1
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Küpper FC, Miller EP, Andrews SJ, Hughes C, Carpenter LJ, Meyer-Klaucke W, Toyama C, Muramatsu Y, Feiters MC, Carrano CJ. Emission of volatile halogenated compounds, speciation and localization of bromine and iodine in the brown algal genome model Ectocarpus siliculosus. J Biol Inorg Chem 2018; 23:1119-1128. [PMID: 29523971 DOI: 10.1007/s00775-018-1539-7] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2017] [Accepted: 01/28/2018] [Indexed: 11/25/2022]
Abstract
This study explores key features of bromine and iodine metabolism in the filamentous brown alga and genomics model Ectocarpus siliculosus. Both elements are accumulated in Ectocarpus, albeit at much lower concentration factors (2-3 orders of magnitude for iodine, and < 1 order of magnitude for bromine) than e.g. in the kelp Laminaria digitata. Iodide competitively reduces the accumulation of bromide. Both iodide and bromide are accumulated in the cell wall (apoplast) of Ectocarpus, with minor amounts of bromine also detectable in the cytosol. Ectocarpus emits a range of volatile halogenated compounds, the most prominent of which by far is methyl iodide. Interestingly, biosynthesis of this compound cannot be accounted for by vanadium haloperoxidase since the latter have not been found to catalyze direct halogenation of an unactivated methyl group or hydrocarbon so a methyl halide transferase-type production mechanism is proposed.
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Affiliation(s)
- Frithjof C Küpper
- Oceanlab, University of Aberdeen, Main Street, Newburgh, AB41 6AA, Scotland, UK.
- Dunstaffnage Marine Laboratory, Scottish Association for Marine Science, Oban, Argyll, PA37 1QA, Scotland, UK.
| | - Eric P Miller
- Department of Chemistry and Biochemistry, San Diego State University, San Diego, CA, 92182-1030, USA
| | - Stephen J Andrews
- Wolfson Atmospheric Chemistry Laboratories, Department of Chemistry, University of York, York, YO10 5DD, UK
| | - Claire Hughes
- Environment Department, University of York, York, YO10 5NG, UK
| | - Lucy J Carpenter
- Wolfson Atmospheric Chemistry Laboratories, Department of Chemistry, University of York, York, YO10 5DD, UK
| | - Wolfram Meyer-Klaucke
- Department of Chemistry - Inorganic Chemistry, Faculty of Science, University of Paderborn, Warburger Strasse 100, 33098, Paderborn, Germany
| | - Chiaki Toyama
- Geological Survey of Japan, The National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, 305-8567, Japan
| | - Yasuyuki Muramatsu
- Department of Chemistry, Faculty of Science, Gakushuin University, Toshima-Ku, Tokyo, 171-8588, Japan
| | - Martin C Feiters
- Department of Organic Chemistry, Institute for Molecules and Materials, Radboud University Nijmegen, Heyendaalseweg 135, 6525 AJ, Nijmegen, The Netherlands
| | - Carl J Carrano
- Department of Chemistry and Biochemistry, San Diego State University, San Diego, CA, 92182-1030, USA
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2
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Hoffmann A, Stanek J, Dicke B, Peters L, Grimm-Lebsanft B, Wetzel A, Jesser A, Bauer M, Gnida M, Meyer-Klaucke W, Rübhausen M, Herres-Pawlis S. Implications of Guanidine Substitution on Copper Complexes as Entatic-State Models. Eur J Inorg Chem 2016. [DOI: 10.1002/ejic.201600655] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Alexander Hoffmann
- Institut für Anorganische Chemie; RWTH Aachen University; Landoltweg 1 52074 Aachen Germany
| | - Julia Stanek
- Institut für Anorganische Chemie; RWTH Aachen University; Landoltweg 1 52074 Aachen Germany
| | - Benjamin Dicke
- Universität Hamburg; Institut für Nanostruktur- und Festkörperphysik and Center for Free-Electron Laser Science; Notkestrasse 85 22607 Hamburg Germany
| | - Laurens Peters
- Department Chemie; Ludwig-Maximilians Universität München; Butenandtstraße 5-13 81377 München Germany
| | - Benjamin Grimm-Lebsanft
- Universität Hamburg; Institut für Nanostruktur- und Festkörperphysik and Center for Free-Electron Laser Science; Notkestrasse 85 22607 Hamburg Germany
| | - Alina Wetzel
- Universität Hamburg; Institut für Nanostruktur- und Festkörperphysik and Center for Free-Electron Laser Science; Notkestrasse 85 22607 Hamburg Germany
| | - Anton Jesser
- Department Chemie; Ludwig-Maximilians Universität München; Butenandtstraße 5-13 81377 München Germany
| | - Matthias Bauer
- Universität Paderborn; Department Chemie; Warburger Str. 100 33098 Paderborn Germany
| | - Manuel Gnida
- Universität Paderborn; Department Chemie; Warburger Str. 100 33098 Paderborn Germany
| | - Wolfram Meyer-Klaucke
- Universität Paderborn; Department Chemie; Warburger Str. 100 33098 Paderborn Germany
| | - Michael Rübhausen
- Universität Hamburg; Institut für Nanostruktur- und Festkörperphysik and Center for Free-Electron Laser Science; Notkestrasse 85 22607 Hamburg Germany
| | - Sonja Herres-Pawlis
- Institut für Anorganische Chemie; RWTH Aachen University; Landoltweg 1 52074 Aachen Germany
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3
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Morawski M, Reinert T, Meyer-Klaucke W, Wagner FE, Tröger W, Reinert A, Jäger C, Brückner G, Arendt T. Ion exchanger in the brain: Quantitative analysis of perineuronally fixed anionic binding sites suggests diffusion barriers with ion sorting properties. Sci Rep 2015; 5:16471. [PMID: 26621052 PMCID: PMC4664884 DOI: 10.1038/srep16471] [Citation(s) in RCA: 73] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2014] [Accepted: 10/12/2015] [Indexed: 12/01/2022] Open
Abstract
Perineuronal nets (PNs) are a specialized form of brain extracellular matrix, consisting of negatively charged glycosaminoglycans, glycoproteins and proteoglycans in the direct microenvironment of neurons. Still, locally immobilized charges in the tissue have not been accessible so far to direct observations and quantifications. Here, we present a new approach to visualize and quantify fixed charge-densities on brain slices using a focused proton-beam microprobe in combination with ionic metallic probes. For the first time, we can provide quantitative data on the distribution and net amount of pericellularly fixed charge-densities, which, determined at 0.4–0.5 M, is much higher than previously assumed. PNs, thus, represent an immobilized ion exchanger with ion sorting properties high enough to partition mobile ions in accord with Donnan-equilibrium. We propose that fixed charge-densities in the brain are involved in regulating ion mobility, the volume fraction of extracellular space and the viscosity of matrix components.
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Affiliation(s)
- Markus Morawski
- Paul Flechsig Institute for Brain Research, University of Leipzig, Liebigstrasse 19, D04103 Leipzig, Germany
| | - Tilo Reinert
- Physics Department, University of North Texas, 1155 Union Circle #311427, Denton, Texas 76203, USA
| | | | - Friedrich E Wagner
- Physik-Department E15, Technische Universität München, James-Franck-Straße, D85748 Garching, Germany
| | - Wolfgang Tröger
- Max-Planck-Innovation GmbH, Amalienstrasse 33, D80799 Munich, Germany
| | - Anja Reinert
- Paul Flechsig Institute for Brain Research, University of Leipzig, Liebigstrasse 19, D04103 Leipzig, Germany
| | - Carsten Jäger
- Paul Flechsig Institute for Brain Research, University of Leipzig, Liebigstrasse 19, D04103 Leipzig, Germany
| | - Gert Brückner
- Paul Flechsig Institute for Brain Research, University of Leipzig, Liebigstrasse 19, D04103 Leipzig, Germany
| | - Thomas Arendt
- Paul Flechsig Institute for Brain Research, University of Leipzig, Liebigstrasse 19, D04103 Leipzig, Germany
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4
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Küpper FC, Leblanc C, Meyer-Klaucke W, Potin P, Feiters MC. Different speciation for bromine in brown and red algae, revealed by in vivo X-ray absorption spectroscopic studies. J Phycol 2014; 50:652-664. [PMID: 26988449 DOI: 10.1111/jpy.12199] [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] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2013] [Accepted: 03/22/2014] [Indexed: 06/05/2023]
Abstract
Members of various algal lineages are known to be strong producers of atmospherically relevant halogen emissions, that is a consequence of their capability to store and metabolize halogens. This study uses a noninvasive, synchrotron-based technique, X-ray absorption spectroscopy, for addressing in vivo bromine speciation in the brown algae Ectocarpus siliculosus, Ascophyllum nodosum, and Fucus serratus, the red algae Gracilaria dura, G. gracilis, Chondrus crispus, Osmundea pinnatifida, Asparagopsis armata, Polysiphonia elongata, and Corallina officinalis, the diatom Thalassiosira rotula, the dinoflagellate Lingulodinium polyedrum and a natural phytoplankton sample. The results highlight a diversity of fundamentally different bromine storage modes: while most of the stramenopile representatives and the dinoflagellate store mostly bromide, there is evidence for Br incorporated in nonaromatic hydrocarbons in Thalassiosira. Red algae operate various organic bromine stores - including a possible precursor (by the haloform reaction) for bromoform in Asparagopsis and aromatically bound Br in Polysiphonia and Corallina. Large fractions of the bromine in the red algae G. dura and C. crispus and the brown alga F. serratus are present as Br(-) defects in solid KCl, similar to what was reported earlier for Laminaria parts. These results are discussed according to different defensive strategies that are used within algal taxa to cope with biotic or abiotic stresses.
