1
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Gustafson A, Kahr B. Optical Activity of Nonactin and Its Cation Complexes. Chirality 2024; 36:e23703. [PMID: 39034362 DOI: 10.1002/chir.23703] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2024] [Revised: 06/18/2024] [Accepted: 07/01/2024] [Indexed: 07/23/2024]
Abstract
Nonactin is a non-enantiomorphous (S4 symmetric), optically active natural product with a specific rotation of zero in solutions at all frequencies and temperatures. All optically active, non-enantiomorphous natural products have specific rotations of zero as a consequence of the spatial average of bisignate chiroptical (magnetoelectric or gyration) tensors with equal and opposite eigenvalues. Zeros that arise in the spatial average are distinct in principle, though not necessarily in practice, from zeros that arise in optical inactivity-chiroptical tensors with zero values for all elements as in centric molecules. Nonactin would be measurably optically active when oriented. The anisotropy of the optical activity of nonactin and its cation complexes, likewise S4 symmetric, are studied here by computation to emphasize the infelicitous linkage between optical activity and chirality. Computations show that changes in the conformation of the nonactin macrocycle upon complexation principally are responsible for diminishing the computed optical activity; the metals are incidental.
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Affiliation(s)
- Afton Gustafson
- Department of Chemistry and Molecular Design Institute, New York University, New York City, New York, USA
| | - Bart Kahr
- Department of Chemistry and Molecular Design Institute, New York University, New York City, New York, USA
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2
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Tran DBA, Edwards EGP, Tew DP, Peverall R, Ritchie GAD. Continuous-wave cavity ringdown for high-sensitivity polarimetry and magnetometry measurements. J Chem Phys 2024; 160:054201. [PMID: 38299626 DOI: 10.1063/5.0187832] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2023] [Accepted: 01/11/2024] [Indexed: 02/02/2024] Open
Abstract
We report the development of a novel variant of cavity ringdown polarimetry using a continuous-wave laser operating at 532 nm for highly precise chiroptical activity and magnetometry measurements. The key methodology of the apparatus relies upon the external modulation of the laser frequency at the frequency splitting between non-degenerate left- and right-circularly polarized cavity modes. The method is demonstrated by the evaluation of the Verdet constants of crystalline CeF3 and fused silica, in addition to the observation of gas- and solution-phase optical rotations of selected chiral molecules. Specifically, optical rotations of (i) vapors of α-pinene and R-(+)-limonene, (ii) mutarotating D-glucose in water, and (iii) acidified L-histidine solutions are determined. The detection sensitivities for the gas- and solution-phase chiral activity measurements are ∼30 and ∼120μdeg over a 30 s detection period per cavity round trip pass, respectively. Furthermore, the measured optical rotations for R-(+)-limonene are compared with computations performed using the TURBOMOLE quantum chemistry package. The experimentally observed optically rotatory dispersion of this cyclic monoterpene was thus rationalized via a consideration of its room temperature conformer distribution as determined by the aforementioned single-point energy calculations.
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Affiliation(s)
- Dang-Bao-An Tran
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford OX1 3QZ, United Kingdom
| | - Evan G P Edwards
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford OX1 3QZ, United Kingdom
| | - David P Tew
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford OX1 3QZ, United Kingdom
| | - Robert Peverall
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford OX1 3QZ, United Kingdom
| | - Grant A D Ritchie
- Department of Chemistry, Physical and Theoretical Chemistry Laboratory, University of Oxford, South Parks Road, Oxford OX1 3QZ, United Kingdom
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3
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Taherivardanjani S, Wylie L, Dötzer R, Kirchner B. Exploring the Influence of the Phosphorus-Heteroatom Substitution in Nicotine on Its Electronic and Vibrational Spectroscopic Properties. Chemistry 2024; 30:e202302534. [PMID: 37984418 DOI: 10.1002/chem.202302534] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Revised: 11/10/2023] [Accepted: 11/13/2023] [Indexed: 11/22/2023]
Abstract
The influence of phosphorus substitution of nitrogen in heterocyclic compounds on the vibrational spectroscopy as well as frontier molecular orbitals are analyzed. Nicotine with two nitrogen atoms in its structure is taken as the sample system to be studied computationally. By replacing the nitrogen atom in one or both rings of this molecule with phosphorus, three nicotine derivatives are created. The vibrational circular dichroism and infrared spectra of these four molecules in their monomer state, as well as the assemblies up to trimers are determined. The aforementioned spectra are calculated using static quantum chemical calculations employing a cluster-weighted approach. The calculated gas phase spectra of nicotine are compared to their respective experimental spectra. It is observed that the nicotine derivatives with phosphorus in the methylpyrrolidine ring have considerably different gas phase and bulk phase vibrational circular dichroism spectra when compared to nicotine. The phosphorus substitution reduces the energy gap between the highest occupied molecular orbital and the lowest unoccupied molecular orbital as well as altering the polarizability and reactivity of the investigated molecules.
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Affiliation(s)
- Shima Taherivardanjani
- Mulliken Center for Theoretical Chemistry, Institute for Physical and Theoretical Chemistry, Beringstr. 4, D-53115, Bonn, Germany
| | - Luke Wylie
- Mulliken Center for Theoretical Chemistry, Institute for Physical and Theoretical Chemistry, Beringstr. 4, D-53115, Bonn, Germany
| | | | - Barbara Kirchner
- Mulliken Center for Theoretical Chemistry, Institute for Physical and Theoretical Chemistry, Beringstr. 4, D-53115, Bonn, Germany
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4
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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: 0] [Impact Index Per Article: 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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5
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Sburlati S, Gustafson A, Kahr B. Comparative rotatory power of bent and twisted polyynes. Chirality 2023; 35:838-845. [PMID: 37226985 DOI: 10.1002/chir.23579] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2023] [Revised: 04/29/2023] [Accepted: 05/03/2023] [Indexed: 05/26/2023]
Abstract
Linear polyynes of the formula C18 H2 (symmetry D∞h ) were bent in silico by progressively introducing CCC angles less than 180°. The bent structures (symmetry C2v ) were then twisted by introducing torsion angles across the CCCC segments by as much as 60°. The gyration tensors of these 19 structures (linear, bent, and twisted) were computed by linear response methods. Bending is massively generative of optical activity in oriented structures, even achiral structures, whereas twisting in conjunction with bending, serves to linearize the molecules and diminish maximally observable optical activity. This computational exercise is intended to unbind the infelicitous linkage of optical activity and chirality, which is only meaningful in isotropic media. Although bent structures are not optically active in solution-the spatial average of the optical activity is necessarily zero-solution measurements that deliver the spatial averages are a special class of measurements, albeit the overwhelmingly most common chiroptical measurements, that prejudice our common understanding of how π-conjugated structures generate gyration. Bending is far more effective than twisting at generating optical activity along some directions for oriented structures. The respective contributions from the transition electric dipole-magnetic dipole polarizability and the transition electric dipole-electric quadrupole polarizability are compared.
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Affiliation(s)
- Sophia Sburlati
- Department of Chemistry and Molecular Design Institute, New York University, New York City, New York, USA
| | - Afton Gustafson
- Department of Chemistry and Molecular Design Institute, New York University, New York City, New York, USA
| | - Bart Kahr
- Department of Chemistry and Molecular Design Institute, New York University, New York City, New York, USA
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6
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Groß J, Kühlborn J, Pusch S, Weber C, Andernach L, Renzer G, Eckhardt P, Brauer J, Opatz T. Comparison of different density functional theory methods for the calculation of vibrational circular dichroism spectra. Chirality 2023; 35:753-765. [PMID: 37227055 DOI: 10.1002/chir.23580] [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: 01/30/2023] [Revised: 05/02/2023] [Accepted: 05/03/2023] [Indexed: 05/26/2023]
Abstract
The determination of the absolute configuration (AC) of an organic molecule is still a challenging task for which the combination of spectroscopic with quantum-mechanical methods has become a promising approach. In this study, we investigated the accuracy of DFT methods (480 overall combinations of 15 functionals, 16 basis sets, and 2 solvation models) to calculate the VCD spectra of six chiral organic molecules in order to benchmark their capability to facilitate the determination of the AC.
