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Xu Y, Peschel MT, Jänchen M, Foja R, Storch G, Thyrhaug E, de Vivie-Riedle R, Hauer J. Determining Excited-State Absorption Properties of a Quinoid Flavin by Polarization-Resolved Transient Spectroscopy. J Phys Chem A 2024; 128:3830-3839. [PMID: 38709806 PMCID: PMC11103687 DOI: 10.1021/acs.jpca.4c01260] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2024] [Revised: 04/19/2024] [Accepted: 04/25/2024] [Indexed: 05/08/2024]
Abstract
As important naturally occurring chromophores, photophysical/chemical properties of quinoid flavins have been extensively studied both experimentally and theoretically. However, little is known about the transition dipole moment (TDM) orientation of excited-state absorption transitions of these important compounds. This aspect is of high interest in the fields of photocatalysis and quantum control studies. In this work, we employ polarization-associated spectra (PAS) to study the excited-state absorption transitions and the underlying TDM directions of a standard quinoid flavin compound. As compared to transient absorption anisotropy (TAA), an analysis based on PAS not only avoids diverging signals but also retrieves the relative angle for ESA transitions with respect to known TDM directions. Quantum chemical calculations of excited-state properties lead to good agreement with TA signals measured in magic angle configuration. Only when comparing experiment and theory for TAA spectra and PAS, do we find deviations when and only when the S0 → S1 of flavin is used as a reference. We attribute this to the vibronic coupling of this transition to a dark state. This effect is only observed in the employed polarization-controlled spectroscopy and would have gone unnoticed in conventional TA.
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Affiliation(s)
- Yi Xu
- TUM
School of Natural Sciences, Department of Chemistry and Catalysis
Research Center, Technical University of
Munich, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Martin T. Peschel
- Department
of Chemistry, Ludwig-Maximilians-Universität
München, 81377 München, Germany
| | - Miriam Jänchen
- TUM
School of Natural Sciences, Department of Chemistry and Catalysis
Research Center, Technical University of
Munich, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Richard Foja
- TUM
School of Natural Sciences, Department of Chemistry and Catalysis
Research Center, Technical University of
Munich, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Golo Storch
- TUM
School of Natural Sciences, Department of Chemistry and Catalysis
Research Center, Technical University of
Munich, Lichtenbergstraße 4, 85748 Garching, Germany
| | - Erling Thyrhaug
- TUM
School of Natural Sciences, Department of Chemistry and Catalysis
Research Center, Technical University of
Munich, Lichtenbergstraße 4, 85748 Garching, Germany
| | | | - Jürgen Hauer
- TUM
School of Natural Sciences, Department of Chemistry and Catalysis
Research Center, Technical University of
Munich, Lichtenbergstraße 4, 85748 Garching, Germany
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2
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Le DPN, Hastings G, Gozem S. How Aqueous Solvation Impacts the Frequencies and Intensities of Infrared Absorption Bands in Flavin: The Quest for a Suitable Solvent Model. Molecules 2024; 29:520. [PMID: 38276598 PMCID: PMC10818357 DOI: 10.3390/molecules29020520] [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: 12/20/2023] [Revised: 01/16/2024] [Accepted: 01/17/2024] [Indexed: 01/27/2024] Open
Abstract
FTIR spectroscopy accompanied by quantum chemical simulations can reveal important information about molecular structure and intermolecular interactions in the condensed phase. Simulations typically account for the solvent either through cluster quantum mechanical (QM) models, polarizable continuum models (PCM), or hybrid quantum mechanical/molecular mechanical (QM/MM) models. Recently, we studied the effect of aqueous solvent interactions on the vibrational frequencies of lumiflavin, a minimal flavin model, using cluster QM and PCM models. Those models successfully reproduced the relative frequencies of four prominent stretching modes of flavin's isoalloxazine ring in the diagnostic 1450-1750 cm-1 range but poorly reproduced the relative band intensities. Here, we extend our studies on this system and account for solvation through a series of increasingly sophisticated models. Only by combining elements of QM clusters, QM/MM, and PCM approaches do we obtain an improved agreement with the experiment. The study sheds light more generally on factors that can impact the computed frequencies and intensities of IR bands in solution.
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Affiliation(s)
- D. P. Ngan Le
- Department of Chemistry, Georgia State University, Atlanta, GA 30303, USA; (D.P.N.L.); (G.H.)
| | - Gary Hastings
- Department of Chemistry, Georgia State University, Atlanta, GA 30303, USA; (D.P.N.L.); (G.H.)
- Department of Physics and Astronomy, Georgia State University, Atlanta, GA 30303, USA
| | - Samer Gozem
- Department of Chemistry, Georgia State University, Atlanta, GA 30303, USA; (D.P.N.L.); (G.H.)
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3
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Kabir MP, Ouedraogo D, Orozco-Gonzalez Y, Gadda G, Gozem S. Alternative Strategy for Spectral Tuning of Flavin-Binding Fluorescent Proteins. J Phys Chem B 2023; 127:1301-1311. [PMID: 36740810 PMCID: PMC9940217 DOI: 10.1021/acs.jpcb.2c06475] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
iLOV is an engineered flavin-binding fluorescent protein (FbFP) with applications for in vivo cellular imaging. To expand the range of applications of FbFPs for multicolor imaging and FRET-based biosensing, it is desirable to understand how to modify their absorption and emission wavelengths (i.e., through spectral tuning). There is particular interest in developing FbFPs that absorb and emit light at longer wavelengths, which has proven challenging thus far. Existing spectral tuning strategies that do not involve chemical modification of the flavin cofactor have focused on placing positively charged amino acids near flavin's C4a and N5 atoms. Guided by previously reported electrostatic spectral tunning maps (ESTMs) of the flavin cofactor and by quantum mechanical/molecular mechanical (QM/MM) calculations reported in this work, we suggest an alternative strategy: placing a negatively charged amino acid near flavin's N1 atom. We predict that a single-point mutant, iLOV-Q430E, has a slightly red-shifted absorption and fluorescence maximum wavelength relative to iLOV. To validate our theoretical prediction, we experimentally expressed and purified iLOV-Q430E and measured its spectral properties. We found that the Q430E mutation results in a slight change in absorption and a 4-8 nm red shift in the fluorescence relative to iLOV, in good agreement with the computational predictions. Molecular dynamics simulations showed that the carboxylate side chain of the glutamate in iLOV-Q430E points away from the flavin cofactor, which leads to a future expectation that further red shifting may be achieved by bringing the side chain closer to the cofactor.
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4
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Li J, Li N. Revisit on the assignment of electronic spectra of C11H9+ isomers. COMPUT THEOR CHEM 2023. [DOI: 10.1016/j.comptc.2023.114028] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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5
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Saigo M, Shimoda Y, Ehara T, Ryu T, Miyata K, Onda K. Characterization of Excited States in a Multiple-Resonance-Type Thermally Activated Delayed Fluorescence Molecule Using Time-Resolved Infrared Spectroscopy. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2022. [DOI: 10.1246/bcsj.20210403] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Masaki Saigo
- Department of Chemistry, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0385
| | - Yuushi Shimoda
- Department of Chemistry, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0385
| | - Takumi Ehara
- Department of Chemistry, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0385
| | - Tomohiro Ryu
- Department of Chemistry, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0385
| | - Kiyoshi Miyata
- Department of Chemistry, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0385
| | - Ken Onda
- Department of Chemistry, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka, 819-0385
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6
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Dratch BD, Orozco-Gonzalez Y, Gadda G, Gozem S. Ionic Atmosphere Effect on the Absorption Spectrum of a Flavoprotein: A Reminder to Consider Solution Ions. J Phys Chem Lett 2021; 12:8384-8396. [PMID: 34435784 DOI: 10.1021/acs.jpclett.1c02173] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
This study utilizes the FMN-dependent NADH:quinone oxidoreductase from Pseudomonas aeruginosa PAO1 to investigate the effect of introducing an active site negative charge on the flavin absorption spectrum both in the absence and presence of a long-range electrostatic potential coming from solution ions. There were no observed changes in the flavin UV-visible spectrum when an active site tyrosine (Y277) becomes deprotonated in vitro. These results could only be reproduced computationally using average solvent electrostatic configuration (ASEC) QM/MM simulations that include both positive and negative solution ions. The same calculations performed with minimal ions to neutralize the total protein charge predicted that deprotonating Y277 would significantly alter the flavin absorption spectrum. Analyzing the distribution of solution ions indicated that the ions reorganize around the protein surface upon Y277 deprotonation to cancel the effect of the tyrosinate on the flavin absorption spectrum. Additional biochemical experiments were performed to test this hypothesis.
