1
|
Greene BL, Wu CH, Vansuch GE, Adams MWW, Dyer RB. Proton Inventory and Dynamics in the Nia-S to Nia-C Transition of a [NiFe] Hydrogenase. Biochemistry 2016; 55:1813-25. [DOI: 10.1021/acs.biochem.5b01348] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Brandon L. Greene
- Chemistry
Department, Emory University, Atlanta, Georgia 30322, United States
| | - Chang-Hao Wu
- Department
of Biochemistry, University of Georgia, Athens, Georgia 30602, United States
| | - Gregory E. Vansuch
- Chemistry
Department, Emory University, Atlanta, Georgia 30322, United States
| | - Michael W. W. Adams
- Department
of Biochemistry, University of Georgia, Athens, Georgia 30602, United States
| | - R. Brian Dyer
- Chemistry
Department, Emory University, Atlanta, Georgia 30322, United States
| |
Collapse
|
2
|
Affiliation(s)
- Wolfgang Lubitz
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Hideaki Ogata
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Olaf Rüdiger
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| | - Edward Reijerse
- Max Planck Institute for Chemical Energy Conversion, Stiftstr. 34-36, 45470 Mülheim an der Ruhr, Germany
| |
Collapse
|
3
|
Krämer T, Kampa M, Lubitz W, van Gastel M, Neese F. Theoretical Spectroscopy of the NiIIIntermediate States in the Catalytic Cycle and the Activation of [NiFe] Hydrogenases. Chembiochem 2013; 14:1898-905. [DOI: 10.1002/cbic.201300104] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2013] [Indexed: 11/05/2022]
|
4
|
Rivas MG, Mota CS, Pauleta SR, Carepo MSP, Folgosa F, Andrade SLA, Fauque G, Pereira AS, Tavares P, Calvete JJ, Moura I, Moura JJG. Isolation and characterization of a new Cu-Fe protein from Desulfovibrio aminophilus DSM12254. J Inorg Biochem 2009; 103:1314-22. [PMID: 19699535 DOI: 10.1016/j.jinorgbio.2009.04.014] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2008] [Revised: 04/27/2009] [Accepted: 04/28/2009] [Indexed: 11/29/2022]
Abstract
The isolation and characterization of a new metalloprotein containing Cu and Fe atoms is reported. The as-isolated Cu-Fe protein shows an UV-visible spectrum with absorption bands at 320 nm, 409 nm and 615 nm. Molecular mass of the native protein along with denaturating electrophoresis and mass spectrometry data show that this protein is a multimer consisting of 14+/-1 subunits of 15254.3+/-7.6 Da. Mössbauer spectroscopy data of the as-isolated Cu-Fe protein is consistent with the presence of [2Fe-2S](2+) centers. Data interpretation of the dithionite reduced protein suggest that the metallic cluster could be constituted by two ferromagnetically coupled [2Fe-2S](+) spin delocalized pairs. The biochemical properties of the Cu-Fe protein are similar to the recently reported molybdenum resistance associated protein from Desulfovibrio, D. alaskensis. Furthermore, a BLAST search from the DNA deduced amino acid sequence shows that the Cu-Fe protein has homology with proteins annotated as zinc resistance associated proteins from Desulfovibrio, D. alaskensis, D. vulgaris Hildenborough, D. piger ATCC 29098. These facts suggest a possible role of the Cu-Fe protein in metal tolerance.
Collapse
Affiliation(s)
- Maria G Rivas
- REQUIMTE/CQFB, Departamento de Química, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal
| | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
5
|
Maier RJ, Nadler KD. Biochemistry, Regulation, and Genetics of Hydrogen Oxidation in Rhizobium. Crit Rev Biotechnol 2008. [DOI: 10.3109/07388558509150779] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
|
6
|
Lubitz W, Reijerse E, van Gastel M. [NiFe] and [FeFe] Hydrogenases Studied by Advanced Magnetic Resonance Techniques. Chem Rev 2007; 107:4331-65. [PMID: 17845059 DOI: 10.1021/cr050186q] [Citation(s) in RCA: 376] [Impact Index Per Article: 22.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Wolfgang Lubitz
- Max-Planck-Institut für Bioanorganische Chemie, Stiftstrasse 34-36, D-45470 Mülheim an der Ruhr, Germany
| | | | | |
Collapse
|
7
|
Mortenson LE, Seefeldt LC, Morgan TV, Bolin JT. The role of metal clusters and MgATP in nitrogenase catalysis. ADVANCES IN ENZYMOLOGY AND RELATED AREAS OF MOLECULAR BIOLOGY 2006; 67:299-374. [PMID: 8322617 DOI: 10.1002/9780470123133.ch4] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
- L E Mortenson
- Center for Metalloenzyme Studies, University of Georgia, Athens
| | | | | | | |
Collapse
|
8
|
|
9
|
De Lacey AL, Santamaria E, Hatchikian EC, Fernandez VM. Kinetic characterization of Desulfovibrio gigas hydrogenase upon selective chemical modification of amino acid groups as a tool for structure-function relationships. BIOCHIMICA ET BIOPHYSICA ACTA 2000; 1481:371-80. [PMID: 11018729 DOI: 10.1016/s0167-4838(00)00180-1] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The effect of amino acid residues modification of Desulfovibrio gigas hydrogenase on different activity assays is reported. The first method consisted in the modification of glutamic and aspartic acid residues of the enzyme with ethylenediamine in order to change the polarity of certain regions of the protein surface. The second method consisted in the modification of histidine residues with a Ru complex in order to change the acid-base properties of the histidine residues. The implication of these modifications in the enzyme kinetics has been studied by measuring in parallel the activities of para/ortho hydrogen conversion, deuterium/hydrogen exchange and dyes reduction with hydrogen. Our experimental data support some hypothesis based on the three-dimensional structure of this enzyme: (a) electrostactic interactions between the hydrogenase and the redox partner play an essential role in the kinetics; (b) the histidine ligand and the surrounding acidic residues of the distal [4Fe4S] cluster form the recognition site of the redox partner of the hydrogenase; and (c) histidine residues are involved in the hydron transfer pathway of the hydrogenase.
