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Paradisi A, Bellei M, Bortolotti CA, Di Rocco G, Ranieri A, Borsari M, Sola M, Battistuzzi G. Effects of removal of the axial methionine heme ligand on the binding of S. cerevisiae iso-1 cytochrome c to cardiolipin. J Inorg Biochem 2024; 252:112455. [PMID: 38141433 DOI: 10.1016/j.jinorgbio.2023.112455] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2023] [Revised: 12/05/2023] [Accepted: 12/13/2023] [Indexed: 12/25/2023]
Abstract
The cleavage of the axial S(Met) - Fe bond in cytochrome c (cytc) upon binding to cardiolipin (CL), a glycerophospholipid of the inner mitochondrial membrane, is one of the key molecular changes that impart cytc with (lipo)peroxidase activity essential to its pro-apoptotic function. In this work, UV - VIS, CD, MCD and fluorescence spectroscopies were used to address the role of the Fe - M80 bond in controlling the cytc-CL interaction, by studying the binding of the Met80Ala (M80A) variant of S. cerevisiae iso-1 cytc (ycc) to CL liposomes in comparison with the wt protein [Paradisi et al. J. Biol. Inorg. Chem. 25 (2020) 467-487]. The results show that the integrity of the six-coordinate heme center along with the distal heme site containing the Met80 ligand is a not requisite for cytc binding to CL. Indeed, deletion of the Fe - S(Met80) bond has a little impact on the mechanism of ycc-CL interaction, although it results in an increased heme accessibility to solvent and a reduced structural stability of the protein. In particular, M80A features a slightly tighter binding to CL at low CL/cytc ratios compared to wt ycc, possibly due to the lift of some constraints to the insertion of the CL acyl chains into the protein hydrophobic core. M80A binding to CL maintains the dependence on the CL-to-cytc mixing scheme displayed by the wt species.
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Affiliation(s)
- Alessandro Paradisi
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41126 Modena, Italy
| | - Marzia Bellei
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41126 Modena, Italy
| | - Carlo Augusto Bortolotti
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41126 Modena, Italy
| | - Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41126 Modena, Italy
| | - Antonio Ranieri
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41126 Modena, Italy
| | - Marco Borsari
- Department of Chemistry and Geology, University of Modena and Reggio Emilia, via Campi 103, 41126 Modena, Italy
| | - Marco Sola
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41126 Modena, Italy
| | - Gianantonio Battistuzzi
- Department of Chemistry and Geology, University of Modena and Reggio Emilia, via Campi 103, 41126 Modena, Italy.
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2
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Diacci C, Burtscher B, Berto M, Ruoko TP, Lienemann S, Greco P, Berggren M, Borsari M, Simon DT, Bortolotti CA, Biscarini F. Organic Electrochemical Transistor Aptasensor for Interleukin-6 Detection. ACS Appl Mater Interfaces 2023. [PMID: 38141020 DOI: 10.1021/acsami.3c12397] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2023]
Abstract
We demonstrate an organic electrochemical transistor (OECT) biosensor for the detection of interleukin 6 (IL6), an important biomarker associated with various pathological processes, including chronic inflammation, inflammaging, cancer, and severe COVID-19 infection. The biosensor is functionalized with oligonucleotide aptamers engineered to bind specifically IL6. We developed an easy functionalization strategy based on gold nanoparticles deposited onto a poly(3,4-ethylenedioxythiophene) doped with polystyrenesulfonate (PEDOT:PSS) gate electrode for the subsequent electrodeposition of thiolated aptamers. During this functionalization step, the reduction of sulfide bonds allows for simultaneous deposition of a blocking agent. A detection range from picomolar to nanomolar concentrations for IL6 was achieved, and the selectivity of the device was assessed against Tumor Necrosis Factor (TNF), another cytokine involved in the inflammatory processes.
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Affiliation(s)
- Chiara Diacci
- Laboratory of Organic Electronics, Department of Science and Technology, Linköping University, 601 74, Norrköping, Sweden
- Dipartimento di Scienze della Vita, Università di Modena e Reggio Emilia, via Campi 103, 41125 Modena, Italy
| | - Bernhard Burtscher
- Laboratory of Organic Electronics, Department of Science and Technology, Linköping University, 601 74, Norrköping, Sweden
| | - Marcello Berto
- Dipartimento di Scienze della Vita, Università di Modena e Reggio Emilia, via Campi 103, 41125 Modena, Italy
| | - Tero-Petri Ruoko
- Laboratory of Organic Electronics, Department of Science and Technology, Linköping University, 601 74, Norrköping, Sweden
| | - Samuel Lienemann
- Laboratory of Organic Electronics, Department of Science and Technology, Linköping University, 601 74, Norrköping, Sweden
| | - Pierpaolo Greco
- Department of Neuroscience and Rehabilitation, Università di Ferrara, Via Borsari 46, 44121 Ferrara, Italy
- Center for Translational Neurophysiology of Speech and Communication, Istituto Italiano di Tecnologia, via Fossato di Mortara 17-193, 44100 Ferrara, Italy
| | - Magnus Berggren
- Laboratory of Organic Electronics, Department of Science and Technology, Linköping University, 601 74, Norrköping, Sweden
| | - Marco Borsari
- Dipartimento di Scienze Chimiche e Geologiche, Università di Modena e Reggio Emilia, via Campi 103, 41125 Modena, Italy
| | - Daniel T Simon
- Laboratory of Organic Electronics, Department of Science and Technology, Linköping University, 601 74, Norrköping, Sweden
| | - Carlo A Bortolotti
- Dipartimento di Scienze della Vita, Università di Modena e Reggio Emilia, via Campi 103, 41125 Modena, Italy
| | - Fabio Biscarini
- Dipartimento di Scienze della Vita, Università di Modena e Reggio Emilia, via Campi 103, 41125 Modena, Italy
- Center for Translational Neurophysiology of Speech and Communication, Istituto Italiano di Tecnologia, via Fossato di Mortara 17-193, 44100 Ferrara, Italy
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3
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Imperato M, Nicolini A, Borsari M, Briganti M, Chiesa M, Liao YK, Ranieri A, Raza A, Salvadori E, Sorace L, Cornia A. Quantum spin coherence and electron spin distribution channels in vanadyl-containing lantern complexes. Inorg Chem Front 2023; 11:186-195. [PMID: 38221947 PMCID: PMC10782212 DOI: 10.1039/d3qi01806g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2023] [Accepted: 11/02/2023] [Indexed: 01/16/2024]
Abstract
We herein investigate the heterobimetallic lantern complexes [PtVO(SOCR)4] as charge neutral electronic qubits based on vanadyl complexes (S = 1/2) with nuclear spin-free donor atoms. The derivatives with R = Me (1) and Ph (2) give highly resolved X-band EPR spectra in frozen CH2Cl2/toluene solution, which evidence the usual hyperfine coupling with the 51V nucleus (I = 7/2) and an additional superhyperfine interaction with the I = 1/2 nucleus of the 195Pt isotope (natural abundance ca. 34%). DFT calculations ascribe the spin density delocalization on the Pt2+ ion to a combination of π and δ pathways, with the former representing the predominant channel. Spin relaxation measurements in frozen CD2Cl2/toluene-d8 solution between 90 and 10 K yield Tm values (1-6 μs in 1 and 2-11 μs in 2) which compare favorably with those of known vanadyl-based qubits in similar matrices. Coherent spin manipulations indeed prove possible at 70 K, as shown by the observation of Rabi oscillations in nutation experiments. The results indicate that the heavy Group 10 metal ion is not detrimental to the coherence properties of the vanadyl moiety and that Pt-VO lanterns can be used as robust spin-coherent building blocks in materials science and quantum technologies.
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Affiliation(s)
- Manuel Imperato
- Dipartimento di Scienze Chimiche e Geologiche e UdR INSTM, Università degli Studi di Modena e Reggio Emilia via G. Campi 103 41125 Modena Italy
- Dipartimento di Scienze Fisiche, Informatiche e Matematiche, Università degli Studi di Modena e Reggio Emilia via G. Campi 213/A 41125 Modena Italy
| | - Alessio Nicolini
- Dipartimento di Scienze Chimiche e Geologiche e UdR INSTM, Università degli Studi di Modena e Reggio Emilia via G. Campi 103 41125 Modena Italy
| | - Marco Borsari
- Dipartimento di Scienze Chimiche e Geologiche e UdR INSTM, Università degli Studi di Modena e Reggio Emilia via G. Campi 103 41125 Modena Italy
| | - Matteo Briganti
- Dipartimento di Chimica "Ugo Schiff" e UdR INSTM, Università degli Studi di Firenze via della Lastruccia 3 50019 Sesto Fiorentino FI Italy
| | - Mario Chiesa
- Dipartimento di Chimica e NIS Centre, Università degli Studi di Torino via P. Giuria 7 10125 Torino Italy
| | - Yu-Kai Liao
- Dipartimento di Chimica e NIS Centre, Università degli Studi di Torino via P. Giuria 7 10125 Torino Italy
| | - Antonio Ranieri
- Dipartimento di Scienze della Vita, Università degli Studi di Modena e Reggio Emilia via G. Campi 103 41125 Modena Italy
| | - Arsen Raza
- Dipartimento di Chimica "Ugo Schiff" e UdR INSTM, Università degli Studi di Firenze via della Lastruccia 3 50019 Sesto Fiorentino FI Italy
| | - Enrico Salvadori
- Dipartimento di Chimica e NIS Centre, Università degli Studi di Torino via P. Giuria 7 10125 Torino Italy
| | - Lorenzo Sorace
- Dipartimento di Chimica "Ugo Schiff" e UdR INSTM, Università degli Studi di Firenze via della Lastruccia 3 50019 Sesto Fiorentino FI Italy
| | - Andrea Cornia
- Dipartimento di Scienze Chimiche e Geologiche e UdR INSTM, Università degli Studi di Modena e Reggio Emilia via G. Campi 103 41125 Modena Italy
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Paradisi A, Berto M, Di Giosia M, Mazzali S, Borsari M, Marforio TD, Zerbetto F, Calvaresi M, Orieshyna A, Amdursky N, Bortolotti CA, Biscarini F. Robust Biosensor Based on Carbon Nanotubes/Protein Hybrid Electrolyte Gated Transistors. Chemistry 2023; 29:e202301704. [PMID: 37432093 DOI: 10.1002/chem.202301704] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2023] [Revised: 07/06/2023] [Accepted: 07/11/2023] [Indexed: 07/12/2023]
Abstract
Semiconducting single walled carbon nanotubes (SWCNTs) are promising materials for biosensing applications with electrolyte-gated transistors (EGT). However, to be employed in EGT devices, SWCNTs often require lengthy solution-processing fabrication techniques. Here, we introduce a simple solution-based method that allows fabricating EGT devices from stable dispersions of SWCNTs/bovine serum albumin (BSA) hybrids in water. The dispersion is then deposited on a substrate allowing the formation of a SWCNTs random network as the semiconducting channel. We demonstrate that this methodology allows the fabrication of EGT devices with electric performances that allow their use in biosensing applications. We demonstrate their application for the detection of cortisol in solution, upon gate electrode functionalization with anti-cortisol antibodies. This is a robust and cost-effective methodology that sets the ground for a SWCNT/BSA-based biosensing platform that allows overcoming many limitations of standard SWCNTs biosensor fabrications.