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Affiliation(s)
- Frithjof C Küpper
- Oceanlab, University of Aberdeen, Main Street, Newburgh, AB41 6 AA, UK
- Scottish Association for Marine Science, Dunstaffnage Marine Laboratory, Argyll, Oban, PA37 1QA, UK
| | - Catherine Leblanc
- Integrative Biology of Marine Models, Centre National de la Recherche Scientifique, Station Biologique, Roscoff, F-29680, France
- Marine Plants and Biomolecules Laboratory, Université Pierre et Marie Curie, Université Paris 6, Station Biologique, Roscoff, F-29680, France
| | - Wolfram Meyer-Klaucke
- European Molecular Biology Laboratory (EMBL), Hamburg Unit, c/o DESY, Notkestrasse 85, Hamburg, D-22607, Germany
| | - Philippe Potin
- Integrative Biology of Marine Models, Centre National de la Recherche Scientifique, Station Biologique, Roscoff, F-29680, France
- Marine Plants and Biomolecules Laboratory, Université Pierre et Marie Curie, Université Paris 6, Station Biologique, Roscoff, F-29680, France
| | - Martin C Feiters
- Department of Organic Chemistry, Institute for Molecules and Materials, Radboud University Nijmegen, Heyendaalseweg 135, Nijmegen, NL-6525 AJ, The Netherlands
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Kreß O, Gnida M, Pelzmann AM, Marx C, Meyer-Klaucke W, Meyer O. Reversible inactivation of CO dehydrogenase with thiol compounds. Biochem Biophys Res Commun 2014; 447:413-8. [DOI: 10.1016/j.bbrc.2014.03.147] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2014] [Accepted: 03/30/2014] [Indexed: 11/28/2022]
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6
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Miller EP, Böttger LH, Weerasinghe AJ, Crumbliss AL, Matzanke BF, Meyer-Klaucke W, Küpper FC, Carrano CJ. Surface-bound iron: a metal ion buffer in the marine brown alga Ectocarpus siliculosus? J Exp Bot 2014; 65:585-94. [PMID: 24368501 PMCID: PMC3904714 DOI: 10.1093/jxb/ert406] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [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] [Indexed: 06/03/2023]
Abstract
Although the iron uptake and storage mechanisms of terrestrial/higher plants have been well studied, the corresponding systems in marine algae have received far less attention. Studies have shown that while some species of unicellular algae utilize unique mechanisms of iron uptake, many acquire iron through the same general mechanisms as higher plants. In contrast, the iron acquisition strategies of the multicellular macroalgae remain largely unknown. This is especially surprising since many of these organisms represent important ecological and evolutionary niches in the coastal marine environment. It has been well established in both laboratory and environmentally derived samples, that a large amount of iron can be 'non-specifically' adsorbed to the surface of marine algae. While this phenomenon is widely recognized and has prompted the development of experimental protocols to eliminate its contribution to iron uptake studies, its potential biological significance as a concentrated iron source for marine algae is only now being recognized. This study used an interdisciplinary array of techniques to explore the nature of the extensive and powerful iron binding on the surface of both laboratory and environmental samples of the marine brown alga Ectocarpus siliculosus and shows that some of this surface-bound iron is eventually internalized. It is proposed that the surface-binding properties of E. siliculosus allow it to function as a quasibiological metal ion 'buffer', allowing iron uptake under the widely varying external iron concentrations found in coastal marine environments.
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Affiliation(s)
- Eric P. Miller
- Department of Chemistry and Biochemistry, San Diego State University, San Diego, CA 92182-1030, USA
| | - Lars H. Böttger
- Section Natural Sciences, Isotopes Laboratory, University of Lübeck, Ratzeburger Allee 160, D-23538 Lübeck, Germany
- * Present address: Department of Chemistry, Stanford University, Stanford, CA 94305-5080, USA
| | | | | | - Berthold F. Matzanke
- Section Natural Sciences, Isotopes Laboratory, University of Lübeck, Ratzeburger Allee 160, D-23538 Lübeck, Germany
| | - Wolfram Meyer-Klaucke
- European Molecular Biology Laboratory (EMBL), Hamburg Unit, c/o DESY, Notkestrasse 85, D-22607 Hamburg, Germany
| | - Frithjof C. Küpper
- Oceanlab, University of Aberdeen, Main Street, Newburgh AB41 6AA, Scotland, UK
| | - Carl J. Carrano
- Department of Chemistry and Biochemistry, San Diego State University, San Diego, CA 92182-1030, USA
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Hoffmann A, Binder S, Jesser A, Haase R, Flörke U, Gnida M, Salomone Stagni M, Meyer-Klaucke W, Lebsanft B, Grünig LE, Schneider S, Hashemi M, Goos A, Wetzel A, Rübhausen M, Herres-Pawlis S. Den entatischen Zustand im Griff - ein Duo von Kupfer-Komplexen. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201306061] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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8
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Hoffmann A, Binder S, Jesser A, Haase R, Flörke U, Gnida M, Salomone Stagni M, Meyer-Klaucke W, Lebsanft B, Grünig LE, Schneider S, Hashemi M, Goos A, Wetzel A, Rübhausen M, Herres-Pawlis S. Catching an Entatic State-A Pair of Copper Complexes. Angew Chem Int Ed Engl 2013; 53:299-304. [DOI: 10.1002/anie.201306061] [Citation(s) in RCA: 56] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2013] [Revised: 08/25/2013] [Indexed: 11/08/2022]
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9
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Tamura H, Salomone-Stagni M, Fujishiro T, Warkentin E, Meyer-Klaucke W, Ermler U, Shima S. Crystal Structures of [Fe]-Hydrogenase in Complex with Inhibitory Isocyanides: Implications for the H2-Activation Site. Angew Chem Int Ed Engl 2013; 52:9656-9. [DOI: 10.1002/anie.201305089] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2013] [Indexed: 01/08/2023]
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10
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Küpper FC, Carpenter LJ, Leblanc C, Toyama C, Uchida Y, Maskrey BH, Robinson J, Verhaeghe EF, Malin G, Luther GW, Kroneck PMH, Kloareg B, Meyer-Klaucke W, Muramatsu Y, Megson IL, Potin P, Feiters MC. In vivo speciation studies and antioxidant properties of bromine in Laminaria digitata reinforce the significance of iodine accumulation for kelps. J Exp Bot 2013; 64:2653-64. [PMID: 23606364 PMCID: PMC3697951 DOI: 10.1093/jxb/ert110] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
The metabolism of bromine in marine brown algae remains poorly understood. This contrasts with the recent finding that the accumulation of iodide in the brown alga Laminaria serves the provision of an inorganic antioxidant - the first case documented from a living system. The aim of this study was to use an interdisciplinary array of techniques to study the chemical speciation, transformation, and function of bromine in Laminaria and to investigate the link between bromine and iodine metabolism, in particular in the antioxidant context. First, bromine and iodine levels in different Laminaria tissues were compared by inductively coupled plasma MS. Using in vivo X-ray absorption spectroscopy, it was found that, similarly to iodine, bromine is predominantly present in this alga in the form of bromide, albeit at lower concentrations, and that it shows similar behaviour upon oxidative stress. However, from a thermodynamic and kinetic standpoint, supported by in vitro and reconstituted in vivo assays, bromide is less suitable than iodide as an antioxidant against most reactive oxygen species except superoxide, possibly explaining why kelps prefer to accumulate iodide. This constitutes the first-ever study exploring the potential antioxidant function of bromide in a living system and other potential physiological roles. Given the tissue-specific differences observed in the content and speciation of bromine, it is concluded that the bromide uptake mechanism is different from the vanadium iodoperoxidase-mediated uptake of iodide in L. digitata and that its function is likely to be complementary to the iodide antioxidant system for detoxifying superoxide.
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Affiliation(s)
- Frithjof C Küpper
- Oceanlab, University of Aberdeen, Main Street, Newburgh, AB41 6AA, Scotland, UK.
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11
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Hummer AA, Bartel C, Arion VB, Jakupec MA, Meyer-Klaucke W, Geraki T, Quinn PD, Mijovilovich A, Keppler BK, Rompel A. X-ray Absorption Spectroscopy of an Investigational Anticancer Gallium(III) Drug: Interaction with Serum Proteins, Elemental Distribution Pattern, and Coordination of the Compound in Tissue. J Med Chem 2012; 55:5601-13. [DOI: 10.1021/jm3005459] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.6] [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)
- Alfred A. Hummer
- Institut für
Biophysikalische
Chemie, Universität Wien, Althanstraße
14, 1090 Wien, Austria
| | - Caroline Bartel
- Institut für Anorganische
Chemie, Universität Wien, Währinger
Straße 42, 1090 Wien, Austria
| | - Vladimir B. Arion
- Institut für Anorganische
Chemie, Universität Wien, Währinger
Straße 42, 1090 Wien, Austria
| | - Michael A. Jakupec
- Institut für Anorganische
Chemie, Universität Wien, Währinger
Straße 42, 1090 Wien, Austria
| | - Wolfram Meyer-Klaucke
- European Molecular Biology Laboratory Hamburg, Notkestraße 85, 22603
Hamburg, Germany
| | - Tina Geraki
- Diamond Light Source, Harwell Campus, Didcot OX11 0DE,
United Kingdom
| | - Paul D. Quinn
- Diamond Light Source, Harwell Campus, Didcot OX11 0DE,
United Kingdom
| | - Ana Mijovilovich
- Inorganic
Chemistry and Catalysis
Group, Debye Institute for Nanomaterials Science, Utrecht University, Universiteitsweg 99, 3584 CG Utrecht, The
Netherlands
| | - Bernhard K. Keppler
- Institut für Anorganische
Chemie, Universität Wien, Währinger
Straße 42, 1090 Wien, Austria
| | - Annette Rompel
- Institut für
Biophysikalische
Chemie, Universität Wien, Althanstraße
14, 1090 Wien, Austria
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12
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Neuba A, Haase R, Meyer-Klaucke W, Flörke U, Henkel G. Eine reversible halogeninduzierte Kupfer(I)-Disulfid-Kupfer(II)-Thiolat-Umwandlung. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201102714] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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13
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Neuba A, Haase R, Meyer-Klaucke W, Flörke U, Henkel G. A Halide-Induced Copper(I) Disulfide/Copper(II) Thiolate Interconversion. Angew Chem Int Ed Engl 2012; 51:1714-8. [PMID: 22234962 DOI: 10.1002/anie.201102714] [Citation(s) in RCA: 55] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2011] [Revised: 09/14/2011] [Indexed: 11/08/2022]
Affiliation(s)
- Adam Neuba
- Fakultät für Naturwissenschaften, Department Chemie, Universität Paderborn, Warburger Strasse 100, 33098 Paderborn, Germany
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14
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Leitenmaier B, Witt A, Witzke A, Stemke A, Meyer-Klaucke W, Kroneck PM, Küpper H. Biochemical and biophysical characterisation yields insights into the mechanism of a Cd/Zn transporting ATPase purified from the hyperaccumulator plant Thlaspi caerulescens. Biochimica et Biophysica Acta (BBA) - Biomembranes 2011; 1808:2591-9. [DOI: 10.1016/j.bbamem.2011.05.010] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2011] [Revised: 05/10/2011] [Accepted: 05/11/2011] [Indexed: 01/05/2023]
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15
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Meyer-Klaucke W. The synergism of XAS and crystallography. Acta Crystallogr A 2011. [DOI: 10.1107/s0108767311097510] [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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16
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Haikarainen T, Paturi P, Lindén J, Haataja S, Meyer-Klaucke W, Finne J, Papageorgiou AC. Magnetic properties and structural characterization of iron oxide nanoparticles formed by Streptococcus suis Dpr and four mutants. J Biol Inorg Chem 2011; 16:799-807. [PMID: 21487937 DOI: 10.1007/s00775-011-0781-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2011] [Accepted: 03/30/2011] [Indexed: 01/30/2023]
Abstract
Streptococcus suis Dpr belongs to the Dps family of bacterial and archaeal proteins that oxidize Fe(2+) to Fe(3+) to protect microorganisms from oxidative damage. The oxidized iron is subsequently deposited as ferrihydrite inside a protein cavity, resulting in the formation of an iron core. The size and the magnetic properties of the iron core have attracted considerable attention for nanotechnological applications in recent years. Here, the magnetic and structural properties of the iron core in wild-type Dpr and four cavity mutants were studied. All samples clearly demonstrated a superparamagnetic behavior in superconducting quantum interference device magnetometry and Mössbauer spectroscopy compatible with that of superparamagnetic ferrihydrite nanoparticles. However, all the mutants exhibited higher magnetic moments than the wild-type protein. Furthermore, measurement of the iron content with inductively coupled plasma mass spectrometry revealed a smaller amount of iron in the iron cores of the mutants, suggesting that the mutations affect nucleation and iron deposition inside the cavity. The X-ray crystal structures of the mutants revealed no changes compared with the wild-type crystal structure; thus, the differences in the magnetic moments could not be attributed to structural changes in the protein. Extended X-ray absorption fine structure measurements showed that the coordination geometry of the iron cores of the mutants was similar to that of the wild-type protein. Taken together, these results suggest that mutation of the residues that surround the iron storage cavity could be exploited to selectively modify the magnetic properties of the iron core without affecting the structure of the protein and the geometry of the iron core.
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Affiliation(s)
- Teemu Haikarainen
- Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, Turku, Finland.
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17
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Neuba A, Flörke U, Meyer-Klaucke W, Salomone-Stagni M, Bill E, Bothe E, Höfer P, Henkel G. The trinuclear copper(I) thiolate complexes [Cu3(NGuaS)3](0/1+) and their dimeric variants [Cu6(NGuaS)6](1+/2+/3+) with biomimetic redox properties. Angew Chem Int Ed Engl 2011; 50:4503-7. [PMID: 21484972 DOI: 10.1002/anie.201008076] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2010] [Revised: 01/13/2011] [Indexed: 11/08/2022]
Affiliation(s)
- Adam Neuba
- Fakultät für Naturwissenschaften, Department Chemie, Universität Paderborn, Warburger-Strasse 100, 33098 Paderborn, Germany
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18
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Neuba A, Flörke U, Meyer-Klaucke W, Salomone-Stagni M, Bill E, Bothe E, Höfer P, Henkel G. Die dreikernigen Kupfer(I)-Thiolat-Komplexe [Cu3(NGuaS)3]0/1+ und ihre dimeren Varianten [Cu6(NGuaS)6]1+/2+/3+ mit biomimetischen Redoxeigenschaften. Angew Chem Int Ed Engl 2011. [DOI: 10.1002/ange.201008076] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Loebus J, Peroza EA, Blüthgen N, Fox T, Meyer-Klaucke W, Zerbe O, Freisinger E. Protein and metal cluster structure of the wheat metallothionein domain γ-E(c)-1: the second part of the puzzle. J Biol Inorg Chem 2011; 16:683-94. [PMID: 21437709 DOI: 10.1007/s00775-011-0770-2] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2010] [Accepted: 02/27/2011] [Indexed: 11/28/2022]
Abstract
Metallothioneins (MTs) are small cysteine-rich proteins coordinating various transition metal ions, including Zn(II), Cd(II), and Cu(I). MTs are ubiquitously present in all phyla, indicating a successful molecular concept for metal ion binding in all organisms. The plant MT E(c)-1 from Triticum aestivum, common bread wheat, is a Zn(II)-binding protein that comprises two domains and binds up to six metal ions. The structure of the C-terminal four metal ion binding β(E) domain was recently described. Here we present the structure of the N-terminal second domain, γ-E(c)-1, determined by NMR spectroscopy. The γ-E(c)-1 domain enfolds an M (2) (II) Cys(6) cluster and was characterized as part of the full-length Zn(6)E(c)-1 protein as well as in the form of the separately expressed domain, both in the Zn(II)-containing isoform and the Cd(II)-containing isoform. Extended X-ray absorption fine structure analysis of Zn(2)γ-E(c)-1 clearly shows the presence of a ZnS(4) coordination sphere with average Zn-S distances of 2.33 Å. (113)Cd NMR experiments were used to identify the M(II)-Cys connectivity pattern, and revealed two putative metal cluster conformations. In addition, the general metal ion coordination abilities of γ-E(c)-1 were probed with Cd(II) binding experiments as well as by pH titrations of the Zn(II) and Cd(II) forms, the latter suggesting an interaction of the γ domain and the β(E) domain within the full-length protein.
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Affiliation(s)
- Jens Loebus
- Institute of Inorganic Chemistry, University of Zurich, Switzerland
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20
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Carella M, Becher J, Ohlenschläger O, Ramachandran R, Gührs KH, Wellenreuther G, Meyer-Klaucke W, Heinemann SH, Görlach M. Structure-function relationship in an archaebacterial methionine sulphoxide reductase B. Mol Microbiol 2010; 79:342-58. [PMID: 21219456 DOI: 10.1111/j.1365-2958.2010.07447.x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Oxidation of methionine to methionine sulphoxide (MetSO) may lead to loss of molecular integrity and function. This oxidation can be 'repaired' by methionine sulphoxide reductases (MSRs), which reduce MetSO back to methionine. Two structurally unrelated classes of MSRs, MSRA and MSRB, show stereoselectivity towards the S and the R enantiomer of the sulphoxide respectively. Interestingly, these enzymes were even maintained throughout evolution in anaerobic organisms. Here, the activity and the nuclear magnetic resonance (NMR) structure of MTH711, a zinc containing MSRB from the thermophilic, methanogenic archaebacterium Methanothermobacter thermoautotrophicus, are described. The structure appears more rigid as compared with similar MSRBs from aerobic and mesophilic organisms. No significant structural differences between the oxidized and the reduced MTH711 state can be deduced from our NMR data. A stable sulphenic acid is formed at the catalytic Cys residue upon oxidation of the enzyme with MetSO. The two non-zinc-binding cysteines outside the catalytic centre are not necessary for activity of MTH711 and are not situated close enough to the active-site cysteine to serve in regenerating the active centre via the formation of an intramolecular disulphide bond. These findings imply a reaction cycle that differs from that observed for other MSRBs.
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Affiliation(s)
- Michela Carella
- Leibniz-Institut für Altersforschung Fritz-Lipmann-Institut, Beutenbergstr. 11, D-07745 Jena, Germany
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21
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Royer AM, Salomone-Stagni M, Rauchfuss TB, Meyer-Klaucke W. Iron acyl thiolato carbonyls: structural models for the active site of the [Fe]-hydrogenase (Hmd). J Am Chem Soc 2010; 132:16997-7003. [PMID: 21062066 DOI: 10.1021/ja1072228] [Citation(s) in RCA: 74] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
Phosphine-modified thioester derivatives are shown to serve as efficient precursors to phosphine-stabilized ferrous acyl thiolato carbonyls, which replicate key structural features of the active site of the hydrogenase Hmd. The reaction of Ph(2)PC(6)H(4)C(O)SPh and sources of Fe(0) generates both Fe(SPh)(Ph(2)PC(6)H(4)CO)(CO)(3) (1) and the diferrous diacyl Fe(2)(SPh)(2)(CO)(3)(Ph(2)PC(6)H(4)CO)(2), which carbonylates to give 1. For the extremely bulky arylthioester Ph(2)PC(6)H(4)C(O)SC(6)H(3)-2,6-(2,4,6-trimethylphenyl)(2), oxidative addition is arrested and the Fe(0) adduct of the phosphine is obtained. Complex 1 reacts with cyanide to give Et(4)N[Fe(SPh)(Ph(2)PC(6)H(4)CO)(CN)(CO)(2)] (Et(4)N[2]). (13)C and (31)P NMR spectra indicate that substitution is stereospecific and cis to P. The IR spectrum of [2](-) in ν(CN) and ν(CO) regions very closely matches that for Hmd(CN). XANES and EXAFS measurements also indicate close structural and electronic similarity of Et(4)N[2] to the active site of wild-type Hmd. Complex 1 also stereospecifically forms a derivative with TsCH(2)NC, but the adduct is more labile than Et(4)N[2]. Tricarbonyl 1 was found to reversibly protonate to give a thermally labile derivative, IR measurements of which indicate that the acyl and thiolate ligands are probably not protonated in Hmd.
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Affiliation(s)
- Aaron M Royer
- School of Chemical Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
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22
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Salomone-Stagni M, Stellato F, Whaley CM, Vogt S, Morante S, Shima S, Rauchfuss TB, Meyer-Klaucke W. The iron-site structure of [Fe]-hydrogenase and model systems: an X-ray absorption near edge spectroscopy study. Dalton Trans 2010; 39:3057-64. [PMID: 20221540 PMCID: PMC3465567 DOI: 10.1039/b922557a] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The [Fe]-hydrogenase is an ideal system for studying the electronic properties of the low spin iron site that is common to the catalytic centres of all hydrogenases. Because they have no auxiliary iron-sulfur clusters and possess a cofactor containing a single iron centre, the [Fe]-hydrogenases are well suited for spectroscopic analysis of those factors required for the activation of molecular hydrogen. Specifically, in this study we shed light on the electronic and molecular structure of the iron centre by XAS analysis of [Fe]-hydrogenase from Methanocaldococcus jannashii and five model complexes (Fe(ethanedithiolate)(CO)(2)(PMe(3))(2), [K(18-crown-6)](2)[Fe(CN)(2)(CO)(3)], K[Fe(CN)(CO)(4)], K(3)[Fe(III)(CN)(6)], K(4)[Fe(II)(CN)(6)]). The different electron donors have a strong influence on the iron absorption K-edge energy position, which is frequently used to determine the metal oxidation state. Our results demonstrate that the K-edges of Fe(II) complexes, achieved with low-spin ferrous thiolates, are consistent with a ferrous centre in the [Fe]-hydrogenase from Methanocaldococcus jannashii. The metal geometry also strongly influences the XANES and thus the electronic structure. Using in silico simulation, we were able to reproduce the main features of the XANES spectra and describe the effects of individual donor contributions on the spectra. Thereby, we reveal the essential role of an unusual carbon donor coming from an acyl group of the cofactor in the determination of the electronic structure required for the activity of the enzyme.
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Affiliation(s)
| | - Francesco Stellato
- Physics Department and INFN, Università di Roma “Tor Vergata”, Via della ricerca scientifica 1, I-00133, Roma, Italy
| | - C. Matthew Whaley
- Department of Chemistry, University of Illinois, A328 Chemical & Life Science Lab, 600 South Mathews Avenue, IL-61801, Urbana, USA
| | - Sonja Vogt
- Max-Planck-Institute für terrestrische Mikrobiologie, Karl-von-Frisch-Straβe, D-35043, Marburg, Germany
| | - Silvia Morante
- Physics Department and INFN, Università di Roma “Tor Vergata”, Via della ricerca scientifica 1, I-00133, Roma, Italy
| | - Seigo Shima
- Max-Planck-Institute für terrestrische Mikrobiologie, Karl-von-Frisch-Straβe, D-35043, Marburg, Germany
| | - Thomas B. Rauchfuss
- Department of Chemistry, University of Illinois, A328 Chemical & Life Science Lab, 600 South Mathews Avenue, IL-61801, Urbana, USA
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23
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Abad Andrade CE, Ma X, Meyer-Klaucke W, Schulzke C. The difference one ligand atom makes – An altered oxygen transfer reaction mechanism caused by an exchange of selenium for sulfur. Polyhedron 2010. [DOI: 10.1016/j.poly.2009.10.018] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Wellenreuther G, Parthasarathy V, Meyer-Klaucke W. Towards a black-box for biological EXAFS data analysis. II. Automatic BioXAS Refinement and Analysis (ABRA). J Synchrotron Radiat 2010; 17:25-35. [PMID: 20029108 DOI: 10.1107/s0909049509040576] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/28/2009] [Accepted: 10/05/2009] [Indexed: 05/28/2023]
Abstract
In biological systems, X-ray absorption spectroscopy (XAS) can determine structural details of metal binding sites with high resolution. Here a method enabling an automated analysis of the corresponding EXAFS data is presented, utilizing in addition to least-squares refinement the prior knowledge about structural details and important fit parameters. A metal binding motif is characterized by the type of donor atoms and their bond lengths. These fit results are compared by bond valance sum analysis and target distances with established structures of metal binding sites. Other parameters such as the Debye-Waller factor and shift of the Fermi energy provide further insights into the quality of a fit. The introduction of mathematical criteria, their combination and calibration allows an automated analysis of XAS data as demonstrated for a number of examples. This presents a starting point for future applications to all kinds of systems studied by XAS and allows the algorithm to be transferred to data analysis in other fields.
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25
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26
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Herres-Pawlis S, Binder S, Eich A, Haase R, Schulz B, Wellenreuther G, Henkel G, Rübhausen M, Meyer-Klaucke W. Stabilisation of a highly reactive bis(mu-oxo)dicopper(III) species at room temperature by electronic and steric constraint of an unconventional nitrogen donor ligand. Chemistry 2009; 15:8678-82. [PMID: 19630018 DOI: 10.1002/chem.200901092] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Sonja Herres-Pawlis
- Department Chemie, Anorganische Chemie, University Paderborn, 33098 Paderborn, Germany.
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27
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Küpper H, Götz B, Mijovilovich A, Küpper FC, Meyer-Klaucke W. Complexation and toxicity of copper in higher plants. I. Characterization of copper accumulation, speciation, and toxicity in Crassula helmsii as a new copper accumulator. Plant Physiol 2009; 151:702-14. [PMID: 19641032 PMCID: PMC2754650 DOI: 10.1104/pp.109.139717] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2009] [Accepted: 07/20/2009] [Indexed: 05/19/2023]
Abstract
The amphibious water plant Crassula helmsii is an invasive copper (Cu)-tolerant neophyte in Europe. It now turned out to accumulate Cu up to more than 9,000 ppm in its shoots at 10 microm (=0.6 ppm) Cu(2+) in the nutrient solution, indicating that it is a Cu hyperaccumulator. We investigated uptake, binding environment, and toxicity of Cu in this plant under emerged and submerged conditions. Extended x-ray absorption fine structure measurements on frozen-hydrated samples revealed that Cu was bound almost exclusively by oxygen ligands, likely organic acids, and not any sulfur ligands. Despite significant differences in photosynthesis biochemistry and biophysics between emerged and submerged plants, no differences in Cu ligands were found. While measurements of tissue pH confirmed the diurnal acid cycle typical for Crassulacean acid metabolism, Delta(13)C measurements showed values typical for regular C3 photosynthesis. Cu-induced inhibition of photosynthesis mainly affected the photosystem II (PSII) reaction center, but with some unusual features. Most obviously, the degree of light saturation of electron transport increased during Cu stress, while maximal dark-adapted PSII quantum yield did not change and light-adapted quantum yield of PSII photochemistry decreased particularly in the first 50 s after onset of actinic irradiance. This combination of changes, which were strongest in submerged cultures, shows a decreasing number of functional reaction centers relative to the antenna in a system with high antenna connectivity. Nonphotochemical quenching, in contrast, was modified by Cu mainly in emerged cultures. Pigment concentrations in stressed plants strongly decreased, but no changes in their ratios occurred, indicating that cells either survived intact or died and bleached quickly.
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Affiliation(s)
- Hendrik Küpper
- Universität Konstanz, Mathematisch-Naturwissenschaftliche Sektion, Fachbereich Biologie, D-78457 Konstanz, Germany.
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28
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Mijovilovich A, Leitenmaier B, Meyer-Klaucke W, Kroneck PMH, Götz B, Küpper H. Complexation and toxicity of copper in higher plants. II. Different mechanisms for copper versus cadmium detoxification in the copper-sensitive cadmium/zinc hyperaccumulator Thlaspi caerulescens (Ganges Ecotype). Plant Physiol 2009; 151:715-31. [PMID: 19692532 PMCID: PMC2754615 DOI: 10.1104/pp.109.144675] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2009] [Accepted: 08/12/2009] [Indexed: 05/06/2023]
Abstract
The cadmium/zinc hyperaccumulator Thlaspi caerulescens is sensitive toward copper (Cu) toxicity, which is a problem for phytoremediation of soils with mixed contamination. Cu levels in T. caerulescens grown with 10 microm Cu(2+) remained in the nonaccumulator range (<50 ppm), and most individuals were as sensitive toward Cu as the related nonaccumulator Thlaspi fendleri. Obviously, hyperaccumulation and metal resistance are highly metal specific. Cu-induced inhibition of photosynthesis followed the "sun reaction" type of damage, with inhibition of the photosystem II reaction center charge separation and the water-splitting complex. A few individuals of T. caerulescens were more Cu resistant. Compared with Cu-sensitive individuals, they recovered faster from inhibition, at least partially by enhanced repair of chlorophyll-protein complexes but not by exclusion, since the content of Cu in their shoots was increased by about 25%. Extended x-ray absorption fine structure (EXAFS) measurements on frozen-hydrated leaf samples revealed that a large proportion of Cu in T. caerulescens is bound by sulfur ligands. This is in contrast to the known binding environment of cadmium and zinc in the same species, which is dominated by oxygen ligands. Clearly, hyperaccumulators detoxify hyperaccumulated metals differently compared with nonaccumulated metals. Furthermore, strong features in the Cu-EXAFS spectra ascribed to metal-metal contributions were found, in particular in the Cu-resistant specimens. Some of these features may be due to Cu binding to metallothioneins, but a larger proportion seems to result from biomineralization, most likely Cu(II) oxalate and Cu(II) oxides. Additional contributions in the EXAFS spectra indicate complexation of Cu(II) by the nonproteogenic amino acid nicotianamine, which has a very high affinity for Cu(II) as further characterized here.
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Affiliation(s)
- Ana Mijovilovich
- Department of Inorganic Chemistry and Catalysis, University of Utrecht, 3584 CA Utrecht, The Netherlands
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29
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Hollenstein K, Comellas-Bigler M, Bevers LE, Feiters MC, Meyer-Klaucke W, Hagedoorn PL, Locher KP. Distorted octahedral coordination of tungstate in a subfamily of specific binding proteins. J Biol Inorg Chem 2009; 14:663-72. [PMID: 19234723 DOI: 10.1007/s00775-009-0479-7] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2008] [Accepted: 02/04/2009] [Indexed: 11/30/2022]
Abstract
Bacteria and archaea import molybdenum and tungsten from the environment in the form of the oxyanions molybdate (MoO(4) (2-)) and tungstate (WO(4) (2-)). These substrates are captured by an external, high-affinity binding protein, and delivered to ATP binding cassette transporters, which move them across the cell membrane. We have recently reported a crystal structure of the molybdate/tungstate binding protein ModA/WtpA from Archaeoglobus fulgidus, which revealed an octahedrally coordinated central metal atom. By contrast, the previously determined structures of three bacterial homologs showed tetracoordinate molybdenum and tungsten atoms in their binding pockets. Until then, coordination numbers above four had only been found for molybdenum/tungsten in metalloenzymes where these metal atoms are part of the catalytic cofactors and coordinated by mostly non-oxygen ligands. We now report a high-resolution structure of A. fulgidus ModA/WtpA, as well as crystal structures of four additional homologs, all bound to tungstate. These crystal structures match X-ray absorption spectroscopy measurements from soluble, tungstate-bound protein, and reveal the details of the distorted octahedral coordination. Our results demonstrate that the distorted octahedral geometry is not an exclusive feature of the A. fulgidus protein, and suggest distinct binding modes of the binding proteins from archaea and bacteria.
