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Bianco M, Ventura G, Calvano CD, Losito I, Cataldi TRI, Monopoli A. Matrix Selection Strategies for MALDI-TOF MS/MS Characterization of Cyclic Tetrapyrroles in Blood and Food Samples. Molecules 2024; 29:868. [PMID: 38398620 PMCID: PMC10891649 DOI: 10.3390/molecules29040868] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2023] [Revised: 02/05/2024] [Accepted: 02/11/2024] [Indexed: 02/25/2024] Open
Abstract
Cyclic tetrapyrrole derivatives such as porphyrins, chlorins, corrins (compounds with a corrin core), and phthalocyanines are a family of molecules containing four pyrrole rings usually coordinating a metal ion (Mg, Cu, Fe, Zn, etc.). Here, we report the characterization of some representative cyclic tetrapyrrole derivatives by MALDI-ToF/ToF MS analyses, including heme b and c, phthalocyanines, and protoporphyrins after proper matrix selection. Both neutral and acidic matrices were evaluated to assess potential demetallation, adduct formation, and fragmentation. While chlorophylls exhibited magnesium demetallation in acidic matrices, cyclic tetrapyrroles with Fe, Zn, Co, Cu, or Ni remained steadfast against demetallation across all conditions. Phthalocyanines and protoporphyrins were also detectable without a matrix using laser desorption ionization (LDI); however, the incorporation of matrices achieved the highest ionization yield, enhanced sensitivity, and negligible fragmentation. Three standard proteins, i.e., myoglobin, hemoglobin, and cytochrome c, were analyzed either intact or enzymatically digested, yielding heme b and heme c ions along with accompanying peptides. Furthermore, we successfully detected and characterized heme b in real samples, including blood, bovine and cod liver, and mussel. As a result, MALDI MS/MS emerged as a powerful tool for straightforward cyclic tetrapyrrole identification, even in highly complex samples. Our work paves the way for a more comprehensive understanding of cyclic tetrapyrroles in biological and industrial settings, including the geochemical field, as these compounds are a source of significant geological and geochemical information in sediments and crude oils.
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Affiliation(s)
- Mariachiara Bianco
- Department of Chemistry, University of Bari Aldo Moro, 70126 Bari, Italy; (M.B.); (G.V.); (I.L.); (T.R.I.C.)
| | - Giovanni Ventura
- Department of Chemistry, University of Bari Aldo Moro, 70126 Bari, Italy; (M.B.); (G.V.); (I.L.); (T.R.I.C.)
| | - Cosima Damiana Calvano
- Department of Chemistry, University of Bari Aldo Moro, 70126 Bari, Italy; (M.B.); (G.V.); (I.L.); (T.R.I.C.)
- Interdepartmental Research Center (SMART), University of Bari Aldo Moro, 70126 Bari, Italy
| | - Ilario Losito
- Department of Chemistry, University of Bari Aldo Moro, 70126 Bari, Italy; (M.B.); (G.V.); (I.L.); (T.R.I.C.)
- Interdepartmental Research Center (SMART), University of Bari Aldo Moro, 70126 Bari, Italy
| | - Tommaso R. I. Cataldi
- Department of Chemistry, University of Bari Aldo Moro, 70126 Bari, Italy; (M.B.); (G.V.); (I.L.); (T.R.I.C.)
- Interdepartmental Research Center (SMART), University of Bari Aldo Moro, 70126 Bari, Italy
| | - Antonio Monopoli
- Department of Chemistry, University of Bari Aldo Moro, 70126 Bari, Italy; (M.B.); (G.V.); (I.L.); (T.R.I.C.)