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Affiliation(s)
- Benjamin D Dratch
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30302, United States
| | | | - Giovanni Gadda
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30302, United States
- Department of Biology, Georgia State University, Atlanta, Georgia 30302, United States
- Center for Diagnostics and Therapeutics, Georgia State University, Atlanta, Georgia 30302, United States
| | - Samer Gozem
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30302, United States
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7
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Giacomozzi L, Kjær C, Brøndsted Nielsen S, Ashworth EK, Bull JN, Stockett MH. Non-statistical fragmentation in photo-activated flavin mononucleotide anions. J Chem Phys 2021; 155:044305. [PMID: 34340366 DOI: 10.1063/5.0056415] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022] Open
Abstract
The spectroscopy and photo-induced dissociation of flavin mononucleotide anions in vacuo are investigated over the 300-500 nm wavelength range. Comparison of the dependence of fragment ion yields as a function of deposited photon energy with calculated dissociation energies and collision-induced dissociation measurements performed under single-collision conditions suggests that a substantial fraction of photo-activated ions decompose through non-statistical fragmentation pathways. Among these pathways is the dominant photo-induced fragmentation channel, the loss of a fragment identified as formylmethylflavin. The fragment ion specific action spectra reveal electronic transition energies close to those for flavins in solution and previously published gas-phase measurements, although the photo-fragment yield upon excitation of the S2 ← S0 transition appears to be suppressed.
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Affiliation(s)
| | - Christina Kjær
- Department of Physics and Astronomy, Aarhus University, Aarhus, Denmark
| | | | - Eleanor K Ashworth
- School of Chemistry, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
| | - James N Bull
- School of Chemistry, University of East Anglia, Norwich Research Park, Norwich, United Kingdom
| | - Mark H Stockett
- Department of Physics, Stockholm University, Stockholm, Sweden
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8
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Andrikopoulos PC, Chaudhari AS, Liu Y, Konold PE, Kennis JTM, Schneider B, Fuertes G. QM calculations predict the energetics and infrared spectra of transient glutamine isomers in LOV photoreceptors. Phys Chem Chem Phys 2021; 23:13934-13950. [PMID: 34142688 PMCID: PMC8246142 DOI: 10.1039/d1cp00447f] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2021] [Accepted: 06/04/2021] [Indexed: 11/21/2022]
Abstract
Photosensory receptors containing the flavin-binding light-oxygen-voltage (LOV) domain are modular proteins that fulfil a variety of biological functions ranging from gene expression to phototropism. The LOV photocycle is initiated by blue-light and involves a cascade of intermediate species, including an electronically excited triplet state, that leads to covalent bond formation between the flavin mononucleotide (FMN) chromophore and a nearby cysteine residue. Subsequent conformational changes in the polypeptide chain arise due to the remodelling of the hydrogen bond network in the cofactor binding pocket, whereby a conserved glutamine residue plays a key role in coupling FMN photochemistry with LOV photobiology. Although the dark-to-light transition of LOV photosensors has been previously addressed by spectroscopy and computational approaches, the mechanistic basis of the underlying reactions is still not well understood. Here we present a detailed computational study of three distinct LOV domains: EL222 from Erythrobacter litoralis, AsLOV2 from the second LOV domain of Avena sativa phototropin 1, and RsLOV from Rhodobacter sphaeroides LOV protein. Extended protein-chromophore models containing all known crucial residues involved in the initial steps (femtosecond-to-microsecond) of the photocycle were employed. Energies and rotational barriers were calculated for possible rotamers and tautomers of the critical glutamine side chain, which allowed us to postulate the most energetically favoured glutamine orientation for each LOV domain along the assumed reaction path. In turn, for each evolving species, infrared difference spectra were constructed and compared to experimental EL222 and AsLOV2 transient infrared spectra, the former from original work presented here and the latter from the literature. The good agreement between theory and experiment permitted the assignment of the majority of observed bands, notably the ∼1635 cm-1 transient of the adduct state to the carbonyl of the glutamine side chain after rotation. Moreover, both the energetic and spectroscopic approaches converge in suggesting a facile glutamine flip at the adduct intermediate for EL222 and more so for AsLOV2, while for RsLOV the glutamine keeps its initial configuration. Additionally, the computed infrared shifts of the glutamine and interacting residues could guide experimental research addressing early events of signal transduction in LOV proteins.
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Affiliation(s)
- Prokopis C Andrikopoulos
- Institute of Biotechnology of the Czech Academy of Sciences, BIOCEV, Průmyslová 595, CZ-252 50 Vestec, Czechia.
| | - Aditya S Chaudhari
- Institute of Biotechnology of the Czech Academy of Sciences, BIOCEV, Průmyslová 595, CZ-252 50 Vestec, Czechia.
| | - Yingliang Liu
- Institute of Biotechnology of the Czech Academy of Sciences, BIOCEV, Průmyslová 595, CZ-252 50 Vestec, Czechia.
| | - Patrick E Konold
- Department of Physics and Astronomy, Faculty of Sciences, Vrije Universiteit, 1081 De Boelelaan, 1081HV Amsterdam, The Netherlands
| | - John T M Kennis
- Department of Physics and Astronomy, Faculty of Sciences, Vrije Universiteit, 1081 De Boelelaan, 1081HV Amsterdam, The Netherlands
| | - Bohdan Schneider
- Institute of Biotechnology of the Czech Academy of Sciences, BIOCEV, Průmyslová 595, CZ-252 50 Vestec, Czechia.
| | - Gustavo Fuertes
- Institute of Biotechnology of the Czech Academy of Sciences, BIOCEV, Průmyslová 595, CZ-252 50 Vestec, Czechia.
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9
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Gozem S, Krylov AI. The
ezSpectra
suite: An easy‐to‐use toolkit for spectroscopy modeling. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2021. [DOI: 10.1002/wcms.1546] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Samer Gozem
- Department of Chemistry Georgia State University Atlanta Georgia USA
| | - Anna I. Krylov
- Department of Chemistry University of Southern California Los Angeles California USA
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10
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Röllen K, Granzin J, Remeeva A, Davari MD, Gensch T, Nazarenko VV, Kovalev K, Bogorodskiy A, Borshchevskiy V, Hemmer S, Schwaneberg U, Gordeliy V, Jaeger KE, Batra-Safferling R, Gushchin I, Krauss U. The molecular basis of spectral tuning in blue- and red-shifted flavin-binding fluorescent proteins. J Biol Chem 2021; 296:100662. [PMID: 33862085 PMCID: PMC8131319 DOI: 10.1016/j.jbc.2021.100662] [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: 01/07/2021] [Revised: 04/09/2021] [Accepted: 04/12/2021] [Indexed: 01/09/2023] Open
Abstract
Photoactive biological systems modify the optical properties of their chromophores, known as spectral tuning. Determining the molecular origin of spectral tuning is instrumental for understanding the function and developing applications of these biomolecules. Spectral tuning in flavin-binding fluorescent proteins (FbFPs), an emerging class of fluorescent reporters, is limited by their dependency on protein-bound flavins, whose structure and hence electronic properties cannot be altered by mutation. A blue-shifted variant of the plant-derived improved light, oxygen, voltage FbFP has been created by introducing a lysine within the flavin-binding pocket, but the molecular basis of this shift remains unconfirmed. We here structurally characterize the blue-shifted improved light, oxygen, voltage variant and construct a new blue-shifted CagFbFP protein by introducing an analogous mutation. X-ray structures of both proteins reveal displacement of the lysine away from the chromophore and opening up of the structure as instrumental for the blue shift. Site saturation mutagenesis and high-throughput screening yielded a red-shifted variant, and structural analysis revealed that the lysine side chain of the blue-shifted variant is stabilized close to the flavin by a secondary mutation, accounting for the red shift. Thus, a single additional mutation in a blue-shifted variant is sufficient to generate a red-shifted FbFP. Using spectroscopy, X-ray crystallography, and quantum mechanics molecular mechanics calculations, we provide a firm structural and functional understanding of spectral tuning in FbFPs. We also show that the identified blue- and red-shifted variants allow for two-color microscopy based on spectral separation. In summary, the generated blue- and red-shifted variants represent promising new tools for application in life sciences.
