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Sarrut M, Corgier A, Fekete S, Guillarme D, Lascoux D, Janin-Bussat MC, Beck A, Heinisch S. Analysis of antibody-drug conjugates by comprehensive on-line two-dimensional hydrophobic interaction chromatography x reversed phase liquid chromatography hyphenated to high resolution mass spectrometry. I − Optimization of separation conditions. J Chromatogr B Analyt Technol Biomed Life Sci 2016; 1032:103-111. [DOI: 10.1016/j.jchromb.2016.06.048] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2016] [Revised: 05/19/2016] [Accepted: 06/27/2016] [Indexed: 12/21/2022]
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2
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Vitale S, Fauquant C, Lascoux D, Schauer K, Saint-Pierre C, Michaud-Soret I. A ZnS4 Structural Zinc Site in the Helicobacter pylori Ferric Uptake Regulator. Biochemistry 2009; 48:5582-91. [DOI: 10.1021/bi9004396] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Sylvia Vitale
- CNRS UMR 5249 Laboratoire de Chimie et Biologie des Métaux, Commissariat à l’Energie Atomique (CEA), Direction des Sciences du Vivant (DSV), l’Institut de Recherches en Technologies et Sciences pour le Vivant (iRTSV), and Université Joseph Fourier, 17 rue des Martyrs, F-38054 Grenoble Cedex 9, France
| | - Caroline Fauquant
- CNRS UMR 5249 Laboratoire de Chimie et Biologie des Métaux, Commissariat à l’Energie Atomique (CEA), Direction des Sciences du Vivant (DSV), l’Institut de Recherches en Technologies et Sciences pour le Vivant (iRTSV), and Université Joseph Fourier, 17 rue des Martyrs, F-38054 Grenoble Cedex 9, France
| | - David Lascoux
- Laboratoire de Spectrométrie de Masse des Protéines, Institut de Biologie Structurale, Jean-Pierre Ebel (UMR 5075 CNRS/CEA/UJF), F-38027 Grenoble Cedex 1, France
| | - Kristine Schauer
- Unité Pathogenèse de Helicobacter, Institut Pasteur, 28 rue du Docteur Roux, 75724 Paris Cedex 15, France
| | - Christine Saint-Pierre
- Laboratoire des Lésions des Acides Nucléiques, DSM/INAC/Service de Chimie Inorganique et Biologique, UMR E-3 CEA/UJF CNRS FRE 3200, 17 rue des Martyrs, Grenoble F-38054 Cedex 9, France
| | - Isabelle Michaud-Soret
- CNRS UMR 5249 Laboratoire de Chimie et Biologie des Métaux, Commissariat à l’Energie Atomique (CEA), Direction des Sciences du Vivant (DSV), l’Institut de Recherches en Technologies et Sciences pour le Vivant (iRTSV), and Université Joseph Fourier, 17 rue des Martyrs, F-38054 Grenoble Cedex 9, France
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Traoré DAK, El Ghazouani A, Jacquamet L, Borel F, Ferrer JL, Lascoux D, Ravanat JL, Jaquinod M, Blondin G, Caux-Thang C, Duarte V, Latour JM. Structural and functional characterization of 2-oxo-histidine in oxidized PerR protein. Nat Chem Biol 2008; 5:53-9. [PMID: 19079268 DOI: 10.1038/nchembio.133] [Citation(s) in RCA: 95] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2008] [Accepted: 11/17/2008] [Indexed: 11/09/2022]
Abstract
In Bacillus subtilis, PerR is a metal-dependent sensor of hydrogen peroxide. PerR is a dimeric zinc protein with a regulatory site that coordinates either Fe(2+) (PerR-Zn-Fe) or Mn(2+) (PerR-Zn-Mn). Though most of the peroxide sensors use cysteines to detect H(2)O(2), it has been shown that reaction of PerR-Zn-Fe with H(2)O(2) leads to the oxidation of one histidine residue. Oxidation of PerR leads to the incorporation of one oxygen atom into His37 or His91. This study presents the crystal structure of the oxidized PerR protein (PerR-Zn-ox), which clearly shows a 2-oxo-histidine residue in position 37. Formation of 2-oxo-histidine is demonstrated and quantified by HPLC-MS/MS. EPR experiments indicate that PerR-Zn-H37ox retains a significant affinity for the regulatory metal, whereas PerR-Zn-H91ox shows a considerably reduced affinity for the metal ion. In spite of these major differences in terms of metal binding affinity, oxidation of His37 and/or His91 in PerR prevents DNA binding.
