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Pintér G, Hohmann K, Grün J, Wirmer-Bartoschek J, Glaubitz C, Fürtig B, Schwalbe H. Real-time nuclear magnetic resonance spectroscopy in the study of biomolecular kinetics and dynamics. MAGNETIC RESONANCE (GOTTINGEN, GERMANY) 2021; 2:291-320. [PMID: 37904763 PMCID: PMC10539803 DOI: 10.5194/mr-2-291-2021] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/03/2021] [Accepted: 04/07/2021] [Indexed: 11/01/2023]
Abstract
The review describes the application of nuclear magnetic resonance (NMR) spectroscopy to study kinetics of folding, refolding and aggregation of proteins, RNA and DNA. Time-resolved NMR experiments can be conducted in a reversible or an irreversible manner. In particular, irreversible folding experiments pose large requirements for (i) signal-to-noise due to the time limitations and (ii) synchronising of the refolding steps. Thus, this contribution discusses the application of methods for signal-to-noise increases, including dynamic nuclear polarisation, hyperpolarisation and photo-CIDNP for the study of time-resolved NMR studies. Further, methods are reviewed ranging from pressure and temperature jump, light induction to rapid mixing to induce rapidly non-equilibrium conditions required to initiate folding.
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Affiliation(s)
- György Pintér
- Institute for Organic Chemistry and Chemical Biology, Center for
Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang
Goethe-Universität Frankfurt, Frankfurt 60438, Germany
| | - Katharina F. Hohmann
- Institute for Organic Chemistry and Chemical Biology, Center for
Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang
Goethe-Universität Frankfurt, Frankfurt 60438, Germany
| | - J. Tassilo Grün
- Institute for Organic Chemistry and Chemical Biology, Center for
Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang
Goethe-Universität Frankfurt, Frankfurt 60438, Germany
| | - Julia Wirmer-Bartoschek
- Institute for Organic Chemistry and Chemical Biology, Center for
Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang
Goethe-Universität Frankfurt, Frankfurt 60438, Germany
| | - Clemens Glaubitz
- Institute for Biophysical Chemistry, Center for Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang Goethe-Universität Frankfurt, Frankfurt 60438, Germany
| | - Boris Fürtig
- Institute for Organic Chemistry and Chemical Biology, Center for
Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang
Goethe-Universität Frankfurt, Frankfurt 60438, Germany
| | - Harald Schwalbe
- Institute for Organic Chemistry and Chemical Biology, Center for
Biomolecular Magnetic Resonance (BMRZ), Johann Wolfgang
Goethe-Universität Frankfurt, Frankfurt 60438, Germany
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Unexpected Reaction Pathway of the Alpha-Aminoalkyl Radical Derived from One-Electron Oxidation of S-Alkylglutathiones. Molecules 2020; 25:molecules25040877. [PMID: 32079230 PMCID: PMC7070667 DOI: 10.3390/molecules25040877] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2020] [Revised: 02/11/2020] [Accepted: 02/12/2020] [Indexed: 11/17/2022] Open
Abstract
Laser flash photolysis and high-resolution mass spectrometry were used to investigate the mechanism of one-electron oxidation of two S-alkylglutathiones using 3-carboxybenzophenone (3CB) as a photosensitizer. This report indicates an unexpected reaction pathway of the α-aminoalkyl radical cation (αN+) derived from the oxidation of S-alkylglutathiones. Instead of a common hydrolysis reaction of αN+ reported earlier for methionine and other sulfur-containing aminoacids and peptides, an intramolecular ring-closure reaction was found for S-alkylglutathiones.
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Pompe N, Chen J, Illarionov B, Panter S, Fischer M, Bacher A, Weber S. Methyl groups matter: Photo-CIDNP characterizations of the semiquinone radicals of FMN and demethylated FMN analogs. J Chem Phys 2019; 151:235103. [PMID: 31864274 DOI: 10.1063/1.5130557] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In this contribution, the relative hyperfine couplings are determined for the 1H nuclei of the flavin mononucleotide (FMN) radical in an aqueous environment. In addition, three structural analogs with different methylation patterns are characterized and the influence of the substituents at the isoalloxazine moiety on the electronic structure of the radicals is explored. By exploiting nuclear hyperpolarization generated via the photo-CIDNP (chemically induced dynamic nuclear polarization) effect, it is possible to study the short-lived radical species generated by in situ light excitation. Experimental data are extracted by least-squares fitting and supported by quantum chemical calculations and published values from electron paramagnetic resonance and electron-nuclear double resonance. Furthermore, mechanistic details of the photoreaction of the investigated flavin analogs with l-tryptophan are derived from the photo-CIDNP spectra recorded at different pH values. Thereby, the neutral and anionic radicals of FMN and three structural analogs are, for the first time, characterized in terms of their electronic structure in an aqueous environment.
