1
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VanOrman ZA, Kitzmann WR, Reponen APM, Deshpande T, Jöbsis HJ, Feldmann S. Chiral light-matter interactions in solution-processable semiconductors. Nat Rev Chem 2025; 9:208-223. [PMID: 39962270 DOI: 10.1038/s41570-025-00690-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/15/2025] [Indexed: 02/20/2025]
Abstract
Chirality is a fundamental property widely observed in nature, arising in objects without a proper rotation axis, therefore existing as forms with distinct handedness. This characteristic can profoundly impact the properties of materials and can enable new functionality, especially for spin-optoelectronics. Chirality enables asymmetric light and spin interactions in materials, with widespread potential applications ranging from energy-efficient displays, holography, imaging, and spin-selective and enantio-selective chemistry to quantum information technologies. This Review focuses on the emerging material class of solution-processable chiral semiconductors, a broad material class comprising organic, inorganic and hybrid materials. These exciting materials offer the opportunity to design desirable light-matter interactions based on symmetry rules, potentially enabling the simultaneous control of light, charge and spin. We briefly discuss the various types of solution-processible chiral semiconductors, including small molecules, polymers, supramolecular self-assemblies and halide perovskites. We then examine the interplay between chirality and spin in these materials, the various mechanisms of chiral light-matter interactions, and techniques utilized to characterize them. We conclude with current and future applications of chiral semiconductors that take advantage of their chiral light-matter interactions.
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Affiliation(s)
- Zachary A VanOrman
- Rowland Institute, Harvard University, Cambridge, MA, USA
- Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Winald R Kitzmann
- Rowland Institute, Harvard University, Cambridge, MA, USA
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA
| | | | - Tejas Deshpande
- Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Huygen J Jöbsis
- Rowland Institute, Harvard University, Cambridge, MA, USA
- Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Sascha Feldmann
- Rowland Institute, Harvard University, Cambridge, MA, USA.
- Institute of Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
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2
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Pajor K, Halat M, Rode JE, Baranska M. Raman Optical Activity Enhanced via Supramolecular Aggregation and Other Intermolecular Interactions-A Review. Chemistry 2025; 31:e202500394. [PMID: 40168149 DOI: 10.1002/chem.202500394] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2025] [Revised: 03/27/2025] [Accepted: 03/31/2025] [Indexed: 04/03/2025]
Abstract
In this review, we show that Raman optical activity (ROA) combined with electronic circular dichroism (ECD) are effective tools for detecting supramolecular chirality and related processes such as chiral signal amplification and chirality transfer (also called induction) between chiral and achiral solutes. Research on spontaneous self-organization has led to significant discoveries in vibrational optical activity (VOA) over the past decade. As a leading topic, we discuss different aggregation pathways of carotenoids, which contributed to the definition of new phenomena in the field of ROA, i.e., aggregation-induced resonance Raman optical activity (AIRROA), and the first chirality induction observed in nature. We present the chirality of carotenoids as i) amplification via supramolecular assembly, ii) induction by a small number of chiral monomers, and iii) transfer from the local environment. We also report here other complex systems that are relevant to the VOA community in the context of chiroptical analysis. These include ROA signal enhancement, e.g., recorded for amyloid fibrils or achiral linker aggregates attached to silver colloid (plasmonic effects). Finally, we highlight the challenges faced by ROA studies of supramolecular aggregates of strongly absorbing compounds, where chirality transfer may be misinterpreted as artifacts due to the ECD-Raman effect.
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Affiliation(s)
- Katarzyna Pajor
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387, Krakow, Poland
- Doctoral School of Exact and Natural Sciences, Jagiellonian University, S. Łojasiewicza 11, 30-348, Krakow, Poland
| | - Monika Halat
- Department of Plant Biology and Biotechnology, University of Agriculture in Krakow, Al. Mickiewicza 21, 31-120, Krakow, Poland
| | - Joanna E Rode
- Laboratory for Spectroscopy, Molecular Modeling and Structure Determination, Institute of Nuclear Chemistry and Technology, Dorodna 16, 03-195, Warsaw, Poland
| | - Malgorzata Baranska
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387, Krakow, Poland
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3
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Alshalalfeh M, Xu Y. Chiroptical Spectroscopy, Theoretical Calculations, and Symmetry of a Chiral Transition Metal Complex with Low-Lying Electronic States. Molecules 2025; 30:804. [PMID: 40005116 PMCID: PMC11858395 DOI: 10.3390/molecules30040804] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2025] [Revised: 01/24/2025] [Accepted: 02/08/2025] [Indexed: 02/27/2025] Open
Abstract
Vibrational circular dichroism (VCD) enhancement by low-lying electronic states (LLESs) is a fascinating phenomenon, but accounting for it theoretically remains a challenge despite significant research efforts over the past 20 years. In this article, we synthesized two transition metal complexes using the tetradentate Schiff base ligands (R,R)- and (S,S)-N,N'-Bis(3,5-di-tert-butylsalicylidene)-1,2-cyclohexanediamine with Co(II) and Mn(III), referred to as Co(II)-salen-chxn and Mn(III)-Cl-salen-chxn, respectively. Their stereochemical properties were explored through a combined experimental chiroptical spectroscopic and theoretical approach, with a focus on Co(II)-salen-chxn. Extensive conformational searches in CDCl3 for both high- and low-spin states were carried out and the associated infrared (IR), VCD, ultraviolet-visible (UV-Vis) absorption, and electronic circular dichroism (ECD) spectra were simulated. A good agreement between experimental and simulated data was achieved for IR, VCD, UV-Vis, and ECD, except in the case of VCD of Co(II)-salen-chxn which exhibits significant intensity enhancement and monosignate VCD bands, attributed to the LLESs. Interestingly, detailed comparisons with Mn(III)-Cl-salen-chxn and previously reported Ni(II)-salen-chxn and Cu(II)-salen-chxn complexes suggest that the enhancement factor is predicted by the current density functional theory simulations. However, the monosignate signatures observed in the experimental Co(II) VCD spectrum were not captured theoretically. Based on the experiment and theoretical VCD and ECD comparison, it is tentatively suggested that Co(II)-salen-chxn exists in both low- and high-spin states, with the former being dominant, while Mn(III)-Cl-salen-chxn in the high-spin state. The study indicates that VCD enhancement by LLESs is at least partially captured by the existing theoretical simulation, while the symmetry consideration in vibronic coupling provides further insight into the mechanisms behind the VCD sign-flip.
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Affiliation(s)
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, Edmonton, AB T6G 2G2, Canada;
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4
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Krupová M, Andrushchenko V. Vibrational circular dichroism beyond solutions. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2025; 340:125839. [PMID: 40354778 DOI: 10.1016/j.saa.2025.125839] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2024] [Revised: 01/16/2025] [Accepted: 01/30/2025] [Indexed: 05/14/2025]
Abstract
Since the first vibrational circular dichroism (VCD) experiments conducted in the early 1970s, VCD spectroscopy has significantly advanced and firmly established itself in various fields of modern science and technology. For example, it became one of the preferred methods for absolute configuration determination in the pharmaceutical industry. Nevertheless, VCD development and applications have mostly focused on samples in solution, whereas applications to solid-state samples remain relatively rare. Although the first solid-state experiments were performed around the time of VCD discovery, they did not become the mainstream due to considerably more demanding methodological and theoretical challenges. In this review, we take the reader on a journey through some of the applications of VCD spectroscopy to solid-state samples. We look at the field of solid-state VCD from both a historical perspective and a methodological point of view, highlighting the diverse directions explored with this technique. We attempt to categorize all the variety of solid-state VCD experiments undertaken to date. Additionally, we briefly outline the main challenges faced by the field, and provide an overview of the theoretical methodology accompanying the experimental developments. Finally, we conclude our solid-state VCD journey with an outlook on the future prospects of the field.
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Affiliation(s)
- Monika Krupová
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, UiT The Arctic University of Norway, N-9037 Tromsø, Norway; Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University (UJ) in Krakow, Bobrzynskiego 14, 30-348 Krakow, Poland
| | - Valery Andrushchenko
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo náměstí 2, 16610 Prague, Czech Republic.
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5
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Domagała A, Buda S, Baranska M, Zając G. Glutathione and its structural modifications recognized by Raman Optical Activity and Circularly Polarized Luminescence. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2025; 324:124995. [PMID: 39208544 DOI: 10.1016/j.saa.2024.124995] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2024] [Revised: 08/16/2024] [Accepted: 08/16/2024] [Indexed: 09/04/2024]
Abstract
Raman Optical Activity combined with Circularly Polarized Luminescence (ROA-CPL) was used in the spectral recognition of glutathione peptide (GSH) and its model post-translational modifications (PTMs). We demonstrate the potential of ROA spectroscopy and CPL probes (EuCl3, Na3[Eu(DPA)3], NaEuEDTA) in the study of unmodified peptide, i.e. GSH, and its derivatives, i.e. glutathione oxidized (GSSG), S-acetylglutathione (GSAc) and S-nitrosoglutathione (GSNO). ROA spectral features of GSH, GSSG, and GSAc were determined along with thier changes upon the different pH conditions. Apart from the ROA, induced CPL signals of Eu(III) probes also proved to be sensitive to the structural modifications of GSH-based model PTMs, enabling their spectral recognition, especially by the NaEuEDTA probe.
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Affiliation(s)
- Agnieszka Domagała
- Jagiellonian University, Jagiellonian Centre for Experimental Therapeutics (JCET), Bobrzynskiego 14, 30-348 Krakow, Poland; Jagiellonian University, Doctoral School of Exact and Natural Sciences, Prof. St. Łojasiewicza 11, 30-348 Krakow, Poland
| | - Szymon Buda
- Jagiellonian University, Faculty of Chemistry, Gronostajowa 2, 30-387 Krakow, Poland
| | - Malgorzata Baranska
- Jagiellonian University, Jagiellonian Centre for Experimental Therapeutics (JCET), Bobrzynskiego 14, 30-348 Krakow, Poland; Jagiellonian University, Faculty of Chemistry, Gronostajowa 2, 30-387 Krakow, Poland
| | - Grzegorz Zając
- Jagiellonian University, Jagiellonian Centre for Experimental Therapeutics (JCET), Bobrzynskiego 14, 30-348 Krakow, Poland.
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6
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Sato H, Shimizu M, Watanabe K, Koshoubu J. Construction of a Vibrational Circular Dichroism Instrument Equipped With a Thermoelectrically Cooled Detector for Prolonged Measurements. Chirality 2025; 37:e70019. [PMID: 39807753 DOI: 10.1002/chir.70019] [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: 11/26/2024] [Revised: 12/24/2024] [Accepted: 12/28/2024] [Indexed: 01/16/2025]
Abstract
A vibrational circular dichroism (VCD) instrument having a thermoelectrically cooled detector (denoted as a TEC unit) was constructed in this study. An electronic device, instead of liquid nitrogen, was employed in the instrument to cool the detector. The feasibility of the system was examined by recording the VCD spectra of liquid pinenes and insect wings. VCD signals were obtained at a constant baseline that was stable for more than 40 h. The spectrometer equipped with a TEC unit exhibited potential for performing measurements for prolonged time periods.