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2
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Ramos DR, Furtmüller PG, Obinger C, Peña-Gallego Á, Pérez-Juste I, Santaballa JA. Common Reactivity and Properties of Heme Peroxidases: A DFT Study of Their Origin. Antioxidants (Basel) 2023; 12:antiox12020303. [PMID: 36829861 PMCID: PMC9952403 DOI: 10.3390/antiox12020303] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2022] [Revised: 01/06/2023] [Accepted: 01/25/2023] [Indexed: 01/31/2023] Open
Abstract
Electronic structure calculations using the density-functional theory (DFT) have been performed to analyse the effect of water molecules and protonation on the heme group of peroxidases in different redox (ferric, ferrous, compounds I and II) and spin states. Shared geometries, spectroscopic properties at the Soret region, and the thermodynamics of peroxidases are discussed. B3LYP and M06-2X density functionals with different basis sets were employed on a common molecular model of the active site (Fe-centred porphine and proximal imidazole). Computed Gibbs free energies indicate that the corresponding aquo complexes are not thermodynamically stable, supporting the five-coordinate Fe(III) centre in native ferric peroxidases, with a water molecule located at a non-bonding distance. Protonation of the ferryl oxygen of compound II is discussed in terms of thermodynamics, Fe-O bond distances, and redox properties. It is demonstrated that this protonation is necessary to account for the experimental data, and computed Gibbs free energies reveal pKa values of compound II about 8.5-9.0. Computation indicates that the general oxidative properties of peroxidase intermediates, as well as their reactivity towards water and protons and Soret bands, are mainly controlled by the iron porphyrin and its proximal histidine ligand.
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Affiliation(s)
- Daniel R. Ramos
- Chemical Reactivity & Photoreactivity Group (React!), Department of Chemistry, CICA & Faculty of Sciences, Universidade da Coruña, Campus da Zapateira, E-15071 A Coruña, Spain
- Departamento de Química Física, Universidade de Vigo, Campus Universitario Lagoas-Marcosende, E-36310 Vigo, Spain
- Correspondence: (D.R.R.); (J.A.S.)
| | - Paul G. Furtmüller
- Institute of Biochemistry, Department of Chemistry, University of Natural Resources and Life Sciences, Muthgasse 18, A-1190 Vienna, Austria
| | - Christian Obinger
- Institute of Biochemistry, Department of Chemistry, University of Natural Resources and Life Sciences, Muthgasse 18, A-1190 Vienna, Austria
| | - Ángeles Peña-Gallego
- Departamento de Química Física, Universidade de Vigo, Campus Universitario Lagoas-Marcosende, E-36310 Vigo, Spain
| | - Ignacio Pérez-Juste
- Departamento de Química Física, Universidade de Vigo, Campus Universitario Lagoas-Marcosende, E-36310 Vigo, Spain
| | - J. Arturo Santaballa
- Chemical Reactivity & Photoreactivity Group (React!), Department of Chemistry, CICA & Faculty of Sciences, Universidade da Coruña, Campus da Zapateira, E-15071 A Coruña, Spain
- Correspondence: (D.R.R.); (J.A.S.)
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Shafizadeh N, Crestoni ME, de la Lande A, Soep B. Heme ligation in the gas phase. INT REV PHYS CHEM 2021. [DOI: 10.1080/0144235x.2021.1952006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
| | - Maria Elisa Crestoni
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma “La Sapienza”, Roma, Italy
| | | | - Benoît Soep
- ISMO-CNRS, Université Paris Saclay, Orsay Cedex, France
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Schubert K, Guo M, Atak K, Dörner S, Bülow C, von Issendorff B, Klumpp S, Lau JT, Miedema PS, Schlathölter T, Techert S, Timm M, Wang X, Zamudio-Bayer V, Schwob L, Bari S. The electronic structure and deexcitation pathways of an isolated metalloporphyrin ion resolved by metal L-edge spectroscopy. Chem Sci 2021; 12:3966-3976. [PMID: 34163667 PMCID: PMC8179464 DOI: 10.1039/d0sc06591a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Accepted: 01/23/2021] [Indexed: 11/21/2022] Open
Abstract
The local electronic structure of the metal-active site and the deexcitation pathways of metalloporphyrins are crucial for numerous applications but difficult to access by commonly employed techniques. Here, we applied near-edge X-ray absorption mass spectrometry and quantum-mechanical restricted active space calculations to investigate the electronic structure of the metal-active site of the isolated cobalt(iii) protoporphyrin IX cation (CoPPIX+) and its deexcitation pathways upon resonant absorption at the cobalt L-edge. The experiments were carried out in the gas phase, thus allowing for control over the chemical state and molecular environment of the metalloporphyrin. The obtained mass spectra reveal that resonant excitations of CoPPIX+ at the cobalt L3-edge lead predominantly to the formation of the intact radical dication and doubly charged fragments through losses of charged and neutral side chains from the macrocycle. The comparison between experiment and theory shows that CoPPIX+ is in a 3A2g triplet ground state and that competing excitations to metal-centred non-bonding and antibonding σ* molecular orbitals lead to distinct deexcitation pathways.