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Affiliation(s)
- Katrin Röllen
- Institut für Molekulare Enzymtechnologie, Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Joachim Granzin
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, Jülich, Germany; JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, Jülich, Germany
| | - Alina Remeeva
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia
| | - Mehdi D Davari
- Institute of Biotechnology, RWTH Aachen University, Aachen, Germany
| | - Thomas Gensch
- IBI-1: Molecular and Cellular Physiology, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Vera V Nazarenko
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia
| | - Kirill Kovalev
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, Jülich, Germany; JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, Jülich, Germany; Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia; Institut de Biologie Structurale Jean-Pierre Ebel, Université Grenoble Alpes-Commissariat à l'Energie Atomique et aux Energies Alternatives-CNRS, Grenoble, France; Institute of Crystallography, RWTH Aachen University, Aachen, Germany
| | - Andrey Bogorodskiy
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia
| | - Valentin Borshchevskiy
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, Jülich, Germany; JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, Jülich, Germany; Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia
| | - Stefanie Hemmer
- Institut für Molekulare Enzymtechnologie, Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich GmbH, Jülich, Germany; IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Ulrich Schwaneberg
- Institute of Biotechnology, RWTH Aachen University, Aachen, Germany; DWI-Leibniz Institute for Interactive Materials, Aachen, Germany
| | - Valentin Gordeliy
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, Jülich, Germany; JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, Jülich, Germany; Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia; Institut de Biologie Structurale Jean-Pierre Ebel, Université Grenoble Alpes-Commissariat à l'Energie Atomique et aux Energies Alternatives-CNRS, Grenoble, France
| | - Karl-Erich Jaeger
- Institut für Molekulare Enzymtechnologie, Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich GmbH, Jülich, Germany; IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Renu Batra-Safferling
- IBI-7: Structural Biochemistry, Forschungszentrum Jülich GmbH, Jülich, Germany; JuStruct: Jülich Center for Structural Biology, Forschungszentrum Jülich, Jülich, Germany
| | - Ivan Gushchin
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudny, Russia.
| | - Ulrich Krauss
- Institut für Molekulare Enzymtechnologie, Heinrich-Heine-Universität Düsseldorf, Forschungszentrum Jülich GmbH, Jülich, Germany; IBG-1: Biotechnology, Forschungszentrum Jülich GmbH, Jülich, Germany.
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11
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Müller D, Dopfer O. Interaction of Alkali Ions with Flavins: Infrared and Optical Spectra of Metal–Riboflavin Complexes. J Phys Chem A 2021; 125:3146-3158. [DOI: 10.1021/acs.jpca.1c01846] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- David Müller
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, D-10623 Berlin, Germany
| | - Otto Dopfer
- Institut für Optik und Atomare Physik, Technische Universität Berlin, Hardenbergstr. 36, D-10623 Berlin, Germany
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12
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Herbert JM. Dielectric continuum methods for quantum chemistry. WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE 2021. [DOI: 10.1002/wcms.1519] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- John M. Herbert
- Department of Chemistry and Biochemistry The Ohio State University Columbus Ohio USA
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13
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Astanov SK, Kasimova GK, Kurtaliev EN, Nizomov NN, Jumabaev A. Electronic nature and structure of aggregates of riboflavin molecules. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 248:119177. [PMID: 33257239 DOI: 10.1016/j.saa.2020.119177] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2020] [Revised: 10/25/2020] [Accepted: 10/31/2020] [Indexed: 06/12/2023]
Abstract
Aggregation process of riboflavin molecules in binary mixtures: water - dioxane, water - DMSO, and ethanol - isobutanol, were investigated using spectroscopic methods and quantum-chemical calculation. It was shown that at a constant concentration of riboflavin and different ratios of binary mixtures, a deformation of the electronic absorption spectra with a hypochromic effect is observed. The observed changes are caused by the formation of a hydrogen bond and dipole-dipole interaction between riboflavin molecules, which is accompanied by a shift and resonance splitting of excited electronic levels.
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Affiliation(s)
- Salikh Kh Astanov
- Bukhara Engineering and Technological Institute, Murtazaeva str., 15, 200117 Bukhara, Uzbekistan.
| | - Guzal K Kasimova
- Bukhara Engineering and Technological Institute, Murtazaeva str., 15, 200117 Bukhara, Uzbekistan
| | - Eldar N Kurtaliev
- Samarkand State University, University Blvd., 15, 140104 Samarkand, Uzbekistan.
| | - Negmat N Nizomov
- Samarkand State University, University Blvd., 15, 140104 Samarkand, Uzbekistan
| | - Abduvakhid Jumabaev
- Samarkand State University, University Blvd., 15, 140104 Samarkand, Uzbekistan
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14
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Giuliani G, Melaccio F, Gozem S, Cappelli A, Olivucci M. QM/MM Investigation of the Spectroscopic Properties of the Fluorophore of Bacterial Luciferase. J Chem Theory Comput 2021; 17:605-613. [PMID: 33449693 DOI: 10.1021/acs.jctc.0c01078] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We employ replica-exchange molecular dynamics (REMD) and a hybrid ab initio multiconfigurational quantum mechanics/molecular mechanics (QM/MM) approach to model the absorption and fluorescence properties of bacterial luciferin-luciferase. Specifically, we employ complete active space perturbation theory (CASPT2) and study the effect of active space, basis set, and IPEA shift on the computed energies. We discuss the effect of the protein environment on the fluorophore's excited-state potential energy surface and the role that the protein plays in enhancing the fluorescence quantum yield in bacterial bioluminescence.
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Affiliation(s)
- Germano Giuliani
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Federico Melaccio
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Samer Gozem
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30302, United States
| | - Andrea Cappelli
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, Via A. Moro 2, 53100 Siena, Italy
| | - Massimo Olivucci
- Department of Biotechnology, Chemistry and Pharmacy, University of Siena, Via A. Moro 2, 53100 Siena, Italy.,Department of Chemistry, Bowling Green State University, Bowing Green, Ohio 43403, United States
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15
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Schwinn K, Ferré N, Huix-Rotllant M. UV-visible absorption spectrum of FAD and its reduced forms embedded in a cryptochrome protein. Phys Chem Chem Phys 2020; 22:12447-12455. [PMID: 32458897 DOI: 10.1039/d0cp01714k] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Cryptochromes are a class of flavoproteins proposed as candidates to explain magnetoreception of animals, plants and bacteria. The main hypothesis is that a biradical is formed upon blue-light absorption by flavin adenine dinucleotide (FAD). In a protein milieu, the oxidized form of FAD can be reduced, leading to four redox derivative forms: anionic and neutral semi-reduced radicals, and anionic and neutral fully reduced forms. All these forms have a characteristic electronic absorption spectrum, with a strong vibrational resolution. Here, we carried out a normal mode analysis at the electrostatic embedding QM/MM level of theory to compute the vibrationally resolved absorption spectra of the five redox forms of FAD embedded in a plant cryptochrome. We show that explicitly accounting for vibrational broadening contributions to electronic transitions is essential to reproduce the experimental spectra. In the case of the neutral radical form of FAD, the absorption spectrum is reproduced only if the presence of a tryptophan radical is considered.
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16
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Müller D, Dopfer O. Optical spectroscopy of cryogenic metalated flavins: The O2(+) isomers of M+lumiflavin (M=Li–Cs). JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY 2020. [DOI: 10.1016/j.jpap.2020.100009] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023] Open
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Structural Characterization, DFT Calculation, NCI, Scan-Rate Analysis and Antifungal Activity against Botrytis cinerea of ( E)-2-{[(2-Aminopyridin-2-yl)imino]-methyl}-4,6-di- tert-butylphenol (Pyridine Schiff Base). MOLECULES (BASEL, SWITZERLAND) 2020; 25:molecules25122741. [PMID: 32545715 PMCID: PMC7357110 DOI: 10.3390/molecules25122741] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/05/2020] [Revised: 05/30/2020] [Accepted: 06/01/2020] [Indexed: 12/12/2022]
Abstract
Botrytis cinerea is a ubiquitous necrotrophic filamentous fungal phytopathogen that lacks host specificity and can affect more than 1000 different plant species. In this work, we explored L1 [(E)-2-{[(2-aminopyridin-2-yl)imino]-methyl}-4,6-di-tert-butylphenol], a pyridine Schiff base harboring an intramolecular bond (IHB), regarding their antifungal activity against Botrytis cinerea. Moreover, we present a full characterization of the L1 by NMR and powder diffraction, as well as UV–vis, in the presence of previously untested different organic solvents. Complementary time-dependent density functional theory (TD-DFT) calculations were performed, and the noncovalent interaction (NCI) index was determined. Moreover, we obtained a scan-rate study on cyclic voltammetry of L1. Finally, we tested the antifungal activity of L1 against two strains of Botrytis cinerea (B05.10, a standard laboratory strain; and A1, a wild type strains isolated from Chilean blueberries). We found that L1 acts as an efficient antifungal agent against Botrytis cinerea at 26 °C, even better than the commercial antifungal agent fenhexamid. Although the antifungal activity was also observed at 4 °C, the effect was less pronounced. These results show the high versatility of this kind of pyridine Schiff bases in biological applications.