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Affiliation(s)
- Hisako Sato
- Faculty of Science, Ehime University, Matsuyama, Japan
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7
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Chouchane K, Kirkitadze M, Misra R, Kowal P, Dalloz-Bourguignon O, Greco F, Fayard S, Marco S, Clenet D. Quantitative Comparison and Clustering of Circular Dichroism Spectra Using a Symmetrized Weighted Spectral Difference. AAPS J 2024; 27:17. [PMID: 39702851 DOI: 10.1208/s12248-024-01005-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2024] [Accepted: 11/27/2024] [Indexed: 12/21/2024] Open
Abstract
Spectroscopy (UV-visible, circular dichroism, infrared, Raman, fluorescence, etc.) is of fundamental importance to determine the structures of macromolecules and monitor their stability, especially for drug products, based on proteins or nucleic acids. In their 2014 article, Dinh et al. proposed Weighted Spectral Difference (WSD) as a method to quantitatively compute the dissimilarity of a given spectrum to a reference one. Despite the various properties of this method, its lack of symmetry and dependence on the selection of a reference limits the range of possible applications. Here, we propose a reference-free, symmetrized version of WSD (SWSD) that allows the computation of a semi-distance between two spectra. SWSD can be applied to perform group comparisons, track spectral kinetics, or construct a SWSD matrix leading to the hierarchical clustering of spectra. This method was tested on circular dichroism spectra from a split-virus-based (influenza) vaccine and a recombinant spike protein (COVID-19 vaccine). This approach resulted, first, in a perfect clustering of influenza A and B viruses into two distinct clusters, and second, in the detection of the change of secondary structure of the spike protein during a heating experiment, identifying two main temperatures of denaturation (Tm) by SWSD kinetics, in agreement with results obtained by conventional DSC. In summary, we have shown that SWSD is a versatile and efficient tool for quantitative spectral comparison, tracking spectral kinetics and enabling relevant unsupervised classification.
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Affiliation(s)
- Karim Chouchane
- Capgemini Engineering, Hybrid Intelligence Technologies, Lyon, France
| | - Marina Kirkitadze
- Analytical Sciences, Vaccine CMC Development & Supply, Sanofi, 1755 Steeles Ave W, Toronto, Ontario, M2R 3T4, Canada
| | - Rahul Misra
- Analytical Sciences, Vaccine CMC Development & Supply, Sanofi, 1755 Steeles Ave W, Toronto, Ontario, M2R 3T4, Canada
| | - Przemyslaw Kowal
- Analytical Sciences, Vaccine CMC Development & Supply, Sanofi, 1755 Steeles Ave W, Toronto, Ontario, M2R 3T4, Canada
| | - Olivier Dalloz-Bourguignon
- Analytical Sciences, Vaccine CMC Development & Supply, Sanofi, 33, quai A. Barbes, Neuville sur, Saône, 69250, France
| | - Frederic Greco
- Analytical Sciences, Vaccine CMC Development & Supply, Sanofi, 33, quai A. Barbes, Neuville sur, Saône, 69250, France
| | - Sylvie Fayard
- Analytical Sciences, Vaccine CMC Development & Supply, Sanofi, 33, quai A. Barbes, Neuville sur, Saône, 69250, France
| | - Sergio Marco
- Analytical Sciences, Vaccine CMC Development & Supply, Sanofi, 33, quai A. Barbes, Neuville sur, Saône, 69250, France
| | - Didier Clenet
- Global Bioprocess Development, Vaccine CMC Development & Supply, Sanofi, 1541 Avenue Marcel Merieux, Marcy-L' Etoile, 69280, France.
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8
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Tao Z, Duston T, Pei Z, Shao Y, Rawlinson J, Littlejohn R, Subotnik JE. An electronic phase-space Hamiltonian approach for electronic current density and vibrational circular dichroism. J Chem Phys 2024; 161:204107. [PMID: 39588829 DOI: 10.1063/5.0233618] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2024] [Accepted: 10/17/2024] [Indexed: 11/27/2024] Open
Abstract
The Born-Oppenheimer framework stipulates that chemistry and physics occur on potential energy surfaces VBO(X) parameterized by a nuclear coordinate X, which are built by diagonalizing a BO Hamiltonian ĤBO(X). However, such a framework cannot recover many measurable chemical and physical features, including vibrational circular dichroism spectra. In this article, we show that a phase-space electronic Hamiltonian ĤPS(X,P), parameterized by both nuclear position X and momentum P, with a similar computational cost as solving ĤBO(X), can recover not just experimental vibrational circular dichroism signals but also a meaningful electronic current density that explains the features of the vibrational circular dichroism rotational strengths. Combined with earlier demonstrations that such Hamiltonians can also recover qualitatively correct electronic momenta with electronic densities that approximately satisfy a continuity equation, the data would suggest that, if one looks closely enough, chemistry in fact occurs on potential energy surfaces parameterized by both X and P, EPS(X, P). While the dynamical implications of such a phase-space electronic Hamiltonian are not yet known, we hypothesize that, by offering classical trajectories that explicitly offer nonzero electronic momentum while also conserving the total angular momentum (unlike Born-Oppenheimer theory), this new phase-space electronic structure Hamiltonian may well explain some fraction of the chiral-induced spin selectivity effect.
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Affiliation(s)
- Zhen Tao
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, USA
| | - Titouan Duston
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, USA
| | - Zheng Pei
- Department of Chemistry, The University of Oklahoma, Norman, Oklahoma 73104, USA
| | - Yihan Shao
- Department of Chemistry, The University of Oklahoma, Norman, Oklahoma 73104, USA
| | - Jonathan Rawlinson
- Department of Mathematics, Nottingham Trent University, Nottingham, United Kingdom
| | - Robert Littlejohn
- Department of Physics, University of California, Berkeley, California 94720, USA
| | - Joseph E Subotnik
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, USA
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9
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Pescitelli G, Di Bari L. The Phenomenon of Vibrational Circular Dichroism Enhancement: A Systematic Survey of Literature Data. J Phys Chem B 2024; 128:9043-9060. [PMID: 39279667 DOI: 10.1021/acs.jpcb.4c04143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/18/2024]
Abstract
While the intensity of vibrational circular dichroism (VCD) signals is commonly 104-105 times smaller than that of corresponding IR signals, several kinds of systems display enhanced VCD spectra with g-values (VCD/IR intensity ratio) above 10-3 and even reaching 5 × 10-2 in some exceptional cases. These systems include transition metal and lanthanide complexes, protein and peptide fibrils, short oligopeptide gels, crystalline compounds, gels and solution aggregates of organic compounds. We review the literature on VCD enhancement, focusing on collecting and analyzing data on enhanced g-values. Special attention is given to the mechanisms proposed to produce these effects.
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Affiliation(s)
- Gennaro Pescitelli
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via Moruzzi 13, 56126 Pisa, Italy
| | - Lorenzo Di Bari
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via Moruzzi 13, 56126 Pisa, Italy
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10
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Bloino J, Jähnigen S, Merten C. After 50 Years of Vibrational Circular Dichroism Spectroscopy: Challenges and Opportunities of Increasingly Accurate and Complex Experiments and Computations. J Phys Chem Lett 2024; 15:8813-8828. [PMID: 39167088 DOI: 10.1021/acs.jpclett.4c01700] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/23/2024]
Abstract
VCD research continues to thrive, driven by ongoing experimental and theoretical advances. Modern studies deal with increasingly complex samples featuring weak intermolecular interactions and shallow potential energy surfaces. Likewise, the combination of VCD measurements with, for instance, cryo-spectroscopic techniques has significantly increased their sensitivity. The extent to which such modern measurements enhance the informative value of VCD depends significantly on the quality of the theoretical models, which must adequately account for anharmonicity, solvation and molecular dynamics. We herein discuss how experimental advancements engage in a stimulating interplay with recent theoretical developments, pursuing either the static or the dynamic computational route. Both paths have their own strengths and limitations, each addressing fundamentally different problems. We give an outlook on future challenges of VCD research, including the possibility to combine static and dynamic approaches to obtain a full picture of the sample.
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Affiliation(s)
- Julien Bloino
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Sascha Jähnigen
- Freie Universität Berlin, Institut für Chemie und Biochemie, Arnimallee 22, 14195 Berlin, Germany
| | - Christian Merten
- Ruhr-Universität Bochum, Fakultät für Chemie und Biochemie, Universitätsstraße 150, 44801 Bochum, Germany
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11
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Sato H, Inoué S, Yoshida J, Kawamura I, Koshoubu J, Yamagishi A. Microscopic vibrational circular dichroism on the forewings of a European hornet: heterogenous sequences of protein domains with different secondary structures. Phys Chem Chem Phys 2024; 26:17918-17922. [PMID: 38888259 DOI: 10.1039/d4cp01827c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/20/2024]
Abstract
We developed a microscopic scanning for vibrational circular dichroism (VCD) spectroscopy in which a quantum cascade laser is equipped with a highly focused infrared light source to attain a spatial resolution of 100 μm. This system was applied to the forewing of a European hornet to reveal how the protein domains are organised. Two-dimensional patterns were obtained from the VCD signals with steps of 100 μm. We scanned the 1500-1740 cm-1 wavenumber range, which covers amide I and II absorptions. Zone sequenced α-helical and β-sheet domains within an area of 200 μm2 in membranes close to where two veins cross. The sign of the VCD signal at 1650 cm-1 changed from positive to negative when probed along the zone axis, intermediated by the absence of VCD activity. The significance of this zone is discussed from the viewpoint of the mechanical properties required for flying motion. These features are unattainable using conventional FTIR (Fourier transform infrared) or FT-VCD methods with a spatial resolution of ∼10 mm2.
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Affiliation(s)
- Hisako Sato
- Faculty of Science, Ehime University, 1 2-5, Bunkyo-cho, Matsuyama, 790-8577, Japan.
| | - Sayako Inoué
- Geodynamics Research Center, Ehime University, Matsuyama 790-8577, Japan
| | - Jun Yoshida
- Department of Chemistry, College of Humanities & Sciences, Nihon University, Setagaya-ku, Tokyo 156-8550, Japan
| | - Izuru Kawamura
- Graduate School of Engineering Science, Yokohama National University Yokohama, 240-8501, Japan
| | - Jun Koshoubu
- JASCO Corporation, Ishikawa 2967-5, Hachioji Tokyo, 192-8537, Japan
| | - Akihiko Yamagishi
- Faculty of Medicine, Toho University, 2 5-21-16 Oomori-nishi, Ota-ku, Tokyo, 143-8540, Japan
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12
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Er E, Chow TH, Liz-Marzán LM, Kotov NA. Circular Polarization-Resolved Raman Optical Activity: A Perspective on Chiral Spectroscopies of Vibrational States. ACS NANO 2024; 18:12589-12597. [PMID: 38709673 PMCID: PMC11112978 DOI: 10.1021/acsnano.3c13228] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2023] [Revised: 03/20/2024] [Accepted: 04/16/2024] [Indexed: 05/08/2024]
Abstract
Circular polarization-resolved Raman scattering methods include Raman optical activity (ROA) and its derivative─surface-enhanced Raman optical activity (SEROA). These spectroscopic modalities are rapidly developing due to their high information content, stand-off capabilities, and rapid development of Raman-active chiral nanostructures. These methods enable a direct readout of the vibrational energy levels of chiral molecules, crystals, and nanostructured materials, making it possible to study complex interactions and the dynamic interfaces between them. They were shown to be particularly valuable for nano- and biotechnological fields encompassing complex particles with nanoscale chirality that combine strong scattering and intense polarization rotation. This perspective dives into recent advancements in ROA and SEROA, their distinction from surface-enhanced Raman scattering, and the potential of these information-rich label-free spectroscopies for the detection of chiral biomolecules.
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Affiliation(s)
- Engin Er
- Department
of Chemical Engineering, University of Michigan, Ann Arbor 48109-2102, Michigan, United States
- NSF
Center for Complex Particle Systems (COMPASS), Ann Arbor 48109, Michigan, United States
- Biotechnology
Institute, Ankara University, Ankara 06135, Turkey
| | - Tsz Him Chow
- CIC
biomaGUNE, Basque Research and Technology Alliance (BRTA), Donostia-San Sebastián 20014, Spain
| | - Luis M. Liz-Marzán
- CIC
biomaGUNE, Basque Research and Technology Alliance (BRTA), Donostia-San Sebastián 20014, Spain
- Ikerbasque,
Basque Foundation for Science, Bilbao 43009, Spain
- Centro de
Investigación Biomédica en Red, Bioingeniería,
Biomateriales y Nanomedicina (CIBER-BBN), Donostia-San Sebastián 20014, Spain
- Cinbio, University of Vigo, Vigo 36310, Spain
| | - Nicholas A. Kotov
- Department
of Chemical Engineering, University of Michigan, Ann Arbor 48109-2102, Michigan, United States
- NSF
Center for Complex Particle Systems (COMPASS), Ann Arbor 48109, Michigan, United States
- Department
of Materials Science, University of Michigan, Ann Arbor 48109-2102, Michigan, United States
- Biointerfaces
Institute, University of Michigan, Ann Arbor 48109-2102, Michigan, United States
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13
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Halat M, Zając G, Andrushchenko V, Bouř P, Baranski R, Pajor K, Baranska M. Induced Chirality in Canthaxanthin Aggregates Reveals Multiple Levels of Supramolecular Organization. Angew Chem Int Ed Engl 2024; 63:e202402449. [PMID: 38517385 DOI: 10.1002/anie.202402449] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2024] [Revised: 03/08/2024] [Accepted: 03/21/2024] [Indexed: 03/23/2024]
Abstract
Carotenoids tend to form supramolecular aggregates via non-covalent interactions where the chirality of individual molecules is amplified to the macroscopic level. We show that this can also be achieved for non-chiral carotenoid monomers interacting with polysaccharides. The chirality induction in canthaxanthin (CAX), caused by heparin (HP) and hyaluronic acid (HA), was monitored by chiroptical spectroscopy. Electronic circular dichroism (ECD) and Raman optical activity (ROA) spectra indicated the presence of multiple carotenoid formations, such as H- and J-type aggregates. This is consistent with molecular dynamics (MD) and density functional theory (DFT) simulations of the supramolecular structures and their spectroscopic response.
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Affiliation(s)
- Monika Halat
- Department of Plant Biology and Biotechnology, University of Agriculture in Krakow, Al. Mickiewicza 21, 31-120, Krakow, Poland
| | - Grzegorz Zając
- Jagiellonian Centre for Experimental Therapeutics, Jagiellonian University, Bobrzynskiego 14, 30-348, Krakow, Poland
| | - Valery Andrushchenko
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic
| | - Petr Bouř
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic
| | - Rafal Baranski
- Department of Plant Biology and Biotechnology, University of Agriculture in Krakow, Al. Mickiewicza 21, 31-120, Krakow, Poland
| | - Katarzyna Pajor
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387, Krakow, Poland
- Doctoral School of Exact and Natural Sciences, Jagiellonian University, S. Łojasiewicza 11, 30-348, Krakow, Poland
| | - Malgorzata Baranska
- Jagiellonian Centre for Experimental Therapeutics, Jagiellonian University, Bobrzynskiego 14, 30-348, Krakow, Poland
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387, Krakow, Poland
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14
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Spasovová M, Kapitán J, Jílek Š, Siddhique Para Kkadan M, Klener J, Scott Lynn N, Kopecký V, Baumruk V, Profant V. Probing solution conformations of l-DOPA: Integration of experiment and simulation via vibrational optical activity. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 313:124119. [PMID: 38452461 DOI: 10.1016/j.saa.2024.124119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2023] [Revised: 02/24/2024] [Accepted: 03/03/2024] [Indexed: 03/09/2024]
Abstract
l-DOPA plays a critical role as a precursor to dopamine and is a standard treatment for Parkinson's disease. Recent research has highlighted the potential therapeutic advantages of deuterated l-DOPA analogs having a longer biological half-life. For their spectroscopic characterization, the in-detail characterization of l-DOPA itself is necessary. This article presents a thorough examination of the vibrational spectra of l-DOPA, with a particular emphasis on chirally sensitive VOA techniques. We successfully obtained high-quality Raman and ROA spectra of l-DOPA in its cationic form, under low pH conditions, and at a high concentration of 100 mg/ml. These spectra cover a broad spectral range, allowing for precise comparisons with theoretical simulations. We also obtained IR and VCD spectra, but they faced limitations due to the narrow accessible spectral region. Exploration of l-DOPA's conformational landscape revealed its intrinsic flexibility, with multiple coexisting conformations. To characterize these conformations, we employed two methods: one involved potential energy surface scans with implicit solvation, and the other utilized molecular dynamics simulations with explicit solvation. Comparing ROA spectra from different conformer groups and applying spectral decomposition proved crucial in determining the correct conformer ratios. The use of explicit solvation significantly improved the quality of the final simulated spectral profiles. The accurate determination of conformer ratios, rather than solely relying on the number of averaged spectra, played a crucial role in simulation accuracy. In conclusion, our study offers valuable insights into the structure and conformational behavior of l-DOPA and represents a valuable resource for subsequent spectroscopic studies of its deuterated analogs.
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Affiliation(s)
- Monika Spasovová
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 121 16 Prague 2, Czech Republic; FZU - Institute of Physics of the Czech Academy of Sciences, Na Slovance 1999/2, 182 00 Prague 8, Czech Republic
| | - Josef Kapitán
- Department of Optics, Faculty of Sciences, Palacký University Olomouc, 17. listopadu 12, 771 46 Olomouc, Czech Republic
| | - Štěpán Jílek
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 121 16 Prague 2, Czech Republic
| | - Mohammed Siddhique Para Kkadan
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 121 16 Prague 2, Czech Republic; Institute of Organic Chemistry and Biochemistry AS CR v.v.i., Flemingovo náměstí 2, 166 10 Prague 6, Czech Republic
| | - Jakub Klener
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 121 16 Prague 2, Czech Republic
| | - Nicolas Scott Lynn
- FZU - Institute of Physics of the Czech Academy of Sciences, Na Slovance 1999/2, 182 00 Prague 8, Czech Republic
| | - Vladimír Kopecký
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 121 16 Prague 2, Czech Republic
| | - Vladimír Baumruk
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 121 16 Prague 2, Czech Republic
| | - Václav Profant
- Institute of Physics, Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 121 16 Prague 2, Czech Republic.
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15
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Fusè M, Mazzeo G, Longhi G, Abbate S, Yang Q, Bloino J. Scaling-up VPT2: A feasible route to include anharmonic correction on large molecules. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 311:123969. [PMID: 38330757 DOI: 10.1016/j.saa.2024.123969] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/02/2023] [Revised: 01/18/2024] [Accepted: 01/24/2024] [Indexed: 02/10/2024]
Abstract
Vibrational analysis plays a crucial role in the investigation of molecular systems. Though methodologies like second-order vibrational perturbation theory (VPT2) have paved the way to more accurate simulations, the computational cost remains a difficult barrier to overcome when the molecular size increases. Building upon recent advances in the identification of resonances, we propose an approach making anharmonic simulations possible for large-size systems, typically unreachable by standard means. This relies on the fact that, often, only portions of the whole spectra are of actual interest. Therefore, the anharmonic corrections can be included selectively on subsets of normal modes directly related to the regions of interest. Starting from the VPT2 equations, we evaluate rigorously and systematically the impact of the truncated anharmonic treatment onto simulations. The limit and feasibility of the reduced-dimensionality approach are detailed, starting on a smaller model system. The methodology is then challenged on the IR absorption and vibrational circular dichroism spectra of an organometallic complex in three different spectral ranges.
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Affiliation(s)
- Marco Fusè
- Dipartimento di Medicina Molecolare e Traslazionale, Università di Brescia, Viale Europa 11, 25123, Brescia, Italy.
| | - Giuseppe Mazzeo
- Dipartimento di Medicina Molecolare e Traslazionale, Università di Brescia, Viale Europa 11, 25123, Brescia, Italy
| | - Giovanna Longhi
- Dipartimento di Medicina Molecolare e Traslazionale, Università di Brescia, Viale Europa 11, 25123, Brescia, Italy; Istituto Nazionale di Ottica (INO), CNR, Research Unit of Brescia, c/o CSMT, VIA Branze 45, 25123, Brescia, Italy
| | - Sergio Abbate
- Dipartimento di Medicina Molecolare e Traslazionale, Università di Brescia, Viale Europa 11, 25123, Brescia, Italy; Istituto Nazionale di Ottica (INO), CNR, Research Unit of Brescia, c/o CSMT, VIA Branze 45, 25123, Brescia, Italy
| | - Qin Yang
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo náměstí 542/2, 160 00, Prague, Czech Republic
| | - Julien Bloino
- Scuola Normale Superiore, Piazza dei Cavalieri, 56125, Pisa, Italy.
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16
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Rode JE, Wasilczenko J, Górecki M. Differentiation of solvatomorphs of active pharmaceutical ingredients (API) by solid-state vibrational circular dichroism (VCD). SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 310:123851. [PMID: 38295593 DOI: 10.1016/j.saa.2024.123851] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Revised: 12/04/2023] [Accepted: 01/04/2024] [Indexed: 02/02/2024]
Abstract
Here, we present the new application of solid-state Vibrational Circular Dichroism (VCD) spectroscopy to differentiate several dutasteride (DS) solvatomorphs - the model active pharmaceutical ingredient (API). Several crystalline DS hydrochloride hydrates solvated with methanol, ethanol, acetonitrile, acetone, and acetic acid were prepared. In contrast to almost identical IR spectra, the VCD ones were very sensitive to changes in the sample composition. We marked significant differences in the shape of VCD spectra of studied DS solvatomorphs, DS hydrates, and DS polymorphic forms. Our findings, supported by DFT calculations, show that VCD spectroscopy has the pronounced ability to distinguish their crystal arrangements. We believe that this contribution will extend the use of VCD in the pharmaceutical industry for developing and designing new chiral drug products for the identification, description, and in-depth probing of several pharmaceutical solvatomorphs in the future.
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Affiliation(s)
- Joanna E Rode
- Institute of Nuclear Chemistry and Technology, Dorodna 16 St., 03-195 Warsaw, Poland
| | - Justyna Wasilczenko
- Institute of Organic Chemistry, Polish Academy of Sciences, Kasprzaka 44/52 St., 01-224 Warsaw, Poland
| | - Marcin Górecki
- Institute of Organic Chemistry, Polish Academy of Sciences, Kasprzaka 44/52 St., 01-224 Warsaw, Poland.
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17
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Tao Z, Qiu T, Bhati M, Bian X, Duston T, Rawlinson J, Littlejohn RG, Subotnik JE. Practical phase-space electronic Hamiltonians for ab initio dynamics. J Chem Phys 2024; 160:124101. [PMID: 38526114 DOI: 10.1063/5.0192084] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Accepted: 02/14/2024] [Indexed: 03/26/2024] Open
Abstract
Modern electronic structure theory is built around the Born-Oppenheimer approximation and the construction of an electronic Hamiltonian Ĥel(X) that depends on the nuclear position X (and not the nuclear momentum P). In this article, using the well-known theory of electron translation (Γ') and rotational (Γ″) factors to couple electronic transitions to nuclear motion, we construct a practical phase-space electronic Hamiltonian that depends on both nuclear position and momentum, ĤPS(X,P). While classical Born-Oppenheimer dynamics that run along the eigensurfaces of the operator Ĥel(X) can recover many nuclear properties correctly, we present some evidence that motion along the eigensurfaces of ĤPS(X,P) can better capture both nuclear and electronic properties (including the elusive electronic momentum studied by Nafie). Moreover, only the latter (as opposed to the former) conserves the total linear and angular momentum in general.
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Affiliation(s)
- Zhen Tao
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
| | - Tian Qiu
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
| | - Mansi Bhati
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
| | - Xuezhi Bian
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
| | - Titouan Duston
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
| | - Jonathan Rawlinson
- Department of Mathematics, University of Manchester, Manchester M13 9PL, United Kingdom
| | - Robert G Littlejohn
- Department of Physics, University of California, Berkeley, California 94720, USA
| | - Joseph E Subotnik
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
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18
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Littlejohn R, Rawlinson J, Subotnik J. Diagonalizing the Born-Oppenheimer Hamiltonian via Moyal perturbation theory, nonadiabatic corrections, and translational degrees of freedom. J Chem Phys 2024; 160:114103. [PMID: 38501907 DOI: 10.1063/5.0192465] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Accepted: 02/19/2024] [Indexed: 03/20/2024] Open
Abstract
This article describes a method for calculating higher order or nonadiabatic corrections in Born-Oppenheimer theory and its interaction with the translational degrees of freedom. The method uses the Wigner-Weyl correspondence to map nuclear operators into functions on the classical phase space and the Moyal star product to represent operator multiplication on those functions. These are explained in the body of the paper. The result is a power series in κ2, where κ = (m/M)1/4 is the usual Born-Oppenheimer parameter. The lowest order term is the usual Born-Oppenheimer approximation, while higher order terms are nonadiabatic corrections. These are needed in calculations of electronic currents, momenta, and densities. The separation of nuclear and electronic degrees of freedom takes place in the context of the exact symmetries (for an isolated molecule) of translations and rotations, and these, especially translations, are explicitly incorporated into our discussion. This article presents an independent derivation of the Moyal expansion in molecular Born-Oppenheimer theory. We show how electronic currents and momenta can be calculated within the framework of Moyal perturbation theory; we derive the transformation laws of the electronic Hamiltonian, the electronic eigenstates, and the derivative couplings under translations; we discuss in detail the rectilinear motion of the molecular center of mass in the Born-Oppenheimer representation; and we show how the elimination of the translational components of the derivative couplings leads to a unitary transformation that has the effect of exactly separating the translational degrees of freedom.
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Affiliation(s)
- Robert Littlejohn
- Department of Physics, University of California, Berkeley, California 94720, USA
| | - Jonathan Rawlinson
- School of Mathematics, University of Manchester, Manchester, United Kingdom
| | - Joseph Subotnik
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
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19
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Gómez S, Ambrosetti M, Giovannini T, Cappelli C. Close-Up Look at Electronic Spectroscopic Signatures of Common Pharmaceuticals in Solution. J Phys Chem B 2024; 128:2432-2446. [PMID: 38416564 DOI: 10.1021/acs.jpcb.3c07795] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/29/2024]
Abstract
Simulating electronic properties and spectral signals requires robust computational approaches that need tuning with the system's peculiarities. In this paper, we test implicit and fully atomistic solvation models for the calculation of UV-vis and electronic circular dichroism (ECD) spectra of two pharmaceutically relevant molecules, namely, (2S)-captopril and (S)-naproxen, dissolved in aqueous solution. Room temperature molecular dynamics simulations reveal that these two drugs establish strong contacts with the surrounding solvent molecules via hydrogen bonds. Such specific interactions, which play a major role in the spectral response and are neglected in implicit approaches, are further characterized and quantified with natural bond orbital methods. Our calculations show that simulated spectra, and especially ECD, are in good agreement with experiments solely when conformational and configurational dynamics, mutual polarization, and solute-solvent repulsion effects are considered.
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Affiliation(s)
- Sara Gómez
- Scuola Normale Superiore, Classe di Scienze, Piazza dei Cavalieri 7, Pisa 56126, Italy
| | - Matteo Ambrosetti
- Scuola Normale Superiore, Classe di Scienze, Piazza dei Cavalieri 7, Pisa 56126, Italy
| | - Tommaso Giovannini
- Scuola Normale Superiore, Classe di Scienze, Piazza dei Cavalieri 7, Pisa 56126, Italy
| | - Chiara Cappelli
- Scuola Normale Superiore, Classe di Scienze, Piazza dei Cavalieri 7, Pisa 56126, Italy
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20
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Sato H, Koshoubu J, Inoué S, Kawamura I, Yamagishi A. Multidimensional vibrational circular dichroism for insect wings: Comparison of species. Chirality 2024; 36:e23655. [PMID: 38419363 DOI: 10.1002/chir.23655] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Revised: 01/16/2024] [Accepted: 02/02/2024] [Indexed: 03/02/2024]
Abstract
This study reports the microscopic measurements of vibrational circular dichroism (VCD) on four different insect wings using a quantum cascade laser VCD system equipped with microscopic scanning capabilities (named multi-dimensional VCD [MultiD-VCD]). Wing samples, including (i) beetle, Anomala albopilosa (female), (ii) European hornet, Verspa crabro flavofasciata Cameron, 1903 (female), (iii) tiny dragonfly, Nannophya pygmae Rambur, 1842 (male), and (iv) dragonfly, Symetrum gracile Oguma, 1915 (male), were used in this study. Two-dimensional patterns of VCD signals (~10 mm × 10 mm) were obtained at a spatial resolution of 100 μm. Measurements covered the absorption peaks assigned to amides I and II in the range of 1500-1740 cm-1 . The measurements were based on the enhancement of VCD signals for the stereoregular linkage of peptide groups. The patterns were remarkably dependent on the species. In samples (i) and (ii), the wings comprised segregated domains of protein aggregates of different secondary structures. The size of each microdomain was approximately 100 μm. In contrast, no clear VCD spectra were detected in samples (iii) and (iv). One possible reason was that the chain of stereoregular polypeptides was too short to achieve VCD enhancement in samples (iii) and (iv). Notably, the unique features were only observed in the VCD spectra because the IR spectra were nearly the same among the species. The VCD results hinted at the connection of protein microscopic structures with the wing flapping mechanisms of each species.
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Affiliation(s)
- Hisako Sato
- Faculty of Science, Ehime University, Matsuyama, Japan
| | | | - Sayako Inoué
- Geodynamics Research Center, Ehime University, Matsuyama, Japan
| | - Izuru Kawamura
- Graduate School of Engineering Science, Yokohama National University, Yokohama, Japan
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21
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D'haese LCG, Daugey N, Pitrat D, Brotin T, Kapitán J, Liégeois V. Understanding the surrounding effects on Raman optical activity signatures of a chiral cage system: Cryptophane-PP-111. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 306:123484. [PMID: 37898056 DOI: 10.1016/j.saa.2023.123484] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Revised: 09/18/2023] [Accepted: 10/01/2023] [Indexed: 10/30/2023]
Abstract
Cryptophane molecules are cage-like structures consisting in two hemispheres, each made of three benzene rings. These hemispheres are bound together with three O(CH2)nOlinkers of various lengths giving rise to a plethora of cryptophane derivatives. Moreover, they are able to encapsulate neutral guests: CH2Cl2, CHCl3, …; and charged species: Cs+, Tl+, …. Finally, they exhibit chiroptical properties thanks to the anti arrangement of the linkers between the hemispheres. This work focuses on the Raman optical activity (ROA) signatures of Cryptophane-111 (n=1 for each linker). More specifically, we aim at simulating accurately its ROA spectra with and without a xenon atom inside its cavity. Experimental data (Buffeteau et al., 2017) have already demonstrated the effect of the encapsulation in the low-wavenumbers region. To generate the initial structures, we rely on the novel Conformer-Rotamer Ensemble Sampling Tool (CREST) program, developed by S. Grimme and co-workers. This is required due to the flexibility provided by the linkers. The CREST algorithm seems promising and has already been used to sample the potential energy surface (PES) of target systems before the simulation of their vibrational spectroscopies (Eikås et al., 2022). We observe large similarities between the two sets of conformers (one with and one without Xe encapsulated), demonstrating the robustness of the CREST algorithm. For corresponding structures, the presence of xenon pushed the two hemispheres slightly further apart. After optimization at the DFT level, only one unique conformer has a Boltzmann population ratio greater than 1%, pointing out the relative rigidity of the cage. Based on this unique conformer, our simulations are in good agreement with the experimental data. Regarding xenon encapsulation, the (experimental and theoretical) ROA signatures at low wavenumbers are impacted: slight shifts in wavenumbers are observed as well as a decrease in relative ROA intensity for bands around 150 cm-1. The wavenumber shifts were very well reproduced by our simulations, but the experimental decrease in the ROA intensity was unfortunately not reproduced.
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Affiliation(s)
- Lou C G D'haese
- Theoretical Chemistry Laboratory (LCT), Namur Institute of Structured Matter (NISM), University of Namur, 5000 Namur, Belgium.
| | - Nicolas Daugey
- Groupe Spectroscopie Moléculaire (GSM), Institut des Sciences Moléculaires (ISM), UMR-5255 CNRS, University of Bordeaux, 33405 Talence, France
| | - Delphine Pitrat
- Laboratoire de Chimie de l'ENSL, UMR-5182 CNRS, University of Lyon, 69342 Lyon, France
| | - Thierry Brotin
- Laboratoire de Chimie de l'ENSL, UMR-5182 CNRS, University of Lyon, 69342 Lyon, France
| | - Josef Kapitán
- Department of Optics, Palacký University of Olomouc, 77146 Olomouc, Czech Republic
| | - Vincent Liégeois
- Theoretical Chemistry Laboratory (LCT), Namur Institute of Structured Matter (NISM), University of Namur, 5000 Namur, Belgium
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22
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Mayerhöfer TG, Singh AK, Huang JS, Krafft C, Popp J. Quantitative evaluation of IR and corresponding VCD spectra. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 305:123549. [PMID: 37866261 DOI: 10.1016/j.saa.2023.123549] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Revised: 10/06/2023] [Accepted: 10/15/2023] [Indexed: 10/24/2023]
Abstract
Classical electromagnetic theory applied to infrared (IR) and vibrational circular dichroism (VCD) spectra of chiral compounds can provide useful insights, such as the fact that the area of all bands of wavenumber-normalized absorbance above zero must be the same as the area below zero. Additionally, dispersion analysis based on wave optics and dispersion theory, which was extended by Born and Kuhn to include chiral substances, can be used to quantitatively describe the dielectric function and the chiral admittance functions that shape IR and VCD spectra. For dispersion analysis, pairs of coupled oscillators, with five different kinds of parameters, namely oscillator strength, damping, oscillator position, vertical distance between coupled oscillators, and the coupling constant are used to model the dielectric functions and chiral admittance functions. We report the results of such an analysis for α-Pinene and Propylene oxide. For most bands, the oscillator model using two coupled oscillators is sufficient to achieve a good correspondence between experimental and modelled data.
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Affiliation(s)
- Thomas G Mayerhöfer
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany; Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743 Jena, Germany.
| | - Ankit K Singh
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany
| | - Jer-Shing Huang
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany
| | - Christoph Krafft
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany
| | - Jürgen Popp
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany; Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743 Jena, Germany
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23
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Sepali C, Lafiosca P, Gómez S, Giovannini T, Cappelli C. Effective fully polarizable QM/MM approaches to compute Raman and Raman Optical Activity spectra in aqueous solution. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 305:123485. [PMID: 37827000 DOI: 10.1016/j.saa.2023.123485] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Revised: 09/22/2023] [Accepted: 10/01/2023] [Indexed: 10/14/2023]
Abstract
Raman and Raman Optical Activity (ROA) signals are amply affected by solvent effects, especially in the presence of strongly solute-solvent interactions such as Hydrogen Bonding (HB). In this work, we extend the fully atomistic polarizable Quantum Mechanics/Molecular Mechanics approach, based on the Fluctuating Charges and Fluctuating Dipoles force field to the calculation of Raman and ROA spectra. Such an approach is able to accurately describe specific HB interactions, by also accounting for anisotropic contributions due to the inclusion of fluctuating dipoles. To highlight the potentiality of the novel approach, Raman and ROA spectra of L-Serine and L-Cysteine dissolved in aqueous solution are computed and compared both with alternative theoretical approaches and experimental measurements.
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Affiliation(s)
- Chiara Sepali
- Scuola Normale Superiore, Piazza dei Cavalieri, 7, Pisa, 56126, Italy
| | - Piero Lafiosca
- Scuola Normale Superiore, Piazza dei Cavalieri, 7, Pisa, 56126, Italy
| | - Sara Gómez
- Scuola Normale Superiore, Piazza dei Cavalieri, 7, Pisa, 56126, Italy
| | | | - Chiara Cappelli
- Scuola Normale Superiore, Piazza dei Cavalieri, 7, Pisa, 56126, Italy.
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24
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Dobšíková K, Taušová T, Fagan P, Paškanová N, Kuchař M, Čejka J, Setnička V. Solid-state vibrational circular dichroism: Methodology and application for amphetamine derivatives. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 305:123486. [PMID: 37820493 DOI: 10.1016/j.saa.2023.123486] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 09/22/2023] [Accepted: 10/01/2023] [Indexed: 10/13/2023]
Abstract
Amphetamine derivatives are considered most seized substances worldwide. In this study, solid-state vibrational circular dichroism (VCD) measurements of enantiomerically pure substances were performed for spectroscopic discrimination between (S)- and (R)-enantiomers. First, we have developed a universal experimental approach to obtain reliable and reproducible solid-state VCD spectra. First, the samples were prepared as pellets composed of mixtures of camphor as a model compound and a crystalline matrix powder. In order to obtain the best results without artifacts and with a maximum signal-to-noise ratio, the following experimental conditions were optimized: pellet thickness and diameter and sample rotation speed. The optimized parameters were then used for the analysis of amphetamine and its derivatives (methamphetamine and 3,4-methylendioxymethamphetamine). Our high-quality spectra and results suggest that solid-state VCD spectroscopy represents a cost-effective and easy-to-use method for the analysis of conformation changes and molecular packing in solid-state with potential applications in pharmaceutical and forensic practice.
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Affiliation(s)
- K Dobšíková
- Department of Analytical Chemistry, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic
| | - T Taušová
- Department of Analytical Chemistry, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic
| | - P Fagan
- Department of Analytical Chemistry, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic
| | - N Paškanová
- Forensic Laboratory of Biologically Active Substances, Department of Chemistry of Natural Compounds, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic
| | - M Kuchař
- Forensic Laboratory of Biologically Active Substances, Department of Chemistry of Natural Compounds, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic; Psychedelic Research Centre, National Institute of Mental Health, Topolová 748, Klecany 250 67, Czech Republic
| | - J Čejka
- Department of Solid State Chemistry, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic
| | - V Setnička
- Department of Analytical Chemistry, University of Chemistry and Technology, Technická 5, Prague 6 166 28, Czech Republic.
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25
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Wu T, Bouř P, Fujisawa T, Unno M. Molecular Vibrations in Chiral Europium Complexes Revealed by Near-Infrared Raman Optical Activity. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024; 11:e2305521. [PMID: 37985561 PMCID: PMC10767399 DOI: 10.1002/advs.202305521] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/14/2023] [Revised: 10/05/2023] [Indexed: 11/22/2023]
Abstract
Raman optical activity (ROA) is commonly measured with green light (532 nm) excitation. At this wavelength, however, Raman scattering of europium complexes is masked by circularly polarized luminescence (CPL). This can be avoided using near-infrared (near-IR, 785 nm) laser excitation, as demonstrated here by Raman and ROA spectra of three chiral europium complexes derived from camphor. Since luminescence is strongly suppressed, many vibrational bands can be detected. They carry a wealth of structural information about the ligand and the metal core, and can be interpreted based on density functional theory (DFT) simulations of the spectra. For example, jointly with ROA experimental data, the simulations make it possible to determine absolute configuration of chiral lanthanide compounds in solution.
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Affiliation(s)
- Tao Wu
- Institute of Organic Chemistry and BiochemistryCzech Academy of SciencesFlemingovo náměstí 2Prague166 10Czech Republic
| | - Petr Bouř
- Institute of Organic Chemistry and BiochemistryCzech Academy of SciencesFlemingovo náměstí 2Prague166 10Czech Republic
| | - Tomotsumi Fujisawa
- Department of Chemistry and Applied ChemistryFaculty of Science and EngineeringSaga UniversitySaga840‐8502Japan
| | - Masashi Unno
- Department of Chemistry and Applied ChemistryFaculty of Science and EngineeringSaga UniversitySaga840‐8502Japan
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26
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Mayerhöfer TG, Singh AK, Huang JS, Krafft C, Popp J. Unveiling chiral optical constants of α-pinene and propylene oxide through ATR and VCD spectroscopy in the mid-infrared range. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 302:123136. [PMID: 37454437 DOI: 10.1016/j.saa.2023.123136] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Revised: 07/06/2023] [Accepted: 07/11/2023] [Indexed: 07/18/2023]
Abstract
Optical constants functions of analytes are indispensable for the effective design of plasmonic sensors. Such sensors are potentially able to enhance the sensitivity by several order of magnitudes which can greatly facilitate the determination of the generally weak spectral signals caused by vibrational circular dichroism. Accordingly, to demonstrate how to obtain these functions, we have determined the dielectric and chirality admittance functions of α-Pinene and Propylene oxide in the mid-infrared spectral range using attenuated total reflection and vibrational circular dichroism spectroscopy. Our iterative formalism starts with an estimation of the absorption index function, followed by the calculation of the refractive index function using the Kramers-Kronig relation and a modelled spectrum based on Fresnel's equations. By comparing the experimental and modelled spectra, we improve the absorption index function. To determine the chirality admittance function, we use the same iterative formalism, but with a modified 4x4 matrix formalism formulated by Berreman. Our results show that the experimental absorbance difference is independent of the dielectric function of the chiral substance and depends linearly on the cuvette thickness. Additionally, we provide a sum rule that can be used to assess the quality of VCD spectra and determine the position of the baseline. Our findings provide crucial insights into the optical properties of chiral substances in the mid-infrared spectral range, which have important implications for a range of applications in fields such as analytical chemistry and materials science.
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Affiliation(s)
- Thomas G Mayerhöfer
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany; Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743 Jena, Germany.
| | - Ankit K Singh
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany
| | - Jer-Shing Huang
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany
| | - Christoph Krafft
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany
| | - Jürgen Popp
- Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert‑Einstein‑Straße 9, 07745 Jena, Germany; Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743 Jena, Germany
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27
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Blasius J, Drysch K, Pilz FH, Frömbgen T, Kielb P, Kirchner B. Efficient Prediction of Mole Fraction Related Vibrational Frequency Shifts. J Phys Chem Lett 2023; 14:10531-10536. [PMID: 37972218 DOI: 10.1021/acs.jpclett.3c02761] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2023]
Abstract
While so far it has been possible to calculate vibrational spectra of mixtures at a particular composition, we present here a novel cluster approach for a fast and robust calculation of mole fraction dependent infrared and vibrational circular dichroism spectra at the example of acetonitrile/(R)-butan-2-ol mixtures. By assigning weights to a limited number of quantum chemically calculated clusters, vibrational spectra can be obtained at any desired composition by a weighted average of the single cluster spectra. In this way, peak positions carrying information about intermolecular interactions can be predicted. We show that mole fraction dependent peak shifts can be accurately modeled and, that experimentally recorded infrared spectra can be reproduced with high accuracy over the entire mixing range. Because only a very limited number of clusters is required, the presented approach is a valuable and computationally efficient tool to access mole fraction dependent spectra of mixtures on a routine basis.
