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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Forson E, Parsons T, Caricato M. First Principles Simulations of Optical Rotation of Chiral Molecular Crystals. Chirality 2024; 36:e23709. [PMID: 39101242 DOI: 10.1002/chir.23709] [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: 06/11/2024] [Revised: 07/12/2024] [Accepted: 07/15/2024] [Indexed: 08/06/2024]
Abstract
In this work, we present simulations of the optical rotation (OR) for five molecular crystals at density functional theory level with periodic boundary conditions (DFT-PBC). Calculations are compared with experimental measurements and show semi-quantitative agreement with experimental data for three of the crystals: tartatic acid, benzil, and pentaerythritol. For the other two crystals, aspartic acid and glutamic acid, the calculated data are in qualitative agreement with, but two orders of magnitude smaller than, the experimental data. We provide some arguments that support the theoretical predictions and suggest that the experiments should be revisited. We also find that the position of H centers provided in experimental X-ray data is not sufficiently reliable for simulating OR, and better results are obtained when H atoms are allowed to relax while keeping heavier elements fixed at the experimental positions. Comparison with molecular cluster calculations with a better functional and a larger basis set indicate that the role of intermolecular interactions (reproduced with the PBC technique) is as or more important than the choice of model chemistry. Despite the current limitations in the level of theory that can be employed, these simulations provide a promising avenue to investigate the effect of intermolecular interactions on this sensitive electronic property of molecules and materials.
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Affiliation(s)
- Emmanuel Forson
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
| | - Taylor Parsons
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
| | - Marco Caricato
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
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3
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Nottoli M, Vanich E, Cupellini L, Scalmani G, Pelosi C, Lipparini F. Importance of Polarizable Embedding for Computing Optical Rotation: The Case of Camphor in Ethanol. J Phys Chem Lett 2024:7992-7999. [PMID: 39078659 DOI: 10.1021/acs.jpclett.4c01550] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/31/2024]
Abstract
Solvation effects on optical rotation are notoriously challenging to model for computational chemistry, as the specific rotatory power of a molecule can vary wildly going from apolar to polar or even protic solvents. To address such a problem, we present a polarizable embedding implementation of an electric and magnetic response property based on density functional theory and the AMOEBA polarizable force field, and apply such an implementation to the study of the optical rotation of camphor in ethanol. By comparing a continuum model, and electrostatic and polarizable embedding QM/MM models, we observe that accounting for the environment's polarization gives rise to not only a different quantitative prediction, in very good agreement with experiments for the QM/AMOEBA model, but also to a very different qualitative picture, with the values of the optical rotation computed along a classical molecular dynamics trajectory with electