1
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Ahmed H, Ghosh B, Breitenlechner S, Feßner M, Merten C, Bach T. Intermolecular Enantioselective Amination Reactions Mediated by Visible Light and a Chiral Iron Porphyrin Complex. Angew Chem Int Ed Engl 2024; 63:e202407003. [PMID: 38695376 DOI: 10.1002/anie.202407003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2024] [Indexed: 06/15/2024]
Abstract
In the presence of 1 mol % of a chiral iron porphyrin catalyst, various 3-arylmethyl-substituted 2-quinolones and 2-pyridones underwent an enantioselective amination reaction (20 examples; 93-99 % ee). The substrates were used as the limiting reagents, and fluorinated aryl azides (1.5 equivalents) served as nitrene precursors. The reaction is triggered by visible light which allows a facile dediazotation at ambient temperature. The selectivity of the reaction is governed by a two-point hydrogen bond interaction between the ligand of the iron catalyst and the substrate. Hydrogen bonding directs the amination to a specific hydrogen atom within the substrate that is displaced by the nitrogen substituent either in a concerted fashion or by a rebound mechanism.
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Affiliation(s)
- Hussayn Ahmed
- Technische Universität München, School of Natural Sciences, Department of Chemistry and Catalysis Research Center, Lichtenbergstraße 4, 85747, Garching, Germany
| | - Biki Ghosh
- Technische Universität München, School of Natural Sciences, Department of Chemistry and Catalysis Research Center, Lichtenbergstraße 4, 85747, Garching, Germany
| | - Stefan Breitenlechner
- Technische Universität München, School of Natural Sciences, Department of Chemistry and Catalysis Research Center, Lichtenbergstraße 4, 85747, Garching, Germany
| | - Malte Feßner
- Ruhr-Universität Bochum, Faculty for Chemistry and Biochemistry, Universitätsstraße 150, D-44801, Bochum
| | - Christian Merten
- Ruhr-Universität Bochum, Faculty for Chemistry and Biochemistry, Universitätsstraße 150, D-44801, Bochum
| | - Thorsten Bach
- Technische Universität München, School of Natural Sciences, Department of Chemistry and Catalysis Research Center, Lichtenbergstraße 4, 85747, Garching, Germany
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2
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Kingsbury CJ, Senge MO. Quantifying near-symmetric molecular distortion using symmetry-coordinate structural decomposition. Chem Sci 2024:d4sc01670j. [PMID: 39129773 PMCID: PMC11310747 DOI: 10.1039/d4sc01670j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2024] [Accepted: 08/01/2024] [Indexed: 08/13/2024] Open
Abstract
We imagine molecules to be perfect, but rigidified units can be designed to bend from their ideal shape, discarding their symmetric elements as they progress through vibrations and larger, more permanent distortions. The shape of molecules is either simulated or measured by crystallography and strongly affects chemical properties but, beyond an image or tabulation of atom-to-atom distances, little is often discussed of the accessed conformation. We have simplified the process of shape quantification across multiple molecular types with a new web-accessible program - SCSD - through which a molecular subunit possessing near-symmetry can be dissected into symmetry coordinates with ease. This parameterization allows a common set of numbers for comparing and understanding molecular shape, and is a simple method for database analysis; this program is available at https://www.kingsbury.id.au/scsd.
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Affiliation(s)
- Christopher J Kingsbury
- School of Chemistry, Chair of Organic Chemistry, Trinity College Dublin, The University of Dublin, Trinity Biomedical Sciences Institute 152-160 Pearse Street Dublin D02R590 Ireland
| | - Mathias O Senge
- School of Chemistry, Chair of Organic Chemistry, Trinity College Dublin, The University of Dublin, Trinity Biomedical Sciences Institute 152-160 Pearse Street Dublin D02R590 Ireland
- Institute for Advanced Study (TUM-IAS), Technical University of Munich Lichtenberg-Str. 2a 85748 Garching Germany
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3
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Maguire S, Strachan G, Norvaiša K, Donohoe C, Gomes-da-Silva LC, Senge MO. Porphyrin Atropisomerism as a Molecular Engineering Tool in Medicinal Chemistry, Molecular Recognition, Supramolecular Assembly, and Catalysis. Chemistry 2024; 30:e202401559. [PMID: 38787350 DOI: 10.1002/chem.202401559] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2024] [Revised: 05/18/2024] [Accepted: 05/24/2024] [Indexed: 05/25/2024]
Abstract
Porphyrin atropisomerism, which arises from restricted σ-bond rotation between the macrocycle and a sufficiently bulky substituent, was identified in 1969 by Gottwald and Ullman in 5,10,15,20-tetrakis(o-hydroxyphenyl)porphyrins. Henceforth, an entirely new field has emerged utilizing this transformative tool. This review strives to explain the consequences of atropisomerism in porphyrins, the methods which have been developed for their separation and analysis and present the diverse array of applications. Porphyrins alone possess intriguing properties and a structure which can be easily decorated and molded for a specific function. Therefore, atropisomerism serves as a transformative tool, making it possible to obtain even a specific molecular shape. Atropisomerism has been thoroughly exploited in catalysis and molecular recognition yet presents both challenges and opportunities in medicinal chemistry.
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Affiliation(s)
- Sophie Maguire
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, Dublin, D02R590, Ireland
| | - Grant Strachan
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, Dublin, D02R590, Ireland
| | - Karolis Norvaiša
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, Dublin, D02R590, Ireland
| | - Claire Donohoe
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, Dublin, D02R590, Ireland
- CQC, Coimbra Chemistry Centre, University of Coimbra, Coimbra, 3004-535, Portugal
| | | | - Mathias O Senge
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, Dublin, D02R590, Ireland
- Institute for Advanced Study (TUM-IAS), Focus Group-Molecular and Interfacial Engineering of Organic Nanosystems, Technical University of Munich, Lichtenberg Str. 2a, 85748, Garching, Germany
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4
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Hardy BJ, Dubiel P, Bungay EL, Rudin M, Williams C, Arthur CJ, Guberman‐Pfeffer MJ, Sofia Oliveira A, Curnow P, Anderson JLR. Delineating redox cooperativity in water-soluble and membrane multiheme cytochromes through protein design. Protein Sci 2024; 33:e5113. [PMID: 38980168 PMCID: PMC11232281 DOI: 10.1002/pro.5113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2024] [Revised: 06/26/2024] [Accepted: 06/27/2024] [Indexed: 07/10/2024]
Abstract
Nature has evolved diverse electron transport proteins and multiprotein assemblies essential to the generation and transduction of biological energy. However, substantially modifying or adapting these proteins for user-defined applications or to gain fundamental mechanistic insight can be hindered by their inherent complexity. De novo protein design offers an attractive route to stripping away this confounding complexity, enabling us to probe the fundamental workings of these bioenergetic proteins and systems, while providing robust, modular platforms for constructing completely artificial electron-conducting circuitry. Here, we use a set of de novo designed mono-heme and di-heme soluble and membrane proteins to delineate the contributions of electrostatic micro-environments and dielectric properties of the surrounding protein medium on the inter-heme redox cooperativity that we have previously reported. Experimentally, we find that the two heme sites in both the water-soluble and membrane constructs have broadly equivalent redox potentials in isolation, in agreement with Poisson-Boltzmann Continuum Electrostatics calculations. BioDC, a Python program for the estimation of electron transfer energetics and kinetics within multiheme cytochromes, also predicts equivalent heme sites, and reports that burial within the low dielectric environment of the membrane strengthens heme-heme electrostatic coupling. We conclude that redox cooperativity in our diheme cytochromes is largely driven by heme electrostatic coupling and confirm that this effect is greatly strengthened by burial in the membrane. These results demonstrate that while our de novo proteins present minimalist, new-to-nature constructs, they enable the dissection and microscopic examination of processes fundamental to the function of vital, yet complex, bioenergetic assemblies.
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Affiliation(s)
| | | | | | - May Rudin
- School of BiochemistryUniversity of BristolBristolUK
| | | | | | | | | | - Paul Curnow
- School of BiochemistryUniversity of BristolBristolUK
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5
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Kingsbury CJ, Senge MO. Molecular Symmetry and Art: Visualizing the Near-Symmetry of Molecules in Piet Mondrian's De Stijl. Angew Chem Int Ed Engl 2024; 63:e202403754. [PMID: 38619527 DOI: 10.1002/anie.202403754] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2024] [Revised: 04/09/2024] [Accepted: 04/10/2024] [Indexed: 04/16/2024]
Abstract
Symmetry and shape are essential aspects of molecular structure and how we interpret molecules and their properties. We, as chemists, are comfortable with pictorial representations of structure, in which some nuance is lost-investigating molecular shape numerically by looking at how closely it fits a reference, such as a plane, or a set of vectors or coordinates, is informative, though far from engaging. Often relationships between chemical structure and derived values are obscured. Taking our inspiration from Piet Mondrian's Compositions, we have depicted the symmetry information encoded within 3D data as blocks of color, to show clearly how chemical arguments and resultant molecular distortion may contribute to symmetry. Great art gives us a new perspective on the world; as a pastiche, this art may allow us to look at familiar molecules, such as porphyrins, in a new light, understanding how their shape and properties are intertwined.
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Affiliation(s)
- Christopher J Kingsbury
- School of Chemistry, Chair of Organic Chemistry, Trinity College Dublin, The University of Dublin, Trinity Biomedical Sciences Institute, 152-160 Pearse Street, Dublin, D02R590, Ireland
| | - Mathias O Senge
- School of Chemistry, Chair of Organic Chemistry, Trinity College Dublin, The University of Dublin, Trinity Biomedical Sciences Institute, 152-160 Pearse Street, Dublin, D02R590, Ireland
- Institute for Advanced Study (TUM-IAS), Focus Group-Molecular and Interfacial Engineering of Organic Nanosystems, Technical University of Munich, Lichtenberg-Str. 2a, 85748, Garching, Germany
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6
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Li XG, Li J, Chen J, Rao L, Zheng L, Yu F, Tang Y, Zheng J, Ma J. Porphyrin-based covalent organic frameworks from design, synthesis to biological applications. Biomater Sci 2024; 12:2766-2785. [PMID: 38717456 DOI: 10.1039/d4bm00214h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/21/2024]
Abstract
Covalent organic frameworks (COFs) constitute a class of highly functional porous materials composed of lightweight elements interconnected by covalent bonds, characterized by structural order, high crystallinity, and large specific surface area. The integration of naturally occurring porphyrin molecules, renowned for their inherent rigidity and conjugate planarity, as building blocks in COFs has garnered significant attention. This strategic incorporation addresses the limitations associated with free-standing porphyrins, resulting in the creation of well-organized porous crystal structures with molecular-level directional arrangements. The unique optical, electrical, and biochemical properties inherent to porphyrin molecules endow these COFs with diversified applications, particularly in the realm of biology. This review comprehensively explores the synthesis and modulation strategies employed in the development of porphyrin-based COFs and delves into their multifaceted applications in biological contexts. A chronological depiction of the evolution from design to application is presented, accompanied by an analysis of the existing challenges. Furthermore, this review offers directional guidance for the structural design of porphyrin-based COFs and underscores their promising prospects in the field of biology.
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Affiliation(s)
- Xin-Gui Li
- Research Center for Environmental Functional Materials, College of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai, 200092, P. R. China.
| | - Junjian Li
- Research Center for Environmental Functional Materials, College of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai, 200092, P. R. China.
| | - JinFeng Chen
- Research Center for Environmental Functional Materials, College of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai, 200092, P. R. China.
| | - Liangmei Rao
- Research Center for Environmental Functional Materials, College of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai, 200092, P. R. China.
| | - Libin Zheng
- Research Center for Environmental Functional Materials, College of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai, 200092, P. R. China.
| | - Fei Yu
- College of Oceanography and Ecological Science, Shanghai Ocean University, No 999, Huchenghuan Road, Shanghai, 201306, P. R. China
| | - Yijing Tang
- Department of Chemical, Biomolecular, and Corrosion Engineering, The University of Akron, Akron, Ohio 44325, USA.
| | - Jie Zheng
- Department of Chemical, Biomolecular, and Corrosion Engineering, The University of Akron, Akron, Ohio 44325, USA.
| | - Jie Ma
- Research Center for Environmental Functional Materials, College of Environmental Science and Engineering, Tongji University, 1239 Siping Road, Shanghai, 200092, P. R. China.
- School of Civil Engineering, Kashi University, Kashi 844000, China
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7
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Chakraborty P, Ghosh N, Awasthi N, Rath SP. Spin-Flip via Subtle Electronic Perturbation in Axially Ligated Diiron(III) Porphyrin Dimer. Chemistry 2024; 30:e202400266. [PMID: 38407531 DOI: 10.1002/chem.202400266] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2024] [Revised: 02/24/2024] [Accepted: 02/26/2024] [Indexed: 02/27/2024]
Abstract
Spin state switching in the metal center is a crucial phenomenon in many enzymatic reactions in biology. The spin state alteration, a critical step in cytochrome P450 catalysis, is driven most likely through a weak perturbation upon substrate binding in the enzyme, which is still not well clarified. In the current work, the spin state transition of iron(III) from high to intermediate via an admixed state is observed upon a subtle electronic perturbation to the sulphonate moieties coordinated axially to a diiron(III)porphyrin dimer. While electron-donating substituents stabilize the high-spin state of iron(III), strongly electron-withdrawing groups stabilize an intermediate-spin state, whereas the moderate electron-withdrawing nature of axial ligands resulted in an admixed state. Confirmation of the molecular structures and their spin states have been made utilizing single-crystal X-ray structure analysis, Mössbauer, magnetic, EPR, and 1H NMR spectroscopic investigations. The position of the signals of the porphyrin macrocycle in the paramagnetic 1H NMR is found to be very characteristic of the spin state of the iron center in solution. The Curie plot for the pure high-spin complexes shows the signals' temperature dependency in line with the Curie law. Conversely, the pure intermediate-spin state of iron exhibits an anti-Curie temperature dependence, whereas the admixed-spin state of iron displays significant curvature of the lines in the Curie plot. An extensive DFT analysis displays a linear dependence between the energy difference between dx 2 - y 2 ${{_{x{^{2}}- y{^{2}}}}}$ and dz 2 ${{_{z{^{2}}}}}$ orbital versus Fe-Npor distance for the complexes reported here. Furthermore, a strong linear correlation between the Fe-O distance and the spin density over the oxygen atom, as well as the Fe-Npor distance for the complexes, has been observed. Thus, a slight electronic perturbation at the axial ligand of the diheme resulted in a large change in the electronic structures with a spin-flip. This is at par with the metalloenzymes, which employ minute perturbations around the periphery of the active sites, leading to spin state transitions.
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Affiliation(s)
- Paulami Chakraborty
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016
| | - Niva Ghosh
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016
| | - Nidhi Awasthi
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016
| | - Sankar Prasad Rath
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur, 208016
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Kostyuk AI, Rapota DD, Morozova KI, Fedotova AA, Jappy D, Semyanov AV, Belousov VV, Brazhe NA, Bilan DS. Modern optical approaches in redox biology: Genetically encoded sensors and Raman spectroscopy. Free Radic Biol Med 2024; 217:68-115. [PMID: 38508405 DOI: 10.1016/j.freeradbiomed.2024.03.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Revised: 02/10/2024] [Accepted: 03/13/2024] [Indexed: 03/22/2024]
Abstract
The objective of the current review is to summarize the current state of optical methods in redox biology. It consists of two parts, the first is dedicated to genetically encoded fluorescent indicators and the second to Raman spectroscopy. In the first part, we provide a detailed classification of the currently available redox biosensors based on their target analytes. We thoroughly discuss the main architecture types of these proteins, the underlying engineering strategies for their development, the biochemical properties of existing tools and their advantages and disadvantages from a practical point of view. Particular attention is paid to fluorescence lifetime imaging microscopy as a possible readout technique, since it is less prone to certain artifacts than traditional intensiometric measurements. In the second part, the characteristic Raman peaks of the most important redox intermediates are listed, and examples of how this knowledge can be implemented in biological studies are given. This part covers such fields as estimation of the redox states and concentrations of Fe-S clusters, cytochromes, other heme-containing proteins, oxidative derivatives of thiols, lipids, and nucleotides. Finally, we touch on the issue of multiparameter imaging, in which biosensors are combined with other visualization methods for simultaneous assessment of several cellular parameters.
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Affiliation(s)
- Alexander I Kostyuk
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Pirogov Russian National Research Medical University, 117997, Moscow, Russia
| | - Diana D Rapota
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia
| | - Kseniia I Morozova
- Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, 119234, Russia
| | - Anna A Fedotova
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, 119234, Russia
| | - David Jappy
- Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, Moscow, 117997, Russia
| | - Alexey V Semyanov
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, 119234, Russia; Sechenov First Moscow State Medical University, Moscow, 119435, Russia; College of Medicine, Jiaxing University, Jiaxing, Zhejiang Province, 314001, China
| | - Vsevolod V Belousov
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Pirogov Russian National Research Medical University, 117997, Moscow, Russia; Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, Moscow, 117997, Russia; Life Improvement by Future Technologies (LIFT) Center, Skolkovo, Moscow, 143025, Russia
| | - Nadezda A Brazhe
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Faculty of Biology, M.V. Lomonosov Moscow State University, Moscow, 119234, Russia.
| | - Dmitry S Bilan
- M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, 117997, Russia; Pirogov Russian National Research Medical University, 117997, Moscow, Russia.
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9
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Lin C, Mazor Y, Reppert M. Feeling the Strain: Quantifying Ligand Deformation in Photosynthesis. J Phys Chem B 2024; 128:2266-2280. [PMID: 38442033 DOI: 10.1021/acs.jpcb.3c06488] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/07/2024]
Abstract
Structural distortion of protein-bound ligands can play a critical role in enzyme function by tuning the electronic and chemical properties of the ligand molecule. However, quantifying these effects is difficult due to the limited resolution of protein structures and the difficulty of generating accurate structural restraints for nonprotein ligands. Here, we seek to quantify these effects through a statistical analysis of ligand distortion in chlorophyll proteins (CP), where ring deformation is thought to play a role in energy and electron transfer. To assess the accuracy of ring-deformation estimates from available structural data, we take advantage of the C2 symmetry of photosystem II (PSII), comparing ring-deformation estimates for equivalent sites both within and between 113 distinct X-ray and cryogenic electron microscopy PSII structures. Significantly, we find that several deformation modes exhibit considerable variability in predictions, even for equivalent monomers, down to a 2 Å resolution, to an extent that probably prevents their utilization in optical calculations. We further find that refinement restraints play a critical role in determining deformation values to resolution as low as 2 Å. However, for those modes that are well-resolved in the structural data, ring deformation in PSII is strongly conserved across all species tested from cyanobacteria to algae. These results highlight both the opportunities and limitations inherent in structure-based analyses of the bioenergetic and optical properties of CPs and other protein-ligand complexes.
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Affiliation(s)
- Chientzu Lin
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47920, United States
| | - Yuval Mazor
- School of Molecular Sciences, The Biodesign Institute, Arizona State University, Tempe, Arizona 85281, United States
| | - Mike Reppert
- Department of Chemistry, Purdue University, West Lafayette, Indiana 47920, United States
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10
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Li Y, Li Q, Gillilan RE, Abbaspourrad A. Reversible disassembly-reassembly of C-phycocyanin in pressurization-depressurization cycles of high hydrostatic pressure. Int J Biol Macromol 2023; 253:127623. [PMID: 37879586 PMCID: PMC10842036 DOI: 10.1016/j.ijbiomac.2023.127623] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Revised: 10/20/2023] [Accepted: 10/21/2023] [Indexed: 10/27/2023]
Abstract
Hydrostatic pressure can reversibly modulate protein-protein and protein-chromophore interactions of C-phycocyanin (C-PC) from Spirulina platensis. Small-angle X-ray scattering combined with UV-Vis spectrophotometry and protein modeling was used to explore the color and structural changes of C-PC under high pressure conditions at different pH levels. It was revealed that pressures up to 350 MPa were enough to fully disassemble C-PC from trimers to monomers at pH 7.0, or from monomers to detached subunits at pH 9.0. These disassemblies were accompanied by protein unfolding that caused these high-pressure induced structures to be more extended. These changes were reversible following depressurization. The trimer-to-monomer transition proceeded through a collection of previously unrecognized, L-shaped intermediates resembling C-PC dimers. Additionally, pressurized C-PC showed decayed Q-band absorption and fortified Soret-band absorption. This was evidence that the folded tetrapyrroles, which had folded at ambient pressure, formed semicyclic unfolded conformations at a high pressure. Upon depressurization, the peak intensity and shift all recovered stepwise, showing pressure can precisely manipulate C-PC's structure as well as its color. Overall, a protein-chromophore regulatory theory of C-PC was unveiled. The pressure-tunability could be harnessed to modify and stabilize C-PC's structure and photochemical properties for designing new delivery and optical materials.
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Affiliation(s)
- Ying Li
- Department of Food Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, USA
| | - Qike Li
- Department of Food Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, USA
| | - Richard E Gillilan
- Cornell High Energy Synchrotron Source (MacCHESS), Cornell University, Ithaca, NY, USA
| | - Alireza Abbaspourrad
- Department of Food Science, College of Agriculture and Life Sciences, Cornell University, Ithaca, NY, USA.
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11
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Gabler T, Dali A, Sebastiani F, Furtmüller PG, Becucci M, Hofbauer S, Smulevich G. Iron insertion into coproporphyrin III-ferrochelatase complex: Evidence for an intermediate distorted catalytic species. Protein Sci 2023; 32:e4788. [PMID: 37743577 PMCID: PMC10578119 DOI: 10.1002/pro.4788] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Revised: 09/07/2023] [Accepted: 09/20/2023] [Indexed: 09/26/2023]
Abstract
Understanding the reaction mechanism of enzymes at the molecular level is generally a difficult task, since many parameters affect the turnover. Often, due to high reactivity and formation of transient species or intermediates, detailed information on enzymatic catalysis is obtained by means of model substrates. Whenever possible, it is essential to confirm a reaction mechanism based on substrate analogues or model systems by using the physiological substrates. Here we disclose the ferrous iron incorporation mechanism, in solution, and in crystallo, by the coproporphyrin III-coproporphyrin ferrochelatase complex from the firmicute, pathogen, and antibiotic resistant, Listeria monocytogenes. Coproporphyrin ferrochelatase plays an important physiological role as the metalation represents the penultimate reaction step in the prokaryotic coproporphyrin-dependent heme biosynthetic pathway, yielding coproheme (ferric coproporphyrin III). By following the metal titration with resonance Raman spectroscopy and x-ray crystallography, we prove that upon metalation the saddling distortion becomes predominant both in the crystal and in solution. This is a consequence of the readjustment of hydrogen bond interactions of the propionates with the protein scaffold during the enzymatic catalysis. Once the propionates have established the interactions typical of the coproheme complex, the distortion slowly decreases, to reach the almost planar final product.
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Affiliation(s)
- Thomas Gabler
- Department of ChemistryInstitute of Biochemistry, University of Natural Resources and Life SciencesViennaAustria
| | - Andrea Dali
- Dipartimento di Chimica “Ugo Schiff”—DICUSUniversità di FirenzeSesto FiorentinoItaly
| | - Federico Sebastiani
- Dipartimento di Chimica “Ugo Schiff”—DICUSUniversità di FirenzeSesto FiorentinoItaly
| | - Paul Georg Furtmüller
- Department of ChemistryInstitute of Biochemistry, University of Natural Resources and Life SciencesViennaAustria
| | - Maurizio Becucci
- Dipartimento di Chimica “Ugo Schiff”—DICUSUniversità di FirenzeSesto FiorentinoItaly
| | - Stefan Hofbauer
- Department of ChemistryInstitute of Biochemistry, University of Natural Resources and Life SciencesViennaAustria
| | - Giulietta Smulevich
- Dipartimento di Chimica “Ugo Schiff”—DICUSUniversità di FirenzeSesto FiorentinoItaly
- INSTM Research Unit of FirenzeSesto FiorentinoItaly
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12
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Lemon CM. Diversifying the functions of heme proteins with non-porphyrin cofactors. J Inorg Biochem 2023; 246:112282. [PMID: 37320889 DOI: 10.1016/j.jinorgbio.2023.112282] [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: 03/30/2023] [Revised: 05/09/2023] [Accepted: 05/30/2023] [Indexed: 06/17/2023]
Abstract
Heme proteins perform diverse biochemical functions using a single iron porphyrin cofactor. This versatility makes them attractive platforms for the development of new functional proteins. While directed evolution and metal substitution have expanded the properties, reactivity, and applications of heme proteins, the incorporation of porphyrin analogs remains an underexplored approach. This review discusses the replacement of heme with non-porphyrin cofactors, such as porphycene, corrole, tetradehydrocorrin, phthalocyanine, and salophen, and the attendant properties of these conjugates. While structurally similar, each ligand exhibits distinct optical and redox properties, as well as unique chemical reactivity. These hybrids serve as model systems to elucidate the effects of the protein environment on the electronic structure, redox potentials, optical properties, or other features of the porphyrin analog. Protein encapsulation can confer distinct chemical reactivity or selectivity of artificial metalloenzymes that cannot be achieved with the small molecule catalyst alone. Additionally, these conjugates can interfere with heme acquisition and uptake in pathogenic bacteria, providing an inroad to innovative antibiotic strategies. Together, these examples illustrate the diverse functionality that can be achieved by cofactor substitution. The further expansion of this approach will access unexplored chemical space, enabling the development of superior catalysts and the creation of heme proteins with emergent properties.
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Affiliation(s)
- Christopher M Lemon
- Department of Chemistry and Biochemistry, Montana State University, PO Box 173400, Bozeman, MT 59717, United States.
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Sanfui S, Chakraborty P, Garribba E, Rath SP. Diheme cytochromes: Effect of mixed-axial ligation on the electronic structure and electrochemical properties with cobalt porphyrin dimer. J Inorg Biochem 2023; 240:112109. [PMID: 36592509 DOI: 10.1016/j.jinorgbio.2022.112109] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Revised: 12/11/2022] [Accepted: 12/15/2022] [Indexed: 12/24/2022]
Abstract
A series of six-coordinate diCo(III) porphyrin dimers, as synthetic analogues of diheme cytochromes, have been reported here having bis(imidazole), bis(pyridine) and mixed thiophenolate-pyridine/imidazole axial ligands. In the X-ray structures of bis(imidazole) and bis(pyridine) complexes, the axial ligands are in perpendicular orientation while they are parallelly oriented in their monomeric analog. The porphyrin rings are also highly ruffle-distorted in dimer but planar in monomer which reflect the effect of intramolecular interaction between two Co(porphyrin) units in dimers. In the X-ray structure of diCo(III) thiophenolate-pyridine mixed-ligated complex, the axial Co-S and Co-N(py) distances are 2.256(1) and 2.063(2) Å, respectively. The Co-N(py) distance of 2.063(2) Å is much longer than the distances of 1.961(3) and 1.972(3) Å observed in bis(pyridine) complex and the Co-S distance is larger than Co-N(py) in the mixed ligated complex which results in a displacement of Co by 0.15 Å towards the pyridine ligand from the mean porphyrin plane. Indeed, this is the first X-ray structure of a metalloporphyrin with mixed thiophenolate-pyridine axial ligands. The effect of mixed-axial ligation is demonstrated by a blue-shift of the Soret band in the UV-visible spectroscopy and also a positive shift of the Co(III)/Co(II) redox couple as compared to their bis(pyridine) analogue. The redox potentials are shifted to a large negative value just upon replacing the metal from iron to cobalt. The present investigation emphasizes the role of axial ligation, metal ions, and also the effect of heme-heme interaction in controlling the spectral and electrochemical properties.
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Affiliation(s)
- Sarnali Sanfui
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Paulami Chakraborty
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Eugenio Garribba
- Dipartimento di Medicina, Chirurgia e Farmacia, Università di Sassari, Viale San Pietro, I-07100 Sassari, Italy
| | - Sankar Prasad Rath
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India.
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Shukaev AV, Ermakova EV, Fang Y, Kadish KM, Nefedov SE, Tafeenko VA, Michalak J, Bessmertnykh-Lemeune A. Synthesis and Self-Assembly of β-Octa[(4-Diethoxyphosphoryl)phenyl]porphyrins. Inorg Chem 2023; 62:3431-3444. [PMID: 36752761 DOI: 10.1021/acs.inorgchem.2c03466] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/09/2023]
Abstract
The β-substituted porphyrinoids commonly used to form functional assembled systems in nature yet are still scarcely used in material chemistry probably due to the laborious synthesis of these compounds. In this work, β-octa[(4-diethoxyphosphoryl)phenyl]porphyrin (2HOPPP) and its metal (Zn(II), Cd(II), Cu(II), and Ni(II)) complexes were prepared in good yields. These highly soluble chromophores were characterized in solution using spectroscopic (NMR, UV-vis, fluorescence), electrochemical, and spectroelectrochemical methods. Attachment of the electron-deficient residue (ArP(O)(OEt)2) to the porphyrin macrocycle leads to easier reductions and harder oxidations of the macrocycle for all complexes studied as compared to corresponding meso-tetra[4-(diethoxyphosphoryl)phenyl]porphyrin derivatives reported previously. We demonstrated that the strong electron-deficient character of the MOPPP porphyrins results principally from the increase in the number of electron-withdrawing groups at the periphery of the tetrapyrrolic macrocycle. Electron-deficient porphyrins are highly required in supramolecular and material chemistry in part due to their ability to form supramolecular assemblies via the coordination of axial ligands to the central metal atom. According to single-crystal X-ray data, ZnOPPP forms in the crystalline phase dimers in which each of the two tetrapyrrolic macrocycles is connected through an unusual combination of hydrogen bonding of two phosphoryl groups and the water molecules axially coordinated to the zinc atom of the partner molecule. The involvement of water molecules in porphyrin binding allows for an increase of distance between two porphyrin mean N4 planes, up to 4.478 Å. The offset of phosphoryl groups attached to the macrocycle through a 1,4-phenylene spacer withdraws the whole porphyrin macrocycle of one molecule from spatial overlap with the macrocycle of a partner molecule and increases the Zn-Zn distance up to 10.372 Å. This still unknown type of porphyrin dimers allows one to get deeper insights into the organization of naturally occurring tetrapyrrolic macrocycles. ZnOPPP also forms a labile dimeric complex in 5.3 × 10-7-5.8 × 10-5 M chloroform solutions. In contrast, other complexes prepared in this work exist as monomeric species under these experimental conditions. The self-association constant of ZnOPPP has been determined by electronic absorption spectroscopy.
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Affiliation(s)
- Anton V Shukaev
- Institut de Chimie Moléculaire de l'Université de Bourgogne, Université Bourgogne Franche-Comté, CNRS UMR 6302, 9 Avenue Alain Savary, BP 47870, Dijon 21078, France
| | - Elizaveta V Ermakova
- Frumkin Institute of Physical Chemistry and Electrochemistry, Russian Academy of Sciences, Leninsky Pr. 31-4, Moscow 119071, Russia
| | - Yuanyuan Fang
- Department of Chemistry, University of Houston, Houston, Texas 77204-5003, United States
| | - Karl M Kadish
- Department of Chemistry, University of Houston, Houston, Texas 77204-5003, United States
| | - Sergey E Nefedov
- N.S. Kurnakov Institute of General and Inorganic Chemistry of Russian Academy of Sciences, Leninsky Pr. 31, Moscow 119071, Russia
| | - Victor A Tafeenko
- Department of Chemistry, M.V. Lomonosov Moscow State University, 1-3 Leninskie Gory, Moscow 119991, Russia
| | - Julien Michalak
- Institut de Chimie Moléculaire de l'Université de Bourgogne, Université Bourgogne Franche-Comté, CNRS UMR 6302, 9 Avenue Alain Savary, BP 47870, Dijon 21078, France
| | - Alla Bessmertnykh-Lemeune
- Institut de Chimie Moléculaire de l'Université de Bourgogne, Université Bourgogne Franche-Comté, CNRS UMR 6302, 9 Avenue Alain Savary, BP 47870, Dijon 21078, France.,Laboratoire de Chimie, UMR 5182, CNRS, ENS de Lyon, 46 allée d'Italie, Lyon 69364, France
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Pandit YA, Usman M, Sarkar A, Shah SJ, Rath SP. Control of spin coupling through a redox-active bridge in a dinickel(II) porphyrin dimer: step-wise oxidations enable isolations of a chlorin-porphyrin heterodimer and a dication diradical with a singlet ground state. Dalton Trans 2023; 52:877-891. [PMID: 36464989 DOI: 10.1039/d2dt03283j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
A dinickel(II)porphyrin dimer has been used here in which the redox-active pyrrole-moiety, similar to the tryptophan residue in diheme enzymes such as MauG and bCcP, has been placed between two Ni(II)porphyrin centers connected via a flexible, but unconjugated methylene bridge. This arrangement provides a large physical separation between the two metal centers and thus displays almost no communication between them through the bridge. Upon treatment with DDQ as an oxidant, the dinickel(II) porphyrin dimer slowly gets converted into an indolizinium-fused chlorin-porphyrin heterodimer. However, oxidations of the dinickel(II) porphyrin dimer up to two oxidizing equivalents using oxidants such as AgSbF6 and FeCl3 resulted in the formation of a dication diradical complex. Interestingly, in order to stabilize such a highly oxidized dication diradical, two non-conjugated methylene spacers undergo facile 2e-/-2H+ oxidation to make the bridge fully π-conjugated for promoting through-bond communication. Through the oxidized and conjugated bridge, two porphyrin π-cation radicals display considerable communications leading to an efficient intramolecular spin coupling to form a singlet state. Interestingly, the redox-active nature of the bridge controls the electronic communication just by simple oxidation or reduction, and thereby, acts as a molecular switch for efficient magnetic relay.
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Affiliation(s)
- Younis Ahmad Pandit
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur-208016, India.
| | - Mohammad Usman
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur-208016, India.
| | - Anindya Sarkar
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur-208016, India.
| | - Syed Jehanger Shah
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur-208016, India.
| | - Sankar Prasad Rath
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur-208016, India.
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16
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Dali A, Gabler T, Sebastiani F, Destinger A, Furtmüller PG, Pfanzagl V, Becucci M, Smulevich G, Hofbauer S. Active site architecture of coproporphyrin ferrochelatase with its physiological substrate coproporphyrin III: Propionate interactions and porphyrin core deformation. Protein Sci 2023; 32:e4534. [PMID: 36479958 PMCID: PMC9794026 DOI: 10.1002/pro.4534] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2022] [Revised: 11/29/2022] [Accepted: 12/03/2022] [Indexed: 12/13/2022]
Abstract
Coproporphyrin ferrochelatases (CpfCs) are enzymes catalyzing the penultimate step in the coproporphyrin-dependent (CPD) heme biosynthesis pathway, which is mainly utilized by monoderm bacteria. Ferrochelatases insert ferrous iron into a porphyrin macrocycle and have been studied for many decades, nevertheless many mechanistic questions remain unanswered to date. Especially CpfCs, which are found in the CPD pathway, are currently in the spotlight of research. This pathway was identified in 2015 and revealed that the correct substrate for these ferrochelatases is coproporphyrin III (cpIII) instead of protoporphyrin IX, as believed prior the discovery of the CPD pathway. The chemistry of cpIII, which has four propionates, differs significantly from protoporphyrin IX, which features two propionate and two vinyl groups. These findings let us to thoroughly describe the physiological cpIII-ferrochelatase complex in solution and in the crystal phase. Here, we present the first crystallographic structure of the CpfC from the representative monoderm pathogen Listeria monocytogenes bound to its physiological substrate, cpIII, together with the in-solution data obtained by resonance Raman and UV-vis spectroscopy, for wild-type ferrochelatase and variants, analyzing propionate interactions. The results allow us to evaluate the porphyrin distortion and provide an in-depth characterization of the catalytically-relevant binding mode of cpIII prior to iron insertion. Our findings are discussed in the light of the observed structural restraints and necessities for this porphyrin-enzyme complex to catalyze the iron insertion process. Knowledge about this initial situation is essential for understanding the preconditions for iron insertion in CpfCs and builds the basis for future studies.