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Affiliation(s)
- Nils Pompe
- Institute of Physical Chemistry, University of Freiburg, 79104 Freiburg, Germany
| | - Jing Chen
- Institute of Physical Chemistry, University of Freiburg, 79104 Freiburg, Germany
| | - Boris Illarionov
- Hamburg School of Food Science, Institute of Food Chemistry, University of Hamburg, 20146 Hamburg, Germany
| | - Sabrina Panter
- Institute of Physical Chemistry, University of Freiburg, 79104 Freiburg, Germany
| | - Markus Fischer
- Hamburg School of Food Science, Institute of Food Chemistry, University of Hamburg, 20146 Hamburg, Germany
| | - Adelbert Bacher
- Department of Chemistry, Technical University of Munich, 85748 Garching, Germany
| | - Stefan Weber
- Institute of Physical Chemistry, University of Freiburg, 79104 Freiburg, Germany
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Morozova OB, Sherin PS, Yurkovskaya AV. Competition of singlet and triplet recombination of radical pairs in photoreactions of carboxy benzophenones and aromatic amino acids. Phys Chem Chem Phys 2019; 21:2017-2028. [PMID: 30633277 DOI: 10.1039/c8cp06760k] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Time-resolved chemically induced dynamic nuclear polarization (CIDNP) and transient absorption (TA) were applied to reveal the branching ratio of the singlet and triplet recombination channels in the reaction of short-lived radicals of carboxy benzophenones and the aromatic amino acids histidine, tryptophan, and tyrosine in neutral aqueous solution. It was established that the share of triplet recombination increases with increasing number of carboxylic groups: no triplet recombination was found for 4-carboxy benzophenone, whereas ∼13% of radicals of 4,4'-dicarboxy benzophenone (DCBP) and ∼27% of radicals of 3,3',4,4'-tetracarboxy benzophenone (TCBP) react with histidine radicals from the triplet state of radical pairs. The main idea is that the protonated (π,π*) triplet state of TCBP or DCBP is populated via back electron transfer from the ketyl radical of TCBP or DCBP to the radical of the amino acid. The protonated triplet state of the ketone decays with the formation of a metastable hydroxylated product, which is detected by TA. Taking into account triplet recombination provides excellent coincidence between experimental data and the simulated CIDNP kinetics.
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Affiliation(s)
- Olga B Morozova
- International Tomography Center, Institutskaya 3a, 630090 Novosibirsk, Russia.
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Morozova OB, Ivanov KL. Time-Resolved Chemically Induced Dynamic Nuclear Polarization of Biologically Important Molecules. Chemphyschem 2018; 20:197-215. [DOI: 10.1002/cphc.201800566] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2018] [Revised: 10/11/2018] [Indexed: 11/11/2022]
Affiliation(s)
- Olga B. Morozova
- International Tomography Center; Institutskaya 3a 630090 Novosibirsk Russia
- Novosibirsk State University; Pirogova 2 630090 Novosibirsk Russia
| | - Konstantin L. Ivanov
- International Tomography Center; Institutskaya 3a 630090 Novosibirsk Russia
- Novosibirsk State University; Pirogova 2 630090 Novosibirsk Russia
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Morozova OB, Yurkovskaya AV, Vieth HM, Sosnovsky DV, Ivanov KL. Light-induced spin hyperpolarisation in condensed phase. Mol Phys 2017. [DOI: 10.1080/00268976.2017.1363923] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Olga B. Morozova
- Laboratory of Magnetic and Spin Phenomena, International Tomography Center SB RAS, Novosibirsk, 630090, Russia
- Laboratory of Magnetic Resonance in Chemistry, Biology and Medicine, Novosibirsk State University, Novosibirsk, 630090, Russia
| | - Alexandra V. Yurkovskaya
- Laboratory of Magnetic and Spin Phenomena, International Tomography Center SB RAS, Novosibirsk, 630090, Russia
- Laboratory of Magnetic Resonance in Chemistry, Biology and Medicine, Novosibirsk State University, Novosibirsk, 630090, Russia
| | - Hans-Martin Vieth
- Laboratory of Magnetic and Spin Phenomena, International Tomography Center SB RAS, Novosibirsk, 630090, Russia
- Department of Physics, Free University of Berlin, Berlin, 14195, Germany
| | - Denis V. Sosnovsky
- Laboratory of Magnetic and Spin Phenomena, International Tomography Center SB RAS, Novosibirsk, 630090, Russia
- Laboratory of Magnetic Resonance in Chemistry, Biology and Medicine, Novosibirsk State University, Novosibirsk, 630090, Russia
| | - Konstantin L. Ivanov
- Laboratory of Magnetic and Spin Phenomena, International Tomography Center SB RAS, Novosibirsk, 630090, Russia
- Laboratory of Magnetic Resonance in Chemistry, Biology and Medicine, Novosibirsk State University, Novosibirsk, 630090, Russia
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Köchling T, Morozova OB, Yurkovskaya AV, Vieth HM. Magnetic Resonance Characterization of One-Electron Oxidized Cyclic Dipeptides with Thioether Groups. J Phys Chem B 2016; 120:9277-86. [DOI: 10.1021/acs.jpcb.6b05442] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Talea Köchling
- Institut
für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany
| | - Olga B. Morozova
- International Tomography Center, Institutskaya
3a, 630090 Novosibirsk, Russia
- Novosibirsk State University, Pirogova
2, 630090 Novosibirsk, Russia
| | - Alexandra V. Yurkovskaya
- International Tomography Center, Institutskaya
3a, 630090 Novosibirsk, Russia
- Novosibirsk State University, Pirogova
2, 630090 Novosibirsk, Russia
| | - Hans-Martin Vieth
- Institut
für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany
- International Tomography Center, Institutskaya
3a, 630090 Novosibirsk, Russia
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