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Roblin C, Chiumento S, Bornet O, Nouailler M, Müller CS, Jeannot K, Basset C, Kieffer-Jaquinod S, Couté Y, Torelli S, Le Pape L, Schünemann V, Olleik H, De La Villeon B, Sockeel P, Di Pasquale E, Nicoletti C, Vidal N, Poljak L, Iranzo O, Giardina T, Fons M, Devillard E, Polard P, Maresca M, Perrier J, Atta M, Guerlesquin F, Lafond M, Duarte V. The unusual structure of Ruminococcin C1 antimicrobial peptide confers clinical properties. Proc Natl Acad Sci U S A 2020; 117:19168-19177. [PMID: 32719135 PMCID: PMC7431081 DOI: 10.1073/pnas.2004045117] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [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] [Indexed: 12/12/2022] Open
Abstract
The emergence of superbugs developing resistance to antibiotics and the resurgence of microbial infections have led scientists to start an antimicrobial arms race. In this context, we have previously identified an active RiPP, the Ruminococcin C1, naturally produced by Ruminococcus gnavus E1, a symbiont of the healthy human intestinal microbiota. This RiPP, subclassified as a sactipeptide, requires the host digestive system to become active against pathogenic Clostridia and multidrug-resistant strains. Here we report its unique compact structure on the basis of four intramolecular thioether bridges with reversed stereochemistry introduced posttranslationally by a specific radical-SAM sactisynthase. This structure confers to the Ruminococcin C1 important clinical properties including stability to digestive conditions and physicochemical treatments, a higher affinity for bacteria than simulated intestinal epithelium, a valuable activity at therapeutic doses on a range of clinical pathogens, mediated by energy resources disruption, and finally safety for human gut tissues.
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Affiliation(s)
- Clarisse Roblin
- Aix-Marseille Université, CNRS, Centrale Marseille, Institut des Sciences Moléculaires de Marseille (iSm2), 13013 Marseille, France
- ADISSEO France SAS, Centre d'Expertise et de Recherche en Nutrition, 03600 Commentry, France
| | - Steve Chiumento
- Université Grenoble Alpes, Commissariat à l'Energie Atomique et aux énergies alternatives (CEA), Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Chimie et Biologie des Métaux (CBM), CNRS UMR 5249, 38054 Grenoble, France
| | - Olivier Bornet
- NMR Platform, Institut de Microbiologie de la Méditerranée, CNRS, Aix-Marseille Université, 13009 Marseille, France;
| | - Matthieu Nouailler
- Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR 7255, Institut de Microbiologie de la Méditerranée, CNRS, Aix-Marseille Université, 13009 Marseille, France
| | - Christina S Müller
- Fachbereich Physik, Technische Universität Kaiserslautern, 67663 Kaiserslautern, Germany
| | - Katy Jeannot
- Centre National de Référence de la Résistance aux Antibiotiques, Laboratoire de Bactériologie, Centre Hospitalier Universitaire de Besançon, 25030 Besançon, France
- UMR 6249 Chrono-Environnement, Unité de Formation et de Recherche (UFR) Santé, Université de Bourgogne-Franche-Comté, 25030 Besançon, France
| | - Christian Basset
- Université Grenoble Alpes, Commissariat à l'Energie Atomique et aux énergies alternatives (CEA), Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Chimie et Biologie des Métaux (CBM), CNRS UMR 5249, 38054 Grenoble, France
| | - Sylvie Kieffer-Jaquinod
- Université Grenoble Alpes, CEA, INSERM, IRIG, Biologie à Grande Echelle (BGE), 38054 Grenoble, France
| | - Yohann Couté
- Université Grenoble Alpes, CEA, INSERM, IRIG, Biologie à Grande Echelle (BGE), 38054 Grenoble, France
| | - Stéphane Torelli
- Université Grenoble Alpes, Commissariat à l'Energie Atomique et aux énergies alternatives (CEA), Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Chimie et Biologie des Métaux (CBM), CNRS UMR 5249, 38054 Grenoble, France
| | - Laurent Le Pape
- Université Grenoble Alpes, Commissariat à l'Energie Atomique et aux énergies alternatives (CEA), Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Chimie et Biologie des Métaux (CBM), CNRS UMR 5249, 38054 Grenoble, France
| | - Volker Schünemann
- Fachbereich Physik, Technische Universität Kaiserslautern, 67663 Kaiserslautern, Germany
| | - Hamza Olleik
- Aix-Marseille Université, CNRS, Centrale Marseille, Institut des Sciences Moléculaires de Marseille (iSm2), 13013 Marseille, France
| | - Bruno De La Villeon
- Department of Digestive, Endocrine and Metabolic Surgery, Hôpital Laveran, Military Health Service, 13013 Marseille, France
| | - Philippe Sockeel
- Department of Digestive, Endocrine and Metabolic Surgery, Hôpital Laveran, Military Health Service, 13013 Marseille, France
| | - Eric Di Pasquale