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Affiliation(s)
- Kaja Schubert
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Meiyuan Guo
- Division of Chemical Physics, Chemical Center, Lund University SE-221 00 Lund Sweden
| | - Kaan Atak
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Simon Dörner
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Christine Bülow
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Bernd von Issendorff
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg 79104 Freiburg Germany
| | - Stephan Klumpp
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - J Tobias Lau
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
- Physikalisches Institut, Albert-Ludwigs-Universität Freiburg 79104 Freiburg Germany
| | | | - Thomas Schlathölter
- Zernike Institute for Advanced Materials, University of Groningen 9747 AG Groningen The Netherlands
| | - Simone Techert
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
- Institut für Röntgenphysik, Georg-August-Universität Göttingen 37077 Göttingen Germany
| | - Martin Timm
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Xin Wang
- Zernike Institute for Advanced Materials, University of Groningen 9747 AG Groningen The Netherlands
| | - Vicente Zamudio-Bayer
- Abteilung für Hochempfindliche Röntgenspektroskopie, Helmholtz-Zentrum Berlin für Materialien und Energie 12489 Berlin Germany
| | - Lucas Schwob
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
| | - Sadia Bari
- Deutsches Elektronen-Synchrotron DESY 22607 Hamburg Germany
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5
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Aarabi M, Soorkia S, Grégoire G, Broquier M, de la Lande A, Soep B, Omidyan R, Shafizadeh N. Water binding to Fe III hemes studied in a cooled ion trap: characterization of a strong 'weak' ligand. Phys Chem Chem Phys 2019; 21:21329-21340. [PMID: 31531442 DOI: 10.1039/c9cp03608c] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The interaction of a water molecule with ferric heme-iron protoporphyrin ([PP FeIII]+) has been investigated in the gas phase in an ion trap and studied theoretically by density functional theory. It is found that the interaction of water with ferric heme leads to a stable [PP-FeIII-H2O]+ complex in the intermediate spin state (S = 3/2), in the same state as its unligated [PP-FeIII]+ homologue, without spin crossing during water attachment. Using the Van't Hoff equation, the reaction enthalpy for the formation of a Fe-OH2 bond has been determined for [PP-FeIII-H2O]+ and [PP-FeIII-(H2O)2]+. The corrected binding energy for a single Fe-H2O bond is -12.2 ± 0.6 kcal mol-1, while DFT calculations at the OPBE level yield -11.7 kcal mol-1. The binding energy of the second ligation yielding a six coordinated FeIII atom is decreased with a bond energy of -9 ± 0.9 kcal mol-1, well reproduced by calculations as -7.1 kcal mol-1. However, calculations reveal features of a weaker bond type, such as a rather long Fe-O bond with 2.28 Å for the [PP-FeIII-H2O]+ complex and the absence of a spin change by complexation. Thus despite a strong bond with H2O, the FeIII atom does not show, through theoretical modelling, a strong acceptor character in its half filled 3dz2 orbital. It is also observed that the binding properties of H2O to hemes seem strikingly specific to ferric heme and we have shown, experimentally and theoretically, that the affinity of H2O for protonated heme [H PP-Fe]+, an intermediate between FeIII and FeII, is strongly reduced compared to that for ferric heme.
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Affiliation(s)
- Mohammad Aarabi
- Department of Chemistry, University of Isfahan, 81746-73441 Isfahan, Iran
| | - Satchin Soorkia
- ISMO, Université Paris-Sud, CNRS UMR 8214, bat 520, Université Paris-Sud 91405, Orsay Cedex, France.
| | - Gilles Grégoire
- ISMO, Université Paris-Sud, CNRS UMR 8214, bat 520, Université Paris-Sud 91405, Orsay Cedex, France.
| | - Michel Broquier
- ISMO, Université Paris-Sud, CNRS UMR 8214, bat 520, Université Paris-Sud 91405, Orsay Cedex, France. and Centre Laser de l'Université Paris-Sud (CLUPS/LUMAT), Univ. Paris-Sud, CNRS, IOGS, Université Paris-Saclay, F-91405 Orsay, France
| | - Aurélien de la Lande
- Laboratoire de Chimie-Physique, Université Paris Sud, CNRS, UMR 8000, 15, rue Jean Perrin, 91405 Orsay Cedex, France
| | - Benoît Soep
- LIDYL, CEA, CNRS, Université Paris-Saclay, UMR 9222 CEA Saclay, F-91191 Gif-sur-Yvette, France
| | - Reza Omidyan
- Department of Chemistry, University of Isfahan, 81746-73441 Isfahan, Iran
| | - Niloufar Shafizadeh
- ISMO, Université Paris-Sud, CNRS UMR 8214, bat 520, Université Paris-Sud 91405, Orsay Cedex, France.
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6
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Phung QM, Pierloot K. The dioxygen adducts of iron and manganese porphyrins: electronic structure and binding energy. Phys Chem Chem Phys 2018; 20:17009-17019. [DOI: 10.1039/c8cp03078b] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
The electronic structures of adducts of O2 and metal porphyrins were thoroughly investigated by highly accurate DMRG-CASPT2.
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7
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Shafizadeh N, Soorkia S, Grégoire G, Broquier M, Crestoni ME, Soep B. Dioxygen Binding to Protonated Heme in the Gas Phase, an Intermediate Between Ferric and Ferrous Heme. Chemistry 2017; 23:13493-13500. [DOI: 10.1002/chem.201702615] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2017] [Indexed: 12/18/2022]
Affiliation(s)
- Niloufar Shafizadeh
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Sud; Université Paris-Saclay; 91405 Orsay France
| | - Satchin Soorkia
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Sud; Université Paris-Saclay; 91405 Orsay France
| | - Gilles Grégoire
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Sud; Université Paris-Saclay; 91405 Orsay France
| | - Michel Broquier
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Sud; Université Paris-Saclay; 91405 Orsay France
- Centre Laser de l'Université Paris-Sud (CLUPS/LUMAT), Université Paris-Sud, CNRS, IOGS, Université Paris-Saclay; 91405 Orsay France
| | - Maria-Elisa Crestoni
- Dipartimento di Chimica e Tecnologie del Farmaco; Università degli Studi di Roma “La Sapienza”; P. le A. Moro 5 00185 Roma Italy
| | - Benoît Soep
- LIDYL, CEA, CNRS; Université Paris-Saclay, CEA Saclay; 91191 Gif-sur-Yvette France
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8
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De Petris A, Crestoni ME, Pirolli A, Rovira C, Iglesias-Fernández J, Chiavarino B, Ragno R, Fornarini S. Binding of azole drugs to heme: A combined MS/MS and computational approach. Polyhedron 2015. [DOI: 10.1016/j.poly.2015.02.011] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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9
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Crestoni ME, Chiavarino B, Fornarini S. Nitrosyl–heme and anion–arene complexes: structure, reactivity and spectroscopy. PURE APPL CHEM 2015. [DOI: 10.1515/pac-2014-1203] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
AbstractTwo topics are selected and illustrated to exemplify (i) a biological and (ii) an organic ionic intermediate. The reactivity behavior of NO adducts with ferric and ferrous hemes has shown remarkable similarities when examined in the gas phase, demonstrating that the largely different NO affinity displayed in solution and in biological media is due to the different coordination environment. In fact, ferrous hemes present a vacant or highly labile axial coordination site, prone to readily bind NO. The vibrational signatures of the NO ligand have also been probed in vacuo for the first time in the nitrosyl complexes deriving from ferrous and ferric hemes under strictly comparable five-coordination at the metal center. Negatively charged σ-adducts, from the association of anions with 1,3,5-trinitrobenzene, an exemplary π-electron-deficient arene, have been probed by IRMPD spectroscopy and found to display variable binding motifs from a strongly covalent σ-adduct (Meisenheimer complex) to a weakly covalent σ-complex, depending on the anion basicity.