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Affiliation(s)
- Jonathan Groß
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
| | - Jonas Kühlborn
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
| | - Stefan Pusch
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
| | - Carina Weber
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
| | - Lars Andernach
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
| | - Galit Renzer
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
| | - Paul Eckhardt
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
| | - Jan Brauer
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
| | - Till Opatz
- Department of Chemistry, Johannes Gutenberg University, Mainz, Germany
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7
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Ji HF. A general method to predict optical rotations of chiral molecules from their structures. RSC Adv 2023; 13:4775-4780. [PMID: 36760291 PMCID: PMC9900718 DOI: 10.1039/d2ra08290j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Accepted: 01/26/2023] [Indexed: 02/09/2023] Open
Abstract
The relationship of the chiroptical response of a molecule to its absolution configuration does not exist now. In this letter, I intend to report a general rule with exceptions to predict the sign of optical rotation of chiral molecules with a RCHXY structure from their absolute configurations using the Hammett constant, σ p, which is based on the electron withdrawing/donating power of functional groups. In this rule, a priority list of functional groups based on the electron withdrawing powers of the groups are used. When the lowest priority group is in the back of the molecule, a clockwise arrangement of the other three priorities from the most electron withdrawing to the least withdrawing (1-2-3) is predicted to be dextrorotatory, the counterclockwise arrangement is predicted to be levorotatory.
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Affiliation(s)
- Hai-Feng Ji
- Department of Chemistry, Drexel University Philadelphia PA 19104 USA +1-215-895-1265 +1-215-895-2562
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8
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Liu Y, Liu CP, Mang CY, Wu KC. Upon DFT-D3 dispersion correction and ECD spectral confirmation, only several conformers can stably coexist for three fungal cycloaspeptides (A, D, G). SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 283:121710. [PMID: 35952587 DOI: 10.1016/j.saa.2022.121710] [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: 04/13/2022] [Revised: 07/30/2022] [Accepted: 08/01/2022] [Indexed: 06/15/2023]
Abstract
Dispersion correction in theoretical determination of cyclopeptide conformations is emphasized. Whether in gas approximation or in solvation simulation, the density functional theory with London dispersion correction (DFT-D3) demonstrates that only 2-3 conformers can stably coexist for cycloaspeptides (A, D, G) at B3LYP-D3 and CAM-B3LYP-D3. Conformational rationality is confirmed by electronic circular dichroism (ECD). Whether for Cotton effect or for excitation energy, TD-B3LYP-D3 has better performances than TD-CAM-B3LYP-D3 because the former can better reproduce the experiment. A molecular orbital analysis is used to interpret ECD, where two energy bands observed in experiment originates from the ππ* transitions other than the σπ* transitions. Long-range correction and solvent effect make H-bonds shorten, and dispersion correction makes them further shorten.
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Affiliation(s)
- Yong Liu
- College of Pharmacy, Dali University, Dali 671000, China
| | - Cai-Ping Liu
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China
| | - Chao-Yong Mang
- College of Pharmacy, Dali University, Dali 671000, China.
| | - Ke-Chen Wu
- State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China.
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9
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Mattiat J, Luber S. Comparison of Length, Velocity, and Symmetric Gauges for the Calculation of Absorption and Electric Circular Dichroism Spectra with Real-Time Time-Dependent Density Functional Theory. J Chem Theory Comput 2022; 18:5513-5526. [PMID: 36041170 DOI: 10.1021/acs.jctc.2c00644] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A velocity and symmetric gauge implementation for real-time time-dependent density functional theory (RT-TDDFT) in the CP2K package using a Gaussian and plane wave approach is presented, including the explicit gauge-transformed contributions due to the nonlocal part of pseudopotentials. Absorption spectra of gas-phase α-pinene are calculated in length and velocity gauges in the long-wavelength approximation for the application of a δ pulse in linear and full order. The velocity gauge implementation is also applied to a solvated uracil molecule to showcase its use within periodic boundary conditions (PBC). For the calculation of the expectation value of the electric dipole moment in PBC, both the velocity representation and the modern theory of polarization give equivalent absorption spectra if a distributed reference point is used for the nonlocal term of the velocity operator. The discussion of linear response theory takes place in a unified framework in terms of linear response functions in propagator notation, distinguishing the parts of the linear response functions associated with perturbation and response. To further investigate gauge dependence, electric circular dichroism (ECD) spectra of α-pinene were calculated either as magnetic response to an electric field perturbation, in length or velocity gauge, or as electric response to a magnetic field perturbation in the symmetric gauge. Both approaches, electric and magnetic perturbations, have been found to yield equivalent ECD spectra.
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Affiliation(s)
- Johann Mattiat
- Department of Chemistry, University of Zurich, Zurich 8057, Switzerland
| | - Sandra Luber
- Department of Chemistry, University of Zurich, Zurich 8057, Switzerland
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10
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Brand M, Norman P. Nontrivial spectral band progressions in electronic circular dichroism spectra of carbohelicenes revealed by linear response calculations. Phys Chem Chem Phys 2022; 24:19321-19332. [PMID: 35929836 DOI: 10.1039/d2cp02371g] [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
We demonstrate that contemporary computational resources allow for accurate theoretical studies of systems matching recent advances in experimental helicene chemistry. Concerned with first-principles calculations of carbohelicenes, our work surpasses CH[12] as the largest system investigated to date and unravels trends in the electronic structure of the low-lying states of the homologous series. Utilizing a highly efficient implementation of linear response algorithms, we present electronic circular dichroism (CD) spectra of carbohelicenes ranging from CH[5] to CH[30] at the level of Kohn-Sham density-functional theory. Our results for a systematic increase in system size show the emergence of new CD bands that subsequently rise to intensities dominating the spectrum. The spectral band progressions exhibit a periodicity directly linked to the number of overlapping layers of conjugation. While our findings rectify the current understanding of the electronic structure of carbohelicenes, they also serve as a general call for caution regarding the extrapolation of trends from small system ranges.
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Affiliation(s)
- Manuel Brand
- Department of Theoretical Chemistry and Biology, School of Engineering Sciences in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden.
| | - Patrick Norman
- Department of Theoretical Chemistry and Biology, School of Engineering Sciences in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden.
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11
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Eikås KDR, Beerepoot MTP, Ruud K. A Computational Protocol for Vibrational Circular Dichroism Spectra of Cyclic Oligopeptides. J Phys Chem A 2022; 126:5458-5471. [PMID: 35930395 PMCID: PMC9393892 DOI: 10.1021/acs.jpca.2c02953] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Cyclic peptides are a promising class of compounds for next-generation antibiotics as they may provide new ways of limiting antibiotic resistance development. Although their cyclic structure will introduce some rigidity, their conformational space is large and they usually have multiple chiral centers that give rise to a wide range of possible stereoisomers. Chiroptical spectroscopies such as vibrational circular dichroism (VCD) are used to assign stereochemistry and discriminate enantiomers of chiral molecules, often in combination with electronic structure methods. The reliable determination of the absolute configuration of cyclic peptides will require robust computational methods than can identify all significant conformers and their relative population and reliably assign their stereochemistry from their chiroptical spectra by comparison with ab initio calculated spectra. We here present a computational protocol for the accurate calculation of the VCD spectra of a series of flexible cyclic oligopeptides. The protocol builds on the Conformer-Rotamer Ensemble Sampling Tool (CREST) developed by Grimme and co-workers ( Phys. Chem. Chem. Phys. 2020, 22, 7169-7192 and J. Chem. Theory. Comput. 2019, 15, 2847-2862) in combination with postoptimizations using B3LYP and moderately sized basis sets. Our recommended computational protocol for the computation of VCD spectra of cyclic oligopeptides consists of three steps: (1) conformational sampling with CREST and tight-binding density functional theory (xTB); (2) energy ranking based on single-point energy calculations as well as geometry optimization and VCD calculations of conformers that are within 2.5 kcal/mol of the most stable conformer using B3LYP/6-31+G*/CPCM; and (3) VCD spectra generation based on Boltzmann weighting with Gibbs free energies. Our protocol provides a feasible basis for generating VCD spectra also for larger cyclic peptides of biological/pharmaceutical interest and can thus be used to investigate promising compounds for next-generation antibiotics.
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Affiliation(s)
- Karolina Di Remigio Eikås
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, UiT The Arctic University of Norway, 9037 Tromsø, Norway
| | - Maarten T P Beerepoot
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, UiT The Arctic University of Norway, 9037 Tromsø, Norway
| | - Kenneth Ruud
- Hylleraas Centre for Quantum Molecular Sciences, Department of Chemistry, UiT The Arctic University of Norway, 9037 Tromsø, Norway.,Norwegian Defence Research Establishment, P.O. Box 25, 2027 Kjeller, Norway
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12
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Martin AT, Nichols SM, Murphy VL, Kahr B. Chiroptical anisotropy of crystals and molecules. Chem Commun (Camb) 2021; 57:8107-8120. [PMID: 34322691 DOI: 10.1039/d1cc00991e] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Optical activity, a foundational part of chemistry, is not restricted to chiral molecules although generations have been instructed otherwise. A more inclusive view of optical activity is valuable because it clarifies structure-property relationships however, this view only comes into focus in measurements of oriented molecules, commonly found in crystals. Unfortunately, measurements of optical rotatory dispersion or circular dichroism in anisotropic single crystals have challenged scientists for more than two centuries. New polarimetric methods for unpacking the optical activity of crystals in general directions are still needed. Such methods are reviewed as well as some of the 'nourishment' they provide, thereby inviting to new researchers. Methods for fitting intensity measurements in terms of the constitutive tensor that manifests as the differential refraction and absorption of circularly polarized light, are described, and examples are illustrated. Single oriented molecules, as opposed to single oriented crystals, can be treated computationally. Structure-property correlations for such achiral molecules with comparatively simple electronic structures are considered as a heuristic foundation for the response of crystals that may be subject to measurement.
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Affiliation(s)
- Alexander T Martin
- Department of Chemistry and Molecular Design Institute, New York University, New York City, NY 10003, USA.
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13
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Dezaki SK, Askarpour AN, Abdipour A. Circular dichroism spectroscopy and chiral sensing in optical fibers. OPTICS EXPRESS 2021; 29:23096-23112. [PMID: 34614581 DOI: 10.1364/oe.426239] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Accepted: 06/23/2021] [Indexed: 06/13/2023]
Abstract
Chirality is a property of broken mirror symmetry and detecting the handedness of chiral material in small quantities is an important problem in biology and biochemistry. Here, we present a waveguide-based method to measure chirality and distinguish the enantiomers of molecules. A bi-isotropic core in an optical waveguide lifts the degeneracy of modes in a cylindrically symmetric structure. This modal degeneracy lifting is exploited to measure the chirality of the core. The proposed sensor can determine the value of the chirality parameter of the material under test and it can be utilized for various materials with nonzero chirality parameter in different frequency bands. This approach improves the circular dichroism (CD) response and outperforms conventional CD spectroscopy methods by increasing their differential output signal. To compare the results with conventional CD spectroscopy, the CD parameter is adapted to optical waveguides.
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14
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Ozcelik A, Pereira-Cameselle R, Alonso-Gómez JL. From Allenes to Spirobifluorenes: On the Way to Device-compatible Chiroptical Systems. CURR ORG CHEM 2020. [DOI: 10.2174/1385272824999201013164534] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
The last decade has seen a huge growth in the construction of chiral systems to
expand the scope of chiroptical applications. Dependence of chiroptical response on molecular
conformation typically leads to low chiroptical intensities of chiral systems that feature
several conformations in solution. In this respect, allenes were employed for the preparation
of open and cyclic oligomers as well as molecular cages, presenting remarkable chiroptical
responses in solution. Their molecular chirality was also transferred to metal surfaces, yet
photoisomerization of allenes limited their further exploration. In search of a more robust
chiral axis, theoretical and experimental studies confirmed that spirobifluorenes could give
rise to stable systems with tailored optical and chiroptical properties. Additionally, incorporating
a conformational lock into spirobifluorene cyclic architectures served as an efficient
strategy towards the generation of distinct helical molecular orbitals. This review article outlines our results on developing
device-compatible chiroptical systems through axially chiral allenes and spirobifluorenes. The contribution
from other research groups is presented briefly.
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Affiliation(s)
- Ani Ozcelik
- Department of Organic Chemistry, Faculty of Chemistry, University of Vigo, Vigo, Spain
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15
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Giovannini T, Egidi F, Cappelli C. Theory and algorithms for chiroptical properties and spectroscopies of aqueous systems. Phys Chem Chem Phys 2020; 22:22864-22879. [PMID: 33043930 DOI: 10.1039/d0cp04027d] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
Chiroptical properties and spectroscopies are valuable tools to study chiral molecules and assign absolute configurations. The spectra that result from chiroptical measurements may be very rich and complex, and hide much of their information content. For this reason, the interplay between experiments and calculations is especially useful, provided that all relevant physico-chemical interactions that are present in the experimental sample are accurately modelled. The inherent difficulty associated to the calculation of chiral signals of systems in aqueous solutions requires the development of specific tools, able to account for the peculiarities of water-solute interactions, and especially its ability to form hydrogen bonds. In this perspective we discuss a multiscale approach, which we have developed and challenged to model the most used chiroptical techniques.
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Affiliation(s)
- Tommaso Giovannini
- Department of Chemistry, Norwegian University of Science and Technology (NTNU), 7491 Trondheim, Norway
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16
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Padula D, Mazzeo G, Santoro E, Scafato P, Belviso S, Superchi S. Amplification of the chiroptical response of UV-transparent amines and alcohols by N-phthalimide derivatization enabling absolute configuration determination through ECD computational analysis. Org Biomol Chem 2020; 18:2094-2102. [PMID: 32107518 DOI: 10.1039/d0ob00052c] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
The stereoselective transformation of chiral UV-transparent amines and alcohols to phthalimides has proved to be a simple and efficient method to enhance the chiroptical response of these substrates allowing their reliable absolute configuration determination by computational analysis of ECD spectra. Such a transformation also leads to a significant reduction in the molecular conformational flexibility thus simplifying the conformational analysis required by the computational treatment. The method described herein thus allows the absolute configuration assignment to these challenging substrates to be much easier and reliable.
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Affiliation(s)
- Daniele Padula
- Dipartimento di Scienze, Università della Basilicata, via dell'Ateneo Lucano, 85100, Potenza, Italy.
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17
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Keiderling TA. Structure of Condensed Phase Peptides: Insights from Vibrational Circular Dichroism and Raman Optical Activity Techniques. Chem Rev 2020; 120:3381-3419. [DOI: 10.1021/acs.chemrev.9b00636] [Citation(s) in RCA: 50] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Timothy A. Keiderling
- Department of Chemistry, University of Illinois at Chicago 845 West Taylor Street m/c 111, Chicago, Illinois 60607-7061, United States
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18
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Ozcelik A, Pereira-Cameselle R, Poklar Ulrih N, Petrovic AG, Alonso-Gómez JL. Chiroptical Sensing: A Conceptual Introduction. SENSORS (BASEL, SWITZERLAND) 2020; 20:E974. [PMID: 32059394 PMCID: PMC7071115 DOI: 10.3390/s20040974] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/14/2020] [Revised: 02/07/2020] [Accepted: 02/09/2020] [Indexed: 12/21/2022]
Abstract
Chiroptical responses have been an essential tool over the last decades for chemical structural elucidation due to their exceptional sensitivity to geometry and intermolecular interactions. In recent times, there has been an increasing interest in the search for more efficient sensing by the rational design of tailored chiroptical systems. In this review article, advances made in chiroptical systems towards their implementation in sensing applications are summarized. Strategies to generate chiroptical responses are illustrated. Theoretical approaches to assist in the design of these systems are discussed. The development of efficient chiroptical reporters in different states of matter, essential for the implementation in sensing devises, is reviewed. In the last part, remarkable examples of chiroptical sensing applications are highlighted.