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Affiliation(s)
- Jan Blasius
- Mulliken Center for Theoretical Chemistry, Clausius Institute of Physical and Theoretical Chemistry, University of Bonn, Beringstraße 4-6, D-53115 Bonn, Germany
| | - Katrin Drysch
- Mulliken Center for Theoretical Chemistry, Clausius Institute of Physical and Theoretical Chemistry, University of Bonn, Beringstraße 4-6, D-53115 Bonn, Germany
| | - Frank Hendrik Pilz
- Clausius Institute of Physical and Theoretical Chemistry, University of Bonn, Wegelerstraße 12, D-53115 Bonn, Germany
| | - Tom Frömbgen
- Mulliken Center for Theoretical Chemistry, Clausius Institute of Physical and Theoretical Chemistry, University of Bonn, Beringstraße 4-6, D-53115 Bonn, Germany
- Max-Planck-Institut für Chemische Energiekonversion, Stiftstrasse 34-36, D-45470 Mülheim an der Ruhr, Germany
| | - Patrycja Kielb
- Clausius Institute of Physical and Theoretical Chemistry, University of Bonn, Wegelerstraße 12, D-53115 Bonn, Germany
- Transdisciplinary Research Area "Building Blocks of Matter and Fundamental Interactions" (TRA Matter), University of Bonn, D-53115 Bonn, Germany
| | - Barbara Kirchner
- Mulliken Center for Theoretical Chemistry, Clausius Institute of Physical and Theoretical Chemistry, University of Bonn, Beringstraße 4-6, D-53115 Bonn, Germany
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28
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Jähnigen S. Vibrational Circular Dichroism Spectroscopy of Chiral Molecular Crystals: Insights from Theory. Angew Chem Int Ed Engl 2023; 62:e202303595. [PMID: 37071543 DOI: 10.1002/anie.202303595] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2023] [Revised: 04/18/2023] [Accepted: 04/18/2023] [Indexed: 04/19/2023]
Abstract
Chirality is a curious phenomenon that appears in various forms. While the concept of molecular (RS-)chirality is ubiquitous in chemistry, there are also more intricate forms of structural chirality. One of them is the enantiomorphism of crystals, especially molecular crystals, that describes the lack of mirror symmetry in the unit cell. Its relation to molecular chirality is not obvious, but still an open question, which can be addressed with chiroptical tools. Vibrational circular dichroism (VCD) denotes chiral infrared (IR) spectroscopy that is susceptible to both, the molecular as well as the intermolecular space by means of vibrational transitions. When carried out in the solid state, VCD delivers a very rich set of non-local contributions that are determined by crystal packing and collective motion. Since its discovery in the 1970s, VCD has become the method of choice for the determination of absolute configurations, but its applicability reaches beyond towards the study of different crystal forms and polymorphism. This brief review summarises the theoretical concepts of crystal chirality and how computations of solid-state VCD can shed light into the intimate connection of chiral structure and vibrational optical activity.
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Affiliation(s)
- Sascha Jähnigen
- PASTEUR, Département de Chimie, Ecole Normale Supérieure, PSL University, Sorbonne Université, CNRS, 75005, Paris, France
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29
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Perez Mellor AF, Brazard J, Kozub S, Bürgi T, Szweda R, Adachi TBM. Unveiling the Configurational Landscape of Carbamate: Paving the Way for Designing Functional Sequence-Defined Polymers. J Phys Chem A 2023; 127:7309-7322. [PMID: 37624607 PMCID: PMC10493977 DOI: 10.1021/acs.jpca.3c02442] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2023] [Revised: 08/11/2023] [Indexed: 08/26/2023]
Abstract
Carbamate is an emerging class of a polymer backbone for constructing sequence-defined, abiotic polymers. It is expected that new functional materials can be de novo designed by controlling the primary polycarbamate sequence. While amino acids have been actively studied as building blocks for protein folding and peptide self-assembly, carbamates have not been widely investigated from this perspective. Here, we combined infrared (IR), vibrational circular dichroism (VCD), and nuclear magnetic resonance (NMR) spectroscopy with density functional theory (DFT) calculations to understand the conformation of carbamate monomer units in a nonpolar, aprotic environment (chloroform). Compared with amino acid building blocks, carbamates are more rigid, presumably due to the extended delocalization of π-electrons on the backbones. Cis configurations of the amide bond can be energetically stable in carbamates, whereas peptides often assume trans configurations at low energies. This study lays an essential foundation for future developments of carbamate-based sequence-defined polymer material design.
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Affiliation(s)
- Ariel F. Perez Mellor
- Department
of Physical Chemistry, Sciences II, University
of Geneva, 30, Quai Ernest Ansermet, Geneva 1211, Switzerland
| | - Johanna Brazard
- Department
of Physical Chemistry, Sciences II, University
of Geneva, 30, Quai Ernest Ansermet, Geneva 1211, Switzerland
| | - Sara Kozub
- Łukasiewicz
Research Network − PORT Polish Center for Technology Development, Stabłowicka 147, Wrocław 54-066, Poland
| | - Thomas Bürgi
- Department
of Physical Chemistry, Sciences II, University
of Geneva, 30, Quai Ernest Ansermet, Geneva 1211, Switzerland
| | - Roza Szweda
- Łukasiewicz
Research Network − PORT Polish Center for Technology Development, Stabłowicka 147, Wrocław 54-066, Poland
| | - Takuji B. M. Adachi
- Department
of Physical Chemistry, Sciences II, University
of Geneva, 30, Quai Ernest Ansermet, Geneva 1211, Switzerland
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30
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Wu T, Pelc R, Bouř P. Molecular Properties of 3d and 4f Coordination Compounds Deciphered by Raman Optical Activity Spectroscopy. Chempluschem 2023; 88:e202300385. [PMID: 37665573 DOI: 10.1002/cplu.202300385] [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: 07/24/2023] [Revised: 08/31/2023] [Accepted: 09/04/2023] [Indexed: 09/05/2023]
Abstract
Molecular properties of coordination compounds can be efficiently studied by vibrational spectroscopy. The scope of Raman spectroscopy has been greatly enhanced by the introduction of Raman optical activity (ROA) sensitive to chirality. The present review describes some of its recent applications to study the coordination compounds. 3d and 4f metal complexes often absorb the excitation light, or exhibit luminescence. Therefore, effects caused in ROA spectra by electronic circular dichroism (ECD) and circularly polarized luminescence (CPL) must be taken into consideration.In 3d metal complexes ECD and circularly-polarized Raman scattering compete with the resonance ROA (RROA) signal. Pure RROA spectrum can thus be obtained by subtracting the so-called ECD-Raman component. CPL is frequently encountered in 4f systems. While it can mask the ROA spectra, it is useful to study molecular structure. These electronic effects can be reduced by using near-infrared excitation although vibrational ROA signal is much weaker compared to the usual green laser excitation scenario. The ROA methodology is thus complex, but capable of providing unique information about the molecules of interests and their interaction with light.
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Affiliation(s)
- Tao Wu
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic
| | - Radek Pelc
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic
| | - Petr Bouř
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic
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31
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Neill JL, Evangelisti L, Pate BH. Analysis of isomeric mixtures by molecular rotational resonance spectroscopy. ANALYTICAL SCIENCE ADVANCES 2023; 4:204-219. [PMID: 38716067 PMCID: PMC10989550 DOI: 10.1002/ansa.202300021] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/31/2023] [Revised: 05/18/2023] [Accepted: 05/22/2023] [Indexed: 11/17/2024]
Abstract
Recent developments in molecular rotational resonance (MRR) spectroscopy that have enabled its use as an analytical technique for the precise determination of molecular structure are reviewed. In particular, its use in the differentiation of isomeric compounds-including regioisomers, stereoisomers and isotopic variants-is discussed. When a mixture of isomers, such as resulting from a chemical reaction, is analyzed, it is highly desired to be able to unambiguously identify the structures of each of the components present, as well as quantify them, without requiring complex sample preparation or reference standards. MRR offers unique capabilities for addressing this analytical challenge, owing to two factors: its high sensitivity to a molecule's structure and its high spectral resolution, allowing mixtures to be resolved without separation of components. This review introduces core theoretical principles, an introduction to MRR instrumentation and the methods by which spectra can be interpreted with the aid of computational chemistry to correlate the observed patterns to molecular structures. Recent articles are discussed in which this technique was applied to help chemists complete challenging isomer analyses. Developments in the use of MRR for chiral analysis and in the measurement of isotopically labeled compounds are also highlighted.
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Affiliation(s)
| | - Luca Evangelisti
- Department of Chemistry “G. Ciamician”University of BolognaRavennaItaly
| | - Brooks H. Pate
- Department of ChemistryUniversity of VirginiaCharlottesvilleVirginiaUSA
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32
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Vermeyen T, Batista ANL, Valverde AL, Herrebout W, Batista JM. Pushing the boundaries of VCD spectroscopy in natural product chemistry. Phys Chem Chem Phys 2023; 25:13825-13832. [PMID: 37191271 DOI: 10.1039/d3cp00886j] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Vibrational circular dichroism (VCD) is one of the most powerful techniques to assess the stereochemistry of chiral molecules in solution state. The need for quantum chemical calculations to interpret experimental data, however, has precluded its widespread use by non-experts. Herein, we propose the search and validation of IR and VCD spectral markers to circumvent the requirement of DFT calculations allowing for absolute configuration assignments even in complex mixtures. To that end, a combination of visual inspection and machine learning based methods is used. Monoterpene mixtures are selected for this proof-of-concept study.
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Affiliation(s)
- Tom Vermeyen
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
- Department of Chemistry, Ghent University, Krijgslaan 281, B-9000 Ghent, Belgium
| | - Andrea N L Batista
- Institute of Chemistry, Fluminense Federal University, Outeiro de São João Batista s/n, 24020-141 Niterói-RJ, Brazil
| | - Alessandra L Valverde
- Institute of Chemistry, Fluminense Federal University, Outeiro de São João Batista s/n, 24020-141 Niterói-RJ, Brazil
| | - Wouter Herrebout
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
| | - João M Batista
- Federal University of São Paulo, Institute of Science and Technology, R. Talim 330, 12231-280, São José dos Campos-SP, Brazil.
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33
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Jähnigen S, Le Barbu-Debus K, Guillot R, Vuilleumier R, Zehnacker A. How Crystal Symmetry Dictates Non-Local Vibrational Circular Dichroism in the Solid State. Angew Chem Int Ed Engl 2023; 62:e202215599. [PMID: 36441537 PMCID: PMC10107176 DOI: 10.1002/anie.202215599] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2022] [Revised: 11/28/2022] [Accepted: 11/28/2022] [Indexed: 11/29/2022]
Abstract
Solid-State Vibrational Circular Dichroism (VCD) can be used to determine the absolute structure of chiral crystals, but its interpretation remains a challenge in modern spectroscopy. In this work, we investigate the effect of a twofold screw axis on the solid-state VCD spectrum in a combined experimental and theoretical analysis of P21 crystals of (S)-(+)-1-indanol. Even though the space group is achiral, a single proper symmetry operation has an important impact on the VCD spectrum, which reflects the supramolecular chirality of the crystal. Distinguishing between contributions originating from molecular chirality and from chiral crystal packing, we find that while IR absorption hardly depends on the symmetry of the space group, the situation is different for VCD, where completely new non-local patterns emerge. Understanding the two underlying mechanisms, namely gauge transport and direct coupling, will help to use VCD to distinguish polymorphic forms.
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Affiliation(s)
- Sascha Jähnigen
- PASTEUR, Département de Chimie, Ecole Normale Supérieure, CNRS, PSL University, Sorbonne Université, 75005, Paris, France
| | - Katia Le Barbu-Debus
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Saclay, 91405, Orsay, France
| | - Régis Guillot
- Institut de Chimie Moléculaire et des Matériaux d'Orsay (ICMMO), CNRS, Université Paris-Saclay, 91405, Orsay, France
| | - Rodolphe Vuilleumier
- PASTEUR, Département de Chimie, Ecole Normale Supérieure, CNRS, PSL University, Sorbonne Université, 75005, Paris, France
| | - Anne Zehnacker
- Institut des Sciences Moléculaires d'Orsay (ISMO), CNRS, Université Paris-Saclay, 91405, Orsay, France
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34
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Yang Q, Bloino J. An Effective and Automated Processing of Resonances in Vibrational Perturbation Theory Applied to Spectroscopy. J Phys Chem A 2022; 126:9276-9302. [DOI: 10.1021/acs.jpca.2c06460] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/02/2022]
Affiliation(s)
- Qin Yang
- Faculty of Science, Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126Pisa, Italy
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, 16610Prague, Czech Republic
| | - Julien Bloino
- Faculty of Science, Scuola Normale Superiore, Piazza dei Cavalieri 7, I-56126Pisa, Italy
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35
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Yang Q, Kapitán J, Bouř P, Bloino J. Anharmonic Vibrational Raman Optical Activity of Methyloxirane: Theory and Experiment Pushed to the Limits. J Phys Chem Lett 2022; 13:8888-8892. [PMID: 36125432 PMCID: PMC9531246 DOI: 10.1021/acs.jpclett.2c02320] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2022] [Accepted: 09/14/2022] [Indexed: 06/15/2023]
Abstract
Combining Raman scattering and Raman optical activity (ROA) with computer simulations reveals fine structural and physicochemical properties of chiral molecules. Traditionally, the region of interest comprised fundamental transitions within 200-1800 cm-1. Only recently, nonfundamental bands could be observed as well. However, theoretical tools able to match the observed spectral features and thus assist their assignment are rather scarce. In this work, we present an accurate and simple protocol based on a three-quanta anharmonic perturbative approach that is fully fit to interpret the observed signals of methyloxirane within 150-4500 cm-1. An unprecedented agreement even for the low-intensity combination and overtone transitions has been achieved, showing that anharmonic Raman and ROA spectroscopies can be valuable tools to understand vibrations of chiral molecules or to calibrate computational models.
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Affiliation(s)
- Qin Yang
- Scuola Normale
Superiore di Pisa, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Josef Kapitán
- Department
of Optics, Palacký University Olomouc, 17. listopadu 12, 77146 Olomouc, Czech Republic
| | - Petr Bouř
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo náměstí
2, 16610 Prague, Czech Republic
| | - Julien Bloino
- Scuola Normale
Superiore di Pisa, Piazza dei Cavalieri 7, 56126 Pisa, Italy
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36
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Dupont J, Guillot R, Lepère V, Zehnacker A. Jet-cooled laser spectroscopy and solid-state vibrational circular dichroism of the cyclo-(Tyr-Phe) diketopiperazine dipeptide. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133059] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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37
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Gómez S, Bottari C, Egidi F, Giovannini T, Rossi B, Cappelli C. Amide Spectral Fingerprints are Hydrogen Bonding-Mediated. J Phys Chem Lett 2022; 13:6200-6207. [PMID: 35770492 PMCID: PMC9272440 DOI: 10.1021/acs.jpclett.2c01277] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
The origin of the peculiar amide spectral features of proteins in aqueous solution is investigated, by exploiting a combined theoretical and experimental approach to study UV Resonance Raman (RR) spectra of peptide molecular models, namely N-acetylglycine-N-methylamide (NAGMA) and N-acetylalanine-N-methylamide (NALMA). UVRR spectra are recorded by tuning Synchrotron Radiation at several excitation wavelengths and modeled by using a recently developed multiscale protocol based on a polarizable QM/MM approach. Thanks to the unparalleled agreement between theory and experiment, we demonstrate that specific hydrogen bond interactions, which dominate hydration dynamics around these solutes, play a crucial role in the selective enhancement of amide signals. These results further argue the capability of vibrational spectroscopy methods as valuable tools for refined structural analysis of peptides and proteins in aqueous solution.
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Affiliation(s)
- Sara Gómez
- Scuola
Normale Superiore, Classe di Scienze, Piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - Cettina Bottari
- Elettra
Sincrotrone Trieste S.C.p.A., S. S. 14 Km 163.5 in Area Science Park, I-34149, Trieste, Italy
| | - Franco Egidi
- Scuola
Normale Superiore, Classe di Scienze, Piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - Tommaso Giovannini
- Scuola
Normale Superiore, Classe di Scienze, Piazza dei Cavalieri 7, 56126, Pisa, Italy
| | - Barbara Rossi
- Elettra
Sincrotrone Trieste S.C.p.A., S. S. 14 Km 163.5 in Area Science Park, I-34149, Trieste, Italy
- Department
of Physics, University of Trento, via Sommarive 14, I-38123 Povo, Trento, Italy
| | - Chiara Cappelli
- Scuola
Normale Superiore, Classe di Scienze, Piazza dei Cavalieri 7, 56126, Pisa, Italy
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38
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Wu T. A Raman optical activity spectrometer can sensitively detect lanthanide circularly polarized luminescence. Phys Chem Chem Phys 2022; 24:15672-15686. [PMID: 35735101 DOI: 10.1039/d2cp01641a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Recently, many studies have appeared in which the Raman optical activity (ROA) instrument was found to be convenient for measuring circularly polarized luminescence (CPL). Typically, weak lanthanide luminescence including circular polarization could be detected. The new detection scheme is referred to as ROA-CPL spectroscopy. It is particularly useful when also the vibrational (ROA) itself is detectable as the molecule structure can be examined more reliably. In this review, development of this chiroptical approach and its applications in structural studies of biomolecules are summarized.
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Affiliation(s)
- Tao Wu
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic.
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39
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Aerts R, Bogaerts J, Herrebout W, Johannessen C. Insights in the vibrational optical activity spectra of the antibiotic vancomycin in DMSO. Phys Chem Chem Phys 2022; 24:9619-9625. [PMID: 35403645 DOI: 10.1039/d2cp00746k] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Vibrational circular dichroism (VCD) and Raman optical activity (ROA) are two spectroscopic techniques that are sensitive towards the conformational behaviour of molecules, and are often complementary herein. In this work we pursue the determination of the conformational ensemble of the antibiotic glycopeptide vancomycin in DMSO through comparison of experimental and computational spectra, both for VCD and ROA. ROA is found to be highly suitable for the task, identifying an ensemble that strongly resembles the NMR conformation. In the case of VCD, however, a too high sensitivity of the intensities with respect to minor conformational changes hampers a reliable conformational analysis. Whence attempting to improve the match between the VCD experiment and calculations by any means - e.g., by inducing minor conformational changes or including solvent effects in the calculations - we show that there is the risk of going down the rabbit hole. In conclusion, this work contributes to the broader understanding of where, when and how VCD and ROA can be deployed as techniques for conformational analysis.
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Affiliation(s)
- Roy Aerts
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
| | - Jonathan Bogaerts
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
| | - Wouter Herrebout
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
| | - Christian Johannessen
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
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40
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Machalska E, Zając G, Baranska M, Bouř P, Kaczorek D, Kawęcki R, Rode JE, Lyczko K, Dobrowolski JC. New chiral ECD-Raman spectroscopy of atropisomeric naphthalenediimides. Chem Commun (Camb) 2022; 58:4524-4527. [PMID: 35302568 DOI: 10.1039/d1cc06974h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
In this study, we found that a recently discovered ECD-Raman effect dominated over the natural Raman optical activity in a series of atropisomeric naphthalenediimides, and we investigated the kind of information about the molecular structure that could be obtained from the spectra. The ECD-Raman effect is polarised Raman scattering modulated by electronic circular dichroism. We showed that the spectra significantly depended on the substitution of the solute and/or the change of the solvent. Moreover, the spectra could be well-predicted by the theory, thus providing an interesting tool to monitor the chirality of the binaphthyl compounds.
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Affiliation(s)
- Ewa Machalska
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Cracow, Poland.,Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Cracow, Poland.
| | - Grzegorz Zając
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Cracow, Poland. .,Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic.
| | - Malgorzata Baranska
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Cracow, Poland.,Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, 30-348 Cracow, Poland.
| | - Petr Bouř
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo náměstí 2, 16610, Prague, Czech Republic.
| | - Dorota Kaczorek
- Faculty of Science, Siedlce University, 3 Maja Street No. 54, 08-110 Siedlce, Poland.
| | - Robert Kawęcki
- Faculty of Science, Siedlce University, 3 Maja Street No. 54, 08-110 Siedlce, Poland.
| | - Joanna E Rode
- Laboratory for Spectroscopy, Molecular Modeling and Structure Determination, Institute of Nuclear Chemistry and Technology, 16 Dorodna-Street, 03-195 Warsaw, Poland.
| | - Krzysztof Lyczko
- Laboratory for Spectroscopy, Molecular Modeling and Structure Determination, Institute of Nuclear Chemistry and Technology, 16 Dorodna-Street, 03-195 Warsaw, Poland.
| | - Jan Cz Dobrowolski
- Laboratory for Spectroscopy, Molecular Modeling and Structure Determination, Institute of Nuclear Chemistry and Technology, 16 Dorodna-Street, 03-195 Warsaw, Poland.
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41
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Omor Faruk Patwary M, Mahbubur Rahman M, Khalid Bin Islam M, Ackas Ali M, Halim MA, Ahmed F. Probing the non-bonding interaction of small molecules with graphene oxide using DFT based vibrational circular dichroism. COMPUT THEOR CHEM 2022. [DOI: 10.1016/j.comptc.2021.113503] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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42
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Sato H, Aisawa S, Ida H, Shimizu M, Watanabe K, Koshoubu J, Yoshida J, Kawamura I. Two-dimensional Imaging of a Model Pharmaceutical Dosage Tablet Using a Scanning Vibrational Circular Dichroism System. CHEM LETT 2021. [DOI: 10.1246/cl.210635] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Hisako Sato
- Graduate School of Science and Engineering, Ehime University, Matsuyama 790-8577, Japan
| | - Sumio Aisawa
- Department of Chemistry and Biological Sciences, Faculty of Science and Engineering, Iwate University, 4-3-5 Ueda, Morioka, 020-8551, Japan
| | - Honoka Ida
- Department of Chemistry and Biological Sciences, Faculty of Science and Engineering, Iwate University, 4-3-5 Ueda, Morioka, 020-8551, Japan
| | | | | | - Jun Koshoubu
- JASCO Corporation, Hachioji, Tokyo, 192-8537, Japan
| | - Jun Yoshida
- Department of Chemistry, College of Humanities & Sciences, Nihon University, Setagaya-ku, Tokyo 156-8550, Japan
| | - Izuru Kawamura
- Graduate School of Engineering Science, Yokohama National University, Hodogaya-ku, Yokohama 240-8501, Japan
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43
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Górecki M, Frelek J. A Holistic Approach to Determining Stereochemistry of Potential Pharmaceuticals by Circular Dichroism with β-Lactams as Test Cases. Int J Mol Sci 2021; 23:273. [PMID: 35008698 PMCID: PMC8745598 DOI: 10.3390/ijms23010273] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2021] [Revised: 12/20/2021] [Accepted: 12/22/2021] [Indexed: 11/17/2022] Open
Abstract
This paper's main objective is to show that many different factors must be considered when solving stereochemical problems to avoid misleading conclusions and obtain conclusive results from the analysis of spectroscopic properties. Particularly in determining the absolute configuration, the use of chiroptical methods is crucial, especially when other techniques, including X-ray crystallography, fail, are not applicable, or give inconclusive results. Based on various β-lactam derivatives as models, we show how to reliably determine their absolute configuration (AC) and preferred conformation from circular dichroism (CD) spectra. Comprehensive CD analysis, employing both approaches, i.e., traditional with their sector and helicity rules, and state-of-the-art supported by quantum chemistry (QC) calculations along with solvation models for both electronic (ECD) and vibrational (VCD) circular dichroism ranges, allows confident defining stereochemistry of the β-lactams studied. Based on an in-depth analysis of the results, we have shown that choosing a proper chiroptical method/s strictly depends on the specific case and certain structural features.