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Affiliation(s)
- Maria Elisa Crestoni
- 1Dipartimento di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Barbara Chiavarino
- 1Dipartimento di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Simonetta Fornarini
- 1Dipartimento di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
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10
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De Petris A, Chiavarino B, Crestoni ME, Coletti C, Re N, Fornarini S. Exploring the Conformational Variability in the Heme b Propionic Acid Side Chains through the Effect of a Biological Probe: A Study of the Isolated Ions. J Phys Chem B 2015; 119:1919-29. [DOI: 10.1021/jp5113476] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Alberto De Petris
- Dipartimento
di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Barbara Chiavarino
- Dipartimento
di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Maria Elisa Crestoni
- Dipartimento
di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
| | - Cecilia Coletti
- Dipartimento
di Farmacia, Università G. D’Annunzio, Via dei Vestini 31, I-66100 Chieti, Italy
| | - Nazzareno Re
- Dipartimento
di Farmacia, Università G. D’Annunzio, Via dei Vestini 31, I-66100 Chieti, Italy
| | - Simonetta Fornarini
- Dipartimento
di Chimica e Tecnologie del Farmaco, Università degli Studi di Roma La Sapienza, P.le A. Moro 5, I-00185, Roma, Italy
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11
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Crestoni ME, Chiavarino B, Lemaire J, Maitre P, Fornarini S. IR spectroscopy of gaseous fluorocarbon ions: The perfluoroethyl anion. Chem Phys 2012. [DOI: 10.1016/j.chemphys.2011.03.005] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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12
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Geoghegan KF, Varghese AH, Feng X, Bessire AJ, Conboy JJ, Ruggeri RB, Ahn K, Spath SN, Filippov SV, Conrad SJ, Carpino PA, Guimarães CRW, Vajdos FF. Deconstruction of Activity-Dependent Covalent Modification of Heme in Human Neutrophil Myeloperoxidase by Multistage Mass Spectrometry (MS4). Biochemistry 2012; 51:2065-77. [DOI: 10.1021/bi201872j] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
| | | | - Xidong Feng
- Pfizer Worldwide Research, Groton, Connecticut
06340, United States
| | | | - James J. Conboy
- Pfizer Worldwide Research, Groton, Connecticut
06340, United States
| | - Roger B. Ruggeri
- Pfizer Worldwide Research, Groton, Connecticut
06340, United States
| | - Kay Ahn
- Pfizer Worldwide Research, Groton, Connecticut
06340, United States
| | | | | | - Steven J. Conrad
- Pfizer Worldwide Research, Groton, Connecticut
06340, United States
| | | | | | - Felix F. Vajdos
- Pfizer Worldwide Research, Groton, Connecticut
06340, United States
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Lanucara F, Chiavarino B, Crestoni ME, Scuderi D, Sinha RK, Maı̂tre P, Fornarini S. Naked Five-Coordinate FeIII(NO) Porphyrin Complexes: Vibrational and Reactivity Features. Inorg Chem 2011; 50:4445-52. [DOI: 10.1021/ic200073v] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Francesco Lanucara
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma “La Sapienza”, P.le A. Moro 5, I-00185, Roma, Italy
| | - Barbara Chiavarino
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma “La Sapienza”, P.le A. Moro 5, I-00185, Roma, Italy
| | - Maria Elisa Crestoni