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Affiliation(s)
- Alessandro Paradisi
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41125, Modena, Italy
| | - Marcello Berto
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41125, Modena, Italy
| | - Matteo Di Giosia
- Chemistry Department "Giacomo Ciamician", Alma Mater Studiorum University of Bologna, Via Francesco Selmi 2, 40126, Bologna, Italy
| | - Sara Mazzali
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41125, Modena, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125, Modena, Italy
| | - Tainah Dorina Marforio
- Chemistry Department "Giacomo Ciamician", Alma Mater Studiorum University of Bologna, Via Francesco Selmi 2, 40126, Bologna, Italy
| | - Francesco Zerbetto
- Chemistry Department "Giacomo Ciamician", Alma Mater Studiorum University of Bologna, Via Francesco Selmi 2, 40126, Bologna, Italy
| | - Matteo Calvaresi
- Chemistry Department "Giacomo Ciamician", Alma Mater Studiorum University of Bologna, Via Francesco Selmi 2, 40126, Bologna, Italy
| | - Anna Orieshyna
- Schulich Faculty of Chemistry, Technion-Israel Institute of Technology, 3200003, Haifa, Israel
| | - Nadav Amdursky
- Schulich Faculty of Chemistry, Technion-Israel Institute of Technology, 3200003, Haifa, Israel
| | - Carlo Augusto Bortolotti
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41125, Modena, Italy
| | - Fabio Biscarini
- Department of Life Sciences, University of Modena and Reggio Emilia, via Campi 103, 41125, Modena, Italy
- Center for Translational Neurophysiology, Istituto Italiano di Tecnologia, Via Fossato di Mortara 17-19, 44121, Ferrara, Italy
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Nicolini A, Pankratz TC, Borsari M, Clérac R, Ranieri A, Rouzières M, Berry JF, Cornia A. A Remarkably Unsymmetric Hexairon Core Embraced by Two High-Symmetry Tripodal Oligo-α-pyridylamido Ligands. Inorg Chem 2023. [PMID: 37345231 DOI: 10.1021/acs.inorgchem.3c00808] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/23/2023]
Abstract
Oligo-α-pyridylamides offer an appealing route to polyiron complexes with short Fe-Fe separations and large room-temperature magnetic moments. A derivative of tris(2-aminoethyl)amine (H6tren) containing three oligo-α-pyridylamine branches and 13 nitrogen donors (H6L) reacts with [Fe2(Mes)4] to yield an organic nanocage built up by two tripodal ligands with interdigitated branches (HMes = mesitylene). The nanocage has crystallographic D3 symmetry but hosts a remarkably unsymmetric hexairon-oxo core, with a central Fe5(μ5-O) square pyramid, two oxygen donors bridging basal sites, and an additional Fe center residing in one of the two tren-like pockets. Bond valence sum (BVS) analysis, density functional theory (DFT) calculations, and electrochemical data were then used to establish the protonation state of oxygen atoms and the formal oxidation states of the metals. For this purpose, a specialized set of BVS parameters was devised for Fe2+-N3- bonds with nitrogen donors of oligo-α-pyridylamides. This allowed us to formulate the compound as [Fe6O2(OH)(H3L)L], with nominally four FeII ions and two FeIII ions. Mössbauer spectra indicate that the compound contains two unique FeII sites, identified as a pair of closely spaced hydroxo-bridged metal ions in the central Fe5(μ5-O) pyramid, and a substantially valence-delocalized FeII2FeIII2 unit. Broken-symmetry DFT calculations predict strong ferromagnetic coupling between the two iron(II) ions, leading to a local S = 4 state that persists to room temperature and explaining the large magnetic moment measured at 300 K. The compound behaves as a single-molecule magnet, with magnetization dynamics detectable in zero static field and dominated by an Orbach-like mechanism with activation parameters Ueff/kB = 49(2) K and τ0 = 4(2) × 10-10 s.
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Affiliation(s)
- Alessio Nicolini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia & INSTM, I-41125 Modena, Italy
| | - Trey C Pankratz
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia & INSTM, I-41125 Modena, Italy
| | - Rodolphe Clérac
- Univ. Bordeaux, CNRS, CRPP, UMR 5031, F-33600 Pessac, France
| | - Antonio Ranieri
- Department of Life Sciences, University of Modena and Reggio Emilia, I-41125 Modena, Italy
| | | | - John F Berry
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Andrea Cornia
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia & INSTM, I-41125 Modena, Italy
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Di Rocco G, Bernini F, Battistuzzi G, Ranieri A, Bortolotti CA, Borsari M, Sola M. Hydrogen peroxide induces heme degradation and protein aggregation in human neuroglobin: roles of the disulfide bridge and hydrogen-bonding in the distal heme cavity. FEBS J 2023; 290:148-161. [PMID: 35866372 PMCID: PMC10087938 DOI: 10.1111/febs.16581] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Revised: 07/05/2022] [Accepted: 07/20/2022] [Indexed: 01/14/2023]
Abstract
In the present study, human neuroglobin (hNgb) was found to undergo H2 O2 -induced breakdown of the heme center at a much slower rate than other globins, namely in the timescale of hours against minutes. We investigated how the rate of the process is affected by the Cys46/Cys55 disulfide bond and the network of non-covalent interactions in the distal heme side involving Tyr44, Lys67, the His64 heme iron axial ligand and the heme propionate-7. The rate is increased by the Tyr44 to Ala and Phe mutations; however the rate is lowered by Lys67 to Ala swapping. The absence of the disulfide bridge slows down the reaction further. Therefore, the disulfide bond-controlled accessibility of the heme site and the residues at position 44 and 67 affect the activation barrier of the reaction. Wild-type and mutated species form β-amyloid aggregates in the presence of H2 O2 producing globular structures. Furthermore, the C46A/C55A, Y44A, Y44F and Y44F/C46A/C55A variants yield potentially harmful fibrils. Finally, the nucleation and growth kinetics for the aggregation of the amyloid structures can be successfully described by the Finke-Watzky model.
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Affiliation(s)
- Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Italy
| | - Fabrizio Bernini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Italy
| | - Gianantonio Battistuzzi
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Italy
| | - Antonio Ranieri
- Department of Life Sciences, University of Modena and Reggio Emilia, Italy
| | | | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Italy
| | - Marco Sola
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Italy
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Di Rocco G, Battistuzzi G, Ranieri A, Bortolotti CA, Borsari M, Sola M. Thermodynamics and Kinetics of Electron Transfer of Electrode-Immobilized Small Laccase from Streptomyces coelicolor. Molecules 2022; 27:molecules27228079. [PMID: 36432180 PMCID: PMC9692349 DOI: 10.3390/molecules27228079] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2022] [Revised: 11/14/2022] [Accepted: 11/18/2022] [Indexed: 11/22/2022] Open
Abstract
The thermodynamic and kinetic properties for heterogeneous electron transfer (ET) were measured for the electrode-immobilized small laccase (SLAC) from Streptomyces coelicolor subjected to different electrostatic and covalent protein-electrode linkages, using cyclic voltammetry. Once immobilized electrostatically onto a gold electrode using mixed carboxyl- and hydroxy-terminated alkane-thiolate SAMs or covalently exploiting the same SAM subjected to N-hydroxysuccinimide+1-Ethyl-3-(3-dimethylaminopropyl)carbodiimide (NHS-EDC) chemistry, the SLAC-electrode electron flow occurs through the T1 center. The E°' values (from +0.2 to +0.1 V vs. SHE at pH 7.0) are lower by more than 0.2 V compared to the protein either in solution or immobilized with different anchoring strategies using uncharged SAMs. For the present electrostatic and covalent binding, this effect can, respectively, be ascribed to the negative charge of the SAM surfaces and to deletion of the positive charge of Lys/Arg residues due to amide bond formation which both selectively stabilize the more positively charged oxidized SLAC. Observation of enthalpy/entropy compensation within the series indicates that the immobilized proteins experience different reduction-induced solvent reorganization effects. The E°' values for the covalently attached SLAC are sensitive to three acid base equilibria, with apparent pKa values of pKa1ox = 5.1, pKa1red = 7.5, pKa2ox = 8.4, pKa2red = 10.9, pKa2ox = 8.9, pKa2red = 11.3 possibly involving one residue close to the T1 center and two residues (Lys and/or Arg) along with moderate protein unfolding, respectively. Therefore, the E°' value of immobilized SLAC turns out to be particularly sensitive to the anchoring mode and medium conditions.