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Affiliation(s)
- Kaspar Hollenstein
- Institute of Molecular Biology and Biophysics, ETH Zurich, Zurich, Switzerland
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30
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Pelzmann A, Ferner M, Gnida M, Meyer-Klaucke W, Maisel T, Meyer O. The CoxD protein of Oligotropha carboxidovorans is a predicted AAA+ ATPase chaperone involved in the biogenesis of the CO dehydrogenase [CuSMoO2] cluster. J Biol Chem 2009; 284:9578-86. [PMID: 19189964 DOI: 10.1074/jbc.m805354200] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
CO dehydrogenase from the Gram-negative chemolithoautotrophic eubacterium Oligotropha carboxidovorans OM5 is a structurally characterized molybdenum-containing iron-sulfur flavoenzyme, which catalyzes the oxidation of CO (CO + H(2)O --> CO(2) + 2e(-) + 2H(+)). It accommodates in its active site a unique bimetallic [CuSMoO(2)] cluster, which is subject to post-translational maturation. Insertional mutagenesis of coxD has established its requirement for the assembly of the [CuSMoO(2)] cluster. Disruption of coxD led to a phenotype of the corresponding mutant OM5 D::km with the following characteristics: (i) It was impaired in the utilization of CO, whereas the utilization of H(2) plus CO(2) was not affected; (ii) Under appropriate induction conditions bacteria synthesized a fully assembled apo-CO dehydrogenase, which could not oxidize CO; (iii) Apo-CO dehydrogenase contained a [MoO(3)] site in place of the [CuSMoO(2)] cluster; and (iv) Employing sodium sulfide first and then the Cu(I)-(thiourea)(3) complex, the non-catalytic [MoO(3)] site could be reconstituted in vitro to a [CuSMoO(2)] cluster capable of oxidizing CO. Sequence information suggests that CoxD is a MoxR-like AAA+ ATPase chaperone related to the hexameric, ring-shaped BchI component of Mg(2+)-chelatases. Recombinant CoxD, which appeared in Escherichia coli in inclusion bodies, occurs exclusively in cytoplasmic membranes of O. carboxidovorans grown in the presence of CO, and its occurrence coincided with GTPase activity upon sucrose density gradient centrifugation of cell extracts. The presumed function of CoxD is the partial unfolding of apo-CO dehydrogenase to assist in the stepwise introduction of sulfur and copper in the [MoO(3)] center of the enzyme.
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Affiliation(s)
- Astrid Pelzmann
- University of Bayreuth, Universitätsstrasse 30, Bayreuth 95440, Germany
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31
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Wellenreuther G, Cianci M, Tucoulou R, Meyer-Klaucke W, Haase H. The ligand environment of zinc stored in vesicles. Biochem Biophys Res Commun 2009; 380:198-203. [PMID: 19171119 DOI: 10.1016/j.bbrc.2009.01.074] [Citation(s) in RCA: 74] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2009] [Accepted: 01/14/2009] [Indexed: 11/28/2022]
Abstract
Zinc serves regulatory functions in cells and thus, several mechanisms exist for tight control of its homeostasis. One mechanism is storage in and retrieval from vesicles, so-called zincosomes, but the chemical speciation of zincosomal zinc has remained enigmatic. Here, we determine the intravesicular zinc-coordination in isolated zincosomes in comparison to intact RAW264.7 murine macrophage cells. In elemental maps of a cell monolayer, generated by microbeam X-ray fluorescence, zincosomes were identified as spots of high zinc accumulation. A fingerprint for the binding motif obtained by muXANES (X-ray absorption near edge structure) matches the XANES from isolated vesicles; zinc is not free, but present as a complexed form (average coordination; 1.0 sulfur, 2,5 histidines 30 and 1.0 oxygen), resembling regulatory or catalytic zinc sites in proteins. Such coordination enables reversible binding, acting as a 'zinc sink', facilitating the accumulation of high amounts of zinc against a concentration gradient.
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Affiliation(s)
- Gerd Wellenreuther
- European Molecular Biology Laboratory, Hamburg Outstation, c/o DESY, Notkestrasse 85, D-22603 Hamburg, Germany
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32
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D’Angelo P, Lapi A, Migliorati V, Arcovito A, Benfatto M, Roscioni OM, Meyer-Klaucke W, Della-Longa S. X-ray Absorption Spectroscopy of Hemes and Hemeproteins in Solution: Multiple Scattering Analysis. Inorg Chem 2008; 47:9905-18. [DOI: 10.1021/ic800982a] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.1] [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)
- Paola D’Angelo
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P. le A. Moro 5, 00185 Rome, Italy, Istituto CNR di Metodologie Chimiche-IMC, Sezione Meccanismi di Reazione, Dipartimento di Chimica, Università di Roma “La Sapienza”, P.le A. Moro 5, 00185 Rome, Italy, Laboratori Nazionali di Frascati, INFN CP13, 00044 Frascati, Italy, Istituto di Biochimica e Biochimica Clinica, Università Cattolica del Sacro Cuore, L.go F. Vito 1, 00168 Rome, Italy, European Molecular Biology Laboratory, Hamburg Unit,
| | - Andrea Lapi
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P. le A. Moro 5, 00185 Rome, Italy, Istituto CNR di Metodologie Chimiche-IMC, Sezione Meccanismi di Reazione, Dipartimento di Chimica, Università di Roma “La Sapienza”, P.le A. Moro 5, 00185 Rome, Italy, Laboratori Nazionali di Frascati, INFN CP13, 00044 Frascati, Italy, Istituto di Biochimica e Biochimica Clinica, Università Cattolica del Sacro Cuore, L.go F. Vito 1, 00168 Rome, Italy, European Molecular Biology Laboratory, Hamburg Unit,
| | - Valentina Migliorati
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P. le A. Moro 5, 00185 Rome, Italy, Istituto CNR di Metodologie Chimiche-IMC, Sezione Meccanismi di Reazione, Dipartimento di Chimica, Università di Roma “La Sapienza”, P.le A. Moro 5, 00185 Rome, Italy, Laboratori Nazionali di Frascati, INFN CP13, 00044 Frascati, Italy, Istituto di Biochimica e Biochimica Clinica, Università Cattolica del Sacro Cuore, L.go F. Vito 1, 00168 Rome, Italy, European Molecular Biology Laboratory, Hamburg Unit,
| | - Alessandro Arcovito
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P. le A. Moro 5, 00185 Rome, Italy, Istituto CNR di Metodologie Chimiche-IMC, Sezione Meccanismi di Reazione, Dipartimento di Chimica, Università di Roma “La Sapienza”, P.le A. Moro 5, 00185 Rome, Italy, Laboratori Nazionali di Frascati, INFN CP13, 00044 Frascati, Italy, Istituto di Biochimica e Biochimica Clinica, Università Cattolica del Sacro Cuore, L.go F. Vito 1, 00168 Rome, Italy, European Molecular Biology Laboratory, Hamburg Unit,
| | - Maurizio Benfatto
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P. le A. Moro 5, 00185 Rome, Italy, Istituto CNR di Metodologie Chimiche-IMC, Sezione Meccanismi di Reazione, Dipartimento di Chimica, Università di Roma “La Sapienza”, P.le A. Moro 5, 00185 Rome, Italy, Laboratori Nazionali di Frascati, INFN CP13, 00044 Frascati, Italy, Istituto di Biochimica e Biochimica Clinica, Università Cattolica del Sacro Cuore, L.go F. Vito 1, 00168 Rome, Italy, European Molecular Biology Laboratory, Hamburg Unit,
| | - Otello Maria Roscioni
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P. le A. Moro 5, 00185 Rome, Italy, Istituto CNR di Metodologie Chimiche-IMC, Sezione Meccanismi di Reazione, Dipartimento di Chimica, Università di Roma “La Sapienza”, P.le A. Moro 5, 00185 Rome, Italy, Laboratori Nazionali di Frascati, INFN CP13, 00044 Frascati, Italy, Istituto di Biochimica e Biochimica Clinica, Università Cattolica del Sacro Cuore, L.go F. Vito 1, 00168 Rome, Italy, European Molecular Biology Laboratory, Hamburg Unit,
| | - Wolfram Meyer-Klaucke
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P. le A. Moro 5, 00185 Rome, Italy, Istituto CNR di Metodologie Chimiche-IMC, Sezione Meccanismi di Reazione, Dipartimento di Chimica, Università di Roma “La Sapienza”, P.le A. Moro 5, 00185 Rome, Italy, Laboratori Nazionali di Frascati, INFN CP13, 00044 Frascati, Italy, Istituto di Biochimica e Biochimica Clinica, Università Cattolica del Sacro Cuore, L.go F. Vito 1, 00168 Rome, Italy, European Molecular Biology Laboratory, Hamburg Unit,
| | - Stefano Della-Longa
- Dipartimento di Chimica, Università di Roma “La Sapienza”, P. le A. Moro 5, 00185 Rome, Italy, Istituto CNR di Metodologie Chimiche-IMC, Sezione Meccanismi di Reazione, Dipartimento di Chimica, Università di Roma “La Sapienza”, P.le A. Moro 5, 00185 Rome, Italy, Laboratori Nazionali di Frascati, INFN CP13, 00044 Frascati, Italy, Istituto di Biochimica e Biochimica Clinica, Università Cattolica del Sacro Cuore, L.go F. Vito 1, 00168 Rome, Italy, European Molecular Biology Laboratory, Hamburg Unit,
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33
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Shima S, Pilak O, Vogt S, Schick M, Stagni MS, Meyer-Klaucke W, Warkentin E, Thauer RK, Ermler U. The crystal structure of [Fe]-hydrogenase reveals the geometry of the active site. Science 2008; 321:572-5. [PMID: 18653896 DOI: 10.1126/science.1158978] [Citation(s) in RCA: 412] [Impact Index Per Article: 25.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Abstract
Biological formation and consumption of molecular hydrogen (H2) are catalyzed by hydrogenases, of which three phylogenetically unrelated types are known: [NiFe]-hydrogenases, [FeFe]-hydrogenases, and [Fe]-hydrogenase. We present a crystal structure of [Fe]-hydrogenase at 1.75 angstrom resolution, showing a mononuclear iron coordinated by the sulfur of cysteine 176, two carbon monoxide (CO) molecules, and the sp2-hybridized nitrogen of a 2-pyridinol compound with back-bonding properties similar to those of cyanide. The three-dimensional arrangement of the ligands is similar to that of thiolate, CO, and cyanide ligated to the low-spin iron in binuclear [NiFe]- and [FeFe]-hydrogenases, although the enzymes have evolved independently and the CO and cyanide ligands are not found in any other metalloenzyme. The related iron ligation pattern of hydrogenases exemplifies convergent evolution and presumably plays an essential role in H2 activation. This finding may stimulate the ongoing synthesis of catalysts that could substitute for platinum in applications such as fuel cells.
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Affiliation(s)
- Seigo Shima
- Max-Planck-Institut für Terrestrische Mikrobiologie and Laboratorium für Mikrobiologie, Fachbereich Biologie, Philipps-Universität Marburg, Karl-von-Frisch-Strasse, D-35043 Marburg, Germany.