Collapse
Affiliation(s)
- A L De Lacey
- Instituto de Catálisis, C.S.I.C., Campus Universidad Autónoma-Cantoblanco, Madrid, Spain.
| | | | | | | |
Collapse
|
10
|
Huyett JE, Carepo M, Pamplona A, Franco R, Moura I, Moura JJG, Hoffman BM. 57Fe Q-Band Pulsed ENDOR of the Hetero-Dinuclear Site of Nickel Hydrogenase: Comparison of the NiA, NiB, and NiC States. J Am Chem Soc 1997. [DOI: 10.1021/ja9700919] [Citation(s) in RCA: 73] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- J. E. Huyett
- Department of Chemistry, Northwestern University Evanston, Illinois 60208-3113 Departamento de Química and Centro de Química Fina e Biotecnologia, Faculdade de Ciências e Tecnologia Universidade Nova de Lisboa, 2825 Monte de Caparica, Portugal
| | - M. Carepo
- Department of Chemistry, Northwestern University Evanston, Illinois 60208-3113 Departamento de Química and Centro de Química Fina e Biotecnologia, Faculdade de Ciências e Tecnologia Universidade Nova de Lisboa, 2825 Monte de Caparica, Portugal
| | - A. Pamplona
- Department of Chemistry, Northwestern University Evanston, Illinois 60208-3113 Departamento de Química and Centro de Química Fina e Biotecnologia, Faculdade de Ciências e Tecnologia Universidade Nova de Lisboa, 2825 Monte de Caparica, Portugal
| | - R. Franco
- Department of Chemistry, Northwestern University Evanston, Illinois 60208-3113 Departamento de Química and Centro de Química Fina e Biotecnologia, Faculdade de Ciências e Tecnologia Universidade Nova de Lisboa, 2825 Monte de Caparica, Portugal
| | - I. Moura
- Department of Chemistry, Northwestern University Evanston, Illinois 60208-3113 Departamento de Química and Centro de Química Fina e Biotecnologia, Faculdade de Ciências e Tecnologia Universidade Nova de Lisboa, 2825 Monte de Caparica, Portugal
| | - J. J. G. Moura
- Department of Chemistry, Northwestern University Evanston, Illinois 60208-3113 Departamento de Química and Centro de Química Fina e Biotecnologia, Faculdade de Ciências e Tecnologia Universidade Nova de Lisboa, 2825 Monte de Caparica, Portugal
| | - B. M. Hoffman
- Department of Chemistry, Northwestern University Evanston, Illinois 60208-3113 Departamento de Química and Centro de Química Fina e Biotecnologia, Faculdade de Ciências e Tecnologia Universidade Nova de Lisboa, 2825 Monte de Caparica, Portugal
| |
Collapse
|
11
|
de Lacey AL, Hatchikian EC, Volbeda A, Frey M, Fontecilla-Camps JC, Fernandez VM. Infrared-Spectroelectrochemical Characterization of the [NiFe] Hydrogenase of Desulfovibrio gigas. J Am Chem Soc 1997. [DOI: 10.1021/ja963802w] [Citation(s) in RCA: 219] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Antonio L. de Lacey
- Contribution from the Instituto de Catálisis, CSIC, Campus Universidad Autónoma, 28049 Madrid, Spain, Unité de Bioénergétique et Ingéniére des Protéines, CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille CDX20 France, and Laboratoire de Cristallographie et Cristallogenèse des Protéines, Institut de Biologie Structurale-Jean-Pierre-Ebel CEA-CNRS, 41 Avenue des Martyrs 38027 Grenoble CDX1, France
| | - E. Claude Hatchikian
- Contribution from the Instituto de Catálisis, CSIC, Campus Universidad Autónoma, 28049 Madrid, Spain, Unité de Bioénergétique et Ingéniére des Protéines, CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille CDX20 France, and Laboratoire de Cristallographie et Cristallogenèse des Protéines, Institut de Biologie Structurale-Jean-Pierre-Ebel CEA-CNRS, 41 Avenue des Martyrs 38027 Grenoble CDX1, France
| | - Anne Volbeda
- Contribution from the Instituto de Catálisis, CSIC, Campus Universidad Autónoma, 28049 Madrid, Spain, Unité de Bioénergétique et Ingéniére des Protéines, CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille CDX20 France, and Laboratoire de Cristallographie et Cristallogenèse des Protéines, Institut de Biologie Structurale-Jean-Pierre-Ebel CEA-CNRS, 41 Avenue des Martyrs 38027 Grenoble CDX1, France
| | - Michel Frey
- Contribution from the Instituto de Catálisis, CSIC, Campus Universidad Autónoma, 28049 Madrid, Spain, Unité de Bioénergétique et Ingéniére des Protéines, CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille CDX20 France, and Laboratoire de Cristallographie et Cristallogenèse des Protéines, Institut de Biologie Structurale-Jean-Pierre-Ebel CEA-CNRS, 41 Avenue des Martyrs 38027 Grenoble CDX1, France
| | - Juan Carlos Fontecilla-Camps
- Contribution from the Instituto de Catálisis, CSIC, Campus Universidad Autónoma, 28049 Madrid, Spain, Unité de Bioénergétique et Ingéniére des Protéines, CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille CDX20 France, and Laboratoire de Cristallographie et Cristallogenèse des Protéines, Institut de Biologie Structurale-Jean-Pierre-Ebel CEA-CNRS, 41 Avenue des Martyrs 38027 Grenoble CDX1, France
| | - Victor M. Fernandez
- Contribution from the Instituto de Catálisis, CSIC, Campus Universidad Autónoma, 28049 Madrid, Spain, Unité de Bioénergétique et Ingéniére des Protéines, CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille CDX20 France, and Laboratoire de Cristallographie et Cristallogenèse des Protéines, Institut de Biologie Structurale-Jean-Pierre-Ebel CEA-CNRS, 41 Avenue des Martyrs 38027 Grenoble CDX1, France
| |
Collapse
|
12
|
Halcrow MA. Die Struktur der [NiFe]-Hydrogenase ausD. gigas und die Art ihres Nickelkomplexes. Angew Chem Int Ed Engl 1995. [DOI: 10.1002/ange.19951071107] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
|
13
|
Franco R, Moura I, LeGall J, Peck HD, Huynh BH, Moura JJ. Characterization of D. desulfuricans (ATCC 27774) [NiFe] hydrogenase EPR and redox properties of the native and the dihydrogen reacted states. BIOCHIMICA ET BIOPHYSICA ACTA 1993; 1144:302-8. [PMID: 8399280 DOI: 10.1016/0005-2728(93)90115-v] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
Redox intermediates of D. desulfuricans ATCC 27774 [NiFe] hydrogenase were generated under dihydrogen. Detailed redox titrations, coupled to EPR measurements, give access to the mid-point redox potentials of the iron-sulfur centers and of the Nickel-B signal that represents the ready form of the enzyme. The interaction between the dihydrogen molecule and the nickel centre was probed by the observation of an isotopic effect on the EPR signals detected in turnover conditions, by comparison of the H2O/H2 and D2O/D2-reacted samples.