- Institut de NeuroPhysioPathologie, Faculté de Médecine, Aix Marseille Université, 13397 Marseille, France
| | - Cendrine Nicoletti
- Aix-Marseille Université, CNRS, Centrale Marseille, Institut des Sciences Moléculaires de Marseille (iSm2), 13013 Marseille, France
| | - Nicolas Vidal
- Yelen Analytics, Institut de Chimie Radicalaire, Aix-Marseille Université, 13013 Marseille, France
| | - Leonora Poljak
- Laboratoire de Microbiologie et de Génétique Moléculaires, Centre de Biologie Intégrative, Université de Toulouse, CNRS, Université Paul Sabatier (UPS), 31400 Toulouse, France
| | - Olga Iranzo
- Aix-Marseille Université, CNRS, Centrale Marseille, Institut des Sciences Moléculaires de Marseille (iSm2), 13013 Marseille, France
| | - Thierry Giardina
- Aix-Marseille Université, CNRS, Centrale Marseille, Institut des Sciences Moléculaires de Marseille (iSm2), 13013 Marseille, France
| | - Michel Fons
- Laboratoire de Bioénergétique et Ingénierie des Protéines, UMR 7281, Institut de Microbiologie de la Méditerranée, CNRS, Aix-Marseille Université, 13009 Marseille, France
| | - Estelle Devillard
- ADISSEO France SAS, Centre d'Expertise et de Recherche en Nutrition, 03600 Commentry, France
| | - Patrice Polard
- Laboratoire de Microbiologie et de Génétique Moléculaires, Centre de Biologie Intégrative, Université de Toulouse, CNRS, Université Paul Sabatier (UPS), 31400 Toulouse, France
| | - Marc Maresca
- Aix-Marseille Université, CNRS, Centrale Marseille, Institut des Sciences Moléculaires de Marseille (iSm2), 13013 Marseille, France
| | - Josette Perrier
- Aix-Marseille Université, CNRS, Centrale Marseille, Institut des Sciences Moléculaires de Marseille (iSm2), 13013 Marseille, France
| | - Mohamed Atta
- Université Grenoble Alpes, Commissariat à l'Energie Atomique et aux énergies alternatives (CEA), Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Chimie et Biologie des Métaux (CBM), CNRS UMR 5249, 38054 Grenoble, France
| | - Françoise Guerlesquin
- Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR 7255, Institut de Microbiologie de la Méditerranée, CNRS, Aix-Marseille Université, 13009 Marseille, France
| | - Mickael Lafond
- Aix-Marseille Université, CNRS, Centrale Marseille, Institut des Sciences Moléculaires de Marseille (iSm2), 13013 Marseille, France;
| | - Victor Duarte
- Université Grenoble Alpes, Commissariat à l'Energie Atomique et aux énergies alternatives (CEA), Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Chimie et Biologie des Métaux (CBM), CNRS UMR 5249, 38054 Grenoble, France;
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Houot L, Navarro R, Nouailler M, Duché D, Guerlesquin F, Lloubes R. Electrostatic interactions between the CTX phage minor coat protein and the bacterial host receptor TolA drive the pathogenic conversion of Vibrio cholerae. J Biol Chem 2018; 293:7263. [DOI: 10.1074/jbc.aac118.003402] [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: 11/06/2022] Open
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Houot L, Navarro R, Nouailler M, Duché D, Guerlesquin F, Lloubes R. Electrostatic interactions between the CTX phage minor coat protein and the bacterial host receptor TolA drive the pathogenic conversion of Vibrio cholerae. J Biol Chem 2017. [PMID: 28642371 DOI: 10.1074/jbc.m117.786061] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
Abstract
Vibrio cholerae is a natural inhabitant of aquatic environments and converts to a pathogen upon infection by a filamentous phage, CTXΦ, that transmits the cholera toxin-encoding genes. This toxigenic conversion of V. cholerae has evident implication in both genome plasticity and epidemic risk, but the early stages of the infection have not been thoroughly studied. CTXΦ transit across the bacterial periplasm requires binding between the minor coat protein named pIII and a bacterial inner-membrane receptor, TolA, which is part of the conserved Tol-Pal molecular motor. To gain insight into the TolA-pIII complex, we developed a bacterial two-hybrid approach, named Oxi-BTH, suited for studying the interactions between disulfide bond-folded proteins in the bacterial cytoplasm of an Escherichia coli reporter strain. We found that two of the four disulfide bonds of pIII are required for its interaction with TolA. By combining Oxi-BTH assays, NMR, and genetic studies, we also demonstrate that two intermolecular salt bridges between TolA and pIII provide the driving forces of the complex interaction. Moreover, we show that TolA residue Arg-325 involved in one of the two salt bridges is critical for proper functioning of the Tol-Pal system. Our results imply that to prevent host evasion, CTXΦ uses an infection strategy that targets a highly conserved protein of Gram-negative bacteria essential for the fitness of V. cholerae in its natural environment.