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Schwinn K, Ferré N, Huix-Rotllant M. Efficient Analytic Second Derivative of Electrostatic Embedding QM/MM Energy: Normal Mode Analysis of Plant Cryptochrome. J Chem Theory Comput 2020; 16:3816-3824. [PMID: 32320612 DOI: 10.1021/acs.jctc.9b01145] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Analytic second derivatives of electrostatic embedding (EE) quantum mechanics/molecular mechanics (QM/MM) energy are important for performing vibrational analysis and simulating vibrational spectra of quantum systems interacting with an environment represented as a classical electrostatic potential. The main bottleneck of EE-QM/MM second derivatives is the solution of coupled perturbed equations for each MM atom perturbation. Here, we exploit the Q-vector method [J. Chem. Phys., 2019, 151, 041102] to workaround this bottleneck. We derive the full analytic second derivative of the EE-QM/MM energy, which allows us to compute QM, MM, and QM-MM Hessian blocks in an efficient and easy to implement manner. To show the capabilities of our method, we compute the normal modes for the full Arabidopsis thaliana plant cryptochrome. We show that the flavin adenine dinucleotide vibrations (QM subsystem) strongly mix with protein modes. We compute approximate vibronic couplings for the lowest bright transition, from which we extract spectral densities and the homogeneous broadening of FAD absorption spectrum in protein using vibrationally resolved electronic spectrum simulations.
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Mondal P, Schwinn K, Huix-Rotllant M. Impact of the redox state of flavin chromophores on the UV–vis spectra, redox and acidity constants and electron affinities. J Photochem Photobiol A Chem 2020. [DOI: 10.1016/j.jphotochem.2019.112164] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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20
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Bio-inspired Molecular Redesign of a Multi-redox Catholyte for High-Energy Non-aqueous Organic Redox Flow Batteries. Chem 2019. [DOI: 10.1016/j.chempr.2019.07.006] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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21
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Mohamed-Raseek N, Duan HD, Hildebrandt P, Mroginski MA, Miller AF. Spectroscopic, thermodynamic and computational evidence of the locations of the FADs in the nitrogen fixation-associated electron transfer flavoprotein. Chem Sci 2019; 10:7762-7772. [PMID: 31588324 PMCID: PMC6764259 DOI: 10.1039/c9sc00942f] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2019] [Accepted: 06/24/2019] [Indexed: 01/15/2023] Open
Abstract
Flavin-based electron bifurcation allows enzymes to redistribute energy among electrons by coupling endergonic and exergonic electron transfer reactions. Diverse bifurcating enzymes employ a two-flavin electron transfer flavoprotein (ETF) that accepts hydride from NADH at a flavin (the so-called bifurcating FAD, Bf-FAD). The Bf-FAD passes one electron exergonically to a second flavin thereby assuming a reactive semiquinone state able to reduce ferredoxin or flavodoxin semiquinone. The flavin that accepts one electron and passes it on via exergonic electron transfer is known as the electron transfer FAD (ET-FAD) and is believed to correspond to the single FAD present in canonical ETFs, in domain II. The Bf-FAD is believed to be the one that is unique to bifurcating ETFs, bound between domains I and III. This very reasonable model has yet to be challenged experimentally. Herein we used site-directed mutagenesis to disrupt FAD binding to the presumed Bf site between domains I and III, in the Bf-ETF from Rhodopseudomonas palustris (RpaETF). The resulting protein contained only 0.80 ± 0.05 FAD, plus 1.21 ± 0.04 bound AMP as in canonical ETFs. The flavin was not subject to reduction by NADH, confirming absence of Bf-FAD. The retained FAD displayed visible circular dichroism (CD) similar to that of the ET-FAD of RpaETF. Likewise, the mutant underwent two sequential one-electron reductions forming and then consuming anionic semiquinone, reproducing the reactivity of the ET-FAD. These data confirm that the retained FAD in domain II corresponds the ET-FAD. Quantum chemical calculations of the absorbance and CD spectra of each of WT RpaETF's two flavins reproduced the observed differences between their CD and absorbance signatures. The calculations for the flavin bound in domain II agreed better with the spectra of the ET-flavin, and those calculated based on the flavin between domains I and III agreed better with spectra of the Bf-flavin. Thus calculations independently confirm the locations of each flavin. We conclude that the site in domain II harbours the ET-FAD whereas the mutated site between domains I and III is the Bf-FAD site, confirming the accepted model by two different tests.
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Affiliation(s)
- Nishya Mohamed-Raseek
- Dept. Chemistry , University of Kentucky , 505 Rose Street , Lexington , KY 40506-0055 , USA .
| | - H Diessel Duan
- Dept. Chemistry , University of Kentucky , 505 Rose Street , Lexington , KY 40506-0055 , USA .
| | - Peter Hildebrandt
- Max Volmer Laboratorum für Biophysikalische Chemie , Technische Universität - Berlin , Sekr. PC 14, 135 Straße des 17. Juni , 10623 Berlin , Germany
| | - Maria Andrea Mroginski
- Max Volmer Laboratorum für Biophysikalische Chemie , Technische Universität - Berlin , Sekr. PC 14, 135 Straße des 17. Juni , 10623 Berlin , Germany
| | - Anne-Frances Miller
- Dept. Chemistry , University of Kentucky , 505 Rose Street , Lexington , KY 40506-0055 , USA .
- Max Volmer Laboratorum für Biophysikalische Chemie , Technische Universität - Berlin , Sekr. PC 14, 135 Straße des 17. Juni , 10623 Berlin , Germany
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22
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23
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Su D, Kabir MP, Orozco-Gonzalez Y, Gozem S, Gadda G. Fluorescence Properties of Flavin Semiquinone Radicals in Nitronate Monooxygenase. Chembiochem 2019; 20:1646-1652. [PMID: 30748074 DOI: 10.1002/cbic.201900016] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2019] [Indexed: 11/09/2022]
Abstract
Fluorescent cofactors like flavins can be exploited to probe their local environment with spatial and temporal resolution. Although the fluorescence properties of the oxidized and two-electron-reduced states of flavins have been studied extensively, this is not the case for the one-electron-reduced state. Both the neutral and anionic semiquinones have proven particularly challenging to examine, as they are unstable in solution and are transient, short-lived species in many catalytic cycles. Here, we report that the nitronate monooxygenase (NMO) from Pseudomonas aeruginosa PAO1 is capable of stabilizing both semiquinone forms anaerobically for hours, thus enabling us to study their spectroscopy in a constant protein environment. We found that in the active site of NMO, the anionic semiquinone exhibits no fluorescence, whereas the neutral semiquinone radical shows a relatively strong fluorescence, with a behavior that violates the Kasha-Vavilov rule. These fluorescence properties are discussed in the context of time-dependent density functional theory calculations, which reveal low-lying dark states in both systems.