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Affiliation(s)
- Andrea Dali
- Dipartimento di Chimica “Ugo Schiff” – DICUSUniversità di FirenzeSesto Fiorentino (FI)Italy
| | - Thomas Gabler
- Department of ChemistryInstitute of Biochemistry, University of Natural Resources and Life SciencesViennaAustria
| | - Federico Sebastiani
- Dipartimento di Chimica “Ugo Schiff” – DICUSUniversità di FirenzeSesto Fiorentino (FI)Italy
| | - Alina Destinger
- Department of ChemistryInstitute of Biochemistry, University of Natural Resources and Life SciencesViennaAustria
| | - Paul Georg Furtmüller
- Department of ChemistryInstitute of Biochemistry, University of Natural Resources and Life SciencesViennaAustria
| | - Vera Pfanzagl
- Department of ChemistryInstitute of Biochemistry, University of Natural Resources and Life SciencesViennaAustria
| | - Maurizio Becucci
- Dipartimento di Chimica “Ugo Schiff” – DICUSUniversità di FirenzeSesto Fiorentino (FI)Italy
| | - Giulietta Smulevich
- Dipartimento di Chimica “Ugo Schiff” – DICUSUniversità di FirenzeSesto Fiorentino (FI)Italy,INSTM Research Unit of FirenzeSesto Fiorentino (Fi)Italy
| | - Stefan Hofbauer
- Department of ChemistryInstitute of Biochemistry, University of Natural Resources and Life SciencesViennaAustria
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Dozza B, Rodrigues BM, Tisoco I, de Souza VB, Angnes L, Iglesias BA. Spectroelectrochemistry as a powerful technique for porphyrins/corroles derivatives electro-characterization: Fundamentals and some examples. Microchem J 2022. [DOI: 10.1016/j.microc.2022.108041] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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18
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Ghanbari B, Mahdavian M, Bakhshandeh M, Kubicki M. Synthesis, single crystal, electrochemical and study of fluorogenic dibenzodiaza-crown-appended with bis(ZnTPP) azo-tweezer and spectroscopic elucidation of photo-induced macrocycle-deformation-based chromotropism. Polyhedron 2022. [DOI: 10.1016/j.poly.2022.116143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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19
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Ishizuka T, Grover N, Kingsbury CJ, Kotani H, Senge MO, Kojima T. Nonplanar porphyrins: synthesis, properties, and unique functionalities. Chem Soc Rev 2022; 51:7560-7630. [PMID: 35959748 DOI: 10.1039/d2cs00391k] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Porphyrins are variously substituted tetrapyrrolic macrocycles, with wide-ranging biological and chemical applications derived from metal chelation in the core and the 18π aromatic surface. Under suitable conditions, the porphyrin framework can deform significantly from regular planar shape, owing to steric overload on the porphyrin periphery or steric repulsion in the core, among other structure modulation strategies. Adopting this nonplanar porphyrin architecture allows guest molecules to interact directly with an exposed core, with guest-responsive and photoactive electronic states of the porphyrin allowing energy, information, atom and electron transfer within and between these species. This functionality can be incorporated and tuned by decoration of functional groups and electronic modifications, with individual deformation profiles adapted to specific key sensing and catalysis applications. Nonplanar porphyrins are assisting breakthroughs in molecular recognition, organo- and photoredox catalysis; simultaneously bio-inspired and distinctly synthetic, these molecules offer a new dimension in shape-responsive host-guest chemistry. In this review, we have summarized the synthetic methods and design aspects of nonplanar porphyrin formation, key properties, structure and functionality of the nonplanar aromatic framework, and the scope and utility of this emerging class towards outstanding scientific, industrial and environmental issues.
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Affiliation(s)
- Tomoya Ishizuka
- Department of Chemistry, Faculty of Pure and Applied Sciences, University of Tsukuba and CREST (JST), 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8571, Japan.
| | - Nitika Grover
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, Dublin 2, Ireland
| | - Christopher J Kingsbury
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, Dublin 2, Ireland
| | - Hiroaki Kotani
- Department of Chemistry, Faculty of Pure and Applied Sciences, University of Tsukuba and CREST (JST), 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8571, Japan.
| | - Mathias O Senge
- Institute for Advanced Study (TUM-IAS), Technical University of Munich, Focus Group - Molecular and Interfacial Engineering of Organic Nanosystems, Lichtenbergstrasse 2a, 85748 Garching, Germany.
| | - Takahiko Kojima
- Department of Chemistry, Faculty of Pure and Applied Sciences, University of Tsukuba and CREST (JST), 1-1-1 Tennoudai, Tsukuba, Ibaraki 305-8571, Japan.
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20
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Lemon CM, Hanley D, Batka AE, Marletta MA. Ratiometric Oxygen Sensing with H-NOX Protein Conjugates. Inorg Chem 2022; 61:10521-10532. [PMID: 35766625 DOI: 10.1021/acs.inorgchem.2c01430] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Ratiometric sensors are self-referencing constructs that are functional in cells and tissues, and the read-out is independent of sensor concentration. One strategy for ratiometric sensing is to utilize two-color emission, where one component possesses analyte-dependent emission and the other is independent of analyte concentration, serving as an internal standard. In this way, the intensity ratio of the two components is a quantitative measure of the analyte. In this study, protein-based ratiometric oxygen sensors are prepared using the heme nitric oxide/oxygen-binding protein (H-NOX) from the thermophilic bacterium Caldanaerobacter subterraneus. The native heme cofactor is replaced with a Pd(II) or Pt(II) porphyrin as the oxygen-responsive phosphor. Mutagenesis is performed to incorporate a cysteine residue on the protein surface for thiol/maleimide coupling of the oxygen-insensitive dye, which serves as a Förster resonance energy transfer (FRET) donor for the porphyrin. While both Pd(II)- and Pt(II)-based sensors are responsive over biologically relevant ranges, the Pd sensor exhibits greater sensitivity at lower oxygen concentrations. Together, these sensors represent a new class of protein-based ratiometric oxygen sensors, and the modular platform allows the oxygen sensitivity to be tailored for a specific application. This proof-of-principle study has identified the key considerations and optimal methodologies to develop and subsequently refine protein-based ratiometric oxygen sensors.
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21
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Sanfui S, Usman M, Sarkar S, Pramanik S, Garribba E, Rath SP. Highly Oxidized Cobalt Porphyrin Dimer: Control of Spin Coupling via a Bridge. Inorg Chem 2022; 61:8419-8430. [PMID: 35613476 DOI: 10.1021/acs.inorgchem.1c03807] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A cobalt porphyrin dimer is constructed in which two Co(II)porphyrins are connected covalently through a redox-active diethylpyrrole moiety via a flexible but "nonconjugated" methylene bridge. Upon oxidation with even a mild oxidant such as iodine, each cobalt(II) center and porphyrin ring undergo 1e- oxidation, leading to the formation of a 4e--oxidized cobalt(III)porphyrin dication diradical complex. Other oxidants such as Cl2 and Br2 also produce similar results. To stabilize such highly oxidized dication diradicals, the "nonconjugated" methylene spacer undergoes a facile and spontaneous oxidation to form a methine group with a drastic structural change, thereby making the bridge fully π-conjugated and enabling through-bond communication. This results in a strong spin coupling between two π-cation radicals which stabilizes the singlet state. The experimental observations are also strongly supported by extensive density functional theory calculations. The present study highlights the crucial role played by the nature of the bridge in the long-range electronic communication.
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Affiliation(s)
- Sarnali Sanfui
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Mohammad Usman
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Sabyasachi Sarkar
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Subhadip Pramanik
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
| | - Eugenio Garribba
- Dipartimento di Scienze Mediche, Chirurgiche e Sperimentali, Università di Sassari, Viale San Pietro, Sassari I-07100, Italy
| | - Sankar Prasad Rath
- Department of Chemistry, Indian Institute of Technology Kanpur, Kanpur 208016, India
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22
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Hazari AS, Chandra S, Kar S, Sarkar B. Metal Complexes of Singly, Doubly and Triply Linked Porphyrins and Corroles: An Insight into the Physicochemical Properties. Chemistry 2022; 28:e202104550. [PMID: 35088477 PMCID: PMC9311859 DOI: 10.1002/chem.202104550] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Indexed: 11/19/2022]
Abstract
Metal complexes of multi‐porphyrins and multi‐corroles are unique systems that display a host of extremely interesting properties. Availability of free meso and β positions allow formation of different types of directly linked bis‐porphyrins giving rise to intriguing optical and electronic properties. While the fields of metalloporphyrin and corroles monomer have seen exponential growth in the last decades, the chemistry of metal complexes of bis‐porphyrins and bis‐corroles remain rather underexplored. Therefore, the impact of covalent linkages on the optical, electronic, (spectro)electrochemical, magnetic and electrocatalytic activities of metal complexes of bis‐porphyrins and ‐corroles has been summarized in this review article. This article shows that despite the (still) somewhat difficult synthetic access to these molecules, their extremely exciting properties do make a strong case for pursuing research on these classes of compounds.
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Affiliation(s)
- Arijit Singha Hazari
- Lehrstuhl für Anorganische Koordinationschemie Institut für Anorganische Chemie Universität Stuttgart Pfaffenwaldring 55 70569 Stuttgart Germany
| | - Shubhadeep Chandra
- Lehrstuhl für Anorganische Koordinationschemie Institut für Anorganische Chemie Universität Stuttgart Pfaffenwaldring 55 70569 Stuttgart Germany
| | - Sanjib Kar
- School of Chemical Sciences National Institute of Science Education and Research (NISER) Bhubaneswar 752050 India
- Homi Bhabha National Institute Training School Complex Mumbai 400094 (India)
| | - Biprajit Sarkar
- Lehrstuhl für Anorganische Koordinationschemie Institut für Anorganische Chemie Universität Stuttgart Pfaffenwaldring 55 70569 Stuttgart Germany
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23
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Zaitseva SV, Zdanovich SA, Tyurin DV, Koifman OI. Macroheterocyclic μ-Nitrido- and μ-Carbido Dimeric Iron and Ruthenium Complexes as a Molecular Platform for Modeling Oxidative Enzymes (A Review). RUSS J INORG CHEM+ 2022. [DOI: 10.1134/s0036023622030160] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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24
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Nikelshparg EI, Baizhumanov AA, Bochkova ZV, Novikov SM, Yakubovsky DI, Arsenin AV, Volkov VS, Goodilin EA, Semenova AA, Sosnovtseva O, Maksimov GV, Brazhe NA. Detection of Hypertension-Induced Changes in Erythrocytes by SERS Nanosensors. BIOSENSORS 2022; 12:32. [PMID: 35049660 PMCID: PMC8773528 DOI: 10.3390/bios12010032] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2021] [Revised: 01/04/2022] [Accepted: 01/05/2022] [Indexed: 05/14/2023]
Abstract
Surface-enhanced Raman spectroscopy (SERS) is a promising tool that can be used in the detection of molecular changes triggered by disease development. Cardiovascular diseases (CVDs) are caused by multiple pathologies originating at the cellular level. The identification of these deteriorations can provide a better understanding of CVD mechanisms, and the monitoring of the identified molecular changes can be employed in the development of novel biosensor tools for early diagnostics. We applied plasmonic SERS nanosensors to assess changes in the properties of erythrocytes under normotensive and hypertensive conditions in the animal model. We found that spontaneous hypertension in rats leads (i) to a decrease in the erythrocyte plasma membrane fluidity and (ii) to a decrease in the mobility of the heme of the membrane-bound hemoglobin. We identified SERS parameters that can be used to detect pathological changes in the plasma membrane and submembrane region of erythrocytes.
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Affiliation(s)
- Evelina I. Nikelshparg
- Department of Biophysics, Biological Faculty, Moscow State University, 119991 Moscow, Russia; (A.A.B.); (Z.V.B.); (G.V.M.)
| | - Adil A. Baizhumanov
- Department of Biophysics, Biological Faculty, Moscow State University, 119991 Moscow, Russia; (A.A.B.); (Z.V.B.); (G.V.M.)
| | - Zhanna V. Bochkova
- Department of Biophysics, Biological Faculty, Moscow State University, 119991 Moscow, Russia; (A.A.B.); (Z.V.B.); (G.V.M.)
| | - Sergey M. Novikov
- Center for Photonics and 2D Materials, Moscow Institute of Physics and Technology (MIPT), 141700 Dolgoprudny, Russia; (S.M.N.); (D.I.Y.); (A.V.A.); (V.S.V.)
| | - Dmitry I. Yakubovsky
- Center for Photonics and 2D Materials, Moscow Institute of Physics and Technology (MIPT), 141700 Dolgoprudny, Russia; (S.M.N.); (D.I.Y.); (A.V.A.); (V.S.V.)
| | - Aleksey V. Arsenin
- Center for Photonics and 2D Materials, Moscow Institute of Physics and Technology (MIPT), 141700 Dolgoprudny, Russia; (S.M.N.); (D.I.Y.); (A.V.A.); (V.S.V.)
| | - Valentyn S. Volkov
- Center for Photonics and 2D Materials, Moscow Institute of Physics and Technology (MIPT), 141700 Dolgoprudny, Russia; (S.M.N.); (D.I.Y.); (A.V.A.); (V.S.V.)
| | - Eugene A. Goodilin
- Faculty of Materials Sciences, Moscow State University, 119991 Moscow, Russia; (E.A.G.); (A.A.S.)
- Department of Chemistry, Moscow State University, 119991 Moscow, Russia
| | - Anna A. Semenova
- Faculty of Materials Sciences, Moscow State University, 119991 Moscow, Russia; (E.A.G.); (A.A.S.)
| | - Olga Sosnovtseva
- Department of Biomedical Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, 2200 Copenhagen, Denmark;
| | - Georgy V. Maksimov
- Department of Biophysics, Biological Faculty, Moscow State University, 119991 Moscow, Russia; (A.A.B.); (Z.V.B.); (G.V.M.)
- Department of Physical Material Engineering, Federal State Autonomous Educational Institution of Higher Education “National Research Technological University “MISiS”, 119049 Moscow, Russia
| | - Nadezda A. Brazhe
- Department of Biophysics, Biological Faculty, Moscow State University, 119991 Moscow, Russia; (A.A.B.); (Z.V.B.); (G.V.M.)
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25
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Verma PK, Sawant SD. Unravelling reaction selectivities via bio-inspired porphyrinoid tetradentate frameworks. Coord Chem Rev 2022. [DOI: 10.1016/j.ccr.2021.214239] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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26
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Lemon CM, Nissley AJ, Latorraca NR, Wittenborn EC, Marletta MA. Corrole–protein interactions in H-NOX and HasA. RSC Chem Biol 2022; 3:571-581. [PMID: 35656484 PMCID: PMC9092467 DOI: 10.1039/d2cb00004k] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2022] [Accepted: 03/20/2022] [Indexed: 02/04/2023] Open
Abstract
Mutagenesis was utilised to reveal corrole–protein interactions in H-NOX and HasA. The key interaction is a hydrogen bond between the PO unit of the corrole and a protonated histidine residue.
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Affiliation(s)
- Christopher M. Lemon
- Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA
- California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, CA 94720, USA
- Miller Institute for Basic Research in Science, University of California, Berkeley, CA 94720, USA
| | - Amos J. Nissley
- Department of Chemistry, University of California, Berkeley, CA 94720, USA
| | - Naomi R. Latorraca
- Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA
- Miller Institute for Basic Research in Science, University of California, Berkeley, CA 94720, USA
| | - Elizabeth C. Wittenborn
- California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, CA 94720, USA
| | - Michael A. Marletta
- Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA
- California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, CA 94720, USA
- Department of Chemistry, University of California, Berkeley, CA 94720, USA
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27
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Influence of progressive halogenation of Zn(II)-tetraarylporphyrins and their free bases on the structure and spectral-fluorescence properties of tetrapyrrolic macrocycle. Inorganica Chim Acta 2021. [DOI: 10.1016/j.ica.2021.120620] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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28
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Norvaiša K, Maguire S, Donohoe C, O'Brien JE, Twamley B, Gomes-da-Silva LC, Senge MO. Steric Repulsion Induced Conformational Switch in Supramolecular Structures. Chemistry 2021; 28:e202103879. [PMID: 34792217 PMCID: PMC9299809 DOI: 10.1002/chem.202103879] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2021] [Indexed: 11/24/2022]
Abstract
Inspired by the rigidified architecture of ‘picket‐fence’ systems, we propose a strategy utilizing strain to impose intramolecular tension in already peripherally overcrowded structures leading to selective atropisomeric conversion. Employing this approach, tuneable shape‐persistent porphyrin conformations were acquired exhibiting distinctive supramolecular nanostructures based on the orientation of the peripheral groups. The intrinsic assemblies driven by non‐covalent bonding interactions form supramolecular polymers while encapsulating small molecules in parallel channels or solvent‐accessible voids. The developed molecular strain engineering methodologies combined with synthetic approaches have allowed the introduction of the pivalate units creating a highly strained molecular skeleton. Changes in the absorption spectrum indicated the presence of severe steric repulsions between the peripheral groups which were confirmed by single crystal X‐ray analysis. To release the steric strain introduced by the peripheral units, thermal equilibration strategies were used to selectively convert the most abundant atropisomer to the desirable minor one.
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Affiliation(s)
- Karolis Norvaiša
- School of Chemistry, Chair of Organic Chemistry Trinity Biomedical Sciences Institute Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, D02 R590, Dublin 2, Ireland
| | - Sophie Maguire
- School of Chemistry, Chair of Organic Chemistry Trinity Biomedical Sciences Institute Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, D02 R590, Dublin 2, Ireland
| | - Claire Donohoe
- School of Chemistry, Chair of Organic Chemistry Trinity Biomedical Sciences Institute Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, D02 R590, Dublin 2, Ireland.,CQC, Coimbra Chemistry Center Department of Chemistry, University of Coimbra, 3000-435, Coimbra, Portugal
| | - John E O'Brien
- School of Chemistry Trinity College Dublin, The University of Dublin, D02 PN40, Dublin 2, Ireland
| | - Brendan Twamley
- School of Chemistry Trinity College Dublin, The University of Dublin, D02 PN40, Dublin 2, Ireland
| | - Ligia C Gomes-da-Silva
- CQC, Coimbra Chemistry Center Department of Chemistry, University of Coimbra, 3000-435, Coimbra, Portugal
| | - Mathias O Senge
- School of Chemistry, Chair of Organic Chemistry Trinity Biomedical Sciences Institute Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, D02 R590, Dublin 2, Ireland.,Institute for Advanced Study (TUM-IAS) Focus Group - Molecular and Interfacial Engineering of Organic Nanosystems, Technical University of Munich, Lichtenbergstrasse 2a, D-85748, Garching, Germany
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29
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Alves KM, Honorato J, Lião LM, Velozo-Sa VS, Guedes APM, Dutra JDL, Ayalla AP, Ellena J, Batista AA, Gonçalves PJ. meso-Tetra-(4-pyridyl)porphyrin/palladium(II) complexes as anticancer agents. Dalton Trans 2021; 50:16254-16264. [PMID: 34730147 DOI: 10.1039/d1dt01850g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This study reports the synthesis, structural characterization and cytotoxic activity of four new palladium/pyridylporphyrin complexes, with the general formula {TPyP[PdCl(P-P)]4}(PF6)4, where P-P is 1,2-bis(diphenylphosphino)ethane (dppe), 1,3-bis(diphenylphosphino)propane (dppp), 1,2-bis(diphenylphosphino)butane (dppb) or 1,1'-bis(diphenylphosphino)ferrocene (dppf). The complexes were characterized by elemental analysis, and by FT-IR, UV/Vis, 1H and 31P{1H} NMR (1D/2D) spectroscopy. The slow evaporation of a methanolic solution of {TPyP[PdCl(dppb)]4}(PF6)4 (in an excess of NaBF4 salt) resulted in single crystals suitable for X ray diffraction, allowing the determination of the tridimensional structure of this complex, which crystallized in the P21/a space group. The cytotoxicity of the complexes against MDA-MB-231 (breast cancer cells) and MCF-10A (non-tumor breast cancer cells), was determined by the colorimetric MTT method, which revealed that all four complexes show selective indexes close to 1.2, lower than that of cisplatin for the same cells (12.12). The interaction of the complexes with CT-DNA was evaluated by UV-visible and viscosity measurements and it was determined that the complexes interact moderately with CT-DNA, probably by H-bonding/π-π stacking and electrostatic interactions.
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Affiliation(s)
- Kamilla M Alves
- Institute of Chemistry, Federal University of Goiás, Goiânia - GO, Brazil.
| | - João Honorato
- Department of Chemistry, Federal University of São Carlos, São Carlos - SP, Brazil. .,São Carlos Institute of Physics, University of São Paulo, São Carlos - SP, Brazil
| | - Luciano M Lião
- Institute of Chemistry, Federal University of Goiás, Goiânia - GO, Brazil.
| | - Vivianne S Velozo-Sa
- Institute of Biological Sciences, Federal University of Goiás, Goiânia - GO, Brazil
| | - Adriana P M Guedes
- Department of Chemistry, Federal University of São Carlos, São Carlos - SP, Brazil.
| | - Jocely de L Dutra
- Department of Chemistry, Federal University of São Carlos, São Carlos - SP, Brazil.
| | | | - Javier Ellena
- São Carlos Institute of Physics, University of São Paulo, São Carlos - SP, Brazil
| | - Alzir A Batista
- Institute of Chemistry, Federal University of Goiás, Goiânia - GO, Brazil. .,Department of Chemistry, Federal University of São Carlos, São Carlos - SP, Brazil.
| | - Pablo J Gonçalves
- Institute of Chemistry, Federal University of Goiás, Goiânia - GO, Brazil. .,Institute of Physics, Federal University of Goiás, Goiânia - GO, Brazil.
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30
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Osadchuk I, Aav R, Borovkov V, Clot E. Chirogenesis in Zinc Porphyrins: Theoretical Evaluation of Electronic Transitions, Controlling Structural Factors and Axial Ligation. Chemphyschem 2021; 22:1817-1833. [PMID: 34213815 PMCID: PMC8457158 DOI: 10.1002/cphc.202100345] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2021] [Revised: 06/24/2021] [Indexed: 12/15/2022]
Abstract
In the present work, sixteen different zinc porphyrins (possessing different meso substituents) with and without a chiral guest were modelled using DFT and TD-DFT approaches in order to understand the influence of various controlling factors on electronic circular dichroism (ECD) spectra. Two major aspects are influenced by these factors: excitation energy of the electronic transitions and their intensity. In the case of excitation energy, the influence increases in the following order: orientation of the peripheral substituents
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Affiliation(s)
- Irina Osadchuk
- Department of Chemistry and BiotechnologySchool of ScienceTallinn University of Technology AddressAkadeemia tee 1512618TallinnEstonia
- ICGMUniv MontpellierCNRS, ENSCMMontpellierFrance
| | - Riina Aav
- Department of Chemistry and BiotechnologySchool of ScienceTallinn University of Technology AddressAkadeemia tee 1512618TallinnEstonia
| | - Victor Borovkov
- Department of Chemistry and BiotechnologySchool of ScienceTallinn University of Technology AddressAkadeemia tee 1512618TallinnEstonia
| | - Eric Clot
- ICGMUniv MontpellierCNRS, ENSCMMontpellierFrance
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31
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Krumsieck J, Bröring M. PorphyStruct: A Digital Tool for the Quantitative Assignment of Non-Planar Distortion Modes in Four-Membered Porphyrinoids. Chemistry 2021; 27:11580-11588. [PMID: 34061410 PMCID: PMC8453524 DOI: 10.1002/chem.202101243] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Indexed: 11/20/2022]
Abstract
PorphyStruct, a new digital tool for the analysis of non‐planar distortion modes of different porphyrinoids, and its application to corrole structures is reported. The program makes use of the normal‐coordinate structure decomposition technique (NSD) and employs sets of normal modes equivalent to those established for porphyrins in order to describe the out‐of‐plane dislocation pattern of perimeter atoms from corroles, norcorroles, porphycenes and other porphyrinoids quantitatively and in analogy to the established terminology. A comparative study of 17 porphyrin structures shows very similar results to the original NSD analysis and no systematic error. Application to corroles is successful and reveals the necessity to implement an extended basis of normal modes for a large share of experimental structures. The results frequently show the concomitant occurence of several modes but remain interpretable. For group XI metal corroles the phenomenon of supersaddling was unravelled, allowing for more in‐depths discussions of structure‐function correlations.