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Affiliation(s)
- Laetitia Houot
- From the Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR7255, Institut de Microbiologie de la Méditerranée, Aix-Marseille Université-CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Romain Navarro
- From the Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR7255, Institut de Microbiologie de la Méditerranée, Aix-Marseille Université-CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Matthieu Nouailler
- From the Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR7255, Institut de Microbiologie de la Méditerranée, Aix-Marseille Université-CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Denis Duché
- From the Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR7255, Institut de Microbiologie de la Méditerranée, Aix-Marseille Université-CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Françoise Guerlesquin
- From the Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR7255, Institut de Microbiologie de la Méditerranée, Aix-Marseille Université-CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
| | - Roland Lloubes
- From the Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR7255, Institut de Microbiologie de la Méditerranée, Aix-Marseille Université-CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
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Navarro R, Bornet O, Houot L, Lloubes R, Guerlesquin F, Nouailler M. (1)H, (15)N and (13)C resonance assignments of the C-terminal domain of Vibrio cholerae TolA protein. Biomol NMR Assign 2016; 10:311-313. [PMID: 27436120 DOI: 10.1007/s12104-016-9690-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2016] [Accepted: 06/22/2016] [Indexed: 06/06/2023]
Abstract
Vibrio cholerae is the bacterial causative agent of the human disease cholera. Non-pathogenic bacterium can be converted to pathogenic following infection by a filamentous phage, CTXΦ, that carries the cholera toxin encoding genes. A crucial step during phage infection requires a direct interaction between the CTXΦ minor coat protein (pIII(CTX)) and the C-terminal domain of V. cholerae TolA protein (TolAIIIvc). In order to get a better understanding of TolA function during the infection process, we have initiated a study of the V. cholerae TolAIII domain by 2D and 3D heteronuclear NMR. With the exception of the His-tag (H123-H128), 97 % of backbone (1)H, (15)N and (13)C resonances were assigned and the side chain assignments for 92 % of the protein were obtained (BMRB deposit with accession number 25689).
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Affiliation(s)
- Romain Navarro
- Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR 7255, CNRS, Aix-Marseille Université, Marseille, France
| | - Olivier Bornet
- Institut de Microbiologie de la Méditerranée, FR 3479, CNRS, Aix-Marseille Université, Marseille, France
| | - Laetitia Houot
- Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR 7255, CNRS, Aix-Marseille Université, Marseille, France
| | - Roland Lloubes
- Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR 7255, CNRS, Aix-Marseille Université, Marseille, France
| | - Françoise Guerlesquin
- Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR 7255, CNRS, Aix-Marseille Université, Marseille, France
| | - Matthieu Nouailler
- Laboratoire d'Ingénierie des Systèmes Macromoléculaires, UMR 7255, CNRS, Aix-Marseille Université, Marseille, France.
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Chundawat SPS, Paavola CD, Raman B, Nouailler M, Chan SL, Mielenz JR, Receveur-Brechot V, Trent JD, Dale BE. Saccharification of thermochemically pretreated cellulosic biomass using native and engineered cellulosomal enzyme systems. REACT CHEM ENG 2016. [DOI: 10.1039/c6re00172f] [Citation(s) in RCA: 5] [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: 01/21/2023]
Abstract
Tethering hydrolytic enzymes (e.g., cellulases) to protein scaffolds enhances biomass saccharification to sugars.