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34
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Küpper FC, Carpenter LJ, McFiggans GB, Palmer CJ, Waite TJ, Boneberg EM, Woitsch S, Weiller M, Abela R, Grolimund D, Potin P, Butler A, Luther GW, Kroneck PMH, Meyer-Klaucke W, Feiters MC. Iodide accumulation provides kelp with an inorganic antioxidant impacting atmospheric chemistry. Proc Natl Acad Sci U S A 2008; 105:6954-8. [PMID: 18458346 PMCID: PMC2383960 DOI: 10.1073/pnas.0709959105] [Citation(s) in RCA: 152] [Impact Index Per Article: 9.5] [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: 10/18/2007] [Indexed: 11/18/2022] Open
Abstract
Brown algae of the Laminariales (kelps) are the strongest accumulators of iodine among living organisms. They represent a major pump in the global biogeochemical cycle of iodine and, in particular, the major source of iodocarbons in the coastal atmosphere. Nevertheless, the chemical state and biological significance of accumulated iodine have remained unknown to this date. Using x-ray absorption spectroscopy, we show that the accumulated form is iodide, which readily scavenges a variety of reactive oxygen species (ROS). We propose here that its biological role is that of an inorganic antioxidant, the first to be described in a living system. Upon oxidative stress, iodide is effluxed. On the thallus surface and in the apoplast, iodide detoxifies both aqueous oxidants and ozone, the latter resulting in the release of high levels of molecular iodine and the consequent formation of hygroscopic iodine oxides leading to particles, which are precursors to cloud condensation nuclei. In a complementary set of experiments using a heterologous system, iodide was found to effectively scavenge ROS in human blood cells.
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Affiliation(s)
- Frithjof C Küpper
- Scottish Association for Marine Science, Dunstaffnage Marine Laboratory, Oban, Argyll PA37 1QA, Scotland, United Kingdom.
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35
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Minicozzi V, Stellato F, Comai M, Serra MD, Potrich C, Meyer-Klaucke W, Morante S. Identifying the Minimal Copper- and Zinc-binding Site Sequence in Amyloid-β Peptides. J Biol Chem 2008; 283:10784-92. [DOI: 10.1074/jbc.m707109200] [Citation(s) in RCA: 169] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
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36
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Späth B, Settele F, Schilling O, D'Angelo I, Vogel A, Feldmann I, Meyer-Klaucke W, Marchfelder A. Metal requirements and phosphodiesterase activity of tRNase Z enzymes. Biochemistry 2007; 46:14742-50. [PMID: 18052196 DOI: 10.1021/bi7010459] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The endonuclease tRNase Z from A. thaliana (AthTRZ1) was originally isolated for its tRNA 3' processing activity. Here we show that AthTRZ1 also hydrolyzes the phosphodiester bond in bis(p-nitrophenyl) phosphate (bpNPP) with a kcat of 7.4 s-1 and a KM of 8.5 mM. We analyzed 22 variants of AthTRZ1 with respect to their ability to hydrolyze bpNPP. This mutational mapping identified fourteen variants that lost the ability to hydrolyze bpNPP and seven variants with reduced activity. Surprisingly, a single amino acid change (R252G) resulted in a ten times higher activity compared to the wild type enzyme. tRNase Z enzymes exist in long and short forms. We show here that in contrast to the short tRNase Z enzyme AthTRZ1, the long tRNase Z enzymes do not have bpNPP hydrolysis activity pointing to fundamental differences in substrate cleavage between the two enzyme forms. Furthermore, we determined the metal content of AthTRZ1 and analyzed the metal requirement for bpNPP hydrolysis. AthTRZ1 shows a high affinity for Zn2+ ions; even upon incubation with metal chelators, 0.76 Zn2+ ions are retained per dimer. In contrast to bpNPP hydrolysis, pre-tRNA processing requires additional metal ions, Mn2+ or Mg2+, as Zn2+ ions alone are insufficient.
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Affiliation(s)
- Bettina Späth
- Molekulare Botanik, Universität Ulm, Albert-Einstein-Allee 11, 89069 Ulm, Germany
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37
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Voronova A, Meyer-Klaucke W, Meyer T, Rompel A, Krebs B, Kazantseva J, Sillard R, Palumaa P. Oxidative switches in functioning of mammalian copper chaperone Cox17. Biochem J 2007; 408:139-48. [PMID: 17672825 PMCID: PMC2049083 DOI: 10.1042/bj20070804] [Citation(s) in RCA: 48] [Impact Index Per Article: 2.8] [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: 12/30/2022]
Abstract
Cox17, a copper chaperone for cytochrome-c oxidase, is an essential and highly conserved protein in eukaryotic organisms. Yeast and mammalian Cox17 share six conserved cysteine residues, which are involved in complex redox reactions as well as in metal binding and transfer. Mammalian Cox17 exists in three oxidative states, each characterized by distinct metal-binding properties: fully reduced mammalian Cox17(0S-S) binds co-operatively to four Cu+; Cox17(2S-S), with two disulfide bridges, binds to one of either Cu+ or Zn2+; and Cox17(3S-S), with three disulfide bridges, does not bind to any metal ions. The E(m) (midpoint redox potential) values for two redox couples of Cox17, Cox17(3S-S)<-->Cox17(2S-S) (E(m1)) and Cox17(2S-S)<-->Cox17(0S-S) (E(m2)), were determined to be -197 mV and -340 mV respectively. The data indicate that an equilibrium exists in the cytosol between Cox17(0S-S) and Cox17(2S-S), which is slightly shifted towards Cox17(0S-S). In the IMS (mitochondrial intermembrane space), the equilibrium is shifted towards Cox17(2S-S), enabling retention of Cox17(2S-S) in the IMS and leading to the formation of a biologically competent form of the Cox17 protein, Cox17(2S-S), capable of copper transfer to the copper chaperone Sco1. XAS (X-ray absorption spectroscopy) determined that Cu4Cox17 contains a Cu4S6-type copper-thiolate cluster, which may provide safe storage of an excess of copper ions.
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Affiliation(s)
- Anastassia Voronova
- *Department of Gene Technology, Tallinn Technical University, Akadeemia tee 15, 12618 Tallinn, Estonia
| | | | - Thomas Meyer
- ‡Institut für Anorganische und Analytische Chemie, Westfälische Wilhelms-Universität Münster, Corrensstrasse 36, 48149 Münster, Germany
| | - Annette Rompel
- ‡Institut für Anorganische und Analytische Chemie, Westfälische Wilhelms-Universität Münster, Corrensstrasse 36, 48149 Münster, Germany
| | - Bernt Krebs
- ‡Institut für Anorganische und Analytische Chemie, Westfälische Wilhelms-Universität Münster, Corrensstrasse 36, 48149 Münster, Germany
| | - Jekaterina Kazantseva
- *Department of Gene Technology, Tallinn Technical University, Akadeemia tee 15, 12618 Tallinn, Estonia
| | - Rannar Sillard
- *Department of Gene Technology, Tallinn Technical University, Akadeemia tee 15, 12618 Tallinn, Estonia
| | - Peep Palumaa
- *Department of Gene Technology, Tallinn Technical University, Akadeemia tee 15, 12618 Tallinn, Estonia
- To whom correspondence should be addressed (email )
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38
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Barthelme D, Scheele U, Dinkelaker S, Janoschka A, Macmillan F, Albers SV, Driessen AJM, Stagni MS, Bill E, Meyer-Klaucke W, Schünemann V, Tampé R. Structural Organization of Essential Iron-Sulfur Clusters in the Evolutionarily Highly Conserved ATP-binding Cassette Protein ABCE1. J Biol Chem 2007; 282:14598-607. [PMID: 17355973 DOI: 10.1074/jbc.m700825200] [Citation(s) in RCA: 91] [Impact Index Per Article: 5.4] [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
The ABC protein ABCE1, formerly named RNase L inhibitor RLI1, is one of the most conserved proteins in evolution and is expressed in all organisms except eubacteria. Because of its fundamental role in translation initiation and/or ribosome biosynthesis, ABCE1 is essential for life. Its molecular mechanism has, however, not been elucidated. In addition to two ABC ATPase domains, ABCE1 contains a unique N-terminal region with eight conserved cysteines, predicted to coordinate iron-sulfur clusters. Here we present detailed information on the type and on the structural organization of the Fe-S clusters in ABCE1. Based on biophysical, biochemical, and yeast genetic analyses, ABCE1 harbors two essential diamagnetic [4Fe-4S](2+) clusters with different electronic environments, one ferredoxin-like (CPX(n)CX(2)CX(2)C; Cys at positions 4-7) and one unique ABCE1-type cluster (CXPX(2)CX(3)CX(n)CP; Cys at positions 1, 2, 3, and 8). Strikingly, only seven of the eight conserved cysteines coordinating the Fe-S clusters are essential for cell viability. Mutagenesis of the cysteine at position 6 yielded a functional ABCE1 with the ferredoxin-like Fe-S cluster in a paramagnetic [3Fe-4S](+) state. Notably, a lethal mutation of the cysteine at position 4 can be rescued by ligand swapping with an adjacent, extra cysteine conserved among all eukaryotes.
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Affiliation(s)
- Dominik Barthelme
- Institute of Biochemistry, Biocenter, Johann Wolfgang Goethe University, Max-von-Laue-Strasse 9, D-60439 Frankfurt am Main, Germany
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39
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Lucarelli D, Russo S, Garman E, Milano A, Meyer-Klaucke W, Pohl E. Crystal Structure and Function of the Zinc Uptake Regulator FurB from Mycobacterium tuberculosis. J Biol Chem 2007; 282:9914-9922. [PMID: 17213192 DOI: 10.1074/jbc.m609974200] [Citation(s) in RCA: 100] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Abstract
Members of the ferric/zinc uptake regulator (Fur/Zur) family are the central metal-dependent regulator proteins in many Gram-negative and -positive bacteria. They are responsible for the control of a wide variety of basic physiological processes and the expression of important virulence factors in human pathogens. Therefore, Fur has gathered significant interest as a potential target for novel antibiotics. Here we report the crystal structure of FurB from Mycobacterium tuberculosis at a resolution of 2.7A, and we present biochemical and spectroscopic data that allow us to propose the functional role of this protein. Although the overall fold of FurB with an N-terminal DNA binding domain and a C-terminal dimerization domain is conserved among the Zur/Fur family, large differences in the spatial arrangement of the two domains with respect to each other can be observed. The biochemical and spectroscopic analysis presented here reveals that M. tuberculosis FurB is Zn(II)-dependent and is likely to control genes involved in the bacterial zinc uptake. The combination of the structural, spectroscopic, and biochemical results enables us to determine the structural basis for functional differences in this important family of bacterial regulators.