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Affiliation(s)
- Dan Su
- Department of Chemistry, Georgia State University, 50 Decatur St. SE, Atlanta, GA, 30302, USA
| | - Mohammad Pabel Kabir
- Department of Chemistry, Georgia State University, 50 Decatur St. SE, Atlanta, GA, 30302, USA
| | - Yoelvis Orozco-Gonzalez
- Department of Chemistry, Georgia State University, 50 Decatur St. SE, Atlanta, GA, 30302, USA
| | - Samer Gozem
- Department of Chemistry, Georgia State University, 50 Decatur St. SE, Atlanta, GA, 30302, USA
| | - Giovanni Gadda
- Department of Chemistry, Georgia State University, 50 Decatur St. SE, Atlanta, GA, 30302, USA.,Department of Biology, Georgia State University, 100 Piedmond Ave., Atlanta, GA, 30303, USA.,Center for Diagnostics and Therapeutics, Georgia State University, P.O. Box 5090, Atlanta, GA, 30303, USA.,Center for Biotechnology and Drug Design, Georgia State University, Atlanta, GA, 30302, USA
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24
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Song H, Wang K, Kuang Z, Zhao YS, Guo Q, Xia A. Solvent modulated excited state processes of push-pull molecule with hybridized local excitation and intramolecular charge transfer character. Phys Chem Chem Phys 2019; 21:3894-3902. [PMID: 30702103 DOI: 10.1039/c8cp06459h] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Recently, a type of synthetic highly efficient OLED molecule based on a hybridized local excitation and charge transfer (HLCT) character has received much attention as a potential high-efficiency fluorescent OLED material. In this article, we report the relaxation dynamics of the excited states of cyano-substituted oligo α-phenylenevinylene-1,4-bis(R-cyano-4-diphenylaminostyryl)-2,5-diphenylbenzene (CNDPASDB) with HLCT character using steady-state and time-resolved spectroscopy as well as quantum chemical calculations. The dramatic dependence of the fluorescence quantum yield, radiative and non-radiative rate, as well as the excited state relaxation pathways on solvent polarity reveals that the solvation process controls the energy levels of two closely spaced electronic excited states. By employing femtosecond transient absorption spectra, the gradual transition from the LE state to the intramolecular CT state with an increase in solvent polarity is clearly resolved. In low-polarity solvents the fluorescence of CNDPASDB is mainly emission from the LE state, whereas in high-polarity solvents non-radiative decay from the CT state dominates. And in medium-polarity solvents, because of the relatively weaker solvation-induced stabilization of the CT state, its energy could be equal to or slightly lower than that of the LE state, leading to a smaller driving force for LE → CT interconversion; therefore complete LE → CT interconversion cannot take place. In this situation, LE ↔ CT intercrossed equilibration is established and the equilibrium constant is further estimated to be about 4 according to the obtained kinetics, and the equilibrium population of the CT state is about 80%. DFT/TDDFT analysis also confirmed an efficient intercrossing of LE and CT states with an increase in solvent polarity. It is found that upon increasing the solvent polarity, the hole and electron on a molecule are entirely separated, suggesting a complete CT character. These results provide guidance for understanding the relationship between solvent polarity and the HLCT process, as well as for designing and synthesizing advanced OLED materials.
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Affiliation(s)
- Hongwei Song
- Beijing National Laboratory for Molecular Sciences (BNLMS), Key Laboratory of Photochemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, People's Republic of China.
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Müller D, Nieto P, Miyazaki M, Dopfer O. Effect of alkali ions on optical properties of flavins: vibronic spectra of cryogenic M+lumiflavin complexes (M = Li–Cs). Faraday Discuss 2019; 217:256-275. [DOI: 10.1039/c8fd00203g] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Cryogenic ion spectroscopy of metal–lumiflavin (M+LF) complexes at the level of vibrational resolution illustrates the large impact of alkali ions on the optical properties of this prototypical flavin molecule.
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Affiliation(s)
- David Müller
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- 10623 Berlin
- Germany
| | - Pablo Nieto
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- 10623 Berlin
- Germany
| | - Mitsuhiko Miyazaki
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- 10623 Berlin
- Germany
- Laboratory for Chemistry and Life Science
| | - Otto Dopfer
- Institut für Optik und Atomare Physik
- Technische Universität Berlin
- 10623 Berlin
- Germany
- Tokyo Tech World Research Hub Initiative (WRHI)
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26
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Bracker M, Dinkelbach F, Weingart O, Kleinschmidt M. Impact of fluorination on the photophysics of the flavin chromophore: a quantum chemical perspective. Phys Chem Chem Phys 2019; 21:9912-9923. [DOI: 10.1039/c9cp00805e] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
10-Methylisoalloxazine (MIA) and its fluorinated derivatives (6-9F-MIA) were investigated by means of quantum chemistry, looking into the influence of fluorination on fluorescence, absorption and inter-system crossing (ISC) in vacuum and in aqueous solution.
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Affiliation(s)
- Mario Bracker
- Institut für Theoretische Chemie und Computerchemie
- Heinrich-Heine-Universität Düsseldorf
- 40225 Düsseldorf
- Germany
| | - Fabian Dinkelbach
- Institut für Theoretische Chemie und Computerchemie
- Heinrich-Heine-Universität Düsseldorf
- 40225 Düsseldorf
- Germany
| | - Oliver Weingart
- Institut für Theoretische Chemie und Computerchemie
- Heinrich-Heine-Universität Düsseldorf
- 40225 Düsseldorf
- Germany
| | - Martin Kleinschmidt
- Institut für Theoretische Chemie und Computerchemie
- Heinrich-Heine-Universität Düsseldorf
- 40225 Düsseldorf
- Germany
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27
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Kabir MP, Orozco-Gonzalez Y, Gozem S. Electronic spectra of flavin in different redox and protonation states: a computational perspective on the effect of the electrostatic environment. Phys Chem Chem Phys 2019; 21:16526-16537. [DOI: 10.1039/c9cp02230a] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
This study discusses how UV/vis absorption spectra of flavin in different redox and protonation states are shifted by the nearby electrostatic microenvironment.
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Affiliation(s)
| | | | - Samer Gozem
- Department of Chemistry
- Georgia State University
- Atlanta
- USA
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28
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29
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Kar RK, Borin VA, Ding Y, Matysik J, Schapiro I. Spectroscopic Properties of Lumiflavin: A Quantum Chemical Study. Photochem Photobiol 2018; 95:662-674. [DOI: 10.1111/php.13023] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2018] [Accepted: 09/05/2018] [Indexed: 12/24/2022]
Affiliation(s)
- Rajiv Kumar Kar
- Fritz Haber Center for Molecular Dynamics Research Institute of Chemistry Hebrew University of Jerusalem Jerusalem Israel
| | - Veniamin A. Borin
- Fritz Haber Center for Molecular Dynamics Research Institute of Chemistry Hebrew University of Jerusalem Jerusalem Israel
| | - Yonghong Ding
- Institute of Analytical Chemistry University of Leipzig Leipzig Germany
| | - Jörg Matysik
- Institute of Analytical Chemistry University of Leipzig Leipzig Germany
| | - Igor Schapiro
- Fritz Haber Center for Molecular Dynamics Research Institute of Chemistry Hebrew University of Jerusalem Jerusalem Israel
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30
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Initial excited state structural dynamics of lumiflavin upon ultraviolet excitation. J Photochem Photobiol A Chem 2018. [DOI: 10.1016/j.jphotochem.2018.06.008] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
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31
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Nielsen C, Nørby MS, Kongsted J, Solov'yov IA. Absorption Spectra of FAD Embedded in Cryptochromes. J Phys Chem Lett 2018; 9:3618-3623. [PMID: 29905481 DOI: 10.1021/acs.jpclett.8b01528] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
The magnetic compass sense utilized by migratory birds for long-distance navigation functions only once light of a certain wavelength is present. This piece of evidence fits partially with the popular hypothesis of chemical magnetoreception in cryptochrome proteins, located in the bird retina. According to this hypothesis a magnetosensitive radical pair is produced after photoexcitation of an FAD cofactor inside cryptochrome, and as such the absorption properties of FAD are of crucial importance for cryptochrome activation. However, we reveal that absorption spectra of FAD show very little variation between six different cryptochromes, suggesting that the electronic transitions are barely affected by the chemical differences in the proteins. This conclusion hints on the presence of a secondary photoreceptor or cofactor that could be necessary to explain green-light-activated magnetoreception in birds.
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Affiliation(s)
- Claus Nielsen
- Department of Physics, Chemistry and Pharmacy , University of Southern Denmark , DK-5230 Odense M , Denmark
| | - Morten S Nørby
- Department of Physics, Chemistry and Pharmacy , University of Southern Denmark , DK-5230 Odense M , Denmark
| | - Jacob Kongsted
- Department of Physics, Chemistry and Pharmacy , University of Southern Denmark , DK-5230 Odense M , Denmark
| | - Ilia A Solov'yov
- Department of Physics, Chemistry and Pharmacy , University of Southern Denmark , DK-5230 Odense M , Denmark
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32
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Giacomozzi L, Kjær C, Langeland Knudsen J, Andersen LH, Brøndsted Nielsen S, Stockett MH. Absorption and luminescence spectroscopy of mass-selected flavin adenine dinucleotide mono-anions. J Chem Phys 2018; 148:214309. [PMID: 29884035 DOI: 10.1063/1.5024028] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Abstract
We report the absorption profile of isolated Flavin Adenine Dinucleotide (FAD) mono-anions recorded using photo-induced dissociation action spectroscopy. In this charge state, one of the phosphoric acid groups is deprotonated and the chromophore itself is in its neutral oxidized state. These measurements cover the first four optical transitions of FAD with excitation energies from 2.3 to 6.0 eV (210-550 nm). The S0 → S2 transition is strongly blue shifted relative to aqueous solution, supporting the view that this transition has a significant charge-transfer character. The remaining bands are close to their solution-phase positions. This confirms that the large discrepancy between quantum chemical calculations of vertical transition energies and solution-phase band maxima cannot be explained by solvent effects. We also report the luminescence spectrum of FAD mono-anions in vacuo. The gas-phase Stokes shift for S1 is 3000 cm-1, which is considerably larger than any previously reported for other molecular ions and consistent with a significant displacement of the ground and excited state potential energy surfaces. Consideration of the vibronic structure is thus essential for simulating the absorption and luminescence spectra of flavins.