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Affiliation(s)
- Ani Ozcelik
- Department of Organic Chemistry, University of Vigo, 36310 Vigo, Spain; (A.O.); (R.P.-C.)
| | | | - Natasa Poklar Ulrih
- Department of Food Science and Technology, Biotechnical Faculty, University of Ljubljana, Kongresni trg 12, 1000 Ljubljana, Slovenia;
| | - Ana G. Petrovic
- Department of Biological & Chemical Sciences, New York Institute of Technology, New York, NY 10023, USA
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19
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Verreault D, Moreno K, Merlet É, Adamietz F, Kauffmann B, Ferrand Y, Olivier C, Rodriguez V. Hyper-Rayleigh Scattering as a New Chiroptical Method: Uncovering the Nonlinear Optical Activity of Aromatic Oligoamide Foldamers. J Am Chem Soc 2019; 142:257-263. [DOI: 10.1021/jacs.9b09890] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Dominique Verreault
- Institut des Sciences Moléculaires, UMR 5255 CNRS, Université de Bordeaux, 351 Cours de la Libération, F-33405 Talence Cedex, France
| | - Kevin Moreno
- Institut des Sciences Moléculaires, UMR 5255 CNRS, Université de Bordeaux, 351 Cours de la Libération, F-33405 Talence Cedex, France
| | - Éric Merlet
- Institut de Chimie et Biologie des Membranes et des Nano-objets, UMR 5248 CNRS, Université de Bordeaux, 2 rue Robert Escarpit, F-33600 Pessac, France
| | - Frédéric Adamietz
- Institut des Sciences Moléculaires, UMR 5255 CNRS, Université de Bordeaux, 351 Cours de la Libération, F-33405 Talence Cedex, France
| | - Brice Kauffmann
- Institut Européen de Chimie et Biologie, UMS 3033 CNRS, Université de Bordeaux, 2 rue Robert Escarpit, F-33600 Pessac, France
| | - Yann Ferrand
- Institut de Chimie et Biologie des Membranes et des Nano-objets, UMR 5248 CNRS, Université de Bordeaux, 2 rue Robert Escarpit, F-33600 Pessac, France
| | - Céline Olivier
- Institut des Sciences Moléculaires, UMR 5255 CNRS, Université de Bordeaux, 351 Cours de la Libération, F-33405 Talence Cedex, France
| | - Vincent Rodriguez
- Institut des Sciences Moléculaires, UMR 5255 CNRS, Université de Bordeaux, 351 Cours de la Libération, F-33405 Talence Cedex, France
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20
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Evaluation of Molecular Polarizability and of Intensity Carrying Modes Contributions in Circular Dichroism Spectroscopies. APPLIED SCIENCES-BASEL 2019. [DOI: 10.3390/app9214691] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
We re-examine the theory of electronic and vibrational circular dichroism spectroscopy in terms of the formalism of frequency-dependent molecular polarizabilities. We show the link between Fermi’s gold rule in circular dichroism and the trace of the complex electric dipole–magnetic dipole polarizability. We introduce the C++ code polar to compute the molecular polarizability complex tensors from quantum chemistry outputs, thus simulating straightforwardly UV-visible absorption (UV-Vis)/electronic circular dichroism (ECD) spectra, and infrared (IR)/vibrational circular dichroism (VCD) spectra. We validate the theory and the code by referring to literature data of a large group of chiral molecules, showing the remarkable accuracy of density functional theory (DFT) methods. We anticipate the application of this methodology to the interpretation of vibrational spectra in various measurement conditions, even in presence of metal surfaces with plasmonic properties. Our theoretical developments aim, in the long run, at embedding the quantum-mechanical details of the chiroptical spectroscopic response of a molecule into the simulation of the electromagnetic field distribution at the surface of plasmonic devices. Such simulations are also instrumental to the interpretation of the experimental spectra measured from devices designed to enhance chiroptical interactions by the surface plasmon resonance of metal nanostructures.
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21
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Gendron F, Moore Ii B, Cador O, Pointillart F, Autschbach J, Le Guennic B. Ab Initio Study of Circular Dichroism and Circularly Polarized Luminescence of Spin-Allowed and Spin-Forbidden Transitions: From Organic Ketones to Lanthanide Complexes. J Chem Theory Comput 2019; 15:4140-4155. [PMID: 31125219 DOI: 10.1021/acs.jctc.9b00286] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Complete and restricted active space self-consistent field (CAS-/RAS-SCF) wave function methods are applied for the calculation of circular dichroism (CD) and circularly polarized luminescence (CPL) of a series of molecules comprising four organic ketones, the chiral cobalt(III) complex [Co(en)3]3+, and the europium(III) complex [Eu(DPA)3]3-. The ab initio results are in good agreement with the experimental data and previous results obtained with Kohn-Sham density functional theory in the case of the spin-allowed transitions. CD and CPL properties are calculated ab initio for the spin-forbidden transitions of both a transition metal and a lanthanide complex.
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Affiliation(s)
- Frédéric Gendron
- Univ Rennes, CNRS , ISCR (Institut des Sciences Chimiques de Rennes) , UMR 6226, F-35000 Rennes , France
| | - Barry Moore Ii
- Department of Chemistry , University at Buffalo, State University of New York , Buffalo , New York 14260-3000 , United States
| | - Olivier Cador
- Univ Rennes, CNRS , ISCR (Institut des Sciences Chimiques de Rennes) , UMR 6226, F-35000 Rennes , France
| | - Fabrice Pointillart
- Univ Rennes, CNRS , ISCR (Institut des Sciences Chimiques de Rennes) , UMR 6226, F-35000 Rennes , France
| | - Jochen Autschbach
- Department of Chemistry , University at Buffalo, State University of New York , Buffalo , New York 14260-3000 , United States
| | - Boris Le Guennic
- Univ Rennes, CNRS , ISCR (Institut des Sciences Chimiques de Rennes) , UMR 6226, F-35000 Rennes , France
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22
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Instrumentation for Vibrational Circular Dichroism Spectroscopy: Method Comparison and Newer Developments. Molecules 2018; 23:molecules23092404. [PMID: 30235902 PMCID: PMC6225159 DOI: 10.3390/molecules23092404] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2018] [Revised: 08/25/2018] [Accepted: 09/07/2018] [Indexed: 01/10/2023] Open
Abstract
Vibrational circular dichroism (VCD) is a widely used standard method for determination of absolute stereochemistry, and somewhat less so for biomolecule characterization and following dynamic processes. Over the last few decades, different VCD instrument designs have developed for various purposes, and reliable commercial instrumentation is now available. This review will briefly survey historical and currently used instrument designs and describe some aspects of more recently reported developments. An important factor in applying VCD to conformational studies is theoretical modeling of spectra for various structures, techniques for which are briefly surveyed.
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23
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Lunkley JL, Nguyen NM, Tuminaro KM, Margittai D, Muller G. The Importance of Solvent Effects on the Mechanism of the Pfeiffer Effect. INORGANICS 2018; 6:87-112. [PMID: 30854379 PMCID: PMC6402352 DOI: 10.3390/inorganics6030087] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
The Pfeiffer effect is observed when an optically active compound such as an amino acid is introduced to a solution containing a labile racemic metal complex, and an equilibrium shift is obtained. The "perturbation" results in an excess of one enantiomer over the other. The shift is a result of a preferential outer sphere interaction between the introduced chiral species and one enantiomeric form (Λ or Δ) of a labile metal complex. Speculations regarding the mechanism of the Pfeiffer effect have attributed observations to a singular factor such as pH, solvent polarity, or numerous other intermolecular interactions. Through the use of the lanthanide(III) complexes [Tb(DPA)3]3- and [Eu(DPA)3]3- (where DPA = 2,6-pyridinedicarboxylate) and the amino acids l-serine and l-proline; it is becoming clear that the mechanism is not so simply described as per the preliminary findings that are discussed in this study. It appears that the true mechanism is far more complicated than the attribute just a singular factor. This work attempts to shine light on the fact that understanding the behavior of the solvent environment may hypothetically be the key to offering a more detailed description of the mechanism.