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Affiliation(s)
- Debora Lucarelli
- European Molecular Biology Laboratory, Hamburg Outstation, Notkestrasse 85, D-22603 Hamburg, Germany
| | - Santina Russo
- Swiss Light Source, Paul Scherrer Institut, CH-5232 Villigen, Switzerland
| | - Elspeth Garman
- Laboratory of Molecular Biophysics, Department of Biochemistry, University of Oxford, Oxford OX1 3QU, United Kingdom
| | - Anna Milano
- Department of Genetics and Microbiology, University of Pavia, 27100 Pavia, Italy
| | - Wolfram Meyer-Klaucke
- European Molecular Biology Laboratory, Hamburg Outstation, Notkestrasse 85, D-22603 Hamburg, Germany.
| | - Ehmke Pohl
- Swiss Light Source, Paul Scherrer Institut, CH-5232 Villigen, Switzerland.
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40
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Wirth C, Meyer-Klaucke W, Pattus F, Cobessi D. From the periplasmic signaling domain to the extracellular face of an outer membrane signal transducer of Pseudomonas aeruginosa: crystal structure of the ferric pyoverdine outer membrane receptor. J Mol Biol 2007; 368:398-406. [PMID: 17349657 DOI: 10.1016/j.jmb.2007.02.023] [Citation(s) in RCA: 49] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2006] [Revised: 01/24/2007] [Accepted: 02/06/2007] [Indexed: 11/20/2022]
Abstract
The pyoverdine outer membrane receptor, FpvA, from Pseudomonas aeruginosa translocates ferric pyoverdine across the outer membrane through an energy consuming mechanism using the proton motive force and the TonB-ExbB-ExbD energy transducing complex from the inner membrane. We solved the crystal structure of the full-length FpvA bound to iron-pyoverdine at 2.7 A resolution. Signal transduction to an anti-sigma protein of the inner membrane and to TonB-ExbB-ExbD involves the periplasmic domain, which displays a beta-alpha-beta fold composed of two alpha-helices sandwiched by two beta-sheets. One iron-pyoverdine conformer is bound at the extracellular face of FpvA, revealing the conformer selectivity of the binding site. The loop that contains the TonB box, involved in interactions with TonB, and connects the signaling domain to the plug domain of FpvA is not defined in the electron density following the binding of ferric pyoverdine. The high flexibility of this loop is probably necessary for signal transduction through the outer membrane.
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Affiliation(s)
- Christophe Wirth
- Institut Gilbert-Laustriat UMR 7175 CNRS/Université-Strasbourg I, Département Récepteurs et Protéines Membranaires, Ecole Supérieure de Biotechnologie de Strasbourg, Boulevard Sébastien Brandt, BP 10413, F-67412 Illkirch, France
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41
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Ha SW, Korbas M, Klepsch M, Meyer-Klaucke W, Meyer O, Svetlitchnyi V. Interaction of potassium cyanide with the [Ni-4Fe-5S] active site cluster of CO dehydrogenase from Carboxydothermus hydrogenoformans. J Biol Chem 2007; 282:10639-46. [PMID: 17277357 DOI: 10.1074/jbc.m610641200] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.4] [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
The Ni-Fe carbon monoxide (CO) dehydrogenase II (CODHII(Ch)) from the anaerobic CO-utilizing hydrogenogenic bacterium Carboxydothermus hydrogenoformans catalyzes the oxidation of CO, presumably at the Ni-(micro(2)S)-Fe1 subsite of the [Ni-4S-5S] cluster in the active site. The CO oxidation mechanism proposed on the basis of several CODHII(Ch) crystal structures involved the apical binding of CO at the nickel ion and the activation of water at the Fe1 ion of the cluster. To understand how CO interacts with the active site, we have studied the reactivity of the cluster with potassium cyanide and analyzed the resulting type of nickel coordination by x-ray absorption spectroscopy. Cyanide acts as a competitive inhibitor of reduced CODHII(Ch) with respect to the substrate CO and is therefore expected to mimic the substrate. It inhibits the enzyme reversibly, forming a nickel cyanide. In this reaction, one of the four square-planar sulfur ligands of nickel is replaced by the carbon atom of cyanide, suggesting removal of the micro(2)S from the Ni-(micro(2)S)-Fe1 subsite. Upon reactivation of the inhibited enzyme, cyanide is released, and the square-planar coordination of nickel by 4S ligands is recovered, which includes the reformation of the Ni-(micro(2)S)-Fe1 bridge. The results are summarized in a model of the CO oxidation mechanism at the [Ni-4Fe-5S] active site cluster of CODHII(Ch) from C. hydrogenoformans.
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Affiliation(s)
- Seung-Wook Ha
- Lehrstuhl für Mikrobiologie and Bayreuther Zentrum für Molekulare Biowissenschaften, Universität Bayreuth, Universitätsstrasse 30, D-95440 Bayreuth, Germany
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42
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del Pino P, Weiss A, Bertsch U, Renner C, Mentler M, Grantner K, Fiorino F, Meyer-Klaucke W, Moroder L, Kretzschmar HA, Parak FG. The configuration of the Cu2+ binding region in full-length human prion protein. Eur Biophys J 2007; 36:239-52. [PMID: 17225136 DOI: 10.1007/s00249-006-0124-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/20/2006] [Revised: 12/11/2006] [Accepted: 12/18/2006] [Indexed: 11/28/2022]
Abstract
The cellular prion protein (PrP(C)) is a Cu(2+) binding protein connected to the outer cell membrane. The molecular features of the Cu(2+) binding sites have been investigated and characterized by spectroscopic experiments on PrP(C)-derived peptides and the recombinant human full-length PrP(C )(hPrP-[23-231]). The hPrP-[23-231] was loaded with (63)Cu under slightly acidic (pH 6.0) or neutral conditions. The PrP(C)/Cu(2+)-complexes were investigated by extended X-ray absorption fine structure (EXAFS), electron paramagnetic resonance (EPR), and electron nuclear double resonance (ENDOR). For comparison, peptides from the copper-binding octarepeat domain were investigated in different environments. Molecular mechanics computations were used to select sterically possible peptide/Cu(2+) structures. The simulated EPR, ENDOR, and EXAFS spectra of these structures were compared with our experimental data. For a stoichiometry of two octarepeats per copper the resulting model has a square planar four nitrogen Cu(2+) coordination. Two nitrogens belong to imidazole rings of histidine residues. Further ligands are two deprotonated backbone amide nitrogens of the adjacent glycine residues and an axial oxygen of a water molecule. Our complex model differs significantly from those previously obtained for shorter peptides. Sequence context, buffer conditions and stoichiometry of copper show marked influence on the configuration of copper binding to PrP(C).
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Affiliation(s)
- Pablo del Pino
- Physics Department E17, Technical University Munich, 85747 Garching, Germany
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43
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Wellenreuther G, Meyer-Klaucke W. Towards a Black-Box for Biological EXAFS Data Analysis — I. Identification of Zinc Finger Proteins. ACTA ACUST UNITED AC 2007. [DOI: 10.1063/1.2644513] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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44
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Kauko A, Pulliainen AT, Haataja S, Meyer-Klaucke W, Finne J, Papageorgiou AC. Iron incorporation in Streptococcus suis Dps-like peroxide resistance protein Dpr requires mobility in the ferroxidase center and leads to the formation of a ferrihydrite-like core. J Mol Biol 2006; 364:97-109. [PMID: 16997323 DOI: 10.1016/j.jmb.2006.08.061] [Citation(s) in RCA: 26] [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] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2006] [Revised: 08/21/2006] [Accepted: 08/23/2006] [Indexed: 12/15/2022]
Abstract
The Dps-like peroxide resistance protein (Dpr) is a dodecameric protein that protects the human and swine pathogen Streptococcus suis from hydrogen peroxide by removing free Fe2+ from the cytosol. Subsequent oxidation of iron by Dpr results in the deposition of Fe3+ inside the protein's central cavity. Structural changes that occur in the ferroxidase center were studied by X-ray crystallography after soaking Dpr crystals with Fe2+ in the presence of sodium dithionite. Twelve iron-binding sites were identified with each site formed by residues Asp74 and Glu78 from one subunit, and Asp63, His47 and His59 from a 2-fold symmetry-related subunit. Compared to the iron-free Dpr, Asp74 and Glu78 were found to be the most flexible amino acid residues and able to adopt a variety of conformations in different subunits. The crystal structure of an Asp74Ala Dpr mutant soaked with a Fe2+ -solution revealed variations in the Asp63 position and no iron bound to the ferroxidase center. These results indicate an intrinsic flexibility in the active site that may be important for the catalytic reaction and subsequent nucleation events. Two iron cores with remarkably different features were identified in Dpr using X-ray absorption spectroscopy. Purified Dpr was found to have a small-size iron core with only approximately 16 iron atoms/dodecamer forming a ferritin-like ferrihydrite structure. Because of its size, this core represents the smallest iron core identified so far in ferritins and other Dps-like proteins. A large-size core (approximately 180 iron atoms/dodecamer) formed after incubating the protein with a ferrous solution shows differences in iron coordination compared to the small size core. Characterization of the two iron cores in Dpr could provide insights into nucleation events and the mechanism of iron core growth in the Dps family of proteins.
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Affiliation(s)
- Anni Kauko
- Turku Centre for Biotechnology, University of Turku and Abo Akademi University, BioCity, Turku, Finland
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45
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Korbas M, Vogt S, Meyer-Klaucke W, Bill E, Lyon EJ, Thauer RK, Shima S. The iron-sulfur cluster-free hydrogenase (Hmd) is a metalloenzyme with a novel iron binding motif. J Biol Chem 2006; 281:30804-13. [PMID: 16887798 DOI: 10.1074/jbc.m605306200] [Citation(s) in RCA: 107] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The iron-sulfur cluster-free hydrogenase (Hmd) from methanogenic archaea harbors an iron-containing cofactor of yet unknown structure. X-ray absorption spectroscopy of the active, as isolated enzyme from Methanothermobacter marburgensis (mHmd) and of the active, reconstituted enzyme from Methanocaldococcus jannaschii (jHmd) revealed the presence of mononuclear iron with two CO, one sulfur and one or two N/O in coordination distance. In jHmd, the single sulfur ligand is most probably provided by Cys176, as deduced from a comparison of the activity and of the x-ray absorption and Mössbauer spectra of the enzyme mutated in any of the three conserved cysteines. In the isolated Hmd cofactor, two CO, one sulfur, and two nitrogen/oxygen atoms coordinate the iron, the sulfur ligand being most probably provided by mercaptoethanol, which is absolutely required for the extraction of the iron-containing cofactor from the holoenzyme and for the stabilization of the extracted cofactor. In active mHmd holoenzyme, the number of iron ligands increased by one when one of the Hmd inhibitors (CO or KCN) were present, indicating that in active Hmd, the iron contains an open coordination site, which is proposed to be the site of H2 interaction.