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Affiliation(s)
- Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
| | - Gianantonio Battistuzzi
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
| | - Antonio Ranieri
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
- Correspondence: (A.R.); (M.B.)
| | - Carlo Augusto Bortolotti
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
- Correspondence: (A.R.); (M.B.)
| | - Marco Sola
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
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Di Rocco G, Ranieri A, Borsari M, Sola M, Bortolotti CA, Battistuzzi G. Assessing the Functional and Structural Stability of the Met80Ala Mutant of Cytochrome c in Dimethylsulfoxide. Molecules 2022; 27:molecules27175630. [PMID: 36080396 PMCID: PMC9458088 DOI: 10.3390/molecules27175630] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Revised: 08/24/2022] [Accepted: 08/26/2022] [Indexed: 12/02/2022] Open
Abstract
The Met80Ala variant of yeast cytochrome c is known to possess electrocatalytic properties that are absent in the wild type form and that make it a promising candidate for biocatalysis and biosensing. The versatility of an enzyme is enhanced by the stability in mixed aqueous/organic solvents that would allow poorly water-soluble substrates to be targeted. In this work, we have evaluated the effect of dimethylsulfoxide (DMSO) on the functionality of the Met80Ala cytochrome c mutant, by investigating the thermodynamics and kinetics of electron transfer in mixed water/DMSO solutions up to 50% DMSO v/v. In parallel, we have monitored spectroscopically the retention of the main structural features in the same medium, focusing on both the overall protein structure and the heme center. We found that the organic solvent exerts only minor effects on the redox and structural properties of the mutant mostly as a result of the modification of the dielectric constant of the solvent. This would warrant proper functionality of this variant also under these potentially hostile experimental conditions, that differ from the physiological milieu of cytochrome c.
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Affiliation(s)
- Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
| | - Antonio Ranieri
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
| | - Marco Sola
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
| | - Carlo Augusto Bortolotti
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
- Correspondence: (C.A.B.); (G.B.); Tel.: +39-0592058608 (C.A.B.); +39-059208639 (G.B.)
| | - Gianantonio Battistuzzi
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, 41125 Modena, Italy
- Correspondence: (C.A.B.); (G.B.); Tel.: +39-0592058608 (C.A.B.); +39-059208639 (G.B.)
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9
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Bernini F, Castellini E, Brigatti MF, Bighi B, Borsari M, Malferrari D. Gaseous Heptanethiol Removal by a Fe 3+-Phenanthroline-Kaolinite Hybrid Material. ACS Omega 2021; 6:32589-32596. [PMID: 34901607 PMCID: PMC8655764 DOI: 10.1021/acsomega.1c04145] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Accepted: 09/28/2021] [Indexed: 05/13/2023]
Abstract
Kaolinite functionalized by the μ-oxo Fe3+-phenanthroline complex (Fe+3Phen) was selected to test its ability to efficiently remove and store gaseous heptanethiol (HPT). Spectroscopic techniques, elemental analysis, and thermal analysis coupled with evolved gas mass spectrometry were employed to characterize the material before and after the exposure to the gas and to define the adsorption process. The amount of HPT trapped by the functionalized kaolinite after 60 days is 0.10940 moles per 100 g of kaolinite which, considering the amount of adsorbed Fe+3Phen (0.00114 moles per 100 g of kaolinite), means a thiol/Fe3+Phen molar ratio of about 100:1, a value much higher than those found in the past for Fe+3Phen functionalized montmorillonite and sepiolite. In addition, the process was found to be efficient also beyond 60 days. This significant removal of the smelly gas was explained by considering a continuous catalytic activity of Fe3+ toward the oxidation of thiol to disulfide.
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11
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Hofbauer S, Pignataro M, Borsari M, Bortolotti CA, Di Rocco G, Ravenscroft G, Furtmüller PG, Obinger C, Sola M, Battistuzzi G. Pseudoperoxidase activity, conformational stability, and aggregation propensity of the His98Tyr myoglobin variant: implications for the onset of myoglobinopathy. FEBS J 2021; 289:1105-1117. [PMID: 34679218 PMCID: PMC9298411 DOI: 10.1111/febs.16235] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2021] [Revised: 09/09/2021] [Accepted: 10/18/2021] [Indexed: 01/17/2023]
Abstract
The autosomal dominant striated muscle disease myoglobinopathy is due to the single point mutation His98Tyr in human myoglobin (MB), the heme protein responsible for binding, storage, and controlled release of O2 in striated muscle. In order to understand the molecular basis of this disease, a comprehensive biochemical and biophysical study on wt MB and the variant H98Y has been performed. Although only small differences exist between the active site architectures of the two proteins, the mutant (a) exhibits an increased reactivity toward hydrogen peroxide, (b) exhibits a higher tendency to form high‐molecular‐weight aggregates, and (c) is more prone to heme bleaching, possibly as a consequence of the observed H2O2‐induced formation of the Tyr98 radical close to the metal center. These effects add to the impaired oxygen binding capacity and faster heme dissociation of the H98Y variant compared with wt MB. As the above effects result from bond formation/cleavage events occurring at the distal and proximal heme sites, it appears that the molecular determinants of the disease are localized there. These findings set the basis for clarifying the onset of the cascade of chemical events that are responsible for the pathological symptoms of myoglobinopathy.
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Affiliation(s)
- Stefan Hofbauer
- Department of Chemistry, Institute of Biochemistry, University of Natural Resources and Life Sciences, Vienna, Austria
| | - Marcello Pignataro
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Italy
| | | | - Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Italy
| | - Gianina Ravenscroft
- Harry Perkins Institute of Medical Research, Nedlands, WA, Australia.,School of Biomedical Sciences, University of Western Australia, Nedlands, WA, Australia
| | - Paul G Furtmüller
- Department of Chemistry, Institute of Biochemistry, University of Natural Resources and Life Sciences, Vienna, Austria
| | - Christian Obinger
- Department of Chemistry, Institute of Biochemistry, University of Natural Resources and Life Sciences, Vienna, Austria
| | - Marco Sola
- Department of Life Sciences, University of Modena and Reggio Emilia, Italy
| | - Gianantonio Battistuzzi
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Italy
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12
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Di Rocco G, Battistuzzi G, Borsari M, Bortolotti CA, Ranieri A, Sola M. The enthalpic and entropic terms of the reduction potential of metalloproteins: Determinants and interplay. Coord Chem Rev 2021. [DOI: 10.1016/j.ccr.2021.214071] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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13
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Castellini E, Bernini F, Sebastianelli L, Bighi B, Ignacio Sainz‐Díaz C, Mucci A, Malferrari D, Ranieri A, Gorni G, Marini C, Franca Brigatti M, Borsari M. The Copper Chemical Garden as a Low Cost and Efficient Material for Breaking Down Air Pollution by Gaseous Ammonia. ChemSystemsChem 2021. [DOI: 10.1002/syst.202100034] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [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)
- Elena Castellini
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
| | - Fabrizio Bernini
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
| | - Lorenzo Sebastianelli
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
| | - Beatrice Bighi
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
| | - Claro Ignacio Sainz‐Díaz
- Instituto Andaluz de Ciencias de la Tierra (CSIC-UGR) Av. de las Palmeras, 4 18100 Armilla, Granada Spain
| | - Adele Mucci
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
| | - Daniele Malferrari
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
| | - Antonio Ranieri
- Department of Life Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
| | - Giulio Gorni
- ALBA Synchrotron Light Source Crta. BP 1413, Km. 3.3 08290, Cerdanyola Del Vallès Barcelona Spain
| | - Carlo Marini
- ALBA Synchrotron Light Source Crta. BP 1413, Km. 3.3 08290, Cerdanyola Del Vallès Barcelona Spain
| | - Maria Franca Brigatti
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 I-41125 Modena Italy
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14
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Borsari M, Braidi N, Buffagni M, Ghelfi F, Parenti F, Porcelli N, Serafini G, Isse AA, Bonifaci L, Cavalca G, Longo A, Morandini I, Pettenuzzo N. Copper-catalyzed ARGET ATRP of styrene from ethyl α-haloisobutyrate in EtOAc/EtOH, using ascorbic acid/Na2CO3 as reducing system. Eur Polym J 2021. [DOI: 10.1016/j.eurpolymj.2021.110675] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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15
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Nicolini A, Affronte M, SantaLucia DJ, Borsari M, Cahier B, Caleffi M, Ranieri A, Berry JF, Cornia A. Tetrairon(II) extended metal atom chains as single-molecule magnets. Dalton Trans 2021; 50:7571-7589. [PMID: 33983354 PMCID: PMC8214398 DOI: 10.1039/d1dt01007g] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Iron-based extended metal atom chains (EMACs) are potentially high-spin molecules with axial magnetic anisotropy and thus candidate single-molecule magnets (SMMs). We herein compare the tetrairon(ii), halide-capped complexes [Fe4(tpda)3Cl2] (1Cl) and [Fe4(tpda)3Br2] (1Br), obtained by reacting iron(ii) dihalides with [Fe2(Mes)4] and N2,N6-di(pyridin-2-yl)pyridine-2,6-diamine (H2tpda) in toluene, under strictly anhydrous and anaerobic conditions (HMes = mesitylene). Detailed structural, electrochemical and Mössbauer data are presented along with direct-current (DC) and alternating-current (AC) magnetic characterizations. DC measurements revealed similar static magnetic properties for the two derivatives, with χMT at room temperature above that for independent spin carriers, but much lower at low temperature. The electronic structure of the iron(ii) ions in each derivative was explored by ab initio (CASSCF-NEVPT2-SO) calculations, which showed that the main magnetic axis of all metals is directed close to the axis of the chain. The outer metals, Fe1 and Fe4, have an easy-axis magnetic anisotropy (D = -11 to -19 cm-1, |E/D| = 0.05-0.18), while the internal metals, Fe2 and Fe3, possess weaker hard-axis anisotropy (D = 8-10 cm-1, |E/D| = 0.06-0.21). These single-ion parameters were held constant in the fitting of DC magnetic data, which revealed ferromagnetic Fe1-Fe2 and Fe3-Fe4 interactions and antiferromagnetic Fe2-Fe3 coupling. The competition between super-exchange interactions and the large, noncollinear anisotropies at metal sites results in a weakly magnetic non-Kramers doublet ground state. This explains the SMM behavior displayed by both derivatives in the AC susceptibility data, with slow magnetic relaxation in 1Br being observable even in zero static field.
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Affiliation(s)
- Alessio Nicolini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia & INSTM, I-41125 Modena, Italy. and Department of Physics, Informatics and Mathematics, University of Modena and Reggio Emilia, I-41125 Modena, Italy
| | - Marco Affronte
- Department of Physics, Informatics and Mathematics, University of Modena and Reggio Emilia, I-41125 Modena, Italy
| | - Daniel J SantaLucia
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, USA
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia & INSTM, I-41125 Modena, Italy.
| | - Benjamin Cahier
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, 45470 Mülheim an der Ruhr, Germany
| | - Matteo Caleffi
- Department of Physics, Informatics and Mathematics, University of Modena and Reggio Emilia, I-41125 Modena, Italy
| | - Antonio Ranieri
- Department of Life Sciences, University of Modena and Reggio Emilia, I-41125 Modena, Italy
| | - John F Berry
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, Wisconsin 53706, USA
| | - Andrea Cornia
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia & INSTM, I-41125 Modena, Italy.