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Affiliation(s)
- Jamie L. Lunkley
- Department of Chemistry, San José State University, One Washington Square, San José, CA 95192-0101, USA; (J.L.L.)
| | - Ngoc M. Nguyen
- Department of Chemistry, San José State University, One Washington Square, San José, CA 95192-0101, USA; (N.M.N.)
| | - Kristina M. Tuminaro
- Department of Chemistry, San José State University, One Washington Square, San José, CA 95192-0101, USA; (K.M.T.)
| | - Dana Margittai
- Department of Chemistry, San José State University, One Washington Square, San José, CA 95192-0101, USA; (D.M.)
| | - Gilles Muller
- Department of Chemistry, San José State University, One Washington Square, San José, CA 95192-0101, USA
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24
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Peixoto D, Ferreira EP, Lourenço AM, Johnson JL, Lobo AM, Polavarapu PL. (R)-Metacycloprodigiosin-HCl: Chiroptical properties and structure. Chirality 2018; 30:932-942. [PMID: 29746716 DOI: 10.1002/chir.22867] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2018] [Revised: 03/29/2018] [Accepted: 04/04/2018] [Indexed: 01/15/2023]
Abstract
(R)-Metacycloprodigiosin can exist in three different tautomeric forms, each with hydrogens at C9' and C12 in syn or anti orientation. With the addition of HCl, this structural diversity reduces to syn-(R)-metacycloprodigiosin-HCl (1a) and anti-(R)-metacycloprodigiosin-HCl (1b), each with multiple conformers. Energetics and chiroptical properties, namely, electronic circular dichroism (ECD) and specific optical rotation (SOR), of (R)-metacycloprodigiosin-HCl have been investigated at B3LYP/6-311++G(2d,2p) level. The experimental ECD spectra of (R)-metacycloprodigiosin-HCl have also been measured. Calculations indicated that the lowest energy conformer of 1b is approximately 2.7 kcal/mol lower in energy than that of 1a, and the energy barrier for anti to syn conversion is approximately 13 kcal/mol. The population weighted calculated SORs of 1a and 1b are, respectively, positive and negative. The respective calculated ECD spectra of these pseudoenantiomers show an almost mirror image relationship between them. The experimental SOR and ECD compare well with those predicted for 1b. Thus, 1b is expected to be predominant, a situation confirmed also by nuclear Overhauser effect (NOE) data, with a similar conclusion reached for prodigiosin R1.
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Affiliation(s)
- Daniela Peixoto
- Department of Chemistry, REQUIMTE/LAQV & UCIBIO, NOVA University of Lisbon, Caparica, Portugal
| | - Elisabete P Ferreira
- Department of Chemistry, REQUIMTE/LAQV & UCIBIO, NOVA University of Lisbon, Caparica, Portugal
| | - Ana M Lourenço
- Department of Chemistry, REQUIMTE/LAQV & UCIBIO, NOVA University of Lisbon, Caparica, Portugal
| | - Jordan L Johnson
- Department of Chemistry, Vanderbilt University, Nashville, Tennessee
| | - Ana M Lobo
- Department of Chemistry, REQUIMTE/LAQV & UCIBIO, NOVA University of Lisbon, Caparica, Portugal
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25
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N L Batista A, M Dos Santos F, Batista JM, Cass QB. Enantiomeric Mixtures in Natural Product Chemistry: Separation and Absolute Configuration Assignment. Molecules 2018; 23:molecules23020492. [PMID: 29473869 PMCID: PMC6017502 DOI: 10.3390/molecules23020492] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2017] [Revised: 01/23/2018] [Accepted: 02/21/2018] [Indexed: 01/13/2023] Open
Abstract
Chiral natural product molecules are generally assumed to be biosynthesized in an enantiomerically pure or enriched fashion. Nevertheless, a significant amount of racemates or enantiomerically enriched mixtures has been reported from natural sources. This number is estimated to be even larger since the enantiomeric purity of secondary metabolites is rarely checked in the natural product isolation pipeline. This latter fact may have drastic effects on the evaluation of the biological activity of chiral natural products. A second bottleneck is the determination of their absolute configurations. Despite the widespread use of optical rotation and electronic circular dichroism, most of the stereochemical assignments are based on empirical correlations with similar compounds reported in the literature. As an alternative, the combination of vibrational circular dichroism and quantum chemical calculations has emerged as a powerful and reliable tool for both conformational and configurational analysis of natural products, even for those lacking UV-Vis chromophores. In this review, we aim to provide the reader with a critical overview of the occurrence of enantiomeric mixtures of secondary metabolites in nature as well the best practices for their detection, enantioselective separation using liquid chromatography, and determination of absolute configuration by means of vibrational circular dichroism and density functional theory calculations.
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Affiliation(s)
- Andrea N L Batista
- Department of Chemistry, Federal University of São Carlos-UFSCar, Rod. Washington Luis s/n, km 235, São Carlos, SP 13565-905, Brazil.
| | - Fernando M Dos Santos
- Department of Chemistry, Federal University of São Carlos-UFSCar, Rod. Washington Luis s/n, km 235, São Carlos, SP 13565-905, Brazil.
| | - João M Batista
- Department of Chemistry, Federal University of São Carlos-UFSCar, Rod. Washington Luis s/n, km 235, São Carlos, SP 13565-905, Brazil.
- Institute of Science and Technology, Federal University of São Paulo-UNIFESP, R. Talim 330, São José dos Campos, SP 12231-280, Brazil.
| | - Quezia B Cass
- Department of Chemistry, Federal University of São Carlos-UFSCar, Rod. Washington Luis s/n, km 235, São Carlos, SP 13565-905, Brazil.
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26
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Keiderling TA, Lakhani A. Mini review: Instrumentation for vibrational circular dichroism spectroscopy, still a role for dispersive instruments. Chirality 2018; 30:238-253. [PMID: 29293282 DOI: 10.1002/chir.22799] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2017] [Revised: 11/07/2017] [Accepted: 11/16/2017] [Indexed: 01/30/2023]
Abstract
Vibrational circular dichroism (VCD) has become a standard method for determination of absolute stereochemistry, particularly now that reliable commercial instrumentation has become available. These instruments use a now well-documented Fourier transform infrared-based approach to measure VCD that has virtually displaced initial dispersive infrared-based designs. Nonetheless, many papers have appeared reporting dispersive VCD data, especially for biopolymers. Instrumentation designed with these original methods, particularly after more recent updates optimizing performance in selected spectral regions, has been shown still to have advantages for specific applications. This article presents a mini-review of dispersive VCD instrument designs and includes sample spectra obtained for various biopolymer (particularly peptide) samples. Complementary reviews of Fourier transform-VCD designs are broadly available.