Collapse
Affiliation(s)
- R Franco
- Departamento de Química, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Monte de Caparica, Portugal
| | | | | | | | | | | |
Collapse
|
14
|
Handerson RA, Oglieve KE. Mechanism of the acid-catalysed substitution of [Fe4S4(SR)4]n–(R = Ph, n= 2 or 3; R = Et or But, n= 2), and transient binding of small molecules at [Fe4S4(SEt)4]2–. ACTA ACUST UNITED AC 1993. [DOI: 10.1039/dt9930001467] [Citation(s) in RCA: 23] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
15
|
Asso M, Guigliarelli B, Yagi T, Bertrand P. EPR and redox properties of Desulfovibrio vulgaris Miyazaki hydrogenase: comparison with the Ni-Fe enzyme from Desulfovibrio gigas. BIOCHIMICA ET BIOPHYSICA ACTA 1992; 1122:50-6. [PMID: 1321673 DOI: 10.1016/0167-4838(92)90126-x] [Citation(s) in RCA: 44] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
We have carried out a detailed redox titration monitored by EPR on the hydrogenase from Desulfovibrio vulgaris Miyazaki. Typical 3Fe and nickel signals have been observed, which are very similar to those given by Desulfovibrio gigas hydrogenase in all the characteristic redox states of the enzyme. This confirms that D. vulgaris Miyazaki hydrogenase is a Ni-Fe enzyme closely related to that from D. gigas, as was recently proposed on the basis of sequence comparisons (Deckers, H.M., Wilson, F.R. and Voordouw, G. (1990) J. Gen. Microb. 136, 2021-2028).
Collapse
Affiliation(s)
- M Asso
- Laboratoire d'Electronique des Milieux Condensés-URA CNRS 784, Université de Provence, Centre St Jérôme, Marseille, France
| | | | | | | |
Collapse
|
16
|
Abstract
Hydrogenases devoid of nickel and containing only Fe-S clusters have been found so far only in some strictly anaerobic bacteria. Four Fe-hydrogenases have been characterized: from Megasphaera elsdenii, Desulfovibrio vulgaris (strain Hildenborough), and two from Clostridium pasteurianum. All contain two or more [4Fe-4S]1+,2+ or F clusters and a unique type of Fe-S center termed the H cluster. The H cluster appears to be remarkably similar in all the hydrogenases, and is proposed as the site of H2 oxidation and H2 production. The F clusters serve to transfer electrons between the H cluster and the external electron carrier. In all of the hydrogenases the H cluster is comprised of at least three Fe atoms, and possibly six. In the oxidized state it contains two types of magnetically distinct Fe atoms, has an S = 1/2 spin state, and exhibits a novel rhombic EPR signal. The reduced cluster is diamagnetic (S = 0). The oxidized H cluster appears to undergo a conformation change upon reduction with H2 with an increase in Fe-Fe distances of about 0.5 A. Studies using resonance Raman, magnetic circular dichroism and electron spin echo spectroscopies suggest that the H cluster has significant non-sulfur coordination. The H cluster has two binding sites for CO, at least one of which can also bind O2. Binding to one site changes the EPR properties of the cluster and gives a photosensitive adduct, but does not affect catalytic activity. Binding to the other site, which only becomes exposed during the catalytic cycle, leads to loss of catalytic activity. Mechanisms of H2 activation and electron transfer are proposed to explain the effects of CO binding and the ability of one of the hydrogenases to preferentially catalyze H2 oxidation.
Collapse
Affiliation(s)
- M W Adams
- Department of Biochemistry, University of Georgia, Athens 30602
| |
Collapse
|
17
|
Rohde M, Fürstenau U, Mayer F, Przybyla AE, Peck HD, Le Gall J, Choi ES, Menon NK. Localization of membrane-associated (NiFe) and (NiFeSe) hydrogenases of Desulfovibrio vulgaris using immunoelectron microscopic procedures. EUROPEAN JOURNAL OF BIOCHEMISTRY 1990; 191:389-96. [PMID: 1696542 DOI: 10.1111/j.1432-1033.1990.tb19134.x] [Citation(s) in RCA: 28] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
The intracellular location of membrane-associated (NiFe) and (NiFeSe) hydrogenases of Desulfovibrio vulgaris was determined using pre-embedding and post-embedding immunoelectron microscopic procedures. Polyclonal antisera directed against the purified (NiFe) and (NiFeSe) hydrogenases were raised in rabbits. One-day-old cultures of D. vulgaris, grown on a lactate/sulfate medium, were used for all experiments in these studies. For post-embedding labeling studies cells were fixed with 0.2% glutaraldehyde and 0.3% formaldehyde, dehydrated with methanol, and embedded in the low-temperature resin Lowicryl K4M. Our post-embedding studies using antibody-gold or protein-A-gold as electron-dense markers revealed the location of the two hydrogenases exclusively at the cell periphery; the precise membrane location was then demonstrated by pre-embedding labeling. Spheroplasts were incubated with the polyclonal antisera against (NiFe) and (NiFeSe) hydrogenase followed by ferritin-linked secondary antibodies prior to embedding and sectioning. The observed labeling pattern unequivocally revealed that the antigenic reactive sites of the (NiFe) hydrogenase are located in the near vicinity of the cytoplasmic membrane facing into the periplasmic space, whereas the (NiFeSe) hydrogenase is associated with the cytoplasmic side of the cytoplasmic membrane.
Collapse
Affiliation(s)
- M Rohde
- Gesellschaft für Biotechnologische Forschung, Bereich Mikrobiologie, Braunschweig, Federal Republic of Germany
| | | | | | | | | | | | | | | |
Collapse
|
18
|
Hatchikian CE, Traore AS, Fernandez VM, Cammack R. Characterization of the nickel-iron periplasmic hydrogenase from Desulfovibrio fructosovorans. EUROPEAN JOURNAL OF BIOCHEMISTRY 1990; 187:635-43. [PMID: 2154378 DOI: 10.1111/j.1432-1033.1990.tb15347.x] [Citation(s) in RCA: 49] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
The periplasmic hydrogenase from Desulfovibrio fructosovorans grown on fructose/sulfate medium was purified to homogeneity. It exhibits a molecular mass of 88 kDa and is composed of two different subunits of 60 kDa and 28.5 kDa. The absorption spectrum of the enzyme is characteristic of an iron-sulfur protein and its absorption coefficients at 400 and 280 nm are 50 and 180 mM-1 cm-1, respectively. D. fructosovorans hydrogenase contains 11 +/- 1 iron atoms, 0.9 +/- 0.15 nickel atom and 12 +/- 1 acid-labile sulfur atoms/molecule but does not contain selenium. The amino acid composition of the protein and of its subunits, as well as the N-terminal sequences of the small and large subunits, have been determined. The cysteine residues of the protein are distributed between the large (9 residues) and the small subunits (11 residues). Electron spin resonance (ESR) properties of the enzyme are consistent with the presence of nickel(III), [3Fe-4S] and [4Fe-4S] clusters. The hydrogenase of D. fructosovorans isolated under aerobic conditions required an incubation with hydrogen or other reductants in order to express its full catalytic activity. H2 uptake and H2 evolution activities doubled after a 3-h incubation under reducing conditions. Comparison with the (NiFe) hydrogenase from D. gigas shows great structural similarities between the two proteins. However, there are significant differences between the catalytic properties of the two enzymes which can be related to the respective state of their nickel atom. ESR showed a higher proportion of the Ni-B species (g = 2.33, 2.16, 2.01) which can be related to a more facile conversion to the ready state. The periplasmic location of the enzyme and the presence of hydrogenase activity in other cellular compartments are discussed in relation to the ability of D. fructosovorans to participate actively in interspecies hydrogen transfer.
Collapse
Affiliation(s)
- C E Hatchikian
- Laboratoire de Chimie Bactérienne, Centre National de la Recherche Scientifique, Marseille, France
| | | | | | | |
Collapse
|
19
|
Ewart GD, Reed KC, Smith GD. Soluble hydrogenase of Anabaena cylindrica. Cloning and sequencing of a potential gene encoding the tritium exchange subunit. EUROPEAN JOURNAL OF BIOCHEMISTRY 1990; 187:215-23. [PMID: 2129525 DOI: 10.1111/j.1432-1033.1990.tb15297.x] [Citation(s) in RCA: 26] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
A gene potentially encoding a subunit of the soluble hydrogenase of Anabaena cylindrica was isolated from a genomic library by screening with a set of redundant oligonucleotides, the sequence of which was deduced from the amino acid sequence of the purified hydrogenase subunit that catalyses tritium exchange. The nucleotide sequence of the potential gene was determined from two overlapping DNA fragments spanning 7237 bp of the A. cylindrica genome. The region sequenced contained an open reading frame encoding a protein of 383 amino acids with a predicted molecular mass of 41,108 Da. The NH2-terminal amino acid sequence of the purified enzyme, determined by Edman degradation, corresponds exactly with that deduced from the nucleic acid sequence. No significant amino acid or nucleotide similarity is evident between this gene and the periplasmic hydrogenases from three species of Desulfovibrio (D. vulgaris, D. baculatus and D. gigas), or with the membrane-bound 'uptake' hydrogenases of Bradyrhizobium japonicum and Rhodobacter capsulatus. This suggests that the soluble enzyme from cyanobacteria represents a discrete class of hydrogenase. The gene encoding the second subunit (m = 50 kDa) of the soluble hydrogenase, which is required for the catalysis of hydrogen production from dithionite-reduced methyl viologen [Ewart, G. D. & Smith, G. D. (1989) Arch. Biochem. Biophys. 268, 327-337], apparently comprises a separate transcription unit since it appears not to be located adjacent to that for the 42-kDa subunit.
Collapse
Affiliation(s)
- G D Ewart
- Department of Biochemistry, Faculty of Science, Australian National University, Canberra
| | | | | |
Collapse
|
20
|
Coremans J, Van der Zwaan J, Albracht S. Redox behaviour of nickel in hydrogenase from Methanobacterium thermoautotrophicum (strain Marburg). Correlation between the nickel valence state and enzyme activity. ACTA ACUST UNITED AC 1989. [DOI: 10.1016/0167-4838(89)90196-9] [Citation(s) in RCA: 40] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
|
21
|
He SH, Teixeira M, LeGall J, Patil DS, Moura I, Moura JJ, DerVartanian DV, Huynh BH, Peck HD. EPR studies with 77Se-enriched (NiFeSe) hydrogenase of Desulfovibrio baculatus. J Biol Chem 1989. [DOI: 10.1016/s0021-9258(19)81667-8] [Citation(s) in RCA: 92] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
|
22
|
Liu MC, Costa C, Coutinho IB, Moura JJ, Moura I, Xavier AV, LeGall J. Cytochrome components of nitrate- and sulfate-respiring Desulfovibrio desulfuricans ATCC 27774. J Bacteriol 1988; 170:5545-51. [PMID: 2848008 PMCID: PMC211649 DOI: 10.1128/jb.170.12.5545-5551.1988] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023] Open
Abstract
Three multiheme c-type cytochromes--the tetraheme cytochrome c3 (molecular weight [MW] 13,500), a dodecaheme cytochrome c (MW 40,800), and a "split-Soret" cytochrome c (MW 51,540), which is a dimer with 2 hemes per subunit (MW 26,300)--were isolated from the soluble fraction of Desulfovibrio desulfuricans (ATCC 27774) grown under nitrate- or sulfate-respiring conditions. Two of them, the dodecaheme and the split-Soret cytochromes, showed no similarities to any of the c-type cytochromes isolated from other sulfate-reducing bacteria, while the tetraheme cytochrome c3 appeared to be analogous to the cytochrome c3 found in other sulfate-reducing bacteria. For all three multiheme c-type cytochromes isolated, the homologous proteins from nitrate- and sulfate-grown cells were indistinguishable in amino acid composition, physical properties, and spectroscopic characteristics. It therefore appears that the same c-type cytochrome components are present when D. desulfuricans ATCC 27774 cells are grown under either condition. This is in contrast to the considerable difference found in Pseudomonas perfectomarina (Liu et al., J. Bacteriol. 154:278-286, 1983), a marine denitrifier, when the cells are grown on nitrate or oxygen as the terminal electron acceptor. In addition, two spectroscopy methods capable of revealing minute structural variations in proteins provided identical information about the tetraheme cytochrome c3 from nitrate-grown and sulfate-grown cells.