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16
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Di Rocco G, Bighi B, Borsari M, Bortolotti CA, Ranieri A, Sola M, Battistuzzi G. Electron Transfer and Electrocatalytic Properties of the Immobilized Met80Ala Cytochrome
c
Variant in Dimethylsulfoxide. ChemElectroChem 2021. [DOI: 10.1002/celc.202100499] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Giulia Di Rocco
- Department of Life Sciences University of Modena and Reggio Emilia via Campi 103 41125 Modena Italy
| | - Beatrice Bighi
- Department of Chemistry and Geology University of Modena and Reggio Emilia via Campi 103 41125 Modena Italy
| | - Marco Borsari
- Department of Chemistry and Geology University of Modena and Reggio Emilia via Campi 103 41125 Modena Italy
| | - Carlo Augusto Bortolotti
- Department of Life Sciences University of Modena and Reggio Emilia via Campi 103 41125 Modena Italy
| | - Antonio Ranieri
- Department of Life Sciences University of Modena and Reggio Emilia via Campi 103 41125 Modena Italy
| | - Marco Sola
- Department of Life Sciences University of Modena and Reggio Emilia via Campi 103 41125 Modena Italy
| | - Gianantonio Battistuzzi
- Department of Chemistry and Geology University of Modena and Reggio Emilia via Campi 103 41125 Modena Italy
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17
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Bernini F, Castellini E, Sebastianelli L, Bighi B, Sainz‐Díaz CI, Mucci A, Malferrari D, Ranieri A, Brigatti MF, Borsari M. Self‐Assembled Structures from Solid Cadmium(II) Acetate in Thiol/Ethanol Solutions: A Novel Type of Organic Chemical Garden. ChemSystemsChem 2020. [DOI: 10.1002/syst.202000048] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Fabrizio Bernini
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Elena Castellini
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Lorenzo Sebastianelli
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Beatrice Bighi
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Claro Ignacio Sainz‐Díaz
- Instituto Andaluz de Ciencias de la Tierra (CSIC-UGR) Av. de las Palmeras, 4 18100 Armilla Granada Spain
| | - Adele Mucci
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Daniele Malferrari
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Antonio Ranieri
- Department of Life Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Maria Franca Brigatti
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences University of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
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18
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Lancellotti L, Borsari M, Bellei M, Bonifacio A, Bortolotti CA, Di Rocco G, Ranieri A, Sola M, Battistuzzi G. Urea-induced denaturation of immobilized yeast iso-1 cytochrome c: Role of Met80 and Tyr67 in the thermodynamics of unfolding and promotion of pseudoperoxidase and nitrite reductase activities. Electrochim Acta 2020. [DOI: 10.1016/j.electacta.2020.137237] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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19
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Abstract
Abstract
According to the 1994 IUBMB-IUPAC Joint Commission on Biochemical Nomenclature (JCBN) on chemical and biochemical reactions, two categories of thermodynamics, based on different concepts and different formalisms, are established: (i) chemical thermodynamics, which employ conventional thermodynamic potentials to deal with chemical reactions [1], [2], [3]; and (ii) biochemical thermodynamics, which employ transformed thermodynamic quantities to deal with biochemical reactions based on the formalism proposed by Alberty [4], [5], [6], [7]. We showed that the two worlds of chemical and biochemical thermodynamics, which so far have been treated separately, can be reunified within the same thermodynamic framework. The thermodynamics of chemical reactions, in which all species are explicitly considered with their atoms and charge balanced, are compared with the transformed thermodynamics generally used to treat biochemical reactions where atoms and charges are not balanced. The transformed thermodynamic quantities suggested by Alberty are obtained by a mathematical transformation of the usual thermodynamic quantities. The present analysis demonstrates that the transformed values for Δr
G′0 and Δr
H′0 can be obtained directly, without performing any transformation, by simply writing the chemical reactions with all the pseudoisomers explicitly included and the elements and charges balanced. The appropriate procedures for computing the stoichiometric coefficients for the pseudoisomers are fully explained by means of an example calculation for the biochemical ATP hydrolysis reaction. It is concluded that the analysis reunifies the “two separate worlds” of conventional thermodynamics and transformed thermodynamics.
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Affiliation(s)
| | - Marco Borsari
- Dipartimento di Scienze Chimiche e Geologiche , Università degli Studi di Modena e Reggio Emilia , via Campi 103 , 41125 Modena , Italy
| | - Gerard P. Moss
- School of Biological and Chemical Sciences, Queen Mary University of London , Mile End Road , London E1 4NS, UK
| | - Stefano Iotti
- Department of Pharmacy and Biotechnology (FaBit) , Università di Bologna ; via San Donato 15 , 40127 Bologna , Italy
- National Institute of Biostructures and Biosystems (NIBB) , 00136 Rome , Italy
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20
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Pignataro M, Rocco GD, Lancellotti L, Bernini F, Subramanian K, Castellini E, Bortolotti CA, Malferrari D, Moro D, Valdrè G, Borsari M, Monte FD. Electrochemical data on redox properties of human Cofilin-2 and its Mutant S3D. Data Brief 2020; 33:106345. [PMID: 33024804 PMCID: PMC7528206 DOI: 10.1016/j.dib.2020.106345] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2020] [Revised: 09/15/2020] [Accepted: 09/18/2020] [Indexed: 10/26/2022] Open
Abstract
The reported data are related to a research paper entitled "Phosphorylated cofilin-2 is more prone to oxidative modifications on Cys39 and favors amyloid fibril formation" [1]. Info about the formation and redox properties of the disulfide bridge of a protein is quite difficult to obtain and only in a few cases was it possible to observe a cyclic voltammetry (CV) signal [2,3]. Human cofilin-2 contains two cysteines (Cys39 and Cys80) which can be oxidized in suitable conditions and form a disulfide bridge [1]. For this purpose, CV measurements were carried out on human cofilin-2 WT and its mutant S3D immobilized on a gold electrode coated by an anionic self-assembled monolayer (SAM), after a pre-oxidation time which was fundamental for observing a CV signal relating to the oxidation/reduction process of the disulfide bridge of the proteins. The data include CV curves obtained with and without electrochemical pre-oxidation and after oxidation with H2O2. In addition, the plot of the cathodic peak current vs. electrochemical pre-oxidation time and the pH dependence of the formal potential (E°') are reported. The data obtained by CV measurements were used to determine the time required to form the disulfide bridge for the immobilized proteins and, consequently, to observe the CV signal, to calculate the E°' values and analyse the pH dependence of E°'. The electrochemical data were provided which will be useful for further electrochemical investigations regarding proteins bearing disulfide bridge(s) or cysteines prone to oxidation.
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Affiliation(s)
- Marcello Pignataro
- Department of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, USA
| | - Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Lidia Lancellotti
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Fabrizio Bernini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | | | - Elena Castellini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | | | - Daniele Malferrari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Daniele Moro
- Department of Biological, Geological and Environmental Sciences, University of Bologna, Bologna, Italy
| | - Giovanni Valdrè
- Department of Biological, Geological and Environmental Sciences, University of Bologna, Bologna, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Federica Del Monte
- Gazes Cardiac Research Institute, Medical University of South Carolina, Charleston, USA.,Department of Experimental, Diagnostic and Specialty Medicine (DIMES), School of Medicine, University of Bologna, Bologna, Italy
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21
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Pignataro M, Di Rocco G, Lancellotti L, Bernini F, Subramanian K, Castellini E, Bortolotti CA, Malferrari D, Moro D, Valdrè G, Borsari M, Del Monte F. Phosphorylated cofilin-2 is more prone to oxidative modifications on Cys39 and favors amyloid fibril formation. Redox Biol 2020; 37:101691. [PMID: 32863228 PMCID: PMC7472925 DOI: 10.1016/j.redox.2020.101691] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2020] [Revised: 08/06/2020] [Accepted: 08/17/2020] [Indexed: 02/01/2023] Open
Abstract
Cofilins are small protein of the actin depolymerizing family. Actin polymerization/depolymerization is central to a number of critical cellular physiological tasks making cofilin a key protein for several physiological functions of the cell. Cofilin activity is mainly regulated by phosphorylation on serine residue 3 making this post-translational modification key to the regulation of myofilament integrity. In fact, in this form, the protein segregates in myocardial aggregates in human idiopathic dilated cardiomyopathy. Since myofilament network is an early target of oxidative stress we investigated the molecular changes induced by oxidation on cofilin isoforms and their interplay with the protein phosphorylation state to get insight on whether/how those changes may predispose to early protein aggregation. Using different and complementary approaches we characterized the aggregation properties of cofilin-2 and its phosphomimetic variant (S3D) in response to oxidative stress in silico, in vitro and on isolated cardiomyocytes. We found that the phosphorylated (inactive) form of cofilin-2 is mechanistically linked to the formation of an extended network of fibrillar structures induced by oxidative stress via the formation of a disulfide bond between Cys39 and Cys80. Such phosphorylation-dependent effect is likely controlled by changes in the hydrogen bonding network involving Cys39. We found that the sulfide ion inhibits the formation of such structures. This might represent the mechanism for the protective effect of the therapeutic agent Na2S on ischemic injury.
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Affiliation(s)
- Marcello Pignataro
- Department of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, USA
| | - Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Lidia Lancellotti
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Fabrizio Bernini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | | | - Elena Castellini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | | | - Daniele Malferrari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Daniele Moro
- Department of Biological, Geological and Environmental Sciences, University of Bologna, Bologna, Italy
| | - Giovanni Valdrè
- Department of Biological, Geological and Environmental Sciences, University of Bologna, Bologna, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy.
| | - Federica Del Monte
- Gazes Cardiac Research Institute, Medical University of South Carolina, Charleston, USA; Department of Experimental, Diagnostic and Specialty Medicine (DIMES), School of Medicine, University of Bologna, Bologna, Italy.
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Paradisi A, Bellei M, Paltrinieri L, Bortolotti CA, Di Rocco G, Ranieri A, Borsari M, Sola M, Battistuzzi G. Binding of S. cerevisiae iso-1 cytochrome c and its surface lysine-to-alanine variants to cardiolipin: charge effects and the role of the lipid to protein ratio. J Biol Inorg Chem 2020; 25:467-487. [DOI: 10.1007/s00775-020-01776-1] [Citation(s) in RCA: 9] [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] [Received: 12/16/2019] [Accepted: 03/06/2020] [Indexed: 11/30/2022]
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23
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Paradisi A, Lancellotti L, Borsari M, Bellei M, Bortolotti CA, Di Rocco G, Ranieri A, Sola M, Battistuzzi G. Met80 and Tyr67 affect the chemical unfolding of yeast cytochrome c: comparing the solution vs.immobilized state. RSC Chem Biol 2020. [DOI: 10.1039/d0cb00115e] [Citation(s) in RCA: 3] [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: 12/26/2022] Open
Abstract
The motional regime affects the unfolding propensity and axial heme coordination of the Met80Ala and Met80Ala/Tyr67Ala variants of yeast iso-1 cytochromec.
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Affiliation(s)
| | - Lidia Lancellotti
- Department of Chemistry and Geology
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | - Marco Borsari
- Department of Chemistry and Geology
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | - Marzia Bellei
- Department of Life Sciences
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | | | - Giulia Di Rocco
- Department of Life Sciences
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | - Antonio Ranieri
- Department of Life Sciences
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
| | - Marco Sola
- Department of Life Sciences
- University of Modena and Reggio Emilia
- 41126 Modena
- Italy
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24
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Ranieri A, Bortolotti CA, Di Rocco G, Battistuzzi G, Sola M, Borsari M. Electrocatalytic Properties of Immobilized Heme Proteins: Basic Principles and Applications. ChemElectroChem 2019. [DOI: 10.1002/celc.201901178] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [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)
- Antonio Ranieri
- Department of Life SciencesUniversity of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Carlo Augusto Bortolotti
- Department of Life SciencesUniversity of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Giulia Di Rocco
- Department of Life SciencesUniversity of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Gianantonio Battistuzzi
- Department of Chemical and Geological SciencesUniversity of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Marco Sola
- Department of Life SciencesUniversity of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
| | - Marco Borsari
- Department of Chemical and Geological SciencesUniversity of Modena and Reggio Emilia Via Campi 103 41125 Modena Italy
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25
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Ravenscroft G, Zaharieva IT, Bortolotti CA, Lambrughi M, Pignataro M, Borsari M, Sewry CA, Phadke R, Haliloglu G, Ong R, Goullée H, Whyte T, Consortium UK, Manzur A, Talim B, Kaya U, Osborn DPS, Forrest ARR, Laing NG, Muntoni F. Bi-allelic mutations in MYL1 cause a severe congenital myopathy. Hum Mol Genet 2019; 27:4263-4272. [PMID: 30215711 DOI: 10.1093/hmg/ddy320] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2018] [Accepted: 09/07/2018] [Indexed: 01/26/2023] Open
Abstract
Congenital myopathies are typically characterised by early onset hypotonia, weakness and hallmark features on biopsy. Despite the rapid pace of gene discovery, ∼50% of patients with a congenital myopathy remain without a genetic diagnosis following screening of known disease genes. We performed exome sequencing on two consanguineous probands diagnosed with a congenital myopathy and muscle biopsy showing selective atrophy/hypotrophy or absence of type II myofibres. We identified variants in the gene (MYL1) encoding the skeletal muscle fast-twitch specific myosin essential light chain (ELC) in both probands. A homozygous essential splice acceptor variant (c.479-2A > G, predicted to result in skipping of exon 5 was identified in Proband 1, and a homozygous missense substitution (c.488T>G, p.(Met163Arg)) was identified in Proband 2. Protein modelling of the p.(Met163Arg) substitution predicted it might impede intermolecular interactions that facilitate binding to the IQ domain of myosin heavy chain, thus likely impacting on the structure and functioning of the myosin motor. MYL1 was markedly reduced in skeletal muscle from both probands, suggesting that the missense substitution likely results in an unstable protein. Knock down of myl1 in zebrafish resulted in abnormal morphology, disrupted muscle structure and impaired touch-evoked escape responses, thus confirming that skeletal muscle fast-twitch specific myosin ELC is critical for myofibre development and function. Our data implicate MYL1 as a crucial protein for adequate skeletal muscle function and that MYL1 deficiency is associated with severe congenital myopathy.
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Affiliation(s)
- Gianina Ravenscroft
- Harry Perkins Institute of Medical Research, Centre for Medical Research, University of Western Australia, Nedlands WA, Australia
| | - Irina T Zaharieva
- The Dubowitz Neuromuscular Centre, University College London Great Ormond Street Institute of Child Health & Great Ormond Street Hospital, London, UK
| | - Carlo A Bortolotti
- Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Matteo Lambrughi
- Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Marcello Pignataro
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Caroline A Sewry
- The Dubowitz Neuromuscular Centre, University College London Great Ormond Street Institute of Child Health & Great Ormond Street Hospital, London, UK
| | - Rahul Phadke
- The Dubowitz Neuromuscular Centre, University College London Great Ormond Street Institute of Child Health & Great Ormond Street Hospital, London, UK
| | - Goknur Haliloglu
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Royston Ong
- Harry Perkins Institute of Medical Research, Centre for Medical Research, University of Western Australia, Nedlands WA, Australia
| | - Hayley Goullée
- Harry Perkins Institute of Medical Research, Centre for Medical Research, University of Western Australia, Nedlands WA, Australia
| | - Tamieka Whyte
- The Dubowitz Neuromuscular Centre, University College London Great Ormond Street Institute of Child Health & Great Ormond Street Hospital, London, UK
| | | | - Adnan Manzur
- The Dubowitz Neuromuscular Centre, University College London Great Ormond Street Institute of Child Health & Great Ormond Street Hospital, London, UK
| | - Beril Talim
- Pediatric Pathology Unit, Hacettepe University Children's Hospital, Ankara, Turkey
| | - Ulkuhan Kaya
- Department of Pediatric Neurology, Dr. Sami Ulus Maternity and Children's Research and Training Hospital, Ministry of Health, Ankara, Turkey
| | - Daniel P S Osborn
- Cardiovascular and Cell Sciences Institute, St George's University of London, Cranmer Terrace, London SW17 0RE, UK
| | - Alistair R R Forrest
- Harry Perkins Institute of Medical Research, Centre for Medical Research, University of Western Australia, Nedlands WA, Australia
| | - Nigel G Laing
- Harry Perkins Institute of Medical Research, Centre for Medical Research, University of Western Australia, Nedlands WA, Australia
| | - Francesco Muntoni
- The Dubowitz Neuromuscular Centre, University College London Great Ormond Street Institute of Child Health & Great Ormond Street Hospital, London, UK.,NIHR Great Ormond Street Hospital Biomedical Research Centre, 30 Guilford Street, London WC1N 1EH, UK
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Castellini E, Malferrari D, Bernini F, Sainz Diaz CI, Mucci A, Sola M, Brigatti MF, Borsari M. Trapping at the Solid-Gas Interface: Selective Adsorption of Naphthalene by Montmorillonite Intercalated with a Fe(III)-Phenanthroline Complex. ACS Omega 2019; 4:7785-7794. [PMID: 31459867 PMCID: PMC6648092 DOI: 10.1021/acsomega.9b00335] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/05/2019] [Accepted: 04/17/2019] [Indexed: 05/26/2023]
Abstract
In this study, stable hybrid materials (Mt-Fe(III)Phen), made by the μ-oxo Fe(III)-phenanthroline complex [(OH2)3(Phen)FeOFe(Phen)(OH2)3]4+ (Fe(III)Phen) intercalated in different amounts into montmorillonite (Mt), were used as a trap for immobilizing gaseous benzene and naphthalene and their mono chloro-derivatives at 25 and 50 °C. The entrapping process was studied through elemental analysis, magic angle spinning NMR spectroscopy, thermal analysis, and evolved gas mass spectrometry. Naphthalene and 1-chloronaphthalene were found to be immobilized in large amount at both temperatures. Molecular modeling allowed designing of the structure of the interlayer in the presence of the immobilized aromatic molecules. Adsorption is affected by the amount of the Fe complex hosted in the interlayer of the entrapping hybrid materials. On the contrary, under the same conditions, benzene and chlorobenzene were not adsorbed. Thermal desorption of naphthalenes was obtained under mild conditions, and immobilization was found to be reversible at least for 20 adsorption/desorption cycles.
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Affiliation(s)
- Elena Castellini
- Department
of Chemical and Geological Sciences, University
of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Daniele Malferrari
- Department
of Chemical and Geological Sciences, University
of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Fabrizio Bernini
- Department
of Chemical and Geological Sciences, University
of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Claro Ignacio Sainz Diaz
- Instituto
Andaluz de Ciencias de la Tierra (CSIC-UGR), Av. de las Palmeras, 4, 18100-Armilla, Granada, Spain
| | - Adele Mucci
- Department
of Chemical and Geological Sciences, University
of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Marco Sola
- Department
of Chemical and Geological Sciences, University
of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Maria Franca Brigatti
- Department
of Chemical and Geological Sciences, University
of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Marco Borsari
- Department
of Chemical and Geological Sciences, University
of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
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Nicolini A, Galavotti R, Barra AL, Borsari M, Caleffi M, Luo G, Novitchi G, Park K, Ranieri A, Rigamonti L, Roncaglia F, Train C, Cornia A. Filling the Gap in Extended Metal Atom Chains: Ferromagnetic Interactions in a Tetrairon(II) String Supported by Oligo-α-pyridylamido Ligands. Inorg Chem 2018; 57:5438-5448. [PMID: 29668273 DOI: 10.1021/acs.inorgchem.8b00405] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The stringlike complex [Fe4(tpda)3Cl2] (2; H2tpda = N2, N6-bis(pyridin-2-yl)pyridine-2,6-diamine) was obtained as the first homometallic extended metal atom chain based on iron(II) and oligo-α-pyridylamido ligands. The synthesis was performed under strictly anaerobic and anhydrous conditions using dimesityliron, [Fe2(Mes)4] (1; HMes = mesitylene), as both an iron source and a deprotonating agent for H2tpda. The four lined-up iron(II) ions in the structure of 2 (Fe···Fe = 2.94-2.99 Å, Fe···Fe···Fe = 171.7-168.8°) are wrapped by three doubly deprotonated twisted ligands, and the chain is capped at its termini by two chloride ions. The spectroscopic and electronic properties of 2 were investigated in dichloromethane by UV-vis-NIR absorption spectroscopy, 1H NMR spectroscopy, and cyclic voltammetry. The electrochemical measurements showed four fully resolved, quasi-reversible one-electron-redox processes, implying that 2 can adopt five oxidation states in a potential window of only 0.8 V. Direct current (dc) magnetic measurements indicate dominant ferromagnetic coupling at room temperature, although the ground state is only weakly magnetic. On the basis of density functional theory and angular overlap model calculations, this magnetic behavior was explained as being due to two pairs of ferromagnetically coupled iron(II) ions ( J = -21 cm-1 using JŜ i·Ŝ j convention) weakly antiferromagnetically coupled with each other. Alternating-current susceptibility data in the presence of a 2 kOe dc field and at frequencies up to 1.5 kHz revealed the onset of slow magnetic relaxation below 2.8 K, with the estimated energy barrier Ueff/ kB = 10.1(1.3) K.
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Affiliation(s)
- Alessio Nicolini
- Department of Chemical and Geological Sciences , University of Modena and Reggio Emilia & INSTM , I-41125 Modena , Italy.,Department of Physics, Informatics and Mathematics , University of Modena and Reggio Emilia , I-41125 Modena , Italy
| | - Rita Galavotti
- Department of Chemical and Geological Sciences , University of Modena and Reggio Emilia & INSTM , I-41125 Modena , Italy
| | - Anne-Laure Barra
- Laboratoire National des Champs Magnétiques Intenses-CNRS , Université Grenoble-Alpes , F-38042 Grenoble Cedex 9 , France
| | - Marco Borsari
- Department of Chemical and Geological Sciences , University of Modena and Reggio Emilia & INSTM , I-41125 Modena , Italy
| | - Matteo Caleffi
- Department of Chemical and Geological Sciences , University of Modena and Reggio Emilia & INSTM , I-41125 Modena , Italy
| | - Guangpu Luo
- Department of Physics , Virginia Tech , Blacksburg , Virginia 24061 , United States
| | - Ghenadie Novitchi
- Laboratoire National des Champs Magnétiques Intenses-CNRS , Université Grenoble-Alpes , F-38042 Grenoble Cedex 9 , France
| | - Kyungwha Park
- Department of Physics , Virginia Tech , Blacksburg , Virginia 24061 , United States
| | - Antonio Ranieri
- Department of Life Sciences , University of Modena and Reggio Emilia , I-41125 Modena , Italy
| | - Luca Rigamonti
- Department of Chemical and Geological Sciences , University of Modena and Reggio Emilia & INSTM , I-41125 Modena , Italy
| | - Fabrizio Roncaglia
- Department of Chemical and Geological Sciences , University of Modena and Reggio Emilia & INSTM , I-41125 Modena , Italy
| | - Cyrille Train
- Laboratoire National des Champs Magnétiques Intenses-CNRS , Université Grenoble-Alpes , F-38042 Grenoble Cedex 9 , France
| | - Andrea Cornia
- Department of Chemical and Geological Sciences , University of Modena and Reggio Emilia & INSTM , I-41125 Modena , Italy
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Bellei M, Bortolotti CA, Di Rocco G, Borsari M, Lancellotti L, Ranieri A, Sola M, Battistuzzi G. The influence of the Cys46/Cys55 disulfide bond on the redox and spectroscopic properties of human neuroglobin. J Inorg Biochem 2018; 178:70-86. [DOI: 10.1016/j.jinorgbio.2017.10.005] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2017] [Revised: 09/21/2017] [Accepted: 10/09/2017] [Indexed: 12/21/2022]
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29
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Bertini L, Breglia R, Lambrughi M, Fantucci P, De Gioia L, Borsari M, Sola M, Bortolotti CA, Bruschi M. Catalytic Mechanism of Fungal Lytic Polysaccharide Monooxygenases Investigated by First-Principles Calculations. Inorg Chem 2017; 57:86-97. [PMID: 29232119 DOI: 10.1021/acs.inorgchem.7b02005] [Citation(s) in RCA: 62] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
Lytic polysaccharide monooxygenases (LPMOs) are Cu-containing enzymes that facilitate the degradation of recalcitrant polysaccharides by the oxidative cleavage of glycosidic bonds. They are gaining rapidly increasing attention as key players in biomass conversion, especially for the production of second-generation biofuels. Elucidation of the detailed mechanism of the LPMO reaction is a major step toward the assessment and optimization of LPMO efficacy in industrial biotechnology, paving the way to utilization of sustainable fuel sources. Here, we used density functional theory calculations to study the reaction pathways suggested to date, exploiting a very large active-site model for a fungal AA9 LPMO and using a celloheptaose unit as a substrate mimic. We identify a copper oxyl intermediate as being responsible for H-atom abstraction from the substrate, followed by a rapid, water-assisted hydroxyl rebound, leading to substrate hydroxylation.
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Affiliation(s)
- Luca Bertini
- Department of Biotechnology and Biosciences, University of Milan-Bicocca , Piazza della Scienza 2, 20126 Milan, Italy
| | - Raffaella Breglia
- Department of Earth and Environmental Sciences, University of Milan-Bicocca , Piazza della Scienza 1, 20126 Milan, Italy
| | | | - Piercarlo Fantucci
- Department of Biotechnology and Biosciences, University of Milan-Bicocca , Piazza della Scienza 2, 20126 Milan, Italy
| | - Luca De Gioia
- Department of Biotechnology and Biosciences, University of Milan-Bicocca , Piazza della Scienza 2, 20126 Milan, Italy
| | | | | | | | - Maurizio Bruschi
- Department of Earth and Environmental Sciences, University of Milan-Bicocca , Piazza della Scienza 1, 20126 Milan, Italy
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30
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Zanetti Polzi L, Battistuzzi G, Borsari M, Pignataro M, Paltrinieri L, Daidone I, Bortolotti CA. Computational investigation of the electron transfer complex between neuroglobin and cytochrome c. Supramol Chem 2017. [DOI: 10.1080/10610278.2017.1377342] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- Laura Zanetti Polzi
- Department of Physical and Chemical Sciences, University of L’Aquila, L’Aquila, Italy
| | - Gianantonio Battistuzzi
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Marcello Pignataro
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Licia Paltrinieri
- Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Isabella Daidone
- Department of Physical and Chemical Sciences, University of L’Aquila, L’Aquila, Italy
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31
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Benedetti L, Borsari M, Fontanesi C, Battistuzzi Gavioli G. Kinetics of compact layer formation and growth of 1,10-phenanthroline at the electrode surface. ACTA ACUST UNITED AC 2017. [DOI: 10.1051/jcp/1990871597] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [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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32
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Brigatti MF, Díaz CIS, Borsari M, Bernini F, Castellini E, Malferrari D. Crystal chemical characterization and computational modeling of a μ-oxo Fe(III) complex with 1,10-phenanthroline clarify its interaction and reactivity with montmorillonite. Rend Fis Acc Lincei 2017. [DOI: 10.1007/s12210-017-0615-1] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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33
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Bernini F, Malferrari D, Pignataro M, Bortolotti CA, Di Rocco G, Lancellotti L, Brigatti MF, Kayed R, Borsari M, del Monte F, Castellini E. Erratum: Corrigendum: Pre-amyloid oligomers budding:a metastatic mechanism of proteotoxicity. Sci Rep 2017; 7:40897. [PMID: 28102308 PMCID: PMC5244627 DOI: 10.1038/srep40897] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022] Open
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34
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Bernini F, Castellini E, Malferrari D, Castro GR, Sainz Díaz CI, Brigatti MF, Borsari M. Effective and Selective Trapping of Volatile Organic Sulfur Derivatives by Montmorillonite Intercalated with a μ-oxo Fe(III)-Phenanthroline Complex. ACS Appl Mater Interfaces 2017; 9:1045-1056. [PMID: 27943670 DOI: 10.1021/acsami.6b11906] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
The μ-oxo Fe(III)-phenanthroline complex [(OH2)3(Phen)FeOFe(Phen) (OH2)3]+4 intercalated in montmorillonite provides a stable hybrid material. In this study, the ability and efficiency of this material to immobilize thiols in gas phase, acting as a trap at the solid-gas interface, were investigated. Aliphatic thiols containing both hydrophilic and hydrophobic end groups were chosen to test the selectivity of this gas trap. DR-UV-vis, IR, elemental analysis, thermal analysis and evolved gas mass spectrometry, X-ray powder diffraction, and X-ray absorption spectroscopy techniques were employed to characterize the hybrid material before and after thiol exposure and to provide information on the entrapping process. Thiol immobilization is very large, up to 21% w/w for heptanethiol. In addition, evidence was obtained that immobilization occurs through the formation of a covalent bond between the iron of the complex and the sulfur of the thiol. This provides an immobilization process characterized by a higher stability with respect to the methods based on physi-adsorption. Thiol immobilization resulted thermally reversible at least for 20 adsorption/desorption cycles. Unlike standard desulfurization processes like hydrotreating and catalytic oxidation which work at high temperatures and pressures, the present system is able to efficiently trap thiols at room temperature and pressure, thus saving energy. Furthermore, we found that the selectivity of thiol immobilization can be tuned acting on the amount of complex intercalated in montmorillonite. In particular, montmorillonite semisaturated with the complex captures both hydrophobic and hydrophilic thiols, while the saturated montmorillonite shows a strong selectivity toward the hydrophobic molecules.