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Affiliation(s)
- Jens Krumsieck
- Institute for Inorganic and Analytical Chemistry, TU Braunschweig, Hagenring 30, 38102, Braunschweig, Germany
| | - Martin Bröring
- Institute for Inorganic and Analytical Chemistry, TU Braunschweig, Hagenring 30, 38102, Braunschweig, Germany
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32
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Knecht P, Reichert J, Deimel PS, Feulner P, Haag F, Allegretti F, Garnica M, Schwarz M, Auwärter W, Ryan PTP, Lee T, Duncan DA, Seitsonen AP, Barth JV, Papageorgiou AC. Conformational Control of Chemical Reactivity for Surface-Confined Ru-Porphyrins. Angew Chem Int Ed Engl 2021; 60:16561-16567. [PMID: 33938629 PMCID: PMC8362151 DOI: 10.1002/anie.202104075] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2021] [Revised: 04/29/2021] [Indexed: 11/24/2022]
Abstract
We assess the crucial role of tetrapyrrole flexibility in the CO ligation to distinct Ru-porphyrins supported on an atomistically well-defined Ag(111) substrate. Our systematic real-space visualisation and manipulation experiments with scanning tunnelling microscopy directly probe the ligation, while bond-resolving atomic force microscopy and X-ray standing-wave measurements characterise the geometry, X-ray and ultraviolet photoelectron spectroscopy the electronic structure, and temperature-programmed desorption the binding strength. Density-functional-theory calculations provide additional insight into the functional interface. We unambiguously demonstrate that the substituents regulate the interfacial conformational adaptability, either promoting or obstructing the uptake of axial CO adducts.
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Affiliation(s)
- Peter Knecht
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
| | - Joachim Reichert
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
| | - Peter S. Deimel
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
| | - Peter Feulner
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
| | - Felix Haag
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
| | - Francesco Allegretti
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
| | - Manuela Garnica
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
- Current address: Instituto Madrileño de Estudios Avanzados en Nanociencia (IMDEA-Nanociencia), Cantoblanco28049MadridSpain
| | - Martin Schwarz
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
| | - Willi Auwärter
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
| | - Paul T. P. Ryan
- Diamond Light SourceDidcotOX11 0DEUK
- Department of MaterialsImperial College LondonExhibition RoadSW7 2AZLondonUK
- Current address: Institute of Applied PhysicsTechnische Universität WienWiedner Hauptstraße 8-10/1341040ViennaAustria
| | | | | | - Ari Paavo Seitsonen
- Département de ChimieEcole Normale Supérieure24 rue Lhomond75005ParisFrance
- Université de recherche Paris-Sciences-et-LettresSorbonne UniversitéCentre National de la Recherche Scientifique75005ParisFrance
| | - Johannes V. Barth
- Physics Department E20Technical University of MunichJames Franck Straße 185748GarchingGermany
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33
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Knecht P, Reichert J, Deimel PS, Feulner P, Haag F, Allegretti F, Garnica M, Schwarz M, Auwärter W, Ryan PTP, Lee T, Duncan DA, Seitsonen AP, Barth JV, Papageorgiou AC. Conformational Control of Chemical Reactivity for Surface‐Confined Ru‐Porphyrins. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202104075] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Peter Knecht
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Joachim Reichert
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Peter S. Deimel
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Peter Feulner
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Felix Haag
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Francesco Allegretti
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Manuela Garnica
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
- Current address: Instituto Madrileño de Estudios Avanzados en Nanociencia (IMDEA-Nanociencia), Cantoblanco 28049 Madrid Spain
| | - Martin Schwarz
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Willi Auwärter
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Paul T. P. Ryan
- Diamond Light Source Didcot OX11 0DE UK
- Department of Materials Imperial College London Exhibition Road SW7 2AZ London UK
- Current address: Institute of Applied Physics Technische Universität Wien Wiedner Hauptstraße 8-10/134 1040 Vienna Austria
| | | | | | - Ari Paavo Seitsonen
- Département de Chimie Ecole Normale Supérieure 24 rue Lhomond 75005 Paris France
- Université de recherche Paris-Sciences-et-Lettres Sorbonne Université Centre National de la Recherche Scientifique 75005 Paris France
| | - Johannes V. Barth
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
| | - Anthoula C. Papageorgiou
- Physics Department E20 Technical University of Munich James Franck Straße 1 85748 Garching Germany
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34
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Milordov DV, Mironov NA, Abilova GR, Tazeeva EG, Yakubova SG, Yakubov MR. Obtaining Pure Vanadyl Porphyrins from Heavy Oil Residues to Form Bases of Catalysts for Different Processes. CATALYSIS IN INDUSTRY 2021. [DOI: 10.1134/s2070050421020082] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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35
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Baş Ç, Krumsieck J, Möller W, Körner D, Bröring M. Zinc- and Cadmium meso-Aryl-Isoporphyrins: Non-Aromatic NIR Dyes with Distinct Conformational Features. Chemistry 2021; 27:8021-8029. [PMID: 33826188 PMCID: PMC8252505 DOI: 10.1002/chem.202100686] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Indexed: 11/26/2022]
Abstract
A series of pyrrolyl and dipyrrinyl isoporphyrins carrying different phenyl and thienyl groups is reported. The compounds are obtained by a one-pot approach in the presence of a template reagent. Thienyl derivatives gave better yields, and were the only subclass to form with steric hindrance. The structural analyses carried out on compounds 1 and 14 revealed distinct conformational differences which are likely to result from an intramolecular NH… Cl hydrogen bridge of the pyrrolyl subclass. In addition, this hydrogen bridge strongly favors one of the two possible atropisomers. Hindered rotation of the meso-aryl groups is observed only in the cases of methylbenzothienyl derivatives 10 and 15 and leads to the observation of several diastereomers. NIR absorptions up to 923 nm are found throughout. Electrochemical investigations into the 1e- and 2e- reduced species unravel axial ligand exchange dynamics for the zinc isoporphyrin radical, and the probable formation of a zinc phlorinate.
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Affiliation(s)
- Çağla Baş
- Institute of Inorganic and Analytical ChemistryTU BraunschweigHagenring 3038106BraunschweigGermany
| | - Jens Krumsieck
- Institute of Inorganic and Analytical ChemistryTU BraunschweigHagenring 3038106BraunschweigGermany
| | - William‐Dale Möller
- Institute of Inorganic and Analytical ChemistryTU BraunschweigHagenring 3038106BraunschweigGermany
| | - Dominik Körner
- Institute of Inorganic and Analytical ChemistryTU BraunschweigHagenring 3038106BraunschweigGermany
| | - Martin Bröring
- Institute of Inorganic and Analytical ChemistryTU BraunschweigHagenring 3038106BraunschweigGermany
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36
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Elliott R, Ryan AA, Aggarwal A, Zhu N, Steuber FW, Senge MO, Schmitt W. 2D Porphyrinic Metal-Organic Frameworks Featuring Rod-Shaped Secondary Building Units. Molecules 2021; 26:2955. [PMID: 34065664 PMCID: PMC8156857 DOI: 10.3390/molecules26102955] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2021] [Revised: 05/10/2021] [Accepted: 05/12/2021] [Indexed: 12/02/2022] Open
Abstract
Metal-organic frameworks (MOFs) encompass a rapidly expanding class of materials with diverse potential applications including gas storage, molecular separation, sensing and catalysis. So-called 'rod MOFs', which comprise infinitely extended 1D secondary building units (SBUs), represent an underexplored subclass of MOF. Further, porphyrins are considered privileged ligands for MOF synthesis due to their tunable redox and photophysical properties. In this study, the CuII complex of 5,15-bis(4-carboxyphenyl)-10,20-diphenylporphyrin (H2L-CuII, where H2 refers to the ligand's carboxyl H atoms) is used to prepare two new 2D porphyrinic rod MOFs PROD-1 and PROD-2. Single-crystal X-ray analysis reveals that these frameworks feature 1D MnII- or CoII-based rod-like SBUs that are coordinated by labile solvent molecules and photoactive porphyrin moieties. Both materials were characterised using infrared (IR) spectroscopy, powder X-ray diffraction (PXRD) spectroscopy and thermogravimetric analysis (TGA). The structural attributes of PROD-1 and PROD-2 render them promising materials for future photocatalytic investigations.
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Affiliation(s)
- Rory Elliott
- School of Chemistry & AMBER Centre, Trinity College, University of Dublin, Dublin, Ireland; (R.E.); (A.A.); (N.Z.); (F.W.S.)
| | - Aoife A. Ryan
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Science Institute, 152-160 Pearse Street, Trinity College, The University of Dublin, Dublin, Ireland;
| | - Aviral Aggarwal
- School of Chemistry & AMBER Centre, Trinity College, University of Dublin, Dublin, Ireland; (R.E.); (A.A.); (N.Z.); (F.W.S.)
| | - Nianyong Zhu
- School of Chemistry & AMBER Centre, Trinity College, University of Dublin, Dublin, Ireland; (R.E.); (A.A.); (N.Z.); (F.W.S.)
| | - Friedrich W. Steuber
- School of Chemistry & AMBER Centre, Trinity College, University of Dublin, Dublin, Ireland; (R.E.); (A.A.); (N.Z.); (F.W.S.)
| | - Mathias O. Senge
- Focus Group—Molecular and Interfacial Engineering of Organic Nanosystems, Institute for Advanced Study (TUM-IAS), Technical University of Munich, Lichtenberg-Str. 2a, 85748 Garching, Germany;
| | - Wolfgang Schmitt
- School of Chemistry & AMBER Centre, Trinity College, University of Dublin, Dublin, Ireland; (R.E.); (A.A.); (N.Z.); (F.W.S.)
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37
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Flanagan KJ, Paradiz Dominguez M, Melissari Z, Eckhardt HG, Williams RM, Gibbons D, Prior C, Locke GM, Meindl A, Ryan AA, Senge MO. Structural effects of meso-halogenation on porphyrins. Beilstein J Org Chem 2021; 17:1149-1170. [PMID: 34093881 PMCID: PMC8144917 DOI: 10.3762/bjoc.17.88] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Accepted: 05/04/2021] [Indexed: 12/30/2022] Open
Abstract
The use of halogens in the crystal engineering of supramolecular porphyrin assemblies has been a topic of strong interest over the past decades. With this in mind we have characterized a series of direct meso-halogenated porphyrins using single crystal X-ray crystallography. This is accompanied by a detailed conformational analysis of all deposited meso-halogenated porphyrins in the CSD. In this study we have used the Hirshfeld fingerprint plots together with normal-coordinate structural decomposition and determined crystal structures to elucidate the conformation, present intermolecular interactions, and compare respective contacts within the crystalline architectures. Additionally, we have used density functional theory calculations to determine the structure of several halogenated porphyrins. This contrasts conformational analysis with existing X-ray structures and gives a method to characterize samples that are difficult to crystallize. By using the methods outlined above we were able to deduce the impact a meso halogen has on a porphyrin, for example, meso-halogenation is dependent on the type of alternate substituents present when forming supramolecular assemblies. Furthermore, we have designed a method to predict the conformation of halogenated porphyrins, without need of crystallization, using DFT calculations with a high degree of accuracy.
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Affiliation(s)
- Keith J Flanagan
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
| | - Maximilian Paradiz Dominguez
- Van ‘t Hoff Institute for Molecular Sciences, University of Amsterdam, P.O. Box 94157, 1090 GD Amsterdam, The Netherlands
| | - Zoi Melissari
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
- Van ‘t Hoff Institute for Molecular Sciences, University of Amsterdam, P.O. Box 94157, 1090 GD Amsterdam, The Netherlands
| | - Hans-Georg Eckhardt
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
| | - René M Williams
- Van ‘t Hoff Institute for Molecular Sciences, University of Amsterdam, P.O. Box 94157, 1090 GD Amsterdam, The Netherlands
| | - Dáire Gibbons
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
| | - Caroline Prior
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
| | - Gemma M Locke
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
| | - Alina Meindl
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
| | - Aoife A Ryan
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
| | - Mathias O Senge
- School of Chemistry, Chair of Organic Chemistry, Trinity Biomedical Sciences Institute, 152–160 Pearse Street, Trinity College Dublin, The University of Dublin, Dublin 2, Ireland
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Thakuri B, O'Rourke BD, Graves AB, Liptak MD. A Dynamic Substrate is Required for MhuD-Catalyzed Degradation of Heme to Mycobilin. Biochemistry 2021; 60:918-928. [PMID: 33729746 PMCID: PMC8628293 DOI: 10.1021/acs.biochem.0c00892] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The noncanonical heme oxygenase MhuD from Mycobacterium tuberculosis binds a heme substrate that adopts a dynamic equilibrium between planar and out-of-plane ruffled conformations. MhuD degrades this substrate to an unusual mycobilin product via successive monooxygenation and dioxygenation reactions. This article establishes a causal relationship between heme substrate dynamics and MhuD-catalyzed heme degradation, resulting in a refined enzymatic mechanism. UV/vis absorption (Abs) and electrospray ionization mass spectrometry (ESI-MS) data demonstrated that a second-sphere substitution favoring the population of the ruffled heme conformation changed the rate-limiting step of the reaction, resulting in a measurable buildup of the monooxygenated meso-hydroxyheme intermediate. In addition, UV/vis Abs and ESI-MS data for a second-sphere variant that favored the planar substrate conformation showed that this change altered the enzymatic mechanism resulting in an α-biliverdin product. Single-turnover kinetic analyses for three MhuD variants revealed that the rate of heme monooxygenation depends upon the population of the ruffled substrate conformation. These kinetic analyses also revealed that the rate of meso-hydroxyheme dioxygenation by MhuD depends upon the population of the planar substrate conformation. Thus, the ruffled heme conformation supports rapid heme monooxygenation by MhuD, but further oxygenation to the mycobilin product is inhibited. In contrast, the planar substrate conformation exhibits altered heme monooxygenation regiospecificity followed by rapid oxygenation of meso-hydroxyheme. Altogether, these data yielded a refined enzymatic mechanism for MhuD where access to both substrate conformations is needed for rapid incorporation of three oxygen atoms into heme yielding mycobilin.
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Affiliation(s)
- Biswash Thakuri
- Department of Chemistry, University of Vermont, Burlington, Vermont 05405, United States
| | - Bruce D O'Rourke
- Department of Chemistry, University of Vermont, Burlington, Vermont 05405, United States
| | - Amanda B Graves
- Department of Chemistry, University of Vermont, Burlington, Vermont 05405, United States
| | - Matthew D Liptak
- Department of Chemistry, University of Vermont, Burlington, Vermont 05405, United States
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39
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Norvaiša K, Yeow K, Twamley B, Roucan M, Senge MO. Strategic Synthesis of 'Picket Fence' Porphyrins Based on Nonplanar Macrocycles. European J Org Chem 2021; 2021:1871-1882. [PMID: 33889056 PMCID: PMC8048935 DOI: 10.1002/ejoc.202100154] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2021] [Revised: 03/04/2021] [Indexed: 12/31/2022]
Abstract
Traditional 'picket fence' porphyrin systems have been a topic of interest for their capacity to direct steric shielding effects selectively to one side of the macrocycle. Sterically overcrowded porphyrin systems that adopt macrocycle deformations have recently drawn attention for their applications in organocatalysis and sensing. Here we explore the combined benefits of nonplanar porphyrins and the old molecular design to bring new concepts to the playing field. The challenging ortho-positions of meso-phenyl residues in dodecasubstituted porphyrin systems led us to transition to less hindered para- and meta-sites and develop selective demethylation based on the steric interplay. Isolation of the symmetrical target compound [2,3,7,8,12,13,17,18-octaethyl-5,10,15,20-tetrakis(3,5-dipivaloyloxyphenyl)porphyrin] was investigated under two synthetic pathways. The obtained insight was used to isolate unsymmetrical [2,3,7,8,12,13,17,18-octaethyl-5,10,15,20-tetrakis(2-nitro-5-pivaloyloxyphenyl)porphyrin]. Upon separation of the atropisomers, a detailed single-crystal X-ray crystallographic analysis highlighted intrinsic intermolecular interactions. The nonplanarity of these systems in combination with 'picket fence' motifs provides an important feature in the design of supramolecular ensembles.
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Affiliation(s)
- Karolis Norvaiša
- Chair of Organic ChemistrySchool of ChemistryTrinity Biomedical Sciences InstituteTrinity College DublinThe University of Dublin152–160 Pearse StreetDublin2Ireland
| | - Kathryn Yeow
- Chair of Organic ChemistrySchool of ChemistryTrinity Biomedical Sciences InstituteTrinity College DublinThe University of Dublin152–160 Pearse StreetDublin2Ireland
| | - Brendan Twamley
- School of ChemistryTrinity College DublinThe University of DublinDublin2Ireland
| | - Marie Roucan
- Chair of Organic ChemistrySchool of ChemistryTrinity Biomedical Sciences InstituteTrinity College DublinThe University of Dublin152–160 Pearse StreetDublin2Ireland
| | - Mathias O. Senge
- Chair of Organic ChemistrySchool of ChemistryTrinity Biomedical Sciences InstituteTrinity College DublinThe University of Dublin152–160 Pearse StreetDublin2Ireland
- Institute for Advanced Study (TUM-IAS)Technical University of MunichLichtenbergstrasse 2a85748GarchingGermany
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40
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Fathi P, Roslend A, Mehta K, Moitra P, Zhang K, Pan D. UV-trained and metal-enhanced fluorescence of biliverdin and biliverdin nanoparticles. NANOSCALE 2021; 13:4785-4798. [PMID: 33434263 PMCID: PMC9297654 DOI: 10.1039/d0nr08485a] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
Increasing the fluorescence quantum yield of fluorophores is of great interest for in vitro and in vivo biomedical imaging applications. At the same time, photobleaching and photodegradation resulting from continuous exposure to light are major considerations in the translation of fluorophores from research applications to industrial or healthcare applications. A number of tetrapyrrolic compounds, such as heme and its derivatives, are known to provide fluorescence contrast. In this work, we found that biliverdin (BV), a naturally-occurring tetrapyrrolic fluorophore, exhibits an increase in fluorescence quantum yield, without exhibiting photobleaching or degradation, in response to continuous ultraviolet (UV) irradiation. We attribute this increased fluorescence quantum yield to photoisomerization and conformational changes in BV in response to UV irradiation. This enhanced fluorescence can be further altered by chelating BV with metals. UV irradiation of BV led to an approximately 10-fold increase in its 365 nm fluorescence quantum yield, and the most favorable combination of UV irradiation and metal chelation led to an approximately 18.5-fold increase in its 365 nm fluorescence quantum yield. We also evaluated these stimuli-responsive behaviors in biliverdin nanoparticles (BVNPs) at the bulk-state and single-particle level. We determined that UV irradiation led to an approximately 2.4-fold increase in BVNP 365 nm quantum yield, and the combination of UV irradiation and metal chelation led to up to a 6.75-fold increase in BVNP 365 nm quantum yield. Altogether, these findings suggest that UV irradiation and metal chelation can be utilized alone or in combination to tailor the fluorescence behavior of imaging probes such as BV and BVNPs at selected wavelengths.
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Affiliation(s)
- Parinaz Fathi
- Departments of Bioengineering, Materials Science and Engineering, and Beckman Institute, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA.
| | - Ayman Roslend
- Departments of Bioengineering, Materials Science and Engineering, and Beckman Institute, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA.
| | - Kritika Mehta
- Department of Biochemistry, School of Molecular and Cellular Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
| | - Parikshit Moitra
- Department of Pediatrics, University of Maryland School of Medicine, Baltimore, MD 21201, USA
| | - Kai Zhang
- Department of Biochemistry, School of Molecular and Cellular Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
| | - Dipanjan Pan
- Departments of Bioengineering, Materials Science and Engineering, and Beckman Institute, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA. and Departments of Diagnostic Radiology Nuclear Medicine, Pediatrics, and Chemical and Biomolecular Engineering, University of Maryland School of Medicine and University of Maryland Baltimore County, Baltimore, MD 21201, USA
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41
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Lahav Y, Noy D, Schapiro I. Spectral tuning of chlorophylls in proteins - electrostatics vs. ring deformation. Phys Chem Chem Phys 2021; 23:6544-6551. [PMID: 33690760 DOI: 10.1039/d0cp06582j] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
In photosynthetic complexes, tuning of chlorophyll light-absorption spectra by the protein environment is crucial to their efficiency and robustness. Recombinant type II water soluble chlorophyll-binding proteins from Brassicaceae (WSCPs) are useful for studying spectral tuning mechanisms due to their symmetric homotetramer structure, and the ability to rigorously modify the chlorophyll's protein surroundings. Our previous comparison of the crystal structures of two WSCP homologues suggested that protein-induced chlorophyll ring deformation is the predominant spectral tuning mechanism. Here, we implement a more rigorous analysis based on hybrid quantum mechanics and molecular mechanics calculations to quantify the relative contributions of geometrical and electrostatic factors to the absorption spectra of WSCP-chlorophyll complexes. We show that when considering conformational dynamics, geometry distortions such as chlorophyll ring deformation accounts for about one-third of the spectral shift, whereas the direct polarization of the electron density accounts for the remaining two-thirds. From a practical perspective, protein electrostatics is easier to manipulate than chlorophyll conformations, thus, it may be more readily implemented in designing artificial protein-chlorophyll complexes.
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Affiliation(s)
- Yigal Lahav
- Fritz Haber Centre for Molecular Dynamics Research, Institute of Chemistry, Hebrew University of Jerusalem, Israel.
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42
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Longevial J, Rose C, Poyac L, Clément S, Richeter S. Molecular Systems Combining Porphyrinoids and N‐Heterocyclic Carbenes. Eur J Inorg Chem 2021. [DOI: 10.1002/ejic.202001011] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
| | - Clémence Rose
- ICGM Univ. Montpellier CNRS ENSCM 34000 Montpellier France
| | - Ludivine Poyac
- ICGM Univ. Montpellier CNRS ENSCM 34000 Montpellier France
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43
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44
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Senge MO, Sergeeva NN, Hale KJ. Classic highlights in porphyrin and porphyrinoid total synthesis and biosynthesis. Chem Soc Rev 2021; 50:4730-4789. [PMID: 33623938 DOI: 10.1039/c7cs00719a] [Citation(s) in RCA: 48] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Porphyrins feature prominently in nature, be it as enzymatic cofactors, electron and exciton shuffles, as photoactive dyes, or as signaling substances. Their involvement in the generation, storage and use of oxygen is pivotal to life, while their photochemical properties are central to the biochemical functioning of plants. When complexed to metals, porphyrins can engage in a multitude of contemporary applications ranging from solar energy generation to serving as catalysts for important chemical reactions. They are also able to function as useful theranostic agents, and as novel materials for a wide range of applications. As such, they are widely considered to be highly valuable molecules, and it almost goes without saying that synthetic organic chemistry has dramatically underpinned all the key advances made, by providing reliable access to them. In fact, strategies for the synthesis of functionalized porphyrins have now reached a state of refinement where pretty well any desired porphyrin can successfully be synthesized with the approaches that are available, including a cornucopia of related macrocycle-modified porphyrinoids. In this review, we are going to illustrate the development of this exciting field by discussing a number of classic syntheses of porphyrins. Our coverage will encompass the natural protoporphyrins and chlorophylls, while also covering general strategies for the synthesis of unsymmetrical porphyrins and chlorins. Various industrial syntheses of porphyrins will also be discussed, as will other routes of great practical importance, and avenues to key porphyrinoids with modified macrocycles. A range of selected examples of contemporary functionalization reactions will be highlighted. The various key syntheses will be described and analyzed from a traditional mechanistic organic chemistry perspective to help student readers, and those who are new to this area. The aim will be to allow readers to mechanistically appreciate and understand how many of these fascinating ring-systems are built and further functionalized.
