyte type core 2 beta1,6-N-acetylglucosaminyltransferase (C2GnT-L) is a key enzyme in the biosynthesis of branched O-glycans. It is an inverting, metal ion-independent family 14 glycosyltransferase that catalyzes the formation of the core 2 O-glycan (Galbeta1-3[GlcNAcbeta1-6]GalNAc-O-Ser/Thr) from its donor and acceptor substrates, UDP-GlcNAc and the core 1 O-glycan (Galbeta1-3GalNAc-O-Ser/Thr), respectively. Reported here are the x-ray crystal structures of murine C2GnT-L in the absence and presence of the acceptor substrate Galbeta1-3GalNAc at 2.0 and 2.7A resolution, respectively. C2GnT-L was found to possess the GT-A fold; however, it lacks the characteristic metal ion binding DXD motif. The Galbeta1-3GalNAc complex defines the determinants of acceptor substrate binding and shows that Glu-320 corresponds to the structurally conserved catalytic base found in other inverting GT-A fold glycosyltransferases. Comparison of the C2GnT-L structure with that of other GT-A fold glycosyltransferases further suggests that Arg-378 and Lys-401 serve to electrostatically stabilize the nucleoside diphosphate leaving group, a role normally played by metal ion in GT-A structures. The use of basic amino acid side chains in this way is strikingly similar to that seen in a number of metal ion-independent GT-B fold glycosyltransferases and suggests a convergence of catalytic mechanism shared by both GT-A and GT-B fold glycosyltransferases.
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Affiliation(s)
- John E Pak
- Department of Molecular, University of Toronto, Toronto, Ontario M5S 1A8, Canada
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Vivares D, Arnoux P, Pignol D. A papain-like enzyme at work: native and acyl-enzyme intermediate structures in phytochelatin synthesis. Proc Natl Acad Sci U S A 2005; 102:18848-53. [PMID: 16339904 PMCID: PMC1310510 DOI: 10.1073/pnas.0505833102] [Citation(s) in RCA: 66] [Impact Index Per Article: 3.5] [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: 07/12/2005] [Indexed: 11/18/2022] Open
Abstract
Phytochelatin synthase (PCS) is a key enzyme for heavy-metal detoxification in plants. PCS catalyzes the production of glutathione (GSH)-derived peptides (called phytochelatins or PCs) that bind heavy-metal ions before vacuolar sequestration. The enzyme can also hydrolyze GSH and GS-conjugated xenobiotics. In the cyanobacterium Nostoc, the enzyme (NsPCS) contains only the catalytic domain of the eukaryotic synthase and can act as a GSH hydrolase and weakly as a peptide ligase. The crystal structure of NsPCS in its native form solved at a 2.0-A resolution shows that NsPCS is a dimer that belongs to the papain superfamily of cysteine proteases, with a conserved catalytic machinery. Moreover, the structure of the protein solved as a complex with GSH at a 1.4-A resolution reveals a gamma-glutamyl cysteine acyl-enzyme intermediate stabilized in a cavity of the protein adjacent to a second putative GSH binding site. GSH hydrolase and PCS activities of the enzyme are discussed in the light of both structures.
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Affiliation(s)
- Denis Vivares
- Département d'Ecophysiologie Végétale et de Microbiologie, Direction des Sciences du Vivant, Laboratoire de Bioénergétique Cellulaire, Commissariat á l'Energie Atomique/Cadarache, 13108 St Paul lez Durance Cedex, France
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50
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Sörme P, Arnoux P, Kahl-Knutsson B, Leffler H, Rini JM, Nilsson UJ. Structural and Thermodynamic Studies on Cation−Π Interactions in Lectin−Ligand Complexes: High-Affinity Galectin-3 Inhibitors through Fine-Tuning of an Arginine−Arene Interaction. J Am Chem Soc 2005; 127:1737-43. [PMID: 15701008 DOI: 10.1021/ja043475p] [Citation(s) in RCA: 204] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The high-resolution X-ray crystal structures of the carbohydrate recognition domain of human galectin-3 were solved in complex with N-acetyllactosamine (LacNAc) and the high-affinity inhibitor, methyl 2-acetamido-2-deoxy-4-O-(3-deoxy-3-[4-methoxy-2,3,5,6-tetrafluorobenzamido]-beta-D-galactopyranose)-beta-D-glucopyranoside, to gain insight into the basis for the affinity-enhancing effect of the 4-methoxy-2,3,5,6-tetrafluorobenzamido moiety. The structures show that the side chain of Arg144 stacks against the aromatic moiety of the inhibitor, an interaction made possible by a reorientation of the side chain relative to that seen in the LacNAc complex. Based on these structures, synthesis of second generation LacNAc derivatives carrying aromatic amides at 3'-C, followed by screening with a novel fluorescence polarization assay, has led to the identification of inhibitors with further enhanced affinity for galectin-3 (K(d) > or = 320 nM). The thermodynamic parameters describing the binding of the galectin-3 C-terminal to selected inhibitors were determined by isothermal titration calorimetry and showed that the affinity enhancements were due to favorable enthalpic contributions. These enhancements could be rationalized by the combined effects of the inhibitor aromatic structure on a cation-Pi interaction and of direct interactions between the aromatic substituents and the protein. The results demonstrate that protein-ligand interactions can be significantly enhanced by the fine-tuning of arginine-arene interactions.
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Affiliation(s)
- Pernilla Sörme
- Organic and Bioorganic Chemistry, Lund University, P. O. Box 124, SE-221 00 Lund, Sweden
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