1
|
Desbois A, Valton J, Moreau Y, Torelli S, Nivière V. Conformational H-bonding modulation of the iron active site cysteine ligand of superoxide reductase: absorption and resonance Raman studies. Phys Chem Chem Phys 2021; 23:4636-4645. [PMID: 33527107 DOI: 10.1039/d0cp03898a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Superoxide reductases (SORs) are mononuclear non-heme iron enzymes involved in superoxide radical detoxification in some microorganisms. Their atypical active site is made of an iron atom pentacoordinated by four equatorial nitrogen atoms from histidine residues and one axial sulfur atom from a cysteinate residue, which plays a central role in catalysis. In most SORs, the residue immediately following the cysteinate ligand is an asparagine, which belongs to the second coordination sphere and is expected to have a critical influence on the properties of the active site. In this work, in order to investigate the role of this asparagine residue in the Desulfoarculus baarsii enzyme (Asn117), we carried out, in comparison with the wild-type enzyme, absorption and resonance Raman (RR) studies on a SOR mutant in which Asn117 was changed into an alanine. RR analysis was developed in order to assign the different bands using excitation in the (Cys116)-S-→ Fe3+ charge transfer band. By investigating the correlation between the (Cys116)-S-→ Fe3+ charge transfer band maximum with the frequency of each RR band in different SOR forms, we assessed the contribution of the ν(Fe-S) vibration among the different RR bands. The data showed that Asn117, by making hydrogen bond interactions with Lys74 and Tyr76, allows a rigidification of the backbone of the Cys116 ligand, as well as that of the neighboring residues Ile118 and His119. Such a structural role of Asn117 has a deep impact on the S-Fe bond. It results in a tight control of the H-bond distance between the Ile118 and His119 NH peptidic moiety with the cysteine sulfur ligand, which in turn enables fine-tuning of the S-Fe bond strength, an essential property for the SOR active site. This study illustrates the intricate roles of second coordination sphere residues to adjust the ligand to metal bond properties in the active site of metalloenzymes.
Collapse
Affiliation(s)
- Alain Desbois
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris-Sud, Université Paris-Saclay, F-91198, Gif-sur-Yvette Cedex, France
| | | | | | | | | |
Collapse
|
2
|
Horch M. Rational redox tuning of transition metal sites: learning from superoxide reductase. Chem Commun (Camb) 2019; 55:9148-9151. [PMID: 31304493 DOI: 10.1039/c9cc04004h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Using superoxide reductase as a model system, a computational approach reveals how histidine tautomerism tunes the redox properties of metalloenzymes to enable their catalytic function. Inspired by these experimentally inaccessible insights, non-canonical histidine congeners are introduced as new versatile tools for the rational engineering of biological transition metal sites.
Collapse
Affiliation(s)
- Marius Horch
- Department of Chemistry and York Biomedical Research Institute, University of York, Heslington, York, YO10 5DD, UK.
| |
Collapse
|
3
|
David R, Jamet H, Nivière V, Moreau Y, Milet A. Iron Hydroperoxide Intermediate in Superoxide Reductase: Protonation or Dissociation First? MM Dynamics and QM/MM Metadynamics Study. J Chem Theory Comput 2017; 13:2987-3004. [DOI: 10.1021/acs.jctc.7b00126] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Rolf David
- DCM, Univ. Grenoble Alpes, F-38000 Grenoble, France
- CNRS, DCM, F-38000, Grenoble, France
- Laboratoire
de Chimie et Biologie des Métaux, CEA/DRF/BIG/CBM/MCT, CNRS
UMR 5249, Université Grenoble Alpes, Grenoble, France
| | - Hélène Jamet
- DCM, Univ. Grenoble Alpes, F-38000 Grenoble, France
- CNRS, DCM, F-38000, Grenoble, France
| | - Vincent Nivière
- Laboratoire
de Chimie et Biologie des Métaux, CEA/DRF/BIG/CBM/BioCat, CNRS
UMR 5249, Université Grenoble Alpes, Grenoble, France
| | - Yohann Moreau
- Laboratoire
de Chimie et Biologie des Métaux, CEA/DRF/BIG/CBM/MCT, CNRS
UMR 5249, Université Grenoble Alpes, Grenoble, France
| | - Anne Milet
- DCM, Univ. Grenoble Alpes, F-38000 Grenoble, France
- CNRS, DCM, F-38000, Grenoble, France
| |
Collapse
|
4
|
Horch M, Utesch T, Hildebrandt P, Mroginski MA, Zebger I. Domain motions and electron transfer dynamics in 2Fe-superoxide reductase. Phys Chem Chem Phys 2016; 18:23053-66. [DOI: 10.1039/c6cp03666j] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Theoretical studies on 2Fe-superoxide reductase provide mechanistic insights into structural dynamics and electron transfer efficiencies.
Collapse
Affiliation(s)
- Marius Horch
- Institut für Chemie
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| | - Tillmann Utesch
- Institut für Chemie
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| | - Peter Hildebrandt
- Institut für Chemie
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| | | | - Ingo Zebger
- Institut für Chemie
- Technische Universität Berlin
- D-10623 Berlin
- Germany
| |
Collapse
|
5
|
Almeida RM, Turano P, Moura I, Moura JJG, Pauleta SR. Superoxide Reductase: Different Interaction Modes with its Two Redox Partners. Chembiochem 2013; 14:1858-66. [DOI: 10.1002/cbic.201300196] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2013] [Indexed: 11/08/2022]
|
6
|
Caranto JD, Gebhardt LL, MacGowan CE, Limberger RJ, Kurtz DM. Treponema denticola superoxide reductase: in vivo role, in vitro reactivities, and a novel [Fe(Cys)(4)] site. Biochemistry 2012; 51:5601-10. [PMID: 22715932 DOI: 10.1021/bi300667s] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
In vitro and in vivo results are presented demonstrating that superoxide reductase (SOR) from the air-sensitive oral spirochete, Treponema denticola (Td), is a principal enzymatic scavenger of superoxide in this organism. This SOR contains the characteristic non-heme [Fe(His)(4)Cys] active sites. No other metal-binding domain has been annotated for Td SOR. However, we found that Td SOR also accommodates a [Fe(Cys)(4)] site whose spectroscopic and redox properties resemble those in so-called 2Fe-SORs. Spectroscopic comparisons of the wild type and engineered Cys → Ser variants indicate that three of the Cys ligands correspond to those in [Fe(Cys)(4)] sites of "canonical" 2Fe-SORs, whereas the fourth Cys ligand residue has no counterpart in canonical 2Fe-SORs or in any other known [Fe(Cys)(4)] protein. Structural modeling is consistent with iron ligation of the "noncanonical" Cys residue across subunit interfaces of the Td SOR homodimer. The Td SOR was isolated with only a small percentage of [Fe(Cys)(4)] sites. However, quantitative formation of stable [Fe(Cys)(4)] sites was readily achieved by exposing the as-isolated protein to an iron salt, a disulfide reducing agent and air. The disulfide/dithiol status and iron occupancy of the Td SOR [Fe(Cys)(4)] sites could, thus, reflect intracellular redox status, particularly during periods of oxidative stress.
Collapse
Affiliation(s)
- Jonathan D Caranto
- Department of Chemistry, University of Texas at San Antonio, San Antonio, TX 78249, USA
| | | | | | | | | |
Collapse
|
7
|
Bonnot F, Molle T, Ménage S, Moreau Y, Duval S, Favaudon V, Houée-Levin C, Nivière V. Control of the Evolution of Iron Peroxide Intermediate in Superoxide Reductase from Desulfoarculus baarsii. Involvement of Lysine 48 in Protonation. J Am Chem Soc 2012; 134:5120-30. [DOI: 10.1021/ja209297n] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Florence Bonnot
- CEA, iRTSV, Laboratoire de Chimie et Biologie des Métaux,
F-38054 Grenoble,
France
- Université de Grenoble, F-38000 Grenoble, France
- CNRS, UMR 5249, F-38054
Grenoble, France
| | - Thibaut Molle
- CEA, iRTSV, Laboratoire de Chimie et Biologie des Métaux,
F-38054 Grenoble,
France
- Université de Grenoble, F-38000 Grenoble, France
- CNRS, UMR 5249, F-38054
Grenoble, France
| | - Stéphane Ménage
- CEA, iRTSV, Laboratoire de Chimie et Biologie des Métaux,
F-38054 Grenoble,
France
- Université de Grenoble, F-38000 Grenoble, France
- CNRS, UMR 5249, F-38054
Grenoble, France
| | - Yohann Moreau
- CEA, iRTSV, Laboratoire de Chimie et Biologie des Métaux,
F-38054 Grenoble,
France
- Université de Grenoble, F-38000 Grenoble, France
- CNRS, UMR 5249, F-38054
Grenoble, France
| | - Simon Duval
- CEA, iRTSV, Laboratoire de Chimie et Biologie des Métaux,
F-38054 Grenoble,
France
- Université de Grenoble, F-38000 Grenoble, France
- CNRS, UMR 5249, F-38054
Grenoble, France
| | - Vincent Favaudon
- Institut Curie, Inserm U612, Bâtiment 110-112,
Centre Universitaire 91405
Orsay Cedex, France
| | - Chantal Houée-Levin
- Laboratoire
de Chimie Physique,
UMR8000 CNRS/Université Paris-Sud, Bâtiment 350, Centre Universitaire 91405 Orsay Cedex, France
| | - Vincent Nivière
- CEA, iRTSV, Laboratoire de Chimie et Biologie des Métaux,
F-38054 Grenoble,
France
- Université de Grenoble, F-38000 Grenoble, France
- CNRS, UMR 5249, F-38054
Grenoble, France
| |
Collapse
|