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Affiliation(s)
- L Giacomozzi
- Department of Physics, Stockholm University, Stockholm, Sweden
| | - C Kjær
- Department of Physics and Astronomy, Aarhus University, Aarhus, Denmark
| | | | - L H Andersen
- Department of Physics and Astronomy, Aarhus University, Aarhus, Denmark
| | | | - M H Stockett
- Department of Physics, Stockholm University, Stockholm, Sweden
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Lincke K, Langeland J, Madsen AØ, Kiefer HV, Skov L, Gruber E, Mikkelsen KV, Andersen LH, Nielsen MB. Elucidation of the intrinsic optical properties of hydrogen-bonded and protonated flavin chromophores by photodissociation action spectroscopy. Phys Chem Chem Phys 2018; 20:28678-28684. [DOI: 10.1039/c8cp05368e] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
The intrinsic optical properties of the flavin chromophore when engaged in hydrogen bonding or being protonated were elucidated by photo-induced action spectroscopy and computations.
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Affiliation(s)
- Kasper Lincke
- Department of Chemistry, University of Copenhagen
- DK-2100 Copenhagen Ø
- Denmark
| | - Jeppe Langeland
- Department of Physics and Astronomy, Aarhus University
- DK-8000 Aarhus C
- Denmark
| | | | - Hjalte V. Kiefer
- Department of Physics and Astronomy, Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Louise Skov
- Department of Chemistry, University of Copenhagen
- DK-2100 Copenhagen Ø
- Denmark
| | - Elisabeth Gruber
- Department of Physics and Astronomy, Aarhus University
- DK-8000 Aarhus C
- Denmark
| | - Kurt V. Mikkelsen
- Department of Chemistry, University of Copenhagen
- DK-2100 Copenhagen Ø
- Denmark
| | - Lars H. Andersen
- Department of Physics and Astronomy, Aarhus University
- DK-8000 Aarhus C
- Denmark
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Homans RJ, Khan RU, Andrews MB, Kjeldsen AE, Natrajan LS, Marsden S, McKenzie EA, Christie JM, Jones AR. Two photon spectroscopy and microscopy of the fluorescent flavoprotein, iLOV. Phys Chem Chem Phys 2018; 20:16949-16955. [DOI: 10.1039/c8cp01699b] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Homans et al. show that engineered LOV-domains are amenable to two photon activation both in vitro and in human cells.
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Affiliation(s)
- Rachael J. Homans
- School of Chemistry and Photon Science Institute
- The University of Manchester
- Manchester
- UK
- Manchester Institute of Biotechnology
| | - Raja U. Khan
- School of Chemistry and Photon Science Institute
- The University of Manchester
- Manchester
- UK
- Manchester Institute of Biotechnology
| | - Michael B. Andrews
- School of Chemistry and Photon Science Institute
- The University of Manchester
- Manchester
- UK
| | - Annemette E. Kjeldsen
- Institute of Molecular, Cell and Systems Biology
- College of Medical, Veterinary and Life Sciences
- University of Glasgow
- Glasgow
- UK
| | - Louise S. Natrajan
- School of Chemistry and Photon Science Institute
- The University of Manchester
- Manchester
- UK
| | - Steven Marsden
- School of Biological Sciences
- The University of Manchester
- Manchester
- UK
| | - Edward A. McKenzie
- Manchester Institute of Biotechnology
- The University of Manchester
- Manchester
- UK
| | - John M. Christie
- Institute of Molecular, Cell and Systems Biology
- College of Medical, Veterinary and Life Sciences
- University of Glasgow
- Glasgow
- UK
| | - Alex R. Jones
- School of Chemistry and Photon Science Institute
- The University of Manchester
- Manchester
- UK
- Manchester Institute of Biotechnology
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Keirsse-Haquin J, Picaud T, Bordes L, de Gracia AG, Desbois A. Modulation of the flavin-protein interactions in NADH peroxidase and mercuric ion reductase: a resonance Raman study. EUROPEAN BIOPHYSICS JOURNAL : EBJ 2017; 47:205-223. [PMID: 28889232 DOI: 10.1007/s00249-017-1245-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2017] [Revised: 07/12/2017] [Accepted: 07/26/2017] [Indexed: 10/18/2022]
Abstract
NADH peroxidase (Npx) and mercuric ion reductase (MerA) are flavoproteins belonging to the pyridine nucleotide:disulfide oxidoreductases (PNDO) and catalyzing the reduction of toxic substrates, i.e., hydrogen peroxide and mercuric ion, respectively. To determine the role of the flavin adenine dinucleotide (FAD) in the detoxification mechanism, the resonance Raman (RR) spectra of these enzymes under various redox and ligation states have been investigated using blue and/or near-UV excitation(s). These data were compared to those previously obtained for glutathione reductase (GR), another enzyme of the PNDO family, but catalyzing the reduction of oxidized glutathione. Spectral differences have been detected for the marker bands of the isoalloxazine ring of Npx, MerA, and GR. They provide evidence for different catalytic mechanisms in these flavoproteins. The RR modes of the oxidized and two-electron reduced (EH2) forms of Npx are related to very tight flavin-protein interactions maintaining a nearly planar conformation of the isoalloxazine tricycle, a low level of H-bonding at the N1/N5 and O2/O4 sites, and a strong H-bond at N3H. They also indicate minimal changes in FAD structure and environment upon either NAD(H) binding or reduction of the sulfinic redox center. All these spectroscopic data support an enzyme functioning centered on the Cys-SO-/Cys-S- redox moiety and a neighbouring His residue. On the contrary, the RR data on various functional forms of MerA are indicative of a modulation of both ring II distortion and H-bonding states of the N5 site and ring III. The Cd(II) binding to the EH2-NADP(H) complexes, biomimetic intermediates in the reaction of Hg(II) reduction, provokes important spectral changes. They are interpreted in terms of flattening of the isoalloxazine ring and large decreases in H-bonding at the N5 site and ring III. The large flexibility of the FAD structure and environment in MerA is in agreement with proposed mechanisms involving C4a(flavin) adducts.
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Affiliation(s)
- Julie Keirsse-Haquin
- Institut de Biologie Intégrative de la Cellule, UMR 9198 CNRS-CEA-Université Paris Sud, CEA Saclay, 91191, Gif-sur-Yvette Cedex, France.,Ecole Nationale Supérieure des Mines, 44300, Nantes, France
| | - Thierry Picaud
- Institut de Biologie Intégrative de la Cellule, UMR 9198 CNRS-CEA-Université Paris Sud, CEA Saclay, 91191, Gif-sur-Yvette Cedex, France.,Institut Supérieur des Biotechnologies de Paris (Sup'Biotech Paris), 94800, Villejuif, France
| | - Luc Bordes
- Institut de Biologie Intégrative de la Cellule, UMR 9198 CNRS-CEA-Université Paris Sud, CEA Saclay, 91191, Gif-sur-Yvette Cedex, France.,School of Earth and Environmental Sciences, University of Wollongong, Wollongong, NSW, 2522, Australia
| | - Adrienne Gomez de Gracia
- Institut de Biologie Intégrative de la Cellule, UMR 9198 CNRS-CEA-Université Paris Sud, CEA Saclay, 91191, Gif-sur-Yvette Cedex, France
| | - Alain Desbois
- Institut de Biologie Intégrative de la Cellule, UMR 9198 CNRS-CEA-Université Paris Sud, CEA Saclay, 91191, Gif-sur-Yvette Cedex, France.