Collapse
Affiliation(s)
- M C Liu
- Department of Biochemistry, University of Georgia, Athens 30602
| | | | | | | | | | | | | |
Collapse
|
23
|
Fauque G, Peck HD, Moura JJ, Huynh BH, Berlier Y, DerVartanian DV, Teixeira M, Przybyla AE, Lespinat PA, Moura I. The three classes of hydrogenases from sulfate-reducing bacteria of the genus Desulfovibrio. FEMS Microbiol Rev 1988; 4:299-344. [PMID: 3078655 DOI: 10.1111/j.1574-6968.1988.tb02748.x] [Citation(s) in RCA: 163] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
Three types of hydrogenases have been isolated from the sulfate-reducing bacteria of the genus Desulfovibrio. They differ in their subunit and metal compositions, physico-chemical characteristics, amino acid sequences, immunological reactivities, gene structures and their catalytic properties. Broadly, the hydrogenases can be considered as 'iron only' hydrogenases and nickel-containing hydrogenases. The iron-sulfur-containing hydrogenase ([Fe] hydrogenase) contains two ferredoxin-type (4Fe-4S) clusters and an atypical iron-sulfur center believed to be involved in the activation of H2. The [Fe] hydrogenase has the highest specific activity in the evolution and consumption of hydrogen and in the proton-deuterium exchange reaction and this enzyme is the most sensitive to CO and NO2-. It is not present in all species of Desulfovibrio. The nickel-(iron-sulfur)-containing hydrogenases [( NiFe] hydrogenases) possess two (4Fe-4S) centers and one (3Fe-xS) cluster in addition to nickel and have been found in all species of Desulfovibrio so far investigated. The redox active nickel is ligated by at least two cysteinyl thiolate residues and the [NiFe] hydrogenases are particularly resistant to inhibitors such as CO and NO2-. The genes encoding the large and small subunits of a periplasmic and a membrane-bound species of the [NiFe] hydrogenase have been cloned in Escherichia (E.) coli and sequenced. Their derived amino acid sequences exhibit a high degree of homology (70%); however, they show no obvious metal-binding sites or homology with the derived amino acid sequence of the [Fe] hydrogenase. The third class is represented by the nickel-(iron-sulfur)-selenium-containing hydrogenases [( NiFe-Se] hydrogenases) which contain nickel and selenium in equimolecular amounts plus (4Fe-4S) centers and are only found in some species of Desulfovibrio. The genes encoding the large and small subunits of the periplasmic hydrogenase from Desulfovibrio (D.) baculatus (DSM 1743) have been cloned in E. coli and sequenced. The derived amino acid sequence exhibits homology (40%) with the sequence of the [NiFe] hydrogenase and the carboxy-terminus of the gene for the large subunit contains a codon (TGA) for selenocysteine in a position homologous to a codon (TGC) for cysteine in the large subunit of the [NiFe] hydrogenase. EXAFS and EPR studies with the 77Se-enriched D. baculatus hydrogenase indicate that selenium is a ligand to nickel and suggest that the redox active nickel is ligated by at least two cysteinyl thiolate and one selenocysteine selenolate residues.(ABSTRACT TRUNCATED AT 400 WORDS)
Collapse
Affiliation(s)
- G Fauque
- Section Enzymologie et Biochimie Bactérienne, ARBS, CEN Cadarache, Saint-Paul-Lez-Durance, France
| | | | | | | | | | | | | | | | | | | |
Collapse
|
24
|
O'Brian MR, Maier RJ. Hydrogen metabolism in Rhizobium: energetics, regulation, enzymology and genetics. Adv Microb Physiol 1988; 29:1-52. [PMID: 3132815 DOI: 10.1016/s0065-2911(08)60345-8] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- M R O'Brian
- Department of Biology, Johns Hopkins University, Baltimore, MD 21218
| | | |
Collapse
|
25
|
Prickril BC, He SH, Li C, Menon N, Choi ES, Przybyla AE, DerVartanian DV, Peck HD, Fauque G, LeGall J. Identification of three classes of hydrogenase in the genus, Desulfovibrio. Biochem Biophys Res Commun 1987; 149:369-77. [PMID: 3322275 DOI: 10.1016/0006-291x(87)90376-7] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
A comparison of amino-terminal amino acid sequences from the large and small subunits of hydrogenases from Desulfovibrio reveals significant differences. These results, in conjunction with antibody analyses, clearly indicate that the iron, iron + nickel, and iron + nickel + selenium containing hydrogenases represent three distinct classes of hydrogenase in Desulfovibrio.
Collapse
Affiliation(s)
- B C Prickril
- School of Chemical Sciences, Department of Biochemistry, University of Georgia, Athens 30602
| | | | | | | | | | | | | | | | | | | |
Collapse
|
26
|
|
27
|
Haladjian J, Bianco P, Guerlesquin F, Bruschi M. Electrochemical study of the electron exchange between cytochrome c3 and hydrogenase from Desulfovibrio desulfuricans Norway. Biochem Biophys Res Commun 1987; 147:1289-94. [PMID: 2822044 DOI: 10.1016/s0006-291x(87)80210-3] [Citation(s) in RCA: 30] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
The kinetics of the reduction of the Desulfovibrio desulfuricans Norway cytochrome c3 by its physiological partner hydrogenase, in the presence of hydrogen, was investigated by an electrochemical method; from cyclic voltammetry experiments a value of 3 X 10(7) M-1 s-1 was obtained for the second-order rate constant. Results are discussed in terms of specific interactions between physiological partner proteins.
Collapse
Affiliation(s)
- J Haladjian
- Laboratoire de Chimie et Electrochimie des Complexes, Université de Provence, Marseille, France
| | | | | | | |
Collapse
|
28
|
Teixeira M, Fauque G, Moura I, Lespinat PA, Berlier Y, Prickril B, Peck HD, Xavier AV, Le Gall J, Moura JJ. Nickel-[iron-sulfur]-selenium-containing hydrogenases from Desulfovibrio baculatus (DSM 1743). Redox centers and catalytic properties. EUROPEAN JOURNAL OF BIOCHEMISTRY 1987; 167:47-58. [PMID: 3040402 DOI: 10.1111/j.1432-1033.1987.tb13302.x] [Citation(s) in RCA: 99] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
The hydrogenase from Desulfovibrio baculatus (DSM 1743) was purified from each of three different fractions: soluble periplasmic (wash), soluble cytoplasmic (cell disruption) and membrane-bound (detergent solubilization). Plasma-emission metal analysis detected in all three fractions the presence of iron plus nickel and selenium in equimolecular amounts. These hydrogenases were shown to be composed of two non-identical subunits and were distinct with respect to their spectroscopic properties. The EPR spectra of the native (as isolated) enzymes showed very weak isotropic signals centered around g approximately 2.0 when observed at low temperature (below 20 K). The periplasmic and membrane-bound enzymes also presented additional EPR signals, observable up to 77 K, with g greater than 2.0 and assigned to nickel(III). The periplasmic hydrogenase exhibited EPR features at 2.20, 2.06 and 2.0. The signals observed in the membrane-bound preparations could be decomposed into two sets with g at 2.34, 2.16 and approximately 2.0 (component I) and at 2.33, 2.24, and approximately 2.0 (component II). In the reduced state, after exposure to an H2 atmosphere, all the hydrogenase fractions gave identical EPR spectra. EPR studies, performed at different temperatures and microwave powers, and in samples partially and fully reduced (under hydrogen or dithionite), allowed the identification of two different iron-sulfur centers: center I (2.03, 1.89 and 1.86) detectable below 10 K, and center II (2.06, 1.95 and 1.88) which was easily saturated at low temperatures. Additional EPR signals due to transient nickel species were detected with g greater than 2.0, and a rhombic EPR signal at 77 K developed at g 2.20, 2.16 and 2.0. This EPR signal is reminiscent of the Ni-signal C (g at 2.19, 2.14 and 2.02) observed in intermediate redox states of the well characterized Desulfovibrio gigas hydrogenase (Teixeira et al. (1985) J. Biol. Chem. 260, 8942]. During the course of a redox titration at pH 7.6 using H2 gas as reductant, this signal attained a maximal intensity around -320 mV. Low-temperature studies of samples at redox states where this rhombic signal develops (10 K or lower) revealed the presence of a fast-relaxing complex EPR signal with g at 2.25, 2.22, 2.15, 2.12, 2.10 and broad components at higher field. The soluble hydrogenase fractions did not show a time-dependent activation but the membrane-bound form required such a step in order to express full activity.(ABSTRACT TRUNCATED AT 400 WORDS)
Collapse
|
29
|
Nivière V, Hatchikian C, Cambillau C, Frey M. Crystallization, preliminary X-ray study and crystal activity of the hydrogenase from Desulfovibrio gigas. J Mol Biol 1987; 195:969-71. [PMID: 3309347 DOI: 10.1016/0022-2836(87)90504-3] [Citation(s) in RCA: 22] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Hydrogenase (EC 1.12) from Desulfovibrio gigas is a dimeric enzyme (26 and 62 (X 10(3) Mr) that catalyzes the reversible oxidation of molecular hydrogen. Single crystals of hydrogenase have been produced using the hanging drop method, with either PEG (polyethylene glycol) 6000 or ammonium sulfate as precipitants at pH 6.5. X-ray examination of the crystals indicates that those obtained with ammonium sulfate are suitable for structure determination to at least 3.0 A resolution when synchrotron radiation Sources are used (1 A = 0.1 nm). The crystals are monoclinic, with space group C2, and cell dimensions a = 257.0 A, b = 184.7 A, c = 148.3 A and beta = 101.3 degrees, and contain between four and ten molecules per asymmetric unit. The enzyme can be reactivated within the crystals under reducing conditions without crystal damage.
Collapse
Affiliation(s)
- V Nivière
- Laboratoire de Chimie Bacterienne, CNRS, Marseille, France
| | | | | | | |
Collapse
|
30
|
Fauque GD, Berlier YM, Czechowski MH, Dimon B, Lespinat PA, LeGall J. A proton-deuterium exchange study of three types ofDesulfovibrio hydrogenases. ACTA ACUST UNITED AC 1987. [DOI: 10.1007/bf01569401] [Citation(s) in RCA: 26] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
|
31
|
Abstract
Free-living Bradyrhizobium japonicum grown heterotrophically with 1 microM 63Ni2+ accumulated label. Strain SR470, a Hupc mutant, accumulated almost 10-fold more 63Ni2+ on a per-cell basis than did strain SR, the wild type. Nongrowing cells were also able to accumulate nickel over a 2-h period, with the Hupc mutant strain SR470 again accumulating significantly more 63Ni2+ than strain SR. These results suggest that this mutant is constitutive for nickel uptake as well as for hydrogenase expression. The apparent Kms for nickel uptake in strain SR and strain SR470 were found to be similar, approximately 26 and 50 microM, respectively. The Vmax values, however, were significantly different, 0.29 nmol of Ni/min per 10(8) cells for SR and 1.40 nmol of Ni/min per 10(8) cells for SR470. The uptake process was relatively specific for nickel; only Cu2+ and Zn2+ (10 microM) were found to appreciably inhibit the uptake of 1 microM Ni, while a 10-fold excess of Mg2+, Co2+, Fe3+, or Mn2+ did not affect Ni2+ uptake. The lack of inhibition by Mg2+ indicates that nickel is not transported by a magnesium uptake system. Nickel uptake was also inhibited by cold (53% inhibition at 4 degrees C) and slightly by the ionophores nigericin and carbonyl cyanide m-chlorophenylhydrazone. Other ionophores did not appreciably affect nickel uptake, even though they significantly stimulated O2 uptake. The cytochrome c oxidase inhibitors azide, cyanide, and hydroxylamine did not inhibit Ni2+ uptake, even at concentrations (of cyanide and hydroxylamine) that inhibited O2 uptake. The addition of oxidizable substrates such as succinate or gluconate did not increase nickel uptake, even though they increased respiratory activity. Nickel update showed a pH dependence with an optimum at 6.0. Most (approximately 85%) of the 63Ni2+ taken up in 1 min by strain SR470 was not exchangeable with cold nickel.
Collapse
|
32
|
Cammack R, Patil DS, Hatchikian E, Fernández VM. Nickel and iron-sulphur centres in Desulfovibrio gigas hydrogenase: ESR spectra, redox properties and interactions. ACTA ACUST UNITED AC 1987. [DOI: 10.1016/0167-4838(87)90252-4] [Citation(s) in RCA: 93] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
|
33
|
Huynh BH, Patil DS, Moura I, Teixeira M, Moura JJ, DerVartanian DV, Czechowski MH, Prickril BC, Peck HD, LeGall J. On the active sites of the [NiFe] hydrogenase from Desulfovibrio gigas. Mössbauer and redox-titration studies. J Biol Chem 1987. [DOI: 10.1016/s0021-9258(19)75856-6] [Citation(s) in RCA: 54] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
|
34
|
Lissolo T, Choi ES, LeGall J, Peck HD. The presence of multiple intrinsic membrane nickel-containing hydrogenases in Desulfovibrio vulgaris (Hildenborough). Biochem Biophys Res Commun 1986; 139:701-8. [PMID: 3533065 DOI: 10.1016/s0006-291x(86)80047-x] [Citation(s) in RCA: 53] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Three intrinsic membrane proteins exhibiting oxygen stable hydrogenase activity have been isolated from D. vulgaris. In contrast to the periplasmic exclusively non-heme iron hydrogenase, all three hydrogenases contain Ni in addition to non-heme iron, have low specific activities and are insensitive to inhibition by CO. None of the three hydrogenases cross react with IgA against the periplasmic hydrogenase of D. vulgaris but two of the new hydrogenases cross react with IgA against the periplasmic nickel containing hydrogenase of D. gigas and the other new hydrogenase cross reacts with IgA against the periplasmic nickel and selenium hydrogenase of D. desulfuricans (Norway -4).
Collapse
|
35
|
Nivière V, Forget N, Gayda JP, Hatchikian EC. Characterization of the soluble hydrogenase from Desulfovibrio africanus. Biochem Biophys Res Commun 1986; 139:658-65. [PMID: 3021136 DOI: 10.1016/s0006-291x(86)80041-9] [Citation(s) in RCA: 23] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
The soluble hydrogenase from Desulfovibrio africanus has been isolated and characterized. The enzyme consists of two subunits of 65 kDa and 27 kDa. Its absorption spectrum is typical of an iron-sulfur protein. The protein contains 12 iron atoms, 10 labile sulfur atoms and 0.9 nickel atom per molecule. D. africanus hydrogenase is rapidly activated under reducing conditions and exhibits a specific activity of 570 mumoles H2 evolved/min/mg. The EPR spectrum of the oxidized enzyme shows no Ni(III) signals. Upon reduction under hydrogen, the protein sample exhibits signals due to nickel with g values at 2.21, 2.17 and 2.01 correlating with the active state of the enzyme.
Collapse
|
36
|
|
37
|
Prickril BC, Czechowski MH, Przybyla AE, Peck HD, LeGall J. Putative signal peptide on the small subunit of the periplasmic hydrogenase from Desulfovibrio vulgaris. J Bacteriol 1986; 167:722-5. [PMID: 3525521 PMCID: PMC212951 DOI: 10.1128/jb.167.2.722-725.1986] [Citation(s) in RCA: 52] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023] Open
Abstract
We sequenced the NH2 terminus of the large and small subunits of the periplasmic hydrogenase from the sulfate-reducing bacterium Desulfovibrio vulgaris (Hildenborough) and found that the small subunit lacks a region of 34 NH4-terminal amino acids coded by the gene for the small subunit (G. Voordouw and S. Brenner, Eur. J. Biochem. 148:515-520, 1985). We suggest that this region constitutes a signal peptide based on comparison with known procaryotic signal peptides.
Collapse
|
38
|
Czechowski M, Fauque G, Galliano N, Dimon B, Moura I, Moura JJG, Xavier AV, Barato BAS, Lino AR, LeGall J. Purification and characterization of three proteins from a halophilic sulfate-reducing bacterium,Desulfovibrio salexigens. ACTA ACUST UNITED AC 1986. [DOI: 10.1007/bf01569265] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
|
39
|
Stults LW, Moshiri F, Maier RJ. Aerobic purification of hydrogenase from Rhizobium japonicum by affinity chromatography. J Bacteriol 1986; 166:795-800. [PMID: 3519580 PMCID: PMC215196 DOI: 10.1128/jb.166.3.795-800.1986] [Citation(s) in RCA: 45] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023] Open
Abstract
We purified active hydrogenase from free-living Rhizobium japonicum by affinity chromatography. The uptake hydrogenase of R. japonicum has been treated previously as an oxygen-sensitive protein. In this purification, however, reducing agents were not added nor was there any attempt to exclude oxygen. In fact, the addition of sodium dithionite to aerobically purified protein resulted in the rapid loss of activity. Purified hydrogenase was more stable when stored under O2 than when stored under Ar. Sodium-chloride-washed hydrogen-oxidizing membranes were solubilized in Triton X-100 and deoxycholate and loaded onto a reactive red 120-agarose column. Purified hydrogenase elutes at 0.36 M NaCl, contains a nickel, and has a pH optimum of 6.0. There was 452-fold purification resulting in a specific activity of 76.9 mumol of H2 oxidized per min per mg of protein and a yield of 17%. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis revealed subunits with estimated molecular weights of 65,000 and 33,000. Hydrogenase prepared in this manner was used to raise and affinity purify antibodies against both subunits.
Collapse
|
40
|
|
41
|
Teixeira M, Moura I, Fauque G, Czechowski M, Berlier Y, Lespinat PA, Le Gall J, Xavier AV, Moura JJ. Redox properties and activity studies on a nickel-containing hydrogenase isolated from a halophilic sulfate reducer Desulfovibrio salexigens. Biochimie 1986; 68:75-84. [PMID: 3015250 DOI: 10.1016/s0300-9084(86)81071-9] [Citation(s) in RCA: 43] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
A soluble hydrogenase from the halophilic sulfate reducing bacterium Desulfovibrio salexigens, strain British Guiana (NCIB 8403) has been purified to apparent homogeneity with a final specific activity of 760 mumoles H2 evolved/min/mg (an overall 180-fold purification with 20% recovery yield). The enzyme is composed of two non-identical subunits of molecular masses 62 and 36 kDa, respectively, and contains approximately 1 Ni, 12-15 Fe and 1 Se atoms/mole. The hydrogenase shows a visible absorption spectrum typical of an iron-sulfur containing protein (A400/A280 = 0.275) and a molar absorbance of 54 mM-1cm-1 at 400 nm. In the native state (as isolated, under aerobic conditions), the enzyme is almost EPR silent at 100 K and below. However, upon reduction under H2 atmosphere a rhombic EPR signal develops at g-values 2.22, 2.16 and around 2.0, which is optimally detected at 40 K. This EPR signal is reminiscent of the nickel signal C (g-values 2.19, 2.16 and 2.02) observed in intermediate redox states of the well characterized D. gigas nickel containing hydrogenase and assigned to nickel by 61 Ni isotopic substitution (J.J.G. Moura, M. Teixeira, I. Moura, A.V. Xavier and J. Le Gall (1984), J. Mol. Cat., 23, 305-314). Upon longer incubation with H2 the "2.22" EPR signal decreases. During the course of a redox titration under H2, this EPR signal attains a maximal intensity around--380 mV. At redox states where this "2.22" signal develops (or at lower redox potentials), low temperature studies (below 10 K) reveals the presence of other EPR species with g-values at 2.23, 2.21, 2.14 with broad components at higher fields. This new signal (fast relaxing) exhibits a different microwave power dependence from that of the "2.22" signal, which readily saturates with microwave power (slow relaxing). Also at low temperature (8 K) typical reduced iron-sulfur EPR signals are concomitantly observed with gmed approximately 1.94. The catalytic properties of the enzyme were also followed by substrate isotopic exchange D2/H+ and H2 production measurements.