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Affiliation(s)
- Timothy A Keiderling
- Department of Chemistry, University of Illinois at Chicago, Chicago, Illinois, USA
| | - Ahmed Lakhani
- Department of Biophysical Chemistry and Mathematics, Calumet College of St. Joseph, Whiting, Indiana, USA
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27
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Anthraquinones from the saline-alkali plant endophytic fungus Eurotium rubrum. J Antibiot (Tokyo) 2017; 70:1138-1141. [PMID: 29018264 DOI: 10.1038/ja.2017.121] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2017] [Revised: 08/30/2017] [Accepted: 09/04/2017] [Indexed: 01/24/2023]
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28
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Taniguchi T. Analysis of Molecular Configuration and Conformation by (Electronic and) Vibrational Circular Dichroism: Theoretical Calculation and Exciton Chirality Method. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2017. [DOI: 10.1246/bcsj.20170113] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Tohru Taniguchi
- Faculty of Advanced Life Science, Frontier Research Center for Advanced Material and Life Science, Hokkaido University, Kita 21 Nishi 11, Sapporo, Hokkaido 001-0021
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29
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Giovannini T, Olszówka M, Egidi F, Cheeseman JR, Scalmani G, Cappelli C. Polarizable Embedding Approach for the Analytical Calculation of Raman and Raman Optical Activity Spectra of Solvated Systems. J Chem Theory Comput 2017; 13:4421-4435. [DOI: 10.1021/acs.jctc.7b00628] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
| | - Marta Olszówka
- Scuola Normale
Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Franco Egidi
- Scuola Normale
Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - James R. Cheeseman
- Gaussian
Inc., 340 Quinnipiac Street Building
40, Wallingford, Connecticut 06492, United States
| | - Giovanni Scalmani
- Gaussian
Inc., 340 Quinnipiac Street Building
40, Wallingford, Connecticut 06492, United States
| | - Chiara Cappelli
- Scuola Normale
Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
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30
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Lu X, Li H, Nafie JW, Pazderka T, Pazderková M, Dukor RK, Nafie LA. A Vibrational Circular Dichroism Microsampling Accessory: Mapping Enhanced Vibrational Circular Dichroism in Amyloid Fibril Films. APPLIED SPECTROSCOPY 2017; 71:1117-1126. [PMID: 28436688 DOI: 10.1177/0003702817701457] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
We report the first vibrational circular dichroism (VCD) measurement of spatial heterogeneity in a sample using infrared (IR) microsampling. Vibrational circular dichroism spectra are typically measured using a standard IR cell with an IR beam diameter of 10 mm or greater making it impossible to investigate the spatial heterogeneity of a solid film sample. We have constructed a VCD sampling assembly with either 3 mm or 1 mm spatial resolution. An XY-translation stage was used to measure spectra at different spatial locations producing IR and VCD maps of the sample. In addition, a rotating sample stage was employed using a dual photoelastic modulator (PEM) setup to suppress artifacts due to linear birefringence in solid-phase or film samples. Infrared and VCD mapping of an insulin fibril film has been carried out at both 3 and 1 mm spatial resolution, and lysozyme films were mapped at 1 mm resolution. The IR spectra of different spots vary in intensity due primarily to sample thickness. The changes in the VCD intensity across the map largely correlate to corresponding changes in the IR map. Closer inspection of the insulin map revealed changes in the relative intensities of the VCD spectra not present in the parent IR spectra, which indicated differences in the degree of supramolecular chirality of the fibrils in the various spatial regions. For lysozyme films, in addition to different degrees of supramolecular chirality, reversal of the net fibril chirality was observed. The large signal-to-noise ratio observed at 1 mm resolution implies the feasibility of further increasing the spatial resolution by one or two orders of magnitude for protein fibril film samples.
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Affiliation(s)
| | | | | | - Tomáš Pazderka
- 2 Institute of Physics, Faculty of Mathematics and Physics, Charles University, Prague, Czech Republic
| | - Markéta Pazderková
- 2 Institute of Physics, Faculty of Mathematics and Physics, Charles University, Prague, Czech Republic
| | | | - Laurence A Nafie
- 1 BioTools Inc., Jupiter, FL, USA
- 3 Department of Chemistry, Syracuse University, Syracuse, NY, USA
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31
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Srebro-Hooper M, Autschbach J. Calculating Natural Optical Activity of Molecules from First Principles. Annu Rev Phys Chem 2017; 68:399-420. [DOI: 10.1146/annurev-physchem-052516-044827] [Citation(s) in RCA: 94] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
| | - Jochen Autschbach
- Department of Chemistry, University at Buffalo, State University of New York, Buffalo, New York 14260
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32
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Tanaka H, Inoue Y, Nakano T, Mori T. Absolute configuration determination through the unique intramolecular excitonic coupling in the circular dichroisms of o,p′-DDT and o,p′-DDD. A combined experimental and theoretical study. Photochem Photobiol Sci 2017; 16:606-610. [DOI: 10.1039/c6pp00438e] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Circular dichroisms (CDs) of theo,p′-isomers of 1,1,1-trichloro- and 1,1-dichloro-2,2-bis(chlorophenyl)ethanes (DDTandDDD) were investigated experimentally and theoretically.
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Affiliation(s)
- Hiroki Tanaka
- Department of Applied Chemistry
- Graduate School of Engineering
- Osaka University
- Suita
- Japan
| | - Yoshihisa Inoue
- Department of Applied Chemistry
- Graduate School of Engineering
- Osaka University
- Suita
- Japan
| | - Takeshi Nakano
- Research Center for Environmental Preservation
- Osaka University
- Suita
- Japan
| | - Tadashi Mori
- Department of Applied Chemistry
- Graduate School of Engineering
- Osaka University
- Suita
- Japan
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33
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Shimokawa J, Fukuyama T. Synthetic Studies on Heteropolycyclic Natural Products: Strategies via Novel Reactions and Reactivities. J SYN ORG CHEM JPN 2017. [DOI: 10.5059/yukigoseikyokaishi.75.1115] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
| | - Tohru Fukuyama
- Graduate School of Pharmaceutical Sciences, Nagoya University
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34
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Covington CL, Junior FMS, Silva JHS, Kuster RM, de Amorim MB, Polavarapu PL. Atropoisomerism in Biflavones: The Absolute Configuration of (-)-Agathisflavone via Chiroptical Spectroscopy. JOURNAL OF NATURAL PRODUCTS 2016; 79:2530-2537. [PMID: 27723329 DOI: 10.1021/acs.jnatprod.6b00395] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The first natural occurrence in optically active form of the dimeric flavonoid agathisflavone and definition of its axial chirality using chiroptical spectroscopic methods are described. The experimental electronic circular dichroism, electronic dissymmetry factor, optical rotatory dispersion, vibrational circular dichroism (VCD), and vibrational dissymmetry factor spectra of agathisflavone are presented and analyzed with their corresponding quantum chemical predictions to definitively assign the axial chirality of (-)-agathisflavone as (aS).
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Affiliation(s)
- Cody L Covington
- Department of Chemistry, Vanderbilt University , Nashville, Tennessee 37235, United States
| | - Fernando M S Junior
- Department of Chemistry, Vanderbilt University , Nashville, Tennessee 37235, United States
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
| | - Jessica H S Silva
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
| | - Ricardo M Kuster
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
| | - Mauro B de Amorim
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
| | - Prasad L Polavarapu
- Department of Chemistry, Vanderbilt University , Nashville, Tennessee 37235, United States
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35
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Douki K, Ono H, Taniguchi T, Shimokawa J, Kitamura M, Fukuyama T. Enantioselective Total Synthesis of (+)-Hinckdentine A via a Catalytic Dearomatization Approach. J Am Chem Soc 2016; 138:14578-14581. [PMID: 27771949 DOI: 10.1021/jacs.6b10237] [Citation(s) in RCA: 108] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Optically pure hinckdentine A was synthesized on a 300 mg scale via an asymmetric catalysis-based strategy. The key steps to the first asymmetric synthesis involved (i) enantioselective dearomative cyclization of an achiral N-acyl indole that allowed for the efficient construction of the key polycyclic indoline intermediate with a crucial tetrasubstituted stereogenic carbon center, (ii) Beckmann fragmentation-mediated ring expansion, (iii) rearrangement-based introduction of an anilinic nitrogen atom, (iv) regioselective tribromination, and (v) final closure of the cyclic amidine moiety.