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma “La Sapienza”, P.le A. Moro 5, I-00185, Roma, Italy
| | - Debora Scuderi
- Laboratoire de Chimie Physique, UMR8000 CNRS, Faculté des Sciences, Université Paris Sud, Bâtiment 350, 91405 Orsay Cedex, France
| | - Rajeev K. Sinha
- Laboratoire de Chimie Physique, UMR8000 CNRS, Faculté des Sciences, Université Paris Sud, Bâtiment 350, 91405 Orsay Cedex, France
| | - Philippe Maı̂tre
- Laboratoire de Chimie Physique, UMR8000 CNRS, Faculté des Sciences, Université Paris Sud, Bâtiment 350, 91405 Orsay Cedex, France
| | - Simonetta Fornarini
- Dipartimento di Chimica e Tecnologie del Farmaco, Università di Roma “La Sapienza”, P.le A. Moro 5, I-00185, Roma, Italy
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Tintaru A, Charles L, Milko P, Roithová J, Schröder D. Redox reactions of copper(II) upon electrospray ionization in the presence of acridine ligands with an amide side chain. J PHYS ORG CHEM 2009. [DOI: 10.1002/poc.1459] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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15
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Chiavarino B, Crestoni ME, Fornarini S, Rovira C. Unravelling the intrinsic features of NO binding to iron(II)- and iron(III)-hemes. Inorg Chem 2008; 47:7792-801. [PMID: 18681420 DOI: 10.1021/ic800953w] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Electrospray ionization of appropriate precursors is used to deliver [Fe (III)-heme] (+) and [Fe (II)-hemeH] (+) ions as naked species in the gas phase where their ion chemistry has been examined by Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometry. In the naked, four-coordinate [Fe (II)-hemeH] (+) and [Fe (III)-heme] (+) ions, the intrinsic reactivity of iron(II)- and iron(III)-hemes is revealed free from any influence due to axial ligand, counterion, or solvent effects. Ligand (L) addition and ligand transfer equilibria with a series of selected neutrals are attained when [Fe (II)-hemeH] (+), corresponding to protonated Fe (II)-heme, is allowed to react in the FT-ICR cell. A Heme Cation Basicity (HCB) ladder for the various ligands toward [Fe (II)-hemeH] (+), corresponding to -Delta G degrees for the process [Fe (II)-hemeH] (+) + L --> [Fe (II)-hemeH(L)] (+) and named HCB (II), can thus be established. The so-obtained HCB (II) values are compared with the corresponding HCB (III) values for [Fe (III)-heme] (+). In spite of pronounced differences displayed by various ligands, NO shows a quite similar HCB of about 67 kJ mol (-1) at 300 K toward both ions, estimated to correspond to a binding energy of 124 kJ mol (-1). Density Functional Theory (DFT) computations confirm the experimental results, yielding very similar values of NO binding energies to [Fe (II)-hemeH] (+) and [Fe (III)-heme] (+), equal to 140 and 144 kJ mol (-1), respectively. The kinetic study of the NO association reaction supports the equilibrium HCB data and reveals that the two species share very close rate constant values both for the forward and for the reverse reaction. These gas phase results diverge markedly from the kinetics and thermodynamic behavior of NO binding to iron(II)- and iron(III)-heme proteins and model complexes in solution. The requisite of either a very labile or a vacant coordination site on iron for a facile addition of NO to occur, suggested to explain the bias for typically five-coordinate iron(II) species in solution, is fully supported by the present work.