Collapse
|
42
|
Hallahan DL, Fernandez VM, Hatchikian EC, Hall DO. Differential inhibition of catalytic sites in Desulfovibrio gigas hydrogenase. Biochimie 1986; 68:49-54. [PMID: 3089313 DOI: 10.1016/s0300-9084(86)81067-7] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
The hydrogenase of Desulfovibrio gigas has been shown to contain one nickel atom, a cluster with three irons and two clusters of the [4Fe-4S] type in an 89 kDa molecule. Though evidence that the nickel ion is involved in the site of hydrogen activation has been presented for this and other hydrogenases, the role of nickel and of the other redox centres in the protein remains to be firmly identified. We have examined the effects of inhibitors of hydrogenase activity in an attempt to identify the functions of the prosthetic redox centres. We have shown carbon monoxide to inhibit at the site of hydrogen activation. The dye, procion red, was found to compete with electron acceptors at a different site, and partial denaturation with the detergent lithium dodecyl sulphate resulted in the differential inhibition of hydrogen activation and substrate reduction. These results imply the presence of distinct domains within the protein with different catalytic activities.
Collapse
|
43
|
The redox properties and activation of the F420)-non-reactive hydrogenase of Methanobacterium formicicum. ACTA ACUST UNITED AC 1986. [DOI: 10.1016/0167-4838(86)90307-9] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
|
44
|
|
45
|
Johnson MK, Morningstar JE, Cecchini G, Ackrell BA. In vivo detection of a three iron cluster in fumarate reductase from Escherichia coli. Biochem Biophys Res Commun 1985; 131:653-8. [PMID: 2996520 DOI: 10.1016/0006-291x(85)91287-2] [Citation(s) in RCA: 30] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
Escherichia coli with plasmid amplified expression of fumarate reductase was grown anaerobically on a medium containing fumarate and glycerol and investigated by electron paramagnetic resonance spectroscopy. Anaerobically harvested cells exhibit an EPR signal characteristic of a reduced [2Fe-2S] cluster. Anaerobic addition of fumarate results in diminution of the reduced [2Fe-2S] signal and the appearance of the EPR signal associated with the oxidized 3Fe cluster. The results provide the first evidence for a trinuclear iron-sulfur cluster that exists in vivo, and suggest that the 3Fe cluster in purified fumarate reductase samples is not an artifact of the isolation procedure. The significance of this observation is discussed in relation to the physiological relevance of trinuclear iron-sulfur clusters.
Collapse
|
46
|
Ballantine SP, Boxer DH. Nickel-containing hydrogenase isoenzymes from anaerobically grown Escherichia coli K-12. J Bacteriol 1985; 163:454-9. [PMID: 3894325 PMCID: PMC219143 DOI: 10.1128/jb.163.2.454-459.1985] [Citation(s) in RCA: 186] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
Abstract
Two membrane-bound hydrogenase isoenzymes present in Escherichia coli during anaerobic growth have been resolved. The isoenzymes are immunologically and electrophoretically distinct. The physically more abundant isoenzyme (hydrogenase 1) contains a subunit of Mr 64,000 and is not released from the membrane by exposure to either trypsin or pancreatin. The second isoenzyme (hydrogenase 2) apparently contributes the greater part of the membrane-bound hydrogen:benzyl viologen oxidoreductase activity and exists in two electrophoretic forms revealed by nondenaturing polyacrylamide gel analysis. This isoenzyme is irreversibly inactivated at alkaline pH and gives rise to an active, soluble derivative when the membrane-bound enzyme is exposed to either trypsin or pancreatin. Both hydrogenase isoenzymes contain nickel.
Collapse
|
47
|
Teixeira M, Moura I, Xavier AV, Huynh BH, DerVartanian DV, Peck HD, LeGall J, Moura JJ. Electron paramagnetic resonance studies on the mechanism of activation and the catalytic cycle of the nickel-containing hydrogenase from Desulfovibrio gigas. J Biol Chem 1985. [DOI: 10.1016/s0021-9258(17)39440-1] [Citation(s) in RCA: 92] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
|
48
|
Arp DJ. Rhizobium japonicum hydrogenase: purification to homogeneity from soybean nodules, and molecular characterization. Arch Biochem Biophys 1985; 237:504-12. [PMID: 3919648 DOI: 10.1016/0003-9861(85)90303-0] [Citation(s) in RCA: 54] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Rhizobium japonicum hydrogenase was purified to homogeneity from soybean root nodules by four column chromatography steps after solubilization from membranes by treatment with a nonionic detergent. The specific activity was from 40 to 65 mumol H2 oxidized min-1 mg protein-1 and was increased 450-fold relative to that in bacteroids. The yield of activity was from 7 to 12%. The molecular weight of the native enzyme was 104,000 as determined by sucrose density gradient centrifugation. Electrophoresis in the presence of sodium dodecyl sulfate revealed two subunits with molecular weights of 64,000 and 35,000, indicating an alpha beta subunit structure. The amino acid content of the protein indicated 20 cysteine residues. Analysis of the metal content indicated 0.59 +/- 0.06 mol Ni/mol hydrogenase and 6.5 +/- 1.2 mol Fe/mol hydrogenase. Antisera prepared to the hydrogenase cross-reacted with the enzyme in bacteroid extracts at all stages of the purification but did not cross-react with extracts of Alcaligenes eutrophus grown under chemolithotrophic conditions. The similarity of rhizobial hydrogenase to the particulate hydrogenases of A. eutrophus and A. latus is discussed.
Collapse
|
49
|
|
50
|
Vignais PM, Colbeau A, Willison JC, Jouanneau Y. Hydrogenase, nitrogenase, and hydrogen metabolism in the photosynthetic bacteria. Adv Microb Physiol 1985; 26:155-234. [PMID: 3913292 DOI: 10.1016/s0065-2911(08)60397-5] [Citation(s) in RCA: 119] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
|