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Affiliation(s)
- Kazuya Douki
- Graduate School of Pharmaceutical Sciences, Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
| | - Hiroyuki Ono
- Graduate School of Pharmaceutical Sciences, University of Tokyo , 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Tohru Taniguchi
- Faculty of Advanced Life Science, Frontier Research Center for Post-Genome Science and Technology, Hokkaido University , Kita 21 Nishi 11, Sapporo 001-0021, Japan
| | - Jun Shimokawa
- Graduate School of Pharmaceutical Sciences, Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
| | - Masato Kitamura
- Graduate School of Pharmaceutical Sciences, Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
| | - Tohru Fukuyama
- Graduate School of Pharmaceutical Sciences, Nagoya University , Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
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36
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Giovannini T, Olszòwka M, Cappelli C. Effective Fully Polarizable QM/MM Approach To Model Vibrational Circular Dichroism Spectra of Systems in Aqueous Solution. J Chem Theory Comput 2016; 12:5483-5492. [PMID: 27704812 DOI: 10.1021/acs.jctc.6b00768] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We propose a methodology, based on the combination of classical Molecular Dynamics (MD) simulations with a fully polarizable Quantum Mechanical (QM)/Molecular Mechanics (MM)/Polarizable Continuum Model (PCM) Hamiltonian, to calculate Vibrational Circular Dichroism (VCD) spectra of chiral systems in aqueous solution. Polarization effects are included in the MM force field by exploiting an approach based on Fluctuating Charges (FQ). By performing the MD, the description of the solvating environment is enriched by taking into account the dynamical aspects of the solute-solvent interactions. On the other hand, the QM/FQ/PCM calculation of the VCD spectrum ensures an accurate description of the electronic density of the solute and a proper account for the specific interactions in solution. The application of our approach to (R)-methyloxirane and (l)-alanine in aqueous solution gives calculated spectra in remarkable agreement with their experimental counterparts and a substantial improvement with respect to the same spectra calculated with the PCM.
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Affiliation(s)
| | - Marta Olszòwka
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa , Via Moruzzi 13, 56124 Pisa, Italy
| | - Chiara Cappelli
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
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37
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Casas ME, Kretschmann AC, Andernach L, Opatz T, Bester K. Separation, isolation and stereochemical assignment of imazalil enantiomers and their quantitation in an in vitro toxicity test. J Chromatogr A 2016; 1452:116-20. [DOI: 10.1016/j.chroma.2016.05.008] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2016] [Revised: 04/26/2016] [Accepted: 05/03/2016] [Indexed: 01/02/2023]
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38
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Pescitelli G, Bruhn T. Good Computational Practice in the Assignment of Absolute Configurations by TDDFT Calculations of ECD Spectra. Chirality 2016; 28:466-74. [PMID: 27098594 DOI: 10.1002/chir.22600] [Citation(s) in RCA: 353] [Impact Index Per Article: 44.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2016] [Revised: 03/03/2016] [Accepted: 03/05/2016] [Indexed: 01/10/2023]
Abstract
Quantum-mechanical calculations of chiroptical properties have rapidly become the most popular method for assigning absolute configurations (AC) of organic compounds, including natural products. Black-box time-dependent Density Functional Theory (TDDFT) calculations of electronic circular dichroism (ECD) spectra are nowadays readily accessible to nonexperts. However, an uncritical attitude may easily deliver a wrong answer. We present to the Chirality Forum a discussion on what can be called good computational practice in running TDDFT ECD calculations, highlighting the most crucial points with several examples from the recent literature. Chirality 28:466-474, 2016. © 2016 Wiley Periodicals, Inc.
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Affiliation(s)
- Gennaro Pescitelli
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Pisa, Italy
| | - Torsten Bruhn
- Institut für Organische Chemie, Universität Würzburg Am Hubland, Würzburg, Germany
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39
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Nguyen BT, Ingram AJ, Muller G. Localizing Perturbations of the Racemic Equilibria Involving Dipicolinate-Derived Lanthanide(III) Complexes. Chirality 2016; 28:325-31. [PMID: 26935003 DOI: 10.1002/chir.22584] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2015] [Revised: 01/11/2016] [Accepted: 01/13/2016] [Indexed: 01/12/2023]
Abstract
Helical D3 tris(4-amino-2,6-pyridine-dicarboxylate)terbium(III) and europium(III) complexes, which form a racemic equilibrium in aqueous solution, were prepared to study their secondary coordination sphere interactions with chiral amino acids. These interactions were probed using a combination of circularly polarized luminescence (CPL) and 13C NMR spectroscopy. The results indicate that, regardless of the interaction between the chiral molecule and the complex, without an accessible hydrogen-bond donor on the associating molecule, perturbation of the racemic equilibrium cannot occur. A generalized conclusion is established that indicates that the mechanism of chiral recognition by tris(dipicolinate)lanthanide(III) complexes is similar across a variety of analogous ligands.
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Affiliation(s)
- Brian T Nguyen
- Department of Chemistry, San José State University, San José, California, USA.,Department of Chemistry, University of Illinois Urbana-Champaign, Urbana, IL
| | - Andrew J Ingram
- Department of Chemistry, San José State University, San José, California, USA.,Department of Chemistry, Stanford University, Stanford, CA
| | - Gilles Muller
- Department of Chemistry, San José State University, San José, California, USA
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40
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Jovan Jose KV, Raghavachari K. Raman Optical Activity Spectra for Large Molecules through Molecules-in-Molecules Fragment-Based Approach. J Chem Theory Comput 2016; 12:585-94. [DOI: 10.1021/acs.jctc.5b01127] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- K. V. Jovan Jose
- Department of Chemistry, Indiana University, Bloomington, Indiana 47405, United States
| | - Krishnan Raghavachari
- Department of Chemistry, Indiana University, Bloomington, Indiana 47405, United States
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41
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Junior FMS, Covington CL, de Albuquerque ACF, Lobo JFR, Borges RM, de Amorim MB, Polavarapu PL. Absolute Configuration of (-)-Centratherin, a Sesquiterpenoid Lactone, Defined by Means of Chiroptical Spectroscopy. JOURNAL OF NATURAL PRODUCTS 2015; 78:2617-2623. [PMID: 26565920 DOI: 10.1021/acs.jnatprod.5b00546] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
(-)-Centratherin is a bioactive sesquiterpenoid lactone, whose absolute configuration (AC) was not established, but has been proposed based on those of germacrane precursors. To verify this proposal, the experimental electronic circular dichroism (ECD), electronic dissymmetry factor (EDF), optical rotatory dispersion (ORD), vibrational circular dichroism (VCD), and vibrational dissymmetry factor (VDF) spectra of (-)-centratherin have been analyzed with the corresponding density functional theoretical predictions. These analyses suggest the AC of naturally occurring (-)-centratherin to be (6R,7R,8S,10R,2'Z).
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Affiliation(s)
- Fernando M S Junior
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
- Department of Chemistry, Vanderbilt University , Nashville, Tennessee 37235, United States
| | - Cody L Covington
- Department of Chemistry, Vanderbilt University , Nashville, Tennessee 37235, United States
| | - Ana Carolina F de Albuquerque
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
| | - Jonathas F R Lobo
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
| | - Ricardo M Borges
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
| | - Mauro B de Amorim
- Instituto de Pesquisas de Produtos Naturais, Universidade Federal do Rio de Janeiro , 21941-902, Rio de Janeiro, RJ, Brazil
| | - Prasad L Polavarapu
- Department of Chemistry, Vanderbilt University , Nashville, Tennessee 37235, United States
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42
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43
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Ye Y, Minami A, Mandi A, Liu C, Taniguchi T, Kuzuyama T, Monde K, Gomi K, Oikawa H. Genome Mining for Sesterterpenes Using Bifunctional Terpene Synthases Reveals a Unified Intermediate of Di/Sesterterpenes. J Am Chem Soc 2015; 137:11846-53. [PMID: 26332841 DOI: 10.1021/jacs.5b08319] [Citation(s) in RCA: 128] [Impact Index Per Article: 14.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Genome mining is a promising method to discover novel secondary metabolites in the postgenomic era. We applied the Aspergillus oryzae heterologous expression system to functionally characterize cryptic bifunctional terpene synthase genes found in fungal genomes and identified the sesterfisherol synthase gene (NfSS) from Neosartorya fischeri. Sesterfisherol contains a characteristic 5-6-8-5 tetracyclic ring system and is modified by cytochrome P450 monooxygenase (NfP450) to sesterfisheric acid. The cyclization mechanism was proposed on the basis of the analysis of in vivo and in vitro enzymatic reactions with isotopically labeled precursors. The mechanism involves C1 cation-olefin IV-olefin V cyclization followed by five hydride shifts, allowing us to propose a unified biogenesis for sesterterpenes branching from bicyclic (5-15), tricyclic (5-12-5), and tetracyclic (5-6-8-5) cation intermediates. Furthermore, the mechanism is distinct from that of a separate class of di/sesterterpenes including fusicoccins and ophiobolins. The difference between mechanisms is consistent with phylogenetic analysis of bifunctional terpene synthases, suggesting that the amino acid sequence reflects the initial cyclization mode, which is most likely related to the initial conformation of a linear prenyl diphosphate.