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Affiliation(s)
- Fabrizio Bernini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia , Via Campi 103, I-41125 Modena, Italy
| | - Elena Castellini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia , Via Campi 103, I-41125 Modena, Italy
| | - Daniele Malferrari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia , Via Campi 103, I-41125 Modena, Italy
| | - German Rafael Castro
- SpLine, Spanish CRG BM25 Beamline at the ESRF , 6 Jules Horowitz, F-38043 Grenoble, France
- Instituto de Ciencia de Materiales de Madrid (ICMM), CSIC , c. Sor Juan Inés de la Cruz 3, E-28049 Madrid, Spain
| | - Claro Ignacio Sainz Díaz
- Instituto Andaluz de Ciencias de la Tierra (IACT) CSIC, Universidad de Granada , Av.da Las Palmeras 4, 18100 Granada, Spain
| | - Maria Franca Brigatti
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia , Via Campi 103, I-41125 Modena, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia , Via Campi 103, I-41125 Modena, Italy
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Ferraroni M, Westphal AH, Borsari M, Tamayo-Ramos JA, Briganti F, Graaff LHD, Berkel WJHV. Structure and function of Aspergillus niger laccase McoG. ACTA ACUST UNITED AC 2017. [DOI: 10.1515/boca-2017-0001] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
AbstractThe ascomycete Aspergillus niger produces several multicopper oxidases, but their biocatalytic properties remain largely unknown. Elucidation of the crystal structure of A. niger laccase McoG at 1.7 Å resolution revealed that the C-terminal tail of this glycoprotein blocks the T3 solvent channel and that a peroxide ion bridges the two T3 copper atoms. Remarkably, McoG contains a histidine (His253) instead of the common aspartate or glutamate expected to be involved in catalytic proton transfer with phenolic compounds. The crystal structure of H253D at 1.5 Å resolution resembles the wild type structure. McoG and the H253D, H253A and H253N variants have similar activities with 2,2’-azino-bis(3- ethylbenzothiazoline-6-sulphonic acid or N,N-dimethyl-p-phenylenediamine sulphate. However, the activities of H253A and H253N with 2-amino-4-methylphenol and 2-amino-4-methoxyphenol are strongly reduced compared to that of wild type. The redox potentials and electron transfer rates (k
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Di Rocco G, Bernini F, Borsari M, Martinelli I, Bortolotti CA, Battistuzzi G, Ranieri A, Caselli M, Sola M, Ponterini G. Excitation-Energy Transfer Paths from Tryptophans to Coordinated Copper Ions in Engineered Azurins: a Source of Observables for Monitoring Protein Structural Changes. Z PHYS CHEM 2016. [DOI: 10.1515/zpch-2015-0749] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
The intrinsic fluorescence of recombinant proteins offers a powerful tool to detect and characterize structural changes
induced by chemical or biological stimuli. We show that metal-ion binding to a hexahistidine tail can significantly
broaden the range of such structurally sensitive fluorescence observables. Bipositive metal-ions as Cu2+,
Ni2+ and Zn2+ bind 6xHis-tag azurin and its 6xHis-tagged R129W and W48A-R129W mutants with good
efficiency and, thereby, quench their intrinsic fluorescence. Due to a much more favourable spectral overlap, the
6xHis-tag/Cu2+ complex(es) are the most efficient quenchers of both W48 and W129 emissions. Based on simple
Förster-type dependence of energy-transfer efficiency on donor/acceptor distance, we can trace several
excitation-energy transfer paths across the protein structure. Unexpected lifetime components in the azurin
6xHis-tag/Cu2+ complex emission decays reveal underneath complexity in the conformational landscape of these
systems. The new tryptophan emission quenching paths provide additional signals for detecting and identifying protein
structural changes.
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Affiliation(s)
- Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Fabrizio Bernini
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Marco Borsari
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Ilaria Martinelli
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Carlo Augusto Bortolotti
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
- CNR-NANO Institute of Nanoscience, Via Campi 213/A, I-41125 Modena, Italy
| | - Gianantonio Battistuzzi
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Antonio Ranieri
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | - Monica Caselli
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
| | | | - Glauco Ponterini
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 103, I-41125 Modena, Italy
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37
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Casalini S, Berto M, Kovtun A, Operamolla A, Di Rocco G, Facci P, Liscio A, Farinola GM, Borsari M, Bortolotti CA. Surface Immobilized His-tagged Azurin as a Model Interface for the Investigation of Vectorial Electron Transfer in Biological Systems. Electrochim Acta 2015. [DOI: 10.1016/j.electacta.2015.07.156] [Citation(s) in RCA: 6] [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] [Indexed: 11/27/2022]
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38
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Ranieri A, Di Rocco G, Millo D, Battistuzzi G, Bortolotti CA, Lancellotti L, Borsari M, Sola M. Thermodynamics and kinetics of reduction and species conversion at a hydrophobic surface for mitochondrial cytochromes c and their cardiolipin adducts. Electrochim Acta 2015. [DOI: 10.1016/j.electacta.2015.07.065] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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39
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Casalini S, Berto M, Bortolotti CA, Foschi G, Operamolla A, Di Lauro M, Omar OH, Liscio A, Pasquali L, Montecchi M, Farinola GM, Borsari M. Electrowetting of nitro-functionalized oligoarylene thiols self-assembled on polycrystalline gold. ACS Appl Mater Interfaces 2015; 7:3902-3909. [PMID: 25646868 DOI: 10.1021/am509104z] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Four linear terarylene molecules (i) 4-nitro-terphenyl-4″-methanethiol (NTM), (ii) 4-nitro-terphenyl-3″,5″-dimethanethiol (NTD), (iii) ([1,1';4',1″] terphenyl-3,5-diyl)methanethiol (TM), and (iv) ([1,1';4',1″] terphenyl-3,5-diyl)dimethanethiol (TD) have been synthesized and their self-assembled monolayers (SAMs) have been obtained on polycrystalline gold. NTM and NTD SAMs have been characterized by X-ray photoelectron spectroscopy, Kelvin probe measurements, electrochemistry, and contact angle measurements. The terminal nitro group (-NO2) is irreversibly reduced to hydroxylamine (-NHOH), which can be reversibly turned into nitroso group (-NO). The direct comparison between NTM/NTD and TM/TD SAMs unambiguously shows the crucial influence of the nitro group on electrowetting properties of polycrystalline Au. The higher grade of surface tension related to NHOH has been successfully exploited for basic operations of digital μ-fluidics, such as droplets motion and merging.
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Affiliation(s)
- Stefano Casalini
- Università degli Studi di Modena e Reggio Emilia , Dipartimento di Scienze della Vita, via Campi 183, I-41125 Modena, Italy
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Ranieri A, Millo D, Di Rocco G, Battistuzzi G, Bortolotti CA, Borsari M, Sola M. Immobilized cytochrome c bound to cardiolipin exhibits peculiar oxidation state-dependent axial heme ligation and catalytically reduces dioxygen. J Biol Inorg Chem 2015; 20:531-40. [PMID: 25627142 DOI: 10.1007/s00775-015-1238-6] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2014] [Accepted: 12/27/2014] [Indexed: 11/26/2022]
Abstract
Mitochondrial cytochrome c (cytc) plays an important role in programmed cell death upon binding to cardiolipin (CL), a negatively charged phospholipid of the inner mitochondrial membrane (IMM). Although this binding has been thoroughly investigated in solution, little is known on the nature and reactivity of the adduct (cytc-CL) immobilized at IMM. In this work, we have studied electrochemically cytc-CL immobilized on a hydrophobic self-assembled monolayer (SAM) of decane-1-thiol. This construct would reproduce the motional restriction and the nonpolar environment experienced by cytc-CL at IMM. Surface-enhanced resonance Raman (SERR) studies allowed the axial heme iron ligands to be identified, which were found to be oxidation state dependent and differ from those of cytc-CL in solution. In particular, immobilized cytc-CL experiences an equilibrium between a low-spin (LS) 6c His/His and a high-spin (HS) 5c His/- coordination states. The former prevails in the oxidized and the latter in the reduced form. Axial coordination of the ferric heme thus differs from the (LS) 6c His/Lys and (LS) 6c His/OH(-) states observed in solution. Moreover, a relevant finding is that the immobilized ferrous cytc-CL is able to catalytically reduce dioxygen, likely to superoxide ion. These findings indicate that restriction of motional freedom due to interaction with the membrane is an additional factor playing in the mechanism of cytc unfolding and cytc-mediated peroxidation functional to the apoptosis cascade.
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Affiliation(s)
- Antonio Ranieri
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 183, 41125, Modena, Italy
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Daidone I, Paltrinieri L, Amadei A, Battistuzzi G, Sola M, Borsari M, Bortolotti CA. Unambiguous Assignment of Reduction Potentials in Diheme Cytochromes. J Phys Chem B 2014; 118:7554-7560. [DOI: 10.1021/jp506017a] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Isabella Daidone
- Department
of Physical and Chemical Sciences, University of L’Aquila, via
Vetoio (Coppito 1), 67010 L’Aquila, Italy
| | - Licia Paltrinieri
- Department
of Chemical and Geological Sciences, University of Modena and Reggio Emilia, via Campi 183, 41125 Modena, Italy
| | - Andrea Amadei
- Department
of Chemical Sciences and Technologies, University of Rome “Tor Vergata”, via della Ricerca Scientifica 1, 00133 Rome, Italy
| | - Gianantonio Battistuzzi
- Department
of Chemical and Geological Sciences, University of Modena and Reggio Emilia, via Campi 183, 41125 Modena, Italy
| | - Marco Sola
- Department
of Life Sciences, University of Modena and Reggio Emilia, via Campi
183, 41125 Modena, Italy
- CNR-Nano Institute
of Nanoscience, via Campi 213/A, 41125 Modena, Italy
| | - Marco Borsari
- Department
of Chemical and Geological Sciences, University of Modena and Reggio Emilia, via Campi 183, 41125 Modena, Italy
| | - Carlo Augusto Bortolotti
- Department
of Life Sciences, University of Modena and Reggio Emilia, via Campi
183, 41125 Modena, Italy
- CNR-Nano Institute
of Nanoscience, via Campi 213/A, 41125 Modena, Italy
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Daidone I, Amadei A, Zaccanti F, Borsari M, Bortolotti CA. How the Reorganization Free Energy Affects the Reduction Potential of Structurally Homologous Cytochromes. J Phys Chem Lett 2014; 5:1534-40. [PMID: 26270092 DOI: 10.1021/jz5005208] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Differences in the reduction potential E(0) among structurally similar metalloproteins cannot always be fully explained on the basis of their 3-D structures. We investigate the molecular determinants to E(0) using the mixed quantum mechanics/molecular mechanics approach named perturbed matrix method (PMM); after comparison with experimental values to assess the reliability of our calculations, we investigate the relationship between the change in free energy upon reduction ΔA(0) and the reorganization energy. We find that the reduction potential of cytochromes can be regarded as the result of the sum of two terms, one being mostly dependent on the energy fluctuations within a limited range around the mean transition energy and the second being mostly dependent linearly on the difference Δλ = λred - λox of the reorganization free energies for the ox → red (λred) and for the red → ox (λox) relaxations.
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Affiliation(s)
- Isabella Daidone
- †Department of Physical and Chemical Sciences, University of L'Aquila, via Vetoio (Coppito 1), 67010 L'Aquila, Italy
| | - Andrea Amadei
- ‡Department of Chemical Sciences and Technologies, University of Rome "Tor Vergata", via della Ricerca Scientifica 1, 00133 Rome, Italy
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Cesari R, Santilli G, Scarlattei D, Marotta M, Borsari M. DD-006 Prescriptions and equipment for unit dose capecitabine in Oncology Pharmacy Laboratory – Ausl Bologna – Italy. Eur J Hosp Pharm 2014. [DOI: 10.1136/ejhpharm-2013-000436.160] [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: 11/03/2022] Open
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Di Rocco G, Ranieri A, Bortolotti CA, Battistuzzi G, Bonifacio A, Sergo V, Borsari M, Sola M. Axial iron coordination and spin state change in a heme c upon electrostatic protein-SAM interaction. Phys Chem Chem Phys 2014; 15:13499-505. [PMID: 23824165 DOI: 10.1039/c3cp50222h] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
A bacterial di-heme cytochrome c binds electrostatically to a gold electrode surface coated with a negatively charged COOH-terminated SAM adopting a sort of 'perpendicular' orientation. Cyclic voltammetry, Resonance Raman and SERRS spectroscopies indicate that the high-potential C-terminal heme center proximal to the SAM's surface undergoes an adsorption-induced swapping of one axial His ligand with a water molecule, which is probably lost in the reduced form, and a low- to high-spin transition. This coordination change for a bis-His ligated heme center upon an electrostatically-driven molecular recognition is as yet unprecedented, as well as the resulting increase in reduction potential. We discuss it in comparison with the known methionine ligand lability in monoheme cytochromes c occurring upon interaction with charged molecular patches. One possible implication of this finding in biological ET is that mobile redox partners do not behave as rigid and invariant bodies, but in the ET complex are subjected to molecular changes and structural fluctuations that affect in a complex way the thermodynamics and the kinetics of the process.
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Affiliation(s)
- Giulia Di Rocco
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 183, I-41125 Modena, Italy
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Ranieri A, Bortolotti CA, Battistuzzi G, Borsari M, Paltrinieri L, Di Rocco G, Sola M. Effect of motional restriction on the unfolding properties of a cytochrome c featuring a His/Met–His/His ligation switch. Metallomics 2014; 6:874-84. [DOI: 10.1039/c3mt00311f] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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Casalini S, Berto M, Leonardi F, Operamolla A, Bortolotti CA, Borsari M, Sun W, Di Felice R, Corni S, Albonetti C, Hassan Omar O, Farinola GM, Biscarini F. Self-assembly of mono- and bidentate oligoarylene thiols onto polycrystalline Au. Langmuir 2013; 29:13198-13208. [PMID: 24073939 DOI: 10.1021/la402217c] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Four thiolated oligoarylene molecules (i) 4-methoxy-terphenyl-4″-methanethiol (MTM), (ii) 4-methoxy-terphenyl-3″,5″-dimethanethiol (MTD), (iii) 4-nitro-terphenyl-4″-methanethiol (NTM), and (iv) 4-nitro-terphenyl-3″,5″-dimethanethiol (NTD) were synthesized and self-assembled as monolayers (SAMs) on polycrystalline Au electrodes of organic field-effect transistors (OFETs). SAMs were characterized by contact angle and AC/DC electrochemical measurements, whereas atomic force microscopy was used for imaging the pentacene films grown on the coated electrodes. The electrical properties of functionalized OFETs, the electrochemical SAMs features and the morphology of pentacene films were correlated to the molecular organization of the thiolated oligoarylenes on Au, as calculated by means of the density functional theory. This multi-methodological approach allows us to associate the systematic replacement of the SAM anchoring head group (viz. methanethiol and dimethanethiol) and/or terminal tail group (viz. nitro-, -NO2, and methoxy, -OCH3) with the change of the electrical features. The dimethanethiol head group endows SAMs with higher resistive features along with higher surface tensions compared with methanethiol. Furthermore, the different number of thiolated heads affects the kinetics of Au passivation as well as the pentacene morphology. On the other hand, the nitro group confers further distinctive properties, such as the positive shift of both threshold and critical voltages of OFETs with respect to the methoxy one. The latter experimental evidence arise from its electron-withdrawing capability, which has been verified by both DFT calculations and DC electrochemical measurements.
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Affiliation(s)
- S Casalini
- Consiglio Nazionale delle Ricerche - Istituto per lo Studio dei Materiali Nanostrutturati (CNR-ISMN) , via P. Gobetti 101, 40129 Bologna, Italy
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Paltrinieri L, Borsari M, Battistuzzi G, Sola M, Dennison C, de Groot BL, Corni S, Bortolotti CA. How the dynamics of the metal-binding loop region controls the acid transition in cupredoxins. Biochemistry 2013; 52:7397-404. [PMID: 24063705 DOI: 10.1021/bi400860n] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Many reduced cupredoxins undergo a pH-dependent structural rearrangement, triggered by protonation of the His ligand belonging to the C-terminal hydrophobic loop, usually termed the acid transition. At variance with several members of the cupredoxin family, the acid transition is not observed for azurin (AZ). We have addressed this issue by performing molecular dynamics simulations of AZ and four mutants, in which the C-terminal loop has been replaced with those of other cupredoxins or with polyalanine loops. All of the loop mutants undergo the acid transition in the pH range of 4.4-5.5. The main differences between AZ and its loop mutants are the average value of the active site solvent accessible surface area and the extent of its fluctuations with time, together with an altered structure of the water layer around the copper center. Using functional mode analysis, we found that these variations arise from changes in nonbonding interactions in the second coordination sphere of the copper center, resulting from the loop mutation. Our results strengthen the view that the dynamics at the site relevant for function and its surroundings are crucial for protein activity and for metal-containing electron transferases.
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Affiliation(s)
- Licia Paltrinieri
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia , via Campi 183, 41125 Modena, Italy
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Paltrinieri L, Borsari M, Ranieri A, Battistuzzi G, Corni S, Bortolotti CA. The Active Site Loop Modulates the Reorganization Energy of Blue Copper Proteins by Controlling the Dynamic Interplay with Solvent. J Phys Chem Lett 2013; 4:710-715. [PMID: 26281923 DOI: 10.1021/jz302125k] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Understanding the factors governing the rate of electron transfer processes in proteins is crucial not only to a deeper understanding of redox processes in living organisms but also for the design of efficient devices featuring biological molecules. Here, molecular dynamics simulations performed on native azurin and four chimeric cupredoxins allow for the calculation of the reorganization energy and of structure-related quantities that were used to clarify the molecular determinants to the dynamics/function relationship in blue copper proteins. We find that the dynamics of the small, metal-binding loop region controls the outer-sphere reorganization energy not only by determining the exposure of the active site to solvent but also through the modulation of the redox-dependent rearrangement of the whole protein scaffold and of the surrounding water molecules.
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Affiliation(s)
| | | | | | | | - Stefano Corni
- ¶CNR-Nano Institute of Nanoscience, via Campi 213/A, 41125 Modena, Italy
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Ranieri A, Battistuzzi G, Borsari M, Bortolotti CA, Di Rocco G, Sola M. pH and solvent H/D isotope effects on the thermodynamics and kinetics of electron transfer for electrode-immobilized native and urea-unfolded stellacyanin. Langmuir 2012; 28:15087-15094. [PMID: 23009339 DOI: 10.1021/la303363h] [Citation(s) in RCA: 14] [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] [Indexed: 06/01/2023]
Abstract
The thermodynamics of Cu(II) to Cu(I) reduction and the kinetics of the electron transfer (ET) process for Rhus vernicifera stellacyanin (STC) immobilized on a decane-1-thiol coated gold electrode have been measured through cyclic voltammetry at varying pH and temperature, in the presence of urea and in D(2)O. Immobilized STC undergoes a limited conformational change that mainly results in an enhanced exposure of one or both copper binding histidines to solvent which slightly stabilizes the cupric state and increases histidine basicity. The large immobilization-induced increase in the pK(a) for the acid transition (from 4.5 to 6.3) makes this electrode-SAM-protein construct an attractive candidate as a biomolecular ET switch operating near neutral pH in molecular electronics. Such a potential interest is increased by the robustness of this interface against chemical unfolding as it undergoes only moderate changes in the reduction thermodynamics and in the ET rate in the presence of up to 8 M urea. The sensitivity of these parameters to solvent H/D isotope effects testifies to the role of protein solvation as effector of the thermodynamics and kinetics of ET.
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Affiliation(s)
- Antonio Ranieri
- Department of Chemical and Geological Sciences, University of Modena and Reggio Emilia, Modena, Italy
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50
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Bortolotti CA, Amadei A, Aschi M, Borsari M, Corni S, Sola M, Daidone I. The reversible opening of water channels in cytochrome c modulates the heme iron reduction potential. J Am Chem Soc 2012; 134:13670-8. [PMID: 22873369 DOI: 10.1021/ja3030356] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Dynamic protein-solvent interactions are fundamental for life processes, but their investigation is still experimentally very demanding. Molecular dynamics simulations up to hundreds of nanoseconds can bring to light unexpected events even for extensively studied biomolecules. This paper reports a combined computational/experimental approach that reveals the reversible opening of two distinct fluctuating cavities in Saccharomyces cerevisiae iso-1-cytochrome c. Both channels allow water access to the heme center. By means of a mixed quantum mechanics/molecular dynamics (QM/MD) theoretical approach, the perturbed matrix method (PMM), that allows to reach long simulation times, changes in the reduction potential of the heme Fe(3+)/Fe(2+) couple induced by the opening of each cavity are calculated. Shifts of the reduction potential upon changes in the hydration of the heme propionates are observed. These variations are relatively small but significant and could therefore represent a tool developed by cytochrome c for the solvent driven, fine-tuning of its redox functionality.
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Affiliation(s)
- Carlo Augusto Bortolotti
- Department of Life Sciences, University of Modena and Reggio Emilia, Via Campi 183, 41125, Modena, Italy
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