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Affiliation(s)
- Barbara Chiavarino
- Dipartimento di Chimica e Tecnologia del Farmaco, Universita di Roma "La Sapienza", P.le A. Moro 5, I-00185 Roma, Italy
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Sicking W, Korth HG, de Groot H, Sustmann R. On the functional role of a water molecule in clade 3 catalases: a proposal for the mechanism by which NADPH prevents the formation of compound II. J Am Chem Soc 2008; 130:7345-56. [PMID: 18479132 DOI: 10.1021/ja077787e] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
X-ray structures of the 13 different monofunctional heme catalases published to date were scrutinized in order to gain insight in the mechanism by which NADPH in Clade 3 catalases may protect the reactive ferryloxo intermediate Compound I (Cpd I; por (*+)Fe (IV)O) against deactivation to the catalytically inactive intermediate Compound II (Cpd II; porFe (IV)O). Striking similarities in the molecular network of the protein subunits encompassing the heme center and the surface-bound NADPH were found for all of the Clade 3 catalases. Unique features in this region are the presence of a water molecule (W1) adjacent to the 4-vinyl group of heme and a serine residue or a second water molecule hydrogen-bonded to both W1 and the carbonyl group of a threonine-proline linkage, with the proline in van der Waals contact with the dihydronicotinamide group of NADPH. A mechanism is proposed in which a hydroxyl anion released from W1 undergoes reversible nucleophilic addition to the terminal carbon of the 4-vinyl group of Cpd I, thereby producing a neutral porphyrin pi-radical ferryloxo (HO-por (*)Fe (IV)O) species of reduced reactivity. This structure is suggested to be the elusive Cpd II' intermediate proposed in previous studies. An accompanying proton-shifting process along the hydrogen-bonded network is believed to facilitate the NADPH-mediated reduction of Cpd I to ferricatalase and to serve as a funnel for electron transfer from NADPH to the heme center to restore the catalase Fe (III) resting state. The proposed reaction paths were fully supported as chemically reasonable and energetically feasible by means of density functional theory calculations at the (U)B3LYP/6-31G* level. A particularly attractive feature of the present mechanism is that the previously discussed formation of protein-derived radicals is avoided.
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Affiliation(s)
- Willi Sicking
- Institut für Organische Chemie, Universität Duisburg-Essen, 45117 Essen, Germany
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Mazel V, Richardin P, Debois D, Touboul D, Cotte M, Brunelle A, Walter P, Laprévote O. Identification of ritual blood in African artifacts using TOF-SIMS and synchrotron radiation microspectroscopies. Anal Chem 2007; 79:9253-60. [PMID: 17990853 DOI: 10.1021/ac070993k] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A new protocol is implemented to demonstrate the presence of blood in the patina of African art objects from Mali. Divided into three steps, the protocol first consists in demonstrating the presence of proteins and localizing them in the sample's cross sections using time-of-flight secondary ion mass spectrometry (TOF-SIMS) and synchrotron-based infrared microspectrometry (microFT-IR). In a second time, TOF-SIMS is used to investigate heme, which is a blood marker. If heme is missing, which could mean that it is too degraded to be detected, X-ray microfluorescence (microXRF) and X-ray absorption near-edge microspectroscopy (microXANES) are used to prove the presence of iron in the protein area and to get a fingerprint of its chemical environment. This permits us thus to demonstrate that iron is indeed linked with proteins and not with mineral phases of the sample. Coupled with the ritual context of the objects, this constitutes a proof of the use of blood. Thanks to this protocol, which has the major advantage of avoiding false positive results, the presence of blood has been demonstrated in seven out of the eight studied samples.
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Affiliation(s)
- Vincent Mazel
- Centre de Recherche et de Restauration des Musées de France (C2RMF), CNRS UMR 171, Palais du Louvre, Porte des Lions, 14, quai François Mitterrand, 75001 Paris, France
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Stojanović SD, Medaković VB, Predović G, Beljanski M, Zarić SD. XH/pi interactions with the pi system of porphyrin ring in porphyrin-containing proteins. J Biol Inorg Chem 2007; 12:1063-71. [PMID: 17659366 DOI: 10.1007/s00775-007-0276-0] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2007] [Accepted: 06/28/2007] [Indexed: 11/29/2022]
Abstract
Searching structures of porphyrin-containing proteins from the Protein Data Bank revealed that the pi system of every porphyrin ring is involved in XH/pi interactions, with most of the porphyrins having several interactions. Both five-membered pyrrole rings and six-membered chelate rings are involved in XH/pi interactions; the number of interactions with five-membered rings is larger than the number of interactions with six-membered rings. We found interactions with C-H and N-H groups as hydrogen-atom donors; however, the number of CH/pi interactions is much larger than the number of NH/pi interactions. The amino acids involved in the interactions show a high conservation score. Our results that every porphyrin is involved in XH/pi interactions and that amino acids involved in these interactions are highly conserved demonstrate that XH/pi interactions play an important role in porphyrin-protein stability.
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Affiliation(s)
- Srdan D Stojanović
- Department of Chemistry, University of Belgrade, Studentski trg 16, 11001 Belgrade, Serbia
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