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Affiliation(s)
- Mathias O Senge
- School of Chemistry, Trinity Biomedical Sciences Institute, Trinity College Dublin, The University of Dublin, 152-160 Pearse Street, Dublin 2, Ireland.
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45
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Abstract
Although fluorescent proteins have been utilized for a variety of biological applications, they have several optical limitations, namely weak red and near-infrared emission and exceptionally broad (>200 nm) emission profiles. The photophysical properties of fluorescent proteins can be enhanced through the incorporation of novel cofactors with the desired properties into a stable protein scaffold. To this end, a fluorescent phosphorus corrole that is structurally similar to the native heme cofactor is incorporated into two exceptionally stable heme proteins: H-NOX from Caldanaerobacter subterraneus and heme acquisition system protein A (HasA) from Pseudomonas aeruginosa. These yellow-orange emitting protein conjugates are examined by steady-state and time-resolved optical spectroscopy. The HasA conjugate exhibits enhanced fluorescence, whereas emission from the H-NOX conjugate is quenched relative to the free corrole. Despite the low fluorescence quantum yields, these corrole-substituted proteins exhibit more intense fluorescence in a narrower spectral profile than traditional fluorescent proteins that emit in the same spectral window. This study demonstrates that fluorescent corrole complexes are readily incorporated into heme proteins and provides an inroad for the development of novel fluorescent proteins.
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Affiliation(s)
- Christopher M Lemon
- Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, California 94720, United States.,California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, California 94720, United States.,Miller Institute for Basic Research in Science, University of California, Berkeley, Berkeley, California 94720, United States
| | - Michael A Marletta
- Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, California 94720, United States.,California Institute for Quantitative Biosciences (QB3), University of California, Berkeley, Berkeley, California 94720, United States.,Department of Chemistry, University of California, Berkeley, Berkeley, California 94720, United States
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46
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Maglio O, Chino M, Vicari C, Pavone V, Louro RO, Lombardi A. Histidine orientation in artificial peroxidase regioisomers as determined by paramagnetic NMR shifts. Chem Commun (Camb) 2021; 57:990-993. [PMID: 33399143 DOI: 10.1039/d0cc06676a] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Fe-Mimochrome VI*a is a synthetic peroxidase and peroxygenase, featuring two different peptides that are covalently-linked to deuteroheme. To perform a systematic structure/function correlation, we purposely shortened the distance between the distal peptide and the heme, allowing for the separation and characterization of two regioisomers. They differ in both His axial-ligand orientation, as determined by paramagnetic NMR shifts, and activity. These findings highlight that synthetic metalloenzymes may provide an efficient tool for disentangling the role of axial ligand orientation over peroxidase activity.
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Affiliation(s)
- Ornella Maglio
- Department of Chemical Sciences, University Federico II of Naples, Via Cintia 21, Naples, 80126, Italy. and IBB-CNR, Via Mezzocannone 16, Naples, 80134, Italy
| | - Marco Chino
- Department of Chemical Sciences, University Federico II of Naples, Via Cintia 21, Naples, 80126, Italy.
| | - Claudia Vicari
- Department of Chemical Sciences, University Federico II of Naples, Via Cintia 21, Naples, 80126, Italy.
| | - Vincenzo Pavone
- Department of Chemical Sciences, University Federico II of Naples, Via Cintia 21, Naples, 80126, Italy.
| | - Ricardo O Louro
- ITQB-UNL, Av. da Republica (EAN), Oeiras 2780-157, Portugal.
| | - Angela Lombardi
- Department of Chemical Sciences, University Federico II of Naples, Via Cintia 21, Naples, 80126, Italy.
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47
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Sample HC, Senge MO. Nucleophilic Aromatic Substitution (S NAr) and Related Reactions of Porphyrinoids: Mechanistic and Regiochemical Aspects. European J Org Chem 2021; 2021:7-42. [PMID: 33519299 PMCID: PMC7821298 DOI: 10.1002/ejoc.202001183] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2020] [Indexed: 12/29/2022]
Abstract
The nucleophilic substitution of aromatic moieties (SNAr) has been known for over 150 years and found wide use for the functionalization of (hetero)aromatic systems. Currently, several "types" of SNAr reactions have been established and notably the area of porphyrinoid macrocycles has seen many uses thereof. Herein, we detail the SNAr reactions of seven types of porphyrinoids with differing number and type of pyrrole units: subporphyrins, norcorroles, corroles, porphyrins, azuliporphyrins, N-confused porphyrins, and phthalocyanines. For each we analyze the substitution dependent upon: a) the type of nucleophile and b) the site of substitution (α, β, or meso). Along with this we evaluate this route as a synthetic strategy for the generation of unsymmetrical porphyrinoids. Distinct trends can be identified for each type of porphyrinoid discussed, regardless of nucleophile. The use of nucleophilic substitution on porphyrinoids is found to often be a cost-effective procedure with the ability to yield complex substituent patterns, which can be conducted in non-anhydrous solvents with easily accessible simple porphyrinoids.
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Affiliation(s)
- Harry C. Sample
- School of ChemistryTrinity Biomedical Sciences InstituteThe University of Dublin152‐160 Pearse StreetDublin 2Ireland
| | - Mathias O. Senge
- Institute for Advanced Study (TUM‐IAS)Technical University of MunichLichtenbergstrasse 2a85748GarchingGermany
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48
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Enakieva YY, Zhigileva EA, Fitch AN, Chernyshev VV, Stenina IA, Yaroslavtsev AB, Sinelshchikova AA, Kovalenko KA, Gorbunova YG, Tsivadze AY. Proton conductivity as a function of the metal center in porphyrinylphosphonate-based MOFs. Dalton Trans 2021; 50:6549-6560. [PMID: 33890610 DOI: 10.1039/d1dt00612f] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The rational design of metal-organic frameworks (MOFs) is highly important for the development of new proton conductors. Porphyrinylphosphonate-based MOFs, providing the directed tuning of physical and chemical properties of materials through the modification of a macrocycle, are potentially high-conducting systems. In this work the synthesis and characterization of novel anionic Zn-containing MOF based on palladium(ii) meso-tetrakis(3-(phosphonatophenyl))porphyrinate, IPCE-2Pd, are reported. Moreover, the proton-conductive properties and structures of two anionic Zn-containing MOFs based on previously described nickel(ii) and novel palladium(ii) porphyrinylphosphonates, IPCE-2M (M = Ni(ii) or Pd(ii)), are compared in details. The high proton conductivity of 1.0 × 10-2 S cm-1 at 75 °C and 95% relative humidity (RH) is revealed for IPCE-2Ni, while IPCE-2Pd exhibits higher hydrolytic and thermal stability of the material (up to 420 °C) simultaneously maintaining a comparable value of conductivity (8.11 × 10-3 S cm-1 at 95 °C and 95% RH). The nature of the porphyrin metal center is responsible for the features of crystal structure of materials, obtained under identical reaction conditions. The structures of IPCE-2Pd and its dehydrated derivative IPCE-2Pd-HT are determined from the synchrotron powder diffraction data. The presence of phosphonic groups in compared materials IPCE-2M affords a high concentration of proton carriers that together with the sorption of water molecules leads to a high proton conductivity.
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Affiliation(s)
- Yulia Yu Enakieva
- Frumkin Institute of Physical Chemistry and Electrochemistry, Russian Academy of Sciences, Leninsky prosp. 31/4, Moscow, 119071, Russian Federation.
| | - Ekaterina A Zhigileva
- Department of Chemistry, Lomonosov Moscow State University, Leninskie Gory, 1-3, Moscow, 119991, Russian Federation
| | - Andrew N Fitch
- European Synchrotron Radiation Facility, BP 220, 38043 Grenoble CEDEX 9, France
| | - Vladimir V Chernyshev
- Frumkin Institute of Physical Chemistry and Electrochemistry, Russian Academy of Sciences, Leninsky prosp. 31/4, Moscow, 119071, Russian Federation. and Department of Chemistry, Lomonosov Moscow State University, Leninskie Gory, 1-3, Moscow, 119991, Russian Federation
| | - Irina A Stenina
- Kurnakov Institute of General and Inorganic Chemistry, Russian Academy of Sciences, Leninsky prosp. 31, Moscow, 119991, Russian Federation
| | - Andrey B Yaroslavtsev
- Kurnakov Institute of General and Inorganic Chemistry, Russian Academy of Sciences, Leninsky prosp. 31, Moscow, 119991, Russian Federation
| | - Anna A Sinelshchikova
- Frumkin Institute of Physical Chemistry and Electrochemistry, Russian Academy of Sciences, Leninsky prosp. 31/4, Moscow, 119071, Russian Federation.
| | - Konstantin A Kovalenko
- Nikolaev Institute of Inorganic Chemistry, Siberian Branch, Russian Academy of Sciences, 3, Acad. Lavrentiev Ave., Novosibirsk, 630090, Russian Federation
| | - Yulia G Gorbunova
- Frumkin Institute of Physical Chemistry and Electrochemistry, Russian Academy of Sciences, Leninsky prosp. 31/4, Moscow, 119071, Russian Federation. and Kurnakov Institute of General and Inorganic Chemistry, Russian Academy of Sciences, Leninsky prosp. 31, Moscow, 119991, Russian Federation
| | - Aslan Yu Tsivadze
- Frumkin Institute of Physical Chemistry and Electrochemistry, Russian Academy of Sciences, Leninsky prosp. 31/4, Moscow, 119071, Russian Federation. and Kurnakov Institute of General and Inorganic Chemistry, Russian Academy of Sciences, Leninsky prosp. 31, Moscow, 119991, Russian Federation
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49
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Pei J, Gao B, Li Y, Duan Q. Synthesis of novel porphyrin derivatives and their self-assemblies to enhance photocatalytic performance. NEW J CHEM 2021. [DOI: 10.1039/d0nj05297c] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Preparation of new porphyrin derivatives and their self-assemblies to improve photocatalytic performance.
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Affiliation(s)
- Jinghe Pei
- School of Materials Science and Engineering, Changchun University of Science and Technology
- Changchun 130022
- China
| | - Bo Gao
- School of Materials Science and Engineering, Changchun University of Science and Technology
- Changchun 130022
- China
- Engineering Research Center of Optoelectronic Functional Materials, Ministry of Education
- Changchun 130022
| | - Yanhui Li
- School of Materials Science and Engineering, Changchun University of Science and Technology
- Changchun 130022
- China
| | - Qian Duan
- School of Materials Science and Engineering, Changchun University of Science and Technology
- Changchun 130022
- China
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50
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Jökel J, Schwer F, von Delius M, Apfel UP. A dinuclear porphyrin-macrocycle as efficient catalyst for the hydrogen evolution reaction. Chem Commun (Camb) 2020; 56:14179-14182. [PMID: 33107896 DOI: 10.1039/d0cc05229a] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
We report an unprecedented dinuclear catalyst for the electrochemical hydrogen evolution reaction (HER). A macrocyclic porphyrin complex comprising two nickel centres connected via redox mediating linker molecules gives rise to efficient catalysis, significantly outperforming a mononuclear reference catalyst.
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Affiliation(s)
- Julia Jökel
- Inorganic Chemistry I, Ruhr-University Bochum, Universitätsstr. 150, 44801 Bochum, Germany.
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