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Affiliation(s)
- Daouda A K Traoré
- Commissariat à l'Energie Atomique, Institut de Recherches en Technologies et Sciences pour le Vivant, Laboratoire de Chimie et Biologie des Métaux, CEA-Grenoble, 17 avenue des Martyrs, 38054 Grenoble Cedex 9, France
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4
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Fioravanti E, Durá MA, Lascoux D, Micossi E, Franzetti B, McSweeney S. Structure of the Stress Response Protein DR1199 from Deinococcus radiodurans: A Member of the DJ-1 Superfamily. Biochemistry 2008; 47:11581-9. [DOI: 10.1021/bi800882v] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Emanuela Fioravanti
- European Synchrotron Radiation Facility, BP 220, 38043 Grenoble Cedex 9, France, and Laboratoire de Biophysique Moléculaire and Laboratoire de Spectrométrie de Masse des Protéines, Institut de Biologie Structurale J.-P. Ebel CEA CNRS UJF, 41 Rue Jules Horowitz, 38027 Grenoble Cedex 1, France
| | - M. Asunción Durá
- European Synchrotron Radiation Facility, BP 220, 38043 Grenoble Cedex 9, France, and Laboratoire de Biophysique Moléculaire and Laboratoire de Spectrométrie de Masse des Protéines, Institut de Biologie Structurale J.-P. Ebel CEA CNRS UJF, 41 Rue Jules Horowitz, 38027 Grenoble Cedex 1, France
| | - David Lascoux
- European Synchrotron Radiation Facility, BP 220, 38043 Grenoble Cedex 9, France, and Laboratoire de Biophysique Moléculaire and Laboratoire de Spectrométrie de Masse des Protéines, Institut de Biologie Structurale J.-P. Ebel CEA CNRS UJF, 41 Rue Jules Horowitz, 38027 Grenoble Cedex 1, France
| | - Elena Micossi
- European Synchrotron Radiation Facility, BP 220, 38043 Grenoble Cedex 9, France, and Laboratoire de Biophysique Moléculaire and Laboratoire de Spectrométrie de Masse des Protéines, Institut de Biologie Structurale J.-P. Ebel CEA CNRS UJF, 41 Rue Jules Horowitz, 38027 Grenoble Cedex 1, France
| | - Bruno Franzetti
- European Synchrotron Radiation Facility, BP 220, 38043 Grenoble Cedex 9, France, and Laboratoire de Biophysique Moléculaire and Laboratoire de Spectrométrie de Masse des Protéines, Institut de Biologie Structurale J.-P. Ebel CEA CNRS UJF, 41 Rue Jules Horowitz, 38027 Grenoble Cedex 1, France
| | - Sean McSweeney
- European Synchrotron Radiation Facility, BP 220, 38043 Grenoble Cedex 9, France, and Laboratoire de Biophysique Moléculaire and Laboratoire de Spectrométrie de Masse des Protéines, Institut de Biologie Structurale J.-P. Ebel CEA CNRS UJF, 41 Rue Jules Horowitz, 38027 Grenoble Cedex 1, France
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Lascoux D, Paramelle D, Subra G, Heymann M, Geourjon C, Martinez J, Forest E. Discrimination and Selective Enhancement of Signals in the MALDI Mass Spectrum of a Protein by Combining a Matrix-Based Label for Lysine Residues with a Neutral Matrix. Angew Chem Int Ed Engl 2007; 46:5594-7. [PMID: 17591739 DOI: 10.1002/anie.200700811] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- David Lascoux
- Protein Mass Spectrometry Laboratory, Institut de Biologie Structurale, CEA, CNRS, UJF, UMR 5075, 41 rue Jules Horowitz, 38027 Grenoble Cedex 1, France
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6