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Affiliation(s)
- Malgorzata Korbas
- European Molecular Biology Laboratory (EMBL), Outstation Hamburg at Deutsches Electronen Synchroton (DESY), Notkestrasse 85, D-22603 Hamburg, Germany
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46
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Boyault C, Gilquin B, Zhang Y, Rybin V, Garman E, Meyer-Klaucke W, Matthias P, Müller CW, Khochbin S. HDAC6-p97/VCP controlled polyubiquitin chain turnover. EMBO J 2006; 25:3357-66. [PMID: 16810319 PMCID: PMC1523186 DOI: 10.1038/sj.emboj.7601210] [Citation(s) in RCA: 212] [Impact Index Per Article: 11.8] [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: 12/08/2005] [Accepted: 05/31/2006] [Indexed: 11/08/2022] Open
Abstract
HDAC6 is a unique cytoplasmic deacetylase capable of interacting with ubiquitin. Using a combination of biophysical, biochemical and biological approaches, we have characterized the ubiquitin-binding domain of HDAC6, named ZnF-UBP, and investigated its biological functions. These studies show that the three Zn ion-containing HDAC6 ZnF-UBP domain presents the highest known affinity for ubiquitin monomers and mediates the ability of HDAC6 to negatively control the cellular polyubiquitin chain turnover. We further show that HDAC6-interacting chaperone, p97/VCP, dissociates the HDAC6-ubiquitin complexes and counteracts the ability of HDAC6 to promote the accumulation of polyubiquitinated proteins. We propose that a finely tuned balance of HDAC6 and p97/VCP concentrations determines the fate of ubiquitinated misfolded proteins: p97/VCP would promote protein degradation and ubiquitin turnover, whereas HDAC6 would favour the accumulation of ubiquitinated protein aggregates and inclusion body formation.
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Affiliation(s)
- Cyril Boyault
- INSERM U309, Laboratoire de Biologie Moléculaire et Cellulaire de la Différenciation, Equipe chromatine et expression des gènes, Institut Albert Bonniot, Faculté de Médecine, Domaine de la Merci, La Tronche, France
| | - Benoit Gilquin
- INSERM U309, Laboratoire de Biologie Moléculaire et Cellulaire de la Différenciation, Equipe chromatine et expression des gènes, Institut Albert Bonniot, Faculté de Médecine, Domaine de la Merci, La Tronche, France
| | - Yu Zhang
- Friedrich Miescher Institute for Biomedical Research, Novartis Research Foundation, Basel, Switzerland
| | - Vladimir Rybin
- European Molecular Biology Laboratory, Heidelberg, Germany
| | - Elspeth Garman
- Laboratory of Molecular Biophysics, Department of Biochemistry, Oxford University, Oxford, UK
| | | | - Patrick Matthias
- Friedrich Miescher Institute for Biomedical Research, Novartis Research Foundation, Basel, Switzerland
| | | | - Saadi Khochbin
- INSERM U309, Laboratoire de Biologie Moléculaire et Cellulaire de la Différenciation, Equipe chromatine et expression des gènes, Institut Albert Bonniot, Faculté de Médecine, Domaine de la Merci, La Tronche, France
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Magnuson A, Liebisch P, Högblom J, Anderlund MF, Lomoth R, Meyer-Klaucke W, Haumann M, Dau H. Bridging-type changes facilitate successive oxidation steps at about 1V in two binuclear manganese complexes—implications for photosynthetic water-oxidation. J Inorg Biochem 2006; 100:1234-43. [PMID: 16584782 DOI: 10.1016/j.jinorgbio.2006.02.001] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2005] [Revised: 01/31/2006] [Accepted: 02/03/2006] [Indexed: 11/20/2022]
Abstract
The redox behavior of two synthetic manganese complexes illustrates a mechanistic aspect of importance for light-driven water oxidation in Photosystem II (PSII) and design of biomimetic systems (artificial photosynthesis). The coupling between changes in oxidation state and structural changes was investigated for two binuclear manganese complexes (1 and 2), which differ in the set of first sphere ligands to Mn (N(3)O(3) in 1, N(2)O(4) in 2). Both complexes were studied by electron paramagnetic resonance (EPR) and X-ray absorption spectroscopy (XAS) in three oxidation states which had been previously prepared either electro- or photochemically. The following bridging-type changes are suggested. In 1: Mn(II)-(mu-OR)(mu-OCO)(2)-Mn(II)<-->Mn(II)-(mu-OR)(mu-OCO)(2)-Mn(III)-->Mn(III)-(mu-OR)(mu-OCO)(mu-O)-Mn(III). In 2: Mn(II)-(mu-OR)(mu-OCO)(2)-Mn(III)<-->Mn(III)-(mu-OR)(mu-OCO)(2)-Mn(III)-->Mn(III)-(mu-OR)(mu-OCO)(mu-O)-Mn(IV). In both complexes, the first one-electron oxidation proceeds without bridging-type change, but involves a redox-potential increase by 0.5-1V. The second one-electron oxidation likely is coupled to mu-oxo-bridge (or mu-OH) formation which seems to counteract a further potential increase. In both complexes, mu-O(H) bridge formation is associated with a redox transition proceeding at approximately 1V, but the mu-O(H) bridge is observed at the Mn(2)(III,III) level in 1 and at the Mn(III,IV) level in 2, demonstrating modulation of the redox behavior by the terminal ligands. It is proposed that also in PSII bridging-type changes facilitate successive oxidation steps at approximately the same potential.
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Affiliation(s)
- A Magnuson
- Molecular Biomimetics, Uppsala University, Villavagen 6, S-752 36 Uppsala, Sweden
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Ohlenschläger O, Seiboth T, Zengerling H, Briese L, Marchanka A, Ramachandran R, Baum M, Korbas M, Meyer-Klaucke W, Dürst M, Görlach M. Solution structure of the partially folded high-risk human papilloma virus 45 oncoprotein E7. Oncogene 2006; 25:5953-9. [PMID: 16636661 DOI: 10.1038/sj.onc.1209584] [Citation(s) in RCA: 86] [Impact Index Per Article: 4.8] [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: 11/08/2022]
Abstract
The oncoprotein E7 of human papilloma viruses (HPV) is involved in the pathogenesis and maintenance of human cervical cancers. The most prevalent HPV types found in cervix carcinomas are HPV16, 18 and 45. The structure of the E7 dimer from HPV45 (PDB 2F8B) was determined by nuclear magnetic resonance spectroscopy. Each monomer comprises an unfolded N-terminus and a well-structured C-terminal domain with a beta1beta2alpha1beta3alpha2 topology representing a unique zinc-binding fold found only for E7. Dimerization occurs through the alpha1/alpha1' helices and intermolecular beta-sheet formation but excludes the zinc-binding sites. E7 is reported to interact with a number of cellular proteins (e.g. pRb, p21(CIP1)). Binding of a peptide derived from the C-terminus of p21(CIP1) to the C-terminal domain of E7 was characterized by monitoring chemical shift perturbations of the amide groups of E7. This provides direct evidence that a shallow groove situated between alpha1 and beta1 of the E7 C-terminal domain is interacting with the C-terminus of p21(CIP1). Intriguingly, this binding site overlaps with the low-affinity binding site on E7 for the C-domain of pRb.
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49
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Kostelecky B, Pohl E, Vogel A, Schilling O, Meyer-Klaucke W. The crystal structure of the zinc phosphodiesterase from Escherichia coli provides insight into function and cooperativity of tRNase Z-family proteins. J Bacteriol 2006; 188:1607-14. [PMID: 16452444 PMCID: PMC1367222 DOI: 10.1128/jb.188.4.1607-1614.2006] [Citation(s) in RCA: 53] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The elaC gene product from Escherichia coli, ZiPD, is a 3' tRNA-processing endonuclease belonging to the tRNase Z family of enzymes that have been identified in a wide variety of organisms. In contrast to the elaC homologue from Bacillus subtilis, E. coli elaC is not essential for viability, and although both enzymes process only precursor tRNA (pre-tRNA) lacking a CCA triplet at the 3' end in vitro, the physiological role of ZiPD remains enigmatic because all pre-tRNA species in E. coli are transcribed with the CCA triplet. We present the first crystal structure of ZiPD determined by multiple anomalous diffraction at a resolution of 2.9 A. This structure shares many features with the tRNase Z enzymes from B. subtilis and Thermotoga maritima, but there are distinct differences in metal binding and overall domain organization. Unlike the previously described homologous structures, ZiPD dimers display crystallographic symmetry and fully loaded metal sites. The ZiPD exosite is similar to that of the B. subtilis enzyme structurally, but its position with respect to the protein core differs substantially, illustrating its ability to act as a clamp in binding tRNA. Furthermore, the ZiPD crystal structure presented here provides insight into the enzyme's cooperativity and assists the ongoing attempt to elucidate the physiological function of this protein.
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Affiliation(s)
- Brenda Kostelecky
- EMBL Hamburg Outstation c/o DESY, Notkestrasse 85, D-22603 Hamburg, Germany
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50
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Stellato F, Menestrina G, Serra MD, Potrich C, Tomazzolli R, Meyer-Klaucke W, Morante S. Metal binding in amyloid β-peptides shows intra- and inter-peptide coordination modes. Eur Biophys J 2006; 35:340-51. [PMID: 16404590 DOI: 10.1007/s00249-005-0041-7] [Citation(s) in RCA: 87] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/23/2005] [Revised: 11/28/2005] [Accepted: 12/19/2005] [Indexed: 10/25/2022]
Abstract
X-ray absorption spectroscopy data show different metal binding site structures in beta-amyloid peptides according to whether they are complexed with Cu(2+) or Zn(2+) ions. While the geometry around copper is stably consistent with an intra-peptide binding with three metal-coordinated Histidine residues, the zinc coordination mode depends on specific solution conditions. In particular, different sample preparations are seen to lead to different geometries around the absorber that are compatible with either an intra- or an inter-peptide coordination mode. This result reinforces the hypothesis that assigns different physiological roles to the two metals, with zinc favoring peptide aggregation and, as a consequence, plaque formation.
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Affiliation(s)
- Francesco Stellato
- Dipartimento di Fisica, Università di Roma "Tor Vergata" INFM and INFN, Via della Ricerca Scientifica 1, 00133 Roma, Italy
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