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Affiliation(s)
- Marcin Górecki
- Institute of Organic Chemistry, Polish Academy of Sciences, Kasprzaka 44/52 St., 01-224 Warsaw, Poland;
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44
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Yamagishi A, Takimoto K, Tamura K, Sato F, Sato H. Chiral Discrimination of Dansylated Alanine Methyl Ester on a Modified Clay Surface: Vibrational Circular Dichroism Approach. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2021. [DOI: 10.1246/bcsj.20210291] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Akihiko Yamagishi
- Department of Medicine, Faculty of Medicine, Toho University, Ota-ku, Tokyo 143-8540, Japan
- Research Center for Functional Materials, National Institute of Materials Science, Tsukuba, Ibaraki 305-0044, Japan
| | - Kazuyoshi Takimoto
- Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime 790-8577, Japan
| | - Kenji Tamura
- Research Center for Functional Materials, National Institute of Materials Science, Tsukuba, Ibaraki 305-0044, Japan
| | - Fumi Sato
- Department of Medicine, Faculty of Medicine, Toho University, Ota-ku, Tokyo 143-8540, Japan
| | - Hisako Sato
- Graduate School of Science and Engineering, Ehime University, Matsuyama, Ehime 790-8577, Japan
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45
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Mattiat J, Luber S. Recent Progress in the Simulation of Chiral Systems with Real Time Propagation Methods. Helv Chim Acta 2021. [DOI: 10.1002/hlca.202100154] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Johann Mattiat
- Department of Chemistry University of Zurich Winterthurerstrasse 190 CH-8057 Zurich Switzerland
| | - Sandra Luber
- Department of Chemistry University of Zurich Winterthurerstrasse 190 CH-8057 Zurich Switzerland
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46
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Visheratina A, Kumar P, Kotov N. Engineering of inorganic nanostructures with hierarchy of chiral geometries at multiple scales. AIChE J 2021. [DOI: 10.1002/aic.17438] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Affiliation(s)
| | - Prashant Kumar
- Biointerfaces Institute University of Michigan Ann Arbor Michigan USA
| | - Nicholas Kotov
- Biointerfaces Institute University of Michigan Ann Arbor Michigan USA
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47
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Vermeyen T, Brence J, Van Echelpoel R, Aerts R, Acke G, Bultinck P, Herrebout W. Exploring machine learning methods for absolute configuration determination with vibrational circular dichroism. Phys Chem Chem Phys 2021; 23:19781-19789. [PMID: 34524304 DOI: 10.1039/d1cp02428k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The added value of supervised Machine Learning (ML) methods to determine the Absolute Configuration (AC) of compounds from their Vibrational Circular Dichroism (VCD) spectra was explored. Among all ML methods considered, Random Forest (RF) and Feedforward Neural Network (FNN) yield the best performance for identification of the AC. At its best, FNN allows near-perfect AC determination, with accuracy of prediction up to 0.995, while RF combines good predictive accuracy (up to 0.940) with the ability to identify the spectral areas important for the identification of the AC. No loss in performance of either model is observed as long as the spectral sampling interval used does not exceed the spectral bandwidth. Increasing the sampling interval proves to be the best method to lower the dimensionality of the input data, thereby decreasing the computational cost associated with the training of the models.
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Affiliation(s)
- Tom Vermeyen
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium. .,Department of Chemistry, Ghent University, Krijgslaan 281, B-9000 Ghent, Belgium.
| | - Jure Brence
- Department of Knowledge Technologies, Jožef Stefan Institute, Jamova cesta 39, 1000 Ljubljana, Slovenia.,Jožef Stefan International Postgraduate School, Jamova cesta 39, 1000 Ljubljana, Slovenia
| | - Robin Van Echelpoel
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
| | - Roy Aerts
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
| | - Guillaume Acke
- Department of Chemistry, Ghent University, Krijgslaan 281, B-9000 Ghent, Belgium.
| | - Patrick Bultinck
- Department of Chemistry, Ghent University, Krijgslaan 281, B-9000 Ghent, Belgium.
| | - Wouter Herrebout
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
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48
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Bogaerts J, Aerts R, Vermeyen T, Johannessen C, Herrebout W, Batista JM. Tackling Stereochemistry in Drug Molecules with Vibrational Optical Activity. Pharmaceuticals (Basel) 2021; 14:877. [PMID: 34577577 PMCID: PMC8468215 DOI: 10.3390/ph14090877] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 08/25/2021] [Accepted: 08/26/2021] [Indexed: 12/29/2022] Open
Abstract
Chirality plays a crucial role in drug discovery and development. As a result, a significant number of commercially available drugs are structurally dissymmetric and enantiomerically pure. The determination of the exact 3D structure of drug candidates is, consequently, of paramount importance for the pharmaceutical industry in different stages of the discovery pipeline. Traditionally the assignment of the absolute configuration of druggable molecules has been carried out by means of X-ray crystallography. Nevertheless, not all molecules are suitable for single-crystal growing. Additionally, valuable information about the conformational dynamics of drug candidates is lost in the solid state. As an alternative, vibrational optical activity (VOA) methods have emerged as powerful tools to assess the stereochemistry of drug molecules directly in solution. These methods include vibrational circular dichroism (VCD) and Raman optical activity (ROA). Despite their potential, VCD and ROA are still unheard of to many organic and medicinal chemists. Therefore, the present review aims at highlighting the recent use of VOA methods for the assignment of the absolute configuration of chiral small-molecule drugs, as well as for the structural analysis of biologics of pharmaceutical interest. A brief introduction on VCD and ROA theory and the best experimental practices for using these methods will be provided along with selected representative examples over the last five years. As VCD and ROA are commonly used in combination with quantum calculations, some guidelines will also be presented for the reliable simulation of chiroptical spectra. Special attention will be paid to the complementarity of VCD and ROA to unambiguously assess the stereochemical properties of pharmaceuticals.
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Affiliation(s)
- Jonathan Bogaerts
- Department of Chemistry, University of Antwerp, 2020 Antwerp, Belgium; (J.B.); (R.A.); (T.V.); (C.J.); (W.H.)
| | - Roy Aerts
- Department of Chemistry, University of Antwerp, 2020 Antwerp, Belgium; (J.B.); (R.A.); (T.V.); (C.J.); (W.H.)
| | - Tom Vermeyen
- Department of Chemistry, University of Antwerp, 2020 Antwerp, Belgium; (J.B.); (R.A.); (T.V.); (C.J.); (W.H.)
- Department of Chemistry, Ghent University, 9000 Ghent, Belgium
| | - Christian Johannessen
- Department of Chemistry, University of Antwerp, 2020 Antwerp, Belgium; (J.B.); (R.A.); (T.V.); (C.J.); (W.H.)
| | - Wouter Herrebout
- Department of Chemistry, University of Antwerp, 2020 Antwerp, Belgium; (J.B.); (R.A.); (T.V.); (C.J.); (W.H.)
| | - Joao M. Batista
- Institute of Science and Technology, Federal University of Sao Paulo, Sao Jose dos Campos 12231-280, SP, Brazil
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49
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Jähnigen S, Sebastiani D, Vuilleumier R. The important role of non-covalent interactions for the vibrational circular dichroism of lactic acid in aqueous solution. Phys Chem Chem Phys 2021; 23:17232-17241. [PMID: 34369531 DOI: 10.1039/d1cp03106f] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
We present a computational study of vibrational circular dichroism (VCD) in solutions of (S)-lactic acid, relying on ab initio molecular dynamics (AIMD) and full solvation with bulk water. We discuss the effect of the hydrogen bond network on the aggregation behaviour of the acid: while aggregates of the solute represent conditions encountered in a weakly interacting solvent, the presence of water drastically interferes with the clusters - more strongly than originally anticipated. For both scenarios we computed the VCD spectra by means of nuclear velocity perturbation theory (NVPT). The comparison with experimental data allows us to establish a VCD-structure relationship that includes the solvent network around the chiral solute. We suggest that fundamental modes with strong polarisation such as the carbonyl stretching vibration can borrow VCD from the chirally restructured solvent cage, which extends the common explanatory models of VCD generation in aqueous solution.
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Affiliation(s)
- Sascha Jähnigen
- PASTEUR, Département de chimie, École normale supérieure, PSL University, Sorbonne Université, CNRS, 75005, Paris, France.
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50
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Sato H, Yamagishi A, Shimizu M, Watanabe K, Koshoubu J, Yoshida J, Kawamura I. Mapping of Supramolecular Chirality in Insect Wings by Microscopic Vibrational Circular Dichroism Spectroscopy: Heterogeneity in Protein Distribution. J Phys Chem Lett 2021; 12:7733-7737. [PMID: 34355918 DOI: 10.1021/acs.jpclett.1c01949] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
The supramolecular chirality of the hindwing of Anomala albopilosa (male) was investigated using a microscopic vibrational circular dichroism (VCD) system, denoted as MultiD-VCD. The source of intense infrared (IR) light for the system was a quantum cascade laser. Two-dimensional maps of IR and VCD spectra were taken by scanning the surface area (ca. 2 mm × 2 mm) of the insect hindwing tissue. The spectra ranged from 1500 to 1700 cm-1, and the maps have a spatial resolution of 100 μm. The distribution of proteins, including their supramolecular structures, was analyzed from the location-dependent spectral shape of the VCD bands assigned to amides I and II. The results revealed that the hindwing consists of segregated domains of proteins with different secondary structures: an α-helix (in one part of the membrane), a hybrid of α-helix and β-sheet (in another part of the membrane), and a coil (in a vein).
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Affiliation(s)
- Hisako Sato
- Graduate School of Science and Engineering, Ehime University, 2-5 Bunkyo-chou, Matsuyama, Ehime 790-8577, Japan
| | - Akihiko Yamagishi
- Department of Medicine, Faculty of Medicine, Toho University, Ota-ku 143-8540, Japan
| | - Masaru Shimizu
- JASCO Corporation, Ishikawa 2967-5, Hachioji, Tokyo 192-8537, Japan
| | - Keisuke Watanabe
- JASCO Corporation, Ishikawa 2967-5, Hachioji, Tokyo 192-8537, Japan
| | - Jun Koshoubu
- JASCO Corporation, Ishikawa 2967-5, Hachioji, Tokyo 192-8537, Japan
| | - Jun Yoshida
- Department of Chemistry, College of Humanities & Sciences, Nihon University, 3-25-40 Sakurajosui, Setagaya-ku, Tokyo 156-8550, Japan
| | - Izuru Kawamura
- Graduate School of Engineering Science, Yokohama National University, Hodogaya-ku, Yokohama 240-8501, Japan
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