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Lascoux D, Paramelle D, Subra G, Heymann M, Geourjon C, Martinez J, Forest E. Discrimination and Selective Enhancement of Signals in the MALDI Mass Spectrum of a Protein by Combining a Matrix-Based Label for Lysine Residues with a Neutral Matrix. Angew Chem Int Ed Engl 2007. [DOI: 10.1002/ange.200700811] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Layer G, Gaddam SA, Ayala-Castro CN, Ollagnier-de Choudens S, Lascoux D, Fontecave M, Outten FW. SufE transfers sulfur from SufS to SufB for iron-sulfur cluster assembly. J Biol Chem 2007; 282:13342-50. [PMID: 17350958 DOI: 10.1074/jbc.m608555200] [Citation(s) in RCA: 126] [Impact Index Per Article: 7.4] [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
Iron-sulfur (Fe-S) clusters are key metal cofactors of metabolic, regulatory, and stress response proteins in most organisms. The unique properties of these clusters make them susceptible to disruption by iron starvation or oxidative stress. Both iron and sulfur can be perturbed under stress conditions, leading to Fe-S cluster defects. Bacteria and higher plants contain a specialized system for Fe-S cluster biosynthesis under stress, namely the Suf pathway. In Escherichia coli the Suf pathway consists of six proteins with functions that are only partially characterized. Here we describe how the SufS and SufE proteins interact with the SufBCD protein complex to facilitate sulfur liberation from cysteine and donation for Fe-S cluster assembly. It was previously shown that the cysteine desulfurase SufS donates sulfur to the sulfur transfer protein SufE. We have found here that SufE in turn interacts with the SufB protein for sulfur transfer to that protein. The interaction occurs only if SufC is present. Furthermore, SufB can act as a site for Fe-S cluster assembly in the Suf system. This provides the first evidence of a novel site for Fe-S cluster assembly in the SufBCD complex.
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Affiliation(s)
- Gunhild Layer
- Laboratoire de Chimie et Biologie des Métaux, iRTSV/LCBM, Commissariat a l'Energie Atomique/CNRS/Universite Joseph Fourier, CEA-Grenoble, UMR 5249, 17 Avenue des Martyrs, 38054 Grenoble Cedex 09, France
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Sendra M, Ollagnier de Choudens S, Lascoux D, Sanakis Y, Fontecave M. The SUF iron-sulfur cluster biosynthetic machinery: Sulfur transfer from the SUFS-SUFE complex to SUFA. FEBS Lett 2007; 581:1362-8. [PMID: 17350000 DOI: 10.1016/j.febslet.2007.02.058] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.3] [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: 01/09/2007] [Revised: 02/23/2007] [Accepted: 02/26/2007] [Indexed: 11/24/2022]
Abstract
Iron-sulfur cluster biosynthesis depends on protein machineries, such as the ISC and SUF systems. The reaction is proposed to imply binding of sulfur and iron atoms and assembly of the cluster within a scaffold protein followed by transfer of the cluster to recipient apoproteins. The SufA protein from Escherichia coli, used here as a model scaffold protein is competent for binding sulfur atoms provided by the SufS-SufE cysteine desulfurase system covalently as shown by mass spectrometry. Investigation of site-directed mutants and peptide mapping experiments performed on digested sulfurated SufA demonstrate that binding exclusively occurs at the three conserved cysteines (cys50, cys114, cys116). In contrast, it binds iron only weakly (K(a)=5 x 10(5)M(-1)) and not specifically to the conserved cysteines as shown by Mössbauer spectroscopy. [Fe-S] clusters, characterized by Mössbauer spectroscopy, can be assembled during reaction of sulfurated SufA with ferrous iron in the presence of a source of electrons.
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Affiliation(s)
- Maïté Sendra
- Laboratoire de Chimie et Biologie des Métaux, iRTSV/LCBM, UMR 5249, CEA-Grenoble, 17 Avenue des Martyrs, 38054 Grenoble Cedex 09, France
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Sendra V, Cannella D, Bersch B, Fieschi F, Ménage S, Lascoux D, Covès J. CopH from Cupriavidus metallidurans CH34. A Novel Periplasmic Copper-Binding Protein. Biochemistry 2006; 45:5557-66. [PMID: 16634637 DOI: 10.1021/bi060328q] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The copH gene is one of the 19 open reading frames (ORFs) found in the cop cluster borne by the large plasmid pMol30 in Cupriavidus metallidurans CH34. The entire cluster is involved in detoxification of copper from the cytoplasm as well as from the periplasm. The function of the corresponding protein, CopH, is not yet clear, but it seems to be involved in the late response phase. We have cloned copH and overproduced and purified the corresponding protein. CopH is rather unique as only one paralog can be found in the databases. It is a dimeric protein with a molecular mass of 13 200 Da per subunit and located in the periplasm. The metal binding properties of CopH were examined by using a series of techniques such as UV-visible spectroscopy, circular dichroism (CD), electron paramagnetic resonance (EPR), surface plasmon resonance (SPR), mass spectrometry, and nuclear magnetic resonance (NMR). All together, the corresponding data are consistent with a dimeric protein containing one metal-binding site per subunit. These sites have a high affinity for Cu(II) but can also bind zinc or nickel. CopH does not contain any cysteines or methionines but contains two histidines. EPR and UV-visible features are consistent with the presence of Cu(II) type 2 centers in a nitrogen ligand field. SPR data confirm the involvement of the histidine residues in copper binding. CD and NMR data reveal that CopH is partially unfolded.
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Affiliation(s)
- Véronique Sendra
- Laboratoire des Protéines Membranaires, Institut de Biologie Structurale-Jean-Pierre Ebel, UMR 5075 CNRS-CEA-UJF, 41, rue Jules Horowitz, 38027 Grenoble Cedex, France
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Loiseau L, Ollagnier-de Choudens S, Lascoux D, Forest E, Fontecave M, Barras F. Analysis of the heteromeric CsdA-CsdE cysteine desulfurase, assisting Fe-S cluster biogenesis in Escherichia coli. J Biol Chem 2005; 280:26760-9. [PMID: 15901727 DOI: 10.1074/jbc.m504067200] [Citation(s) in RCA: 90] [Impact Index Per Article: 4.7] [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: 11/06/2022] Open
Abstract
Biogenesis of iron-sulfur (Fe-S) cluster-containing proteins relies on assistance of complex machineries. To date three systems, NIF, ISC, and SUF, were reported to allow maturation of Fe-S proteins. Here we report that the csdA-csdE (formally ygdK) genes of Escherichia coli constitute a sulfur-generating system referred to as CSD which also contributes to Fe-S biogenesis in vivo. This conclusion was reached by applying a thorough combination of both in vivo and in vitro strategies and techniques. Yeast two-hybrid analysis allowed us to show that CsdA and CsdE interact. Enzymology analysis showed that CsdA cysteine desulfurase activity is increased 2-fold in the presence of CsdE. Mass spectrometry analysis and site-directed mutagenesis showed that residue Cys-61 from CsdE acted as an acceptor site for sulfur provided by cysteine desulfurase activity of CsdA. Genetic investigations revealed that the csdA-csdE genes could act as multicopy suppressors of iscS mutation. Moreover, both in vitro and in vivo investigations pointed to a specific connection between the CSD system and quinolinate synthetase NadA.
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Affiliation(s)
- Laurent Loiseau
- Laboratoire de Chimie Bactérienne, UPR-CNRS 9043, Institut de Biologie Structurale et Microbiologie, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France
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Lascoux D, Cravello L, Lemaire D, Forest E. Increased pressure at the electrospray interface dramatically raises sensitivity in analysis of denaturated proteins. Rapid Commun Mass Spectrom 2005; 19:1758-62. [PMID: 15942921 DOI: 10.1002/rcm.1974] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
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Rossy E, Sénèque O, Lascoux D, Lemaire D, Crouzy S, Delangle P, Covès J. Is the cytoplasmic loop of MerT, the mercuric ion transport protein, involved in mercury transfer to the mercuric reductase? FEBS Lett 2004; 575:86-90. [PMID: 15388338 DOI: 10.1016/j.febslet.2004.08.041] [Citation(s) in RCA: 30] [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] [Received: 06/24/2004] [Revised: 08/12/2004] [Accepted: 08/16/2004] [Indexed: 11/17/2022]
Abstract
In MerT, the mercury transporter, a first cysteine pair, located in the first trans-membrane helix, receives mercury from the periplasm. Then, a second cysteine pair, housed in a cytoplasmic loop connecting the second and the third trans-membrane helices, is thought to transfer the metal to another cysteine pair located in the N-terminal extension of the mercuric reductase. We found that a 23-amino acid synthetic peptide corresponding to the cytoplasmic loop can bind one mercury atom per molecule and that this mercury atom can be transferred specifically to MerAa. The solution structure of Hg-bound ppMerT has been solved by 1H NMR spectroscopy.