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36
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Hall CR, Heisler IA, Jones GA, Frost JE, Gil AA, Tonge PJ, Meech SR. Femtosecond stimulated Raman study of the photoactive flavoprotein AppABLUF. Chem Phys Lett 2017. [DOI: 10.1016/j.cplett.2017.03.030] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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37
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Westberg M, Bregnhøj M, Etzerodt M, Ogilby PR. Temperature Sensitive Singlet Oxygen Photosensitization by LOV-Derived Fluorescent Flavoproteins. J Phys Chem B 2017; 121:2561-2574. [PMID: 28257211 DOI: 10.1021/acs.jpcb.7b00561] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
Optogenetic sensitizers that selectively produce a given reactive oxygen species (ROS) constitute a promising tool for studying cell signaling processes with high levels of spatiotemporal control. However, to harness the full potential of this tool for live cell studies, the photophysics of currently available systems need to be explored further and optimized. Of particular interest in this regard, are the flavoproteins miniSOG and SOPP, both of which (1) contain the chromophore flavin mononucleotide, FMN, in a LOV-derived protein enclosure, and (2) photosensitize the production of singlet oxygen, O2(a1Δg). Here we present an extensive experimental study of the singlet and triplet state photophysics of FMN in SOPP and miniSOG over a physiologically relevant temperature range. Although changes in temperature only affect the singlet excited state photophysics slightly, the processes that influence the deactivation of the triplet excited state are more sensitive to temperature. Most notably, for both proteins, the rate constant for quenching of 3FMN by ground state oxygen, O2(X3Σg-), increases ∼10-fold upon increasing the temperature from 10 to 43 °C, while the oxygen-independent channels of triplet state deactivation are less affected. As a consequence, this increase in temperature results in higher yields of O2(a1Δg) formation for both SOPP and miniSOG. We also show that the quantum yields of O2(a1Δg) production by both miniSOG and SOPP are mainly limited by the fraction of FMN triplet states quenched by O2(X3Σg-). The results presented herein provide a much-needed quantitative framework that will facilitate the future development of optogenetic ROS sensitizers.
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Affiliation(s)
- Michael Westberg
- Department of Chemistry, Aarhus University , DK-8000 Aarhus, Denmark
| | - Mikkel Bregnhøj
- Department of Chemistry, Aarhus University , DK-8000 Aarhus, Denmark
| | - Michael Etzerodt
- Department of Molecular Biology and Genetics, Aarhus University , DK-8000 Aarhus, Denmark
| | - Peter R Ogilby
- Department of Chemistry, Aarhus University , DK-8000 Aarhus, Denmark
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38
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Davari MD, Kopka B, Wingen M, Bocola M, Drepper T, Jaeger KE, Schwaneberg U, Krauss U. Photophysics of the LOV-Based Fluorescent Protein Variant iLOV-Q489K Determined by Simulation and Experiment. J Phys Chem B 2016; 120:3344-52. [DOI: 10.1021/acs.jpcb.6b01512] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Mehdi D. Davari
- Lehrstuhl
für Biotechnologie, RWTH Aachen University, 52056 Aachen, Germany
| | - Benita Kopka
- Institut
für Molekulare Enzymtechnologie, Heinrich Heine University
Düsseldorf, Forschungszentrum Jülich, 52426 Jülich, Germany
| | - Marcus Wingen
- Institut
für Molekulare Enzymtechnologie, Heinrich Heine University
Düsseldorf, Forschungszentrum Jülich, 52426 Jülich, Germany
| | - Marco Bocola
- Lehrstuhl
für Biotechnologie, RWTH Aachen University, 52056 Aachen, Germany
| | - Thomas Drepper
- Institut
für Molekulare Enzymtechnologie, Heinrich Heine University
Düsseldorf, Forschungszentrum Jülich, 52426 Jülich, Germany
| | - Karl-Erich Jaeger
- Institut
für Molekulare Enzymtechnologie, Heinrich Heine University
Düsseldorf, Forschungszentrum Jülich, 52426 Jülich, Germany
- Institut
für Bio- und Geowissenschaften, IBG-1, Biotechnologie, Forschungszentrum Jülich, 52426 Jülich, Germany
| | - Ulrich Schwaneberg
- Lehrstuhl
für Biotechnologie, RWTH Aachen University, 52056 Aachen, Germany
- DWI-Leibniz Institute for Interactive Materials, Forckenbeckstraße 50, 52056, Aachen, Germany
| | - Ulrich Krauss
- Institut
für Molekulare Enzymtechnologie, Heinrich Heine University
Düsseldorf, Forschungszentrum Jülich, 52426 Jülich, Germany
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39
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Karasulu B, Götze JP, Thiel W. Assessment of Franck-Condon Methods for Computing Vibrationally Broadened UV-vis Absorption Spectra of Flavin Derivatives: Riboflavin, Roseoflavin, and 5-Thioflavin. J Chem Theory Comput 2015; 10:5549-66. [PMID: 26583238 DOI: 10.1021/ct500830a] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We address the performance of the vertical and adiabatic Franck-Condon (VFC/AFC) approaches combined with time-independent or time-dependent (TI/TD) formalisms in simulating the one-photon absorption spectra of three flavin compounds with distinct structural features. Calculations were done in the gas phase and in two solvents (water, benzene) for which experimental reference measurements are available. We utilized the independent mode displaced harmonic oscillator model without or with frequency alteration (IMDHO/IMDHO-FA) and also accounted for Duschinsky mixing effects. In the initial validation on the first excited singlet state of riboflavin, the range-separated functionals, CAM-B3LYP and ωB97xD, showed the best performance, but B3LYP also gave a good compromise between peak positions and spectral topology. Large basis sets were not mandatory to obtain high-quality spectra for the selected systems. The presence of a symmetry plane facilitated the computation of vibrationally broadened spectra, since different FC variants yield similar results and the harmonic approximation holds rather well. Compared with the AFC approach, the VFC approach performed equally well or even better for all three flavins while offering several advantages, such as avoiding error-prone geometry optimization procedures on excited-state surfaces. We also explored the advantages of curvilinear displacements and of a Duschinsky treatment for the AFC spectra in cases when a rotatable group is present on the chromophore. Taken together, our findings indicate that the combination of the VFC approach with the TD formalism and the IMDHO-FA model offers the best overall performance.
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Affiliation(s)
- Bora Karasulu
- Max-Planck-Institut für Kohlenforschung , Kaiser-Wilhelm-Platz 1, 45470, Mülheim an der Ruhr, Germany
| | - Jan Philipp Götze
- Max-Planck-Institut für Kohlenforschung , Kaiser-Wilhelm-Platz 1, 45470, Mülheim an der Ruhr, Germany
| | - Walter Thiel
- Max-Planck-Institut für Kohlenforschung , Kaiser-Wilhelm-Platz 1, 45470, Mülheim an der Ruhr, Germany
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40
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Petrenko T, Rauhut G. Time-independent eigenstate-free calculation of vibronic spectra beyond the harmonic approximation. J Chem Phys 2015; 143:234106. [DOI: 10.1063/1.4937380] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Affiliation(s)
- Taras Petrenko
- Institut für Theoretische Chemie, Universität Stuttgart, Pfaffenwaldring 55, 70569 Stuttgart, Germany
| | - Guntram Rauhut
- Institut für Theoretische Chemie, Universität Stuttgart, Pfaffenwaldring 55, 70569 Stuttgart, Germany
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41
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Louant O, Champagne B, Liégeois V. Numerical differentiation method to calculate molecular properties at ground and excited states – Application to Julolidinemalononitrile. Chem Phys Lett 2015. [DOI: 10.1016/j.cplett.2015.06.014] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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42
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Götze JP, Karasulu B, Patil M, Thiel W. Vibrational relaxation as the driving force for wavelength conversion in the peridinin-chlorophyll a-protein. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2015; 1847:1509-17. [PMID: 26231454 DOI: 10.1016/j.bbabio.2015.07.011] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2015] [Revised: 07/21/2015] [Accepted: 07/25/2015] [Indexed: 11/29/2022]
Abstract
We present a computationally derived energy transfer model for the peridinin-chlorophyll a-protein (PCP), which invokes vibrational relaxation in the two lowest singlet excited states rather than internal conversion between them. The model allows an understanding of the photoinduced processes without assuming further electronic states or a dependence of the 2Ag state character on the vibrational sub-state. We report molecular dynamics simulations (CHARMM22 force field) and quantum mechanics/molecular mechanics (QM/MM) calculations on PCP. In the latter, the QM region containing a single peridinin (Per) chromophore or a Per-Chl a (chlorophyll a) pair is treated by density functional theory (DFT, CAM-B3LYP) for geometries and by DFT-based multireference configuration interaction (DFT/MRCI) for excitation energies. The calculations show that Per has a bright, green light absorbing 2Ag state, in addition to the blue light absorbing 1Bu state found in other carotenoids. Both states undergo a strong energy lowering upon relaxation, leading to emission in the red, while absorbing in the blue or green. The orientation of their transition dipole moments indicates that both states are capable of excited-state energy transfer to Chl a, without preference for either 1Bu or 2Ag as donor state. We propose that the commonly postulated partial intramolecular charge transfer (ICT) character of a donating Per state can be assigned to the relaxed 1Bu state, which takes on ICT character. By assuming that both 1Bu and 2Ag are able to donate to the Chl a Q band, one can explain why different chlorophyll species in PCP exhibit different acceptor capabilities.