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Affiliation(s)
| | | | | | | | | | - Tomohisa Kuzuyama
- Biotechnology Research Center, The University of Tokyo , Tokyo 113-8657, Japan
| | | | - Katsuya Gomi
- Graduate School of Agricultural Science, Tohoku University , Sendai 981-8555, Japan
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44
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Andrade MS, Silva VS, Lourenço AM, Lobo AM, Rzepa HS. Chiroptical properties of streptorubin B: the synergy between theory and experiment. Chirality 2015; 27:745-51. [PMID: 26316261 DOI: 10.1002/chir.22486] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2015] [Revised: 05/18/2015] [Accepted: 07/02/2015] [Indexed: 11/06/2022]
Abstract
Analysis of the calculated and measured optical rotation (OR) together with other calculated chiroptical properties such as electronic circular dichroism (ECD) and vibrational circular dichroism (VCD) of the prodigiosin alkaloid streptorubin B shows that these are dominated by the pseudoenantiomeric atropisomers anti-(S)-streptorubin B (1A) and syn-(S)-streptorubin (1B). Atropisomerism is a dynamic phenomenon with a potentially nonequilibrium population of isomers, and accordingly the measured chiroptical responses may vary with time, concentration, temperature, and the anion of the salts used. Streptorubin also has the potential to form stacked homodimers for which the optical rotations measured at 589 nm can vary greatly due to the presence of ECD-active electronic transitions in this region.
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Affiliation(s)
- Marta S Andrade
- Department of Chemistry, REQUIMTE/LAQV, Faculty of Sciences and Technology, Universidade NOVA de Lisboa, Caparica, Portugal
| | - Vanessa S Silva
- Department of Chemistry, REQUIMTE/LAQV, Faculty of Sciences and Technology, Universidade NOVA de Lisboa, Caparica, Portugal
| | - Ana M Lourenço
- Department of Chemistry, REQUIMTE/LAQV, Faculty of Sciences and Technology, Universidade NOVA de Lisboa, Caparica, Portugal
| | - Ana M Lobo
- Department of Chemistry, REQUIMTE/LAQV, Faculty of Sciences and Technology, Universidade NOVA de Lisboa, Caparica, Portugal
| | - Henry S Rzepa
- Department of Chemistry, Imperial College London, South Kensington Campus, Exhibition Road, London, UK
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45
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Lahiri P, Wiberg KB, Vaccaro PH. Intrinsic Optical Activity and Large-Amplitude Displacement: Conformational Flexibility in (R)-Glycidyl Methyl Ether. J Phys Chem A 2015; 119:8311-27. [DOI: 10.1021/acs.jpca.5b05177] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Priyanka Lahiri
- Department of Chemistry, Yale University, P.O.
Box 208107, New Haven, Connecticut 06520-8107, United States
| | - Kenneth B. Wiberg
- Department of Chemistry, Yale University, P.O.
Box 208107, New Haven, Connecticut 06520-8107, United States
| | - Patrick H. Vaccaro
- Department of Chemistry, Yale University, P.O.
Box 208107, New Haven, Connecticut 06520-8107, United States
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46
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Mirion M, Andernach L, Stobe C, Barjau J, Schollmeyer D, Opatz T, Lützen A, Waldvogel SR. Synthesis and Isolation of Enantiomerically Enriched Cyclopenta[b]benzofurans Based on Products from Anodic Oxidation of 2,4-Dimethylphenol. European J Org Chem 2015. [DOI: 10.1002/ejoc.201500600] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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47
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Vidal LN, Egidi F, Barone V, Cappelli C. Origin invariance in vibrational resonance Raman optical activity. J Chem Phys 2015; 142:174101. [DOI: 10.1063/1.4918935] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Luciano N. Vidal
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via Moruzzi 3, 56124 Pisa, Italy
| | - Franco Egidi
- Department of Chemistry, University of Washington, Seattle, Washington 98195, USA
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Chiara Cappelli
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via Moruzzi 3, 56124 Pisa, Italy
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48
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Molteni E, Onida G, Tiana G. Conformational Dependence of the Circular Dichroism Spectra of Single Amino Acids from Plane-Waves-Based Density Functional Theory Calculations. J Phys Chem B 2015; 119:4803-11. [DOI: 10.1021/jp5118568] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- E. Molteni
- Department
of Physics, Università degli Studi di Milano, via Celoria
16, 20133 Milano, Italy
| | - G. Onida
- Department
of Physics, Università degli Studi di Milano, via Celoria
16, 20133 Milano, Italy
| | - G. Tiana
- Department
of Physics, Università degli Studi di Milano, via Celoria
16, 20133 Milano, Italy
- INFN, sezione
di Milano, via Celoria 16, 20133 Milano, Italy
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49
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Tedesco D, Bertucci C. Induced circular dichroism as a tool to investigate the binding of drugs to carrier proteins: Classic approaches and new trends. J Pharm Biomed Anal 2015; 113:34-42. [PMID: 25769668 DOI: 10.1016/j.jpba.2015.02.024] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2015] [Accepted: 02/12/2015] [Indexed: 10/24/2022]
Abstract
Induced circular dichroism (ICD) is a spectroscopic phenomenon that provides versatile and useful methods for characterizing the structural and dynamic properties of the binding of drugs to target proteins. The understanding of biorecognition processes at the molecular level is essential to discover and validate new pharmacological targets, and to design and develop new potent and selective drugs. The present article reviews the main applications of ICD to drug binding studies on serum carrier proteins, going from the classic approaches for the derivation of drug binding parameters and the identification of binding sites, to an overview of the emerging trends for the characterization of binding modes by means of quantum chemical (QC) techniques. The advantages and limits of the ICD methods for the determination of binding parameters are critically reviewed; the capability to investigate the binding interactions of drugs and metabolites to their target proteins is also underlined, as well as the possibility of characterizing the binding sites to obtain a complete picture of the binding mechanism and dynamics. The new applications of ICD methods to identify stereoselective binding modes of drug/protein complexes are then reviewed with relevant examples. The combined application of experimental ICD spectroscopy and QC calculations is shown to identify qualitatively the bound conformations of ligands to target proteins even in the absence of a detailed structure of the binding sites, either obtained from experimental X-ray crystallography and NMR measurements or from computational models of the complex.
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Affiliation(s)
- Daniele Tedesco
- Department of Pharmacy and Biotechnology, University of Bologna, via Belmeloro 6, 40126 Bologna, Italy
| | - Carlo Bertucci
- Department of Pharmacy and Biotechnology, University of Bologna, via Belmeloro 6, 40126 Bologna, Italy.
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50
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Calvo F. Atomistic Modeling of IR Action Spectra Under Circularly Polarized Electromagnetic Fields: Toward Action VCD Spectra. Chirality 2015; 27:253-61. [DOI: 10.1002/chir.22421] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2014] [Revised: 11/06/2014] [Accepted: 11/28/2014] [Indexed: 11/12/2022]
Affiliation(s)
- Florent Calvo
- Laboratoire Interdisciplinaire de Physique; Université Joseph Fourier; Grenoble France
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