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Affiliation(s)
- Emmanuel Rossy
- Laboratoire de Chimie et Biochimie des Centres Redox Biologiques, DRDC/CB, CEA-Grenoble, France
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Ollagnier-de-Choudens S, Lascoux D, Loiseau L, Barras F, Forest E, Fontecave M. Mechanistic studies of the SufS-SufE cysteine desulfurase: evidence for sulfur transfer from SufS to SufE. FEBS Lett 2003; 555:263-7. [PMID: 14644425 DOI: 10.1016/s0014-5793(03)01244-4] [Citation(s) in RCA: 84] [Impact Index Per Article: 4.0] [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: 11/28/2022]
Abstract
SufS is a cysteine desulfurase of the suf operon shown to be involved in iron-sulfur cluster biosynthesis under iron limitation and oxidative stress conditions. The enzyme catalyzes the conversion of L-cysteine to L-alanine and sulfide through the intermediate formation of a protein-bound cysteine persulfide in the active site. SufE, another component of the suf operon, has been previously shown to bind tightly to SufS and to drastically stimulate its cysteine desulfurase activity. Working with Escherichia coli proteins, we here demonstrate that a conserved cysteine residue in SufE at position 51 is essential for the SufS/SufE cysteine desulfurase activity. Mass spectrometry has been used to demonstrate (i). the ability of SufE to bind sulfur atoms on its cysteine 51 and (ii). the direct transfer of the sulfur atom from the cysteine persulfide of SufS to SufE. A reaction mechanism is proposed for this novel two-component cysteine desulfurase.
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Affiliation(s)
- Sandrine Ollagnier-de-Choudens
- Laboratoire de Chimie et Biochimie des Centres Rédox Biologiques, DBMS-CB, CEA/CNRS/Université Joseph Fourier, UMR 5047, 17 Avenue des Martyrs, 38054 Grenoble Cedex 09, France
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Nanao M, Ricard-Blum S, Di Guilmi AM, Lemaire D, Lascoux D, Chabert J, Attree I, Dessen A. Type III secretion proteins PcrV and PcrG from Pseudomonas aeruginosa form a 1:1 complex through high affinity interactions. BMC Microbiol 2003; 3:21. [PMID: 14565848 PMCID: PMC270082 DOI: 10.1186/1471-2180-3-21] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.4] [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: 08/16/2003] [Accepted: 10/18/2003] [Indexed: 01/06/2023] Open
Abstract
BACKGROUND Pseudomonas aeruginosa, an increasingly prevalent opportunistic pathogen, utilizes a type III secretion system for injection of toxins into host cells in order to initiate infection. A crucial component of this system is PcrV, which is essential for cytotoxicity and is found both within the bacterial cytoplasm and localized extracellularly, suggesting that it may play more than one role in Pseudomonas infectivity. LcrV, the homolog of PcrV in Yersinia, has been proposed to participate in effector secretion regulation by interacting with LcrG, which may act as a secretion blocker. Although PcrV also recognizes PcrG within the bacterial cytoplasm, the roles played by the two proteins in type III secretion in Pseudomonas may be different from the ones suggested for their Yersinia counterparts. RESULTS In this work, we demonstrate by native mass spectrometry that PcrV and PcrG expressed and purified from E. coli form a 1:1 complex in vitro. Circular dichroism results indicate that PcrG is highly unstable in the absence of PcrV; in contrast, both PcrV alone and the PcrV:PcrG complex have high structural integrity. Surface plasmon resonance measurements show that PcrV interacts with PcrG with nanomolar affinity (15.6 nM) and rapid kinetics, an observation which is valid both for the full-length form of PcrG (residues 1-98) as well as a form which lacks the C-terminal 24 residues, which are predicted to have low secondary structure content. CONCLUSIONS PcrV is a crucial component of the type III secretion system of Pseudomonas, but the way in which it participates in toxin secretion is not understood. Here we have characterized the interaction between PcrV and PcrG in vitro, and shown that PcrG is highly unstable. However, it associates readily with PcrV through a region located within its first 74 amino acids to form a high affinity complex. The fact that PcrV associates and dissociates quickly from an unstable molecule points to the transient nature of a PcrV:PcrG complex. These results are in agreement with analyses from pcrV deletion mutants which suggest that PcrV:PcrG may play a different role in effector secretion than the one described for the LcrV:LcrG complex in Yersinia.
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Affiliation(s)
- Max Nanao
- Institut de Biologie Structurale (CNRS/CEA/UJF), 41 rue Jules Horowitz, 38027 Grenoble, France
| | - Sylvie Ricard-Blum
- Institut de Biologie Structurale (CNRS/CEA/UJF), 41 rue Jules Horowitz, 38027 Grenoble, France
| | - Anne Marie Di Guilmi
- Institut de Biologie Structurale (CNRS/CEA/UJF), 41 rue Jules Horowitz, 38027 Grenoble, France
| | - David Lemaire
- Institut de Biologie Structurale (CNRS/CEA/UJF), 41 rue Jules Horowitz, 38027 Grenoble, France
| | - David Lascoux
- Institut de Biologie Structurale (CNRS/CEA/UJF), 41 rue Jules Horowitz, 38027 Grenoble, France
| | - Jacqueline Chabert
- Biochimie et Biophysique des Systèmes Integrés (CNRS/CEA/UJF), DRDC, CEA Grenoble, France
| | - Ina Attree
- Biochimie et Biophysique des Systèmes Integrés (CNRS/CEA/UJF), DRDC, CEA Grenoble, France
| | - Andréa Dessen
- Institut de Biologie Structurale (CNRS/CEA/UJF), 41 rue Jules Horowitz, 38027 Grenoble, France
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Cravello L, Lascoux D, Forest E. Use of different proteases working in acidic conditions to improve sequence coverage and resolution in hydrogen/deuterium exchange of large proteins. Rapid Commun Mass Spectrom 2003; 17:2387-2393. [PMID: 14587084 DOI: 10.1002/rcm.1207] [Citation(s) in RCA: 91] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
The combination of hydrogen exchange and mass spectrometry has been widely used in structural biology, providing views on protein structure and protein dynamics. One of the constraints is to use proteases working at low pH and low temperature to limit back-exchange during proteolysis. Although pepsin works in these conditions and is currently used in such experiments, sequence coverage is not always complete especially for large proteins, and the spatial resolution of the exchange rate is limited by the size of the resulting peptides. In this study we tried two other proteases, protease type XIII from Aspergillus saitoi and protease type XVIII from Rhizhopus species. The penicillin-binding protein X (PBP-2X*), a 77-kDa protein, was selected as a model. Like pepsin, neither of these proteases is really specific, but we found very good reproducibility in the digestion pattern. Compared with using pepsin alone, combining the results of the three independent proteolyses increased the coverage for the peptide mapping, thus avoiding missing some potentially interesting regions of the protein. Furthermore, we obtained a better spatial resolution for deuterium incorporation data, specifying accurately the deuterated regions.
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Affiliation(s)
- Laetitia Cravello
- Laboratoire de Spectrométrie de Masse des Protéines, Institut de Biologie Structurale (UMR 5075 CEA/CNRS/UJF), 41 rue Jules Horowitz, F-38027 Grenoble Cedex 1, France
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16
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Buisson M, Hernandez JF, Lascoux D, Schoehn G, Forest E, Arlaud G, Seigneurin JM, Ruigrok RWH, Burmeister WP. The crystal structure of the Epstein-Barr virus protease shows rearrangement of the processed C terminus. J Mol Biol 2002; 324:89-103. [PMID: 12421561 DOI: 10.1016/s0022-2836(02)01040-9] [Citation(s) in RCA: 32] [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: 10/27/2022]
Abstract
Epstein-Barr virus (EBV) belongs to the gamma-herpesvirinae subfamily of the Herpesviridae. The protease domain of the assemblin protein of herpesviruses forms a monomer-dimer equilibrium in solution. The protease domain of EBV was expressed in Escherichia coli and its structure was solved by X-ray crystallography to 2.3A resolution after inhibition with diisopropyl-fluorophosphate (DFP). The overall structure confirms the conservation of the homodimer and its structure throughout the alpha, beta, and gamma-herpesvirinae. The substrate recognition could be modelled using information from the DFP binding, from a crystal contact, suggesting that the substrate forms an antiparallel beta-strand extending strand beta5, and from the comparison with the structure of a peptidomimetic inhibitor bound to cytomegalovirus protease. The long insert between beta-strands 1 and 2, which was disordered in the KSHV protease structure, was found to be ordered in the EBV protease and shows the same conformation as observed for proteases in the alpha and beta-herpesvirus families. In contrast to previous structures, the long loop located between beta-strands 5 and 6 is partially ordered, probably due to DFP inhibition and a crystal contact. It also contributes to substrate recognition. The protease shows a specific recognition of its own C terminus in a binding pocket involving residue Phe210 of the other monomer interacting across the dimer interface. This suggests conformational changes of the protease domain after its release from the assemblin precursor followed by burial of the new C terminus and a possible effect onto the monomer-dimer equilibrium. The importance of the processed C terminus was confirmed using a mutant protease carrying a C-terminal extension and a mutated release site, which shows different solution properties and a strongly reduced enzymatic activity.
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Affiliation(s)
- Marlyse Buisson
- Laboratoire de Virologie, Hôpital Michallon, BP 217, 38043 Grenoble Cedex 9, France
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Burmeister WP, Buisson M, Ruigrok RWH, Hernandez JF, Arlaud G, Lascoux D, Forest E, Seigneurin JM. Crystal structure of the Epstein-Barr virus protease. Acta Crystallogr A 2002. [DOI: 10.1107/s010876730209637x] [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: 04/03/2023] Open
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Michel S, Forest E, Pétillot Y, Deléage G, Heuzé-Vourc'h N, Courty Y, Lascoux D, Jolivet M, Jolivet-Reynaud C. Involvement of the C-terminal end of the prostrate-specific antigen in a conformational epitope: characterization by proteolytic degradation of monoclonal antibody-bound antigen and mass spectrometry. J Mol Recognit 2001; 14:406-13. [PMID: 11757074 DOI: 10.1002/jmr.552] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Prostate-specific antigen (PSA), a 237-amino acid glycoprotein, encoded by the hKLK3 gene, is widely used as a serum marker for the diagnosis and management of prostate cancer. We report here the localization of a conformational epitope recognized by the anti-total PSA monoclonal antibody (mAb) 11E5C6, by proteolytic degradation of mAb-bound antigen followed by mass spectrometric analyses of the peptides generated. These two technologies, combined with molecular display, allowed the identification of amino acid residues contained within three different peptides distant on the PSA sequence, but close in the PSA three-dimensional structure, that may be part of the mAb 11E5C6 epitope. The last four C-terminal amino acid residues are included in this epitope, as well as certain other C-terminal residues between Y225 and T232. The involvement of the PSA C-terminal end in the mAb 11E5C6 epitope was confirmed by western blotting experiments with the recombinant protein proPSA-RP1, resulting from the cloning of an alternative transcript of the hKLK3 gene, in which the PSA C-terminal end was deleted and replaced by another sequence. Although the anti-total PSA mAb 5D5A5 used as a control bound proPSA-RP1, mAb 11E5C6 did not. The requirement of the C-terminal end for the recognition by mAb 11E5C6 may be useful for the discrimination of PSA-related forms.
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Affiliation(s)
- S Michel
- bioMérieux, Département R&D unité Immunoessais, Marcy l'Etoile, France
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