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Affiliation(s)
- Jan P Götze
- School of Chemistry, North Haugh, University of St Andrews, St Andrews, Fife KY16 9ST, UK.
| | - Bora Karasulu
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, D-45470 Mülheim an der Ruhr, Germany
| | - Mahendra Patil
- Center for Excellence in Basic Sciences, University of Mumbai, Mumbai 400098, Maharashtra, India
| | - Walter Thiel
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz 1, D-45470 Mülheim an der Ruhr, Germany
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43
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Laurent AD, Adamo C, Jacquemin D. Dye chemistry with time-dependent density functional theory. Phys Chem Chem Phys 2015; 16:14334-56. [PMID: 24548975 DOI: 10.1039/c3cp55336a] [Citation(s) in RCA: 233] [Impact Index Per Article: 25.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
In this perspective, we present an overview of the determination of excited-state properties of "real-life" dyes, and notably of their optical absorption and emission spectra, performed during the last decade with time-dependent density functional theory (TD-DFT). We discuss the results obtained with both vertical and adiabatic (vibronic) approximations, choosing relevant examples for several series of dyes. These examples include reproducing absorption wavelengths of numerous families of coloured molecules, understanding the specific band shape of amino-anthraquinones, optimising the properties of dyes used in solar cells, mimicking the fluorescence wavelengths of fluorescent brighteners and BODIPY dyes, studying optically active biomolecules and photo-induced proton transfer, as well as improving the properties of photochromes.
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Affiliation(s)
- Adèle D Laurent
- Chimie Et Interdisciplinarité, Synthèse, Analyse, Modélisation (CEISAM), UMR CNRS no. 6230, BP 92208, Université de Nantes, 2, Rue de la Houssinière, 44322 Nantes, Cedex 3, France.
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44
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Khrenova MG, Nemukhin AV, Domratcheva T. Theoretical Characterization of the Flavin-Based Fluorescent Protein iLOV and its Q489K Mutant. J Phys Chem B 2015; 119:5176-83. [DOI: 10.1021/acs.jpcb.5b01299] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Maria G. Khrenova
- Chemistry
Department, M.V. Lomonosov Moscow State University, Leninskie
Gory 1/3, Moscow, 119991, Russian Federation
| | - Alexander V. Nemukhin
- Chemistry
Department, M.V. Lomonosov Moscow State University, Leninskie
Gory 1/3, Moscow, 119991, Russian Federation
- N.M.
Emanuel Institute of Biochemical Physics, Russian Academy of Sciences, Kosygina 4, Moscow, 119334, Russian Federation
| | - Tatiana Domratcheva
- Department
of Biomolecular Mechanisms, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany
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45
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Westberg M, Holmegaard L, Pimenta FM, Etzerodt M, Ogilby PR. Rational design of an efficient, genetically encodable, protein-encased singlet oxygen photosensitizer. J Am Chem Soc 2015; 137:1632-42. [PMID: 25575190 DOI: 10.1021/ja511940j] [Citation(s) in RCA: 79] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Singlet oxygen, O(2)(a(1)Δ(g)), plays a key role in many processes of cell signaling. Limitations in mechanistic studies of such processes are generally associated with the difficulty of controlling the amount and location of O(2)(a(1)Δ(g)) production in or on a cell. As such, there is great need for a system that (a) selectively produces O(2)(a(1)Δ(g)) in appreciable and accurately quantifiable yields and (b) can be localized in a specific place at the suborganelle level. A genetically encodable, protein-encased photosensitizer is one way to achieve this goal. Through a systematic and rational approach involving mutations to a LOV2 protein that binds the chromophore flavin mononucleotide (FMN), we have developed a promising photosensitizer that overcomes many of the problems that affect related systems currently in use. Specifically, by decreasing the extent of hydrogen bonding between FMN and a specific amino acid residue in the local protein environment, we decrease the susceptibility of FMN to undesired photoinitiated electron-transfer reactions that kinetically compete with O(2)(a(1)Δ(g)) production. As a consequence, our protein-encased FMN system produces O(2)(a(1)Δ(g)) with the uniquely large quantum efficiency of 0.25 ± 0.03. We have also quantified other key photophysical parameters that characterize this sensitizer system, including unprecedented H(2)O/D(2)O solvent isotope effects on the O(2)(a(1)Δ(g)) formation kinetics and yields. As such, our results facilitate future systematic developments in this field.
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Affiliation(s)
- Michael Westberg
- Center for Oxygen Microscopy and Imaging, Chemistry Department and ‡Department of Molecular Biology and Genetics, Aarhus University , DK-8000, Aarhus, Denmark
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46
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Fan D, Yi Y, Li Z, Liu W, Peng Q, Shuai Z. Solvent Effects on the Optical Spectra and Excited-State Decay of Triphenylamine-thiadiazole with Hybridized Local Excitation and Intramolecular Charge Transfer. J Phys Chem A 2014; 119:5233-40. [DOI: 10.1021/jp5099409] [Citation(s) in RCA: 63] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Di Fan
- College
of Chemistry, Nanchang University, Nanchang 330031, People’s Republic of China
- Key Laboratory
of Organic Solids, Beijing National Laboratory for Molecular Science (BNLMS), Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, People’s Republic of China
| | - Yuanping Yi
- Key Laboratory
of Organic Solids, Beijing National Laboratory for Molecular Science (BNLMS), Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, People’s Republic of China
| | - Zhendong Li
- College of Chemistry
and Molecular Engineering, Peking University, Beijing 100871, People’s Republic of China
| | - Wenjian Liu
- College of Chemistry
and Molecular Engineering, Peking University, Beijing 100871, People’s Republic of China
| | - Qian Peng
- Key Laboratory
of Organic Solids, Beijing National Laboratory for Molecular Science (BNLMS), Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, People’s Republic of China
| | - Zhigang Shuai
- College
of Chemistry, Nanchang University, Nanchang 330031, People’s Republic of China
- Key Laboratory
of Organic OptoElectronics and Molecular Engineering, Department of Chemistry, Tsinghua University, Beijing 100084, People’s Republic of China
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47
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Biologically inspired pteridine redox centres for rechargeable batteries. Nat Commun 2014; 5:5335. [DOI: 10.1038/ncomms6335] [Citation(s) in RCA: 203] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2014] [Accepted: 09/18/2014] [Indexed: 12/23/2022] Open
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48
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Kokaislová A, Kalhousová M, Gráfová M, Matějka P. Chemometric evaluation of temperature-dependent surface-enhanced Raman spectra of riboflavin: What is the best multivariate approach to describe the effect of temperature? J Mol Struct 2014. [DOI: 10.1016/j.molstruc.2014.05.079] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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49
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Karasulu B, Thiel W. Photoinduced Intramolecular Charge Transfer in an Electronically Modified Flavin Derivative: Roseoflavin. J Phys Chem B 2014; 119:928-43. [DOI: 10.1021/jp506101x] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Bora Karasulu
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz
1, 45470, Mülheim, Germany
| | - Walter Thiel
- Max-Planck-Institut für Kohlenforschung, Kaiser-Wilhelm-Platz
1, 45470, Mülheim, Germany
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50
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Charaf-Eddin A, Cauchy T, Felpin FX, Jacquemin D. Vibronic spectra of organic electronic chromophores. RSC Adv 2014. [DOI: 10.1039/c4ra10731d] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
Vibronic effects in organic electronic building blocks are presented.
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Affiliation(s)
- Azzam Charaf-Eddin
- Chimie Et Interdisciplinarité
- Synthèse, Analyse, Modélisation (CEISAM)
- UMR CNRS no. 6230
- Université de Nantes
- 44322 Nantes, Cedex 3, France
| | - Thomas Cauchy
- Laboratoire MOLTECH-Anjou – UMR CNRS 6200
- Université d’Angers
- 49045 Angers, France
| | - François-Xavier Felpin
- Chimie Et Interdisciplinarité
- Synthèse, Analyse, Modélisation (CEISAM)
- UMR CNRS no. 6230
- Université de Nantes
- 44322 Nantes, Cedex 3, France
| | - Denis Jacquemin
- Chimie Et Interdisciplinarité
- Synthèse, Analyse, Modélisation (CEISAM)
- UMR CNRS no. 6230
- Université de Nantes
- 44322 Nantes, Cedex 3, France
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