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Affiliation(s)
- Shishir P. S. Chundawat
- Department of Chemical & Biochemical Engineering
- The State University of New Jersey
- Piscataway
- USA
- DOE Great Lakes Bioenergy Research Center (GLBRC)
| | | | - Babu Raman
- Biosciences Division and BioEnergy Science Center
- Oak Ridge National Laboratory
- Oak Ridge
- USA
| | - Matthieu Nouailler
- LISM-UMR 7255 Institut De Microbiologie De La Mediterranee
- CNRS and Aix-Marseille University
- 13402 Marseille Cedex 20
- France
| | | | - Jonathan R. Mielenz
- Biosciences Division and BioEnergy Science Center
- Oak Ridge National Laboratory
- Oak Ridge
- USA
| | | | - Jonathan D. Trent
- Bioengineering Branch
- NASA Ames
- Moffett Field
- USA
- Biomolecular Engineering Department
| | - Bruce E. Dale
- DOE Great Lakes Bioenergy Research Center (GLBRC)
- Michigan State University
- East Lansing
- USA
- Chemical Engineering and Materials Science
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Garcin EB, Bornet O, Elantak L, Nouailler M, Guerlesquin F, Sebban-Kreuzer C. ¹H, ¹³C and ¹⁵N backbone and side-chain chemical shift assignments for reduced unusual thioredoxin Patrx2 of Pseudomonas aeruginosa. Biomol NMR Assign 2014; 8:247-250. [PMID: 23771858 DOI: 10.1007/s12104-013-9493-3] [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] [Subscribe] [Scholar Register] [Received: 03/29/2013] [Accepted: 06/03/2013] [Indexed: 06/02/2023]
Abstract
The gram-negative organism Pseudomonas aeruginosa is an opportunistic human pathogen and a leading cause of hospital-acquired infections. In P. aeruginosa PAO1, three cytoplasmic thioredoxins have been identified. An unusual thioredoxin (Patrx2) (108 amino acids) encoded by the PA2694 gene, is identified as a new thioredoxin-like protein based on sequence homology. Thioredoxin is a ubiquitous protein, which serves as a general protein disulfide oxidoreductase. Patrx2 present an atypical active site CGHC. We report the nearly complete (1)H, (13)C and (15)N resonance assignments of reduced Patrx2. 2D and 3D heteronuclear NMR experiments were performed with uniformly (15)N-, (13)C-labelled Patrx2, resulting in 97.2% backbone and 92.5% side-chain (1)H, (13)C and (15)N resonance assignments for the reduced form. (BMRB deposits with accession number 18130).
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Affiliation(s)
- Edwige B Garcin
- LISM, IMM, CNRS, Aix-Marseille Université, Marseille, France
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Pieulle L, Stocker P, Vinay M, Nouailler M, Vita N, Brasseur G, Garcin E, Sebban-Kreuzer C, Dolla A. Study of the thiol/disulfide redox systems of the anaerobe Desulfovibrio vulgaris points out pyruvate:ferredoxin oxidoreductase as a new target for thioredoxin 1. J Biol Chem 2011; 286:7812-7821. [PMID: 21199874 DOI: 10.1074/jbc.m110.197988] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
Sulfate reducers have developed a multifaceted adaptative strategy to survive against oxidative stresses. Along with this oxidative stress response, we recently characterized an elegant reversible disulfide bond-dependent protective mechanism in the pyruvate:ferredoxin oxidoreductase (PFOR) of various Desulfovibrio species. Here, we searched for thiol redox systems involved in this mechanism. Using thiol fluorescent labeling, we show that glutathione is not the major thiol/disulfide balance-controlling compound in four different Desulfovibrio species and that no other plentiful low molecular weight thiol can be detected. Enzymatic analyses of two thioredoxins (Trxs) and three thioredoxin reductases allow us to propose the existence of two independent Trx systems in Desulfovibrio vulgaris Hildenborough (DvH). The TR1/Trx1 system corresponds to the typical bacterial Trx system. We measured a TR1 apparent K(m) value for Trx1 of 8.9 μM. Moreover, our results showed that activity of TR1 was NADPH-dependent. The second system named TR3/Trx3 corresponds to an unconventional Trx system as TR3 used preferentially NADH (K(m) for NADPH, 743 μM; K(m) for NADH, 5.6 μM), and Trx3 was unable to reduce insulin. The K(m) value of TR3 for Trx3 was 1.12 μM. In vitro experiments demonstrated that the TR1/Trx1 system was the only one able to reactivate the oxygen-protected form of Desulfovibrio africanus PFOR. Moreover, ex vivo pulldown assays using the mutant Trx1(C33S) as bait allowed us to capture PFOR from the DvH extract. Altogether, these data demonstrate that PFOR is a new target for Trx1, which is probably involved in the protective switch mechanism of the enzyme.
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Affiliation(s)
- Laetitia Pieulle
- From the Laboratoire Interactions et Modulateurs de Réponses, CNRS-UPR3243-IFR88, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20 and.
| | - Pierre Stocker
- the Equipe Biosciences iSm2, UMR6263, Case 342, FST Université Paul Cézanne, St. Jérome, 13397 Marseille Cedex 20, France
| | - Manon Vinay
- From the Laboratoire Interactions et Modulateurs de Réponses, CNRS-UPR3243-IFR88, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20 and
| | - Matthieu Nouailler
- From the Laboratoire Interactions et Modulateurs de Réponses, CNRS-UPR3243-IFR88, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20 and
| | - Nicolas Vita
- From the Laboratoire Interactions et Modulateurs de Réponses, CNRS-UPR3243-IFR88, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20 and
| | - Gaël Brasseur
- From the Laboratoire Interactions et Modulateurs de Réponses, CNRS-UPR3243-IFR88, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20 and
| | - Edwige Garcin
- From the Laboratoire Interactions et Modulateurs de Réponses, CNRS-UPR3243-IFR88, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20 and
| | - Corinne Sebban-Kreuzer
- From the Laboratoire Interactions et Modulateurs de Réponses, CNRS-UPR3243-IFR88, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20 and
| | - Alain Dolla
- From the Laboratoire Interactions et Modulateurs de Réponses, CNRS-UPR3243-IFR88, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20 and
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Vita N, Hatchikian EC, Nouailler M, Dolla A, Pieulle L. Disulfide Bond-Dependent Mechanism of Protection against Oxidative Stress in Pyruvate-Ferredoxin Oxidoreductase of Anaerobic Desulfovibrio Bacteria. Biochemistry 2007; 47:957-64. [DOI: 10.1021/bi7014713] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.5] [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)
- Nicolas Vita
- Laboratoire de Bioénergétique et Ingénierie des Protéines, Unité Propre de Recherche (UPR) 9036, Centre National de la Recherche Scientifique (CNRS) 31, Chemin Joseph Aiguier, 13402 Marseille, cedex 20, France
| | - E. Claude Hatchikian
- Laboratoire de Bioénergétique et Ingénierie des Protéines, Unité Propre de Recherche (UPR) 9036, Centre National de la Recherche Scientifique (CNRS) 31, Chemin Joseph Aiguier, 13402 Marseille, cedex 20, France
| | - Matthieu Nouailler
- Laboratoire de Bioénergétique et Ingénierie des Protéines, Unité Propre de Recherche (UPR) 9036, Centre National de la Recherche Scientifique (CNRS) 31, Chemin Joseph Aiguier, 13402 Marseille, cedex 20, France
| | - Alain Dolla
- Laboratoire de Bioénergétique et Ingénierie des Protéines, Unité Propre de Recherche (UPR) 9036, Centre National de la Recherche Scientifique (CNRS) 31, Chemin Joseph Aiguier, 13402 Marseille, cedex 20, France
| | - Laetitia Pieulle
- Laboratoire de Bioénergétique et Ingénierie des Protéines, Unité Propre de Recherche (UPR) 9036, Centre National de la Recherche Scientifique (CNRS) 31, Chemin Joseph Aiguier, 13402 Marseille, cedex 20, France
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Nouailler M, Morelli X, Bornet O, Chetrit B, Dermoun Z, Guerlesquin F. Solution structure of HndAc: a thioredoxin-like domain involved in the NADP-reducing hydrogenase complex. Protein Sci 2006; 15:1369-78. [PMID: 16731971 PMCID: PMC2242533 DOI: 10.1110/ps.051916606] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
The NADP-reducing hydrogenase complex from Desulfovibrio fructosovorans is a heterotetramer encoded by the hndABCD operon. Sequence analysis indicates that the HndC subunit (52 kDa) corresponds to the NADP-reducing unit, and the HndD subunit (63.5 kDa) is homologous to Clostridium pasteurianum hydrogenase. The role of HndA and HndB subunits (18.8 kDa and 13.8 kDa, respectively) in the complex remains unknown. The HndA subunit belongs to the [2Fe-2S] ferredoxin family typified by C. pasteurianum ferredoxin. HndA is organized into two independent structural domains, and we report in the present work the NMR structure of its C-terminal domain, HndAc. HndAc has a thioredoxin-like fold consisting in four beta-strands and two relatively long helices. The [2Fe-2S] cluster is located near the surface of the protein and bound to four cysteine residues particularly well conserved in this class of proteins. Electron exchange between the HndD N-terminal [2Fe-2S] domain (HndDN) and HndAc has been previously evidenced, and in the present studies we have mapped the binding site of the HndDN domain on HndAc. A structural analysis of HndB indicates that it is a FeS subunit with 41% similarity with HndAc and it contains a possible thioredoxin-like fold. Our data let us propose that HndAc and HndB can form a heterodimeric intermediate in the electron transfer between the hydrogenase (HndD) active site and the NADP reduction site in HndC.
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Affiliation(s)
- Matthieu Nouailler
- Unité de Bioénergétique et Ingénierie des Protéines, IBSM-CNRS, Marseille Cedex 20, France
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Nouailler M, Bruscella P, Lojou E, Lebrun R, Bonnefoy V, Guerlesquin F. Structural analysis of the HiPIP from the acidophilic bacteria: Acidithiobacillus ferrooxidans. Extremophiles 2006; 10:191-8. [PMID: 16604275 DOI: 10.1007/s00792-005-0486-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [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: 09/27/2005] [Accepted: 10/02/2005] [Indexed: 10/24/2022]
Abstract
Hip is a high-potential iron-sulfur protein (HiPIP) isolated from the acidophilic bacterium, Acidithiobacillus ferrooxidans. In the present work, a structural model of Hip suggests that the role of proline residues is essential to stabilize the protein folding at very low pH. The presence of an unusual disulfide bridge in Hip is demonstrated using mass spectrometry and nuclear magnetic resonance. This disulfide bridge is necessary to anchor the N-terminal extremity of the protein, but is not involved in the acid stability of Hip. The structural parameters correlated with the pH dependence of Hip redox potential are also analysed on the basis of this model. Given that the same structural features can enhance acidic stability and lead to elevated redox potentials, modulation of the redox potentials of electron carriers may be necessary to achieve electron transfer at very low pH.
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Affiliation(s)
- Matthieu Nouailler
- Unité de Bioénergétique et Ingénierie des Protéines, CNRS, 31 chemin Joseph Aiguier, 13402 Marseille, Cedex 20, France
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Pieulle L, Nouailler M, Morelli X, Cavazza C, Gallice P, Blanchet S, Bianco P, Guerlesquin F, Hatchikian EC. Multiple orientations in a physiological complex: the pyruvate-ferredoxin oxidoreductase-ferredoxin system. Biochemistry 2005; 43:15480-93. [PMID: 15581360 DOI: 10.1021/bi0485878] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [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
Ferredoxin I from Desulfovibrio africanus (Da FdI) is a small acidic [4Fe-4S] cluster protein that exchanges electrons with pyruvate-ferredoxin oxidoreductase (PFOR), a key enzyme in the energy metabolism of anaerobes. The thermodynamic properties and the electron transfer between PFOR and either native or mutated FdI have been investigated by microcalorimetry and steady-state kinetics, respectively. The association constant of the PFOR-FdI complex is 3.85 x 10(5) M(-1), and the binding affinity has been found to be highly sensitive to ionic strength, suggesting the involvement of electrostatic forces in formation of the complex. Surprisingly, the punctual or combined neutralizations of carboxylate residues surrounding the [4Fe-4S] cluster slightly affect the PFOR-FdI interaction. Furthermore, hydrophobic residues around the cluster do not seem to be crucial for the PFOR-FdI system activity; however, some of them play an important role in the stability of the FeS cluster. NMR restrained docking associated with site-directed mutagenesis studies suggested the presence of various interacting sites on Da FdI. The modification of additional acidic residues at the interacting interface, generating a FdI pentamutant, evidenced at least two distinct FdI binding sites facing the distal [4Fe-4S] cluster of the PFOR. We also used a set of various small acidic partners to investigate the specificity of PFOR toward redox partners. The remarkable flexibility of the PFOR-FdI system supports the idea that the specificity of the physiological complex has probably been "sacrificed" to improve the turnover rate and thus the efficiency of bacterial electron transfer.
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Affiliation(s)
- Laetitia Pieulle
- Unité de Bioénergétique et Ingéniérie des Protéines, Institut de Biologie Structurale et Microbiologie, CNRS, 31 Chemin Joseph-Aiguier, 13402 Marseille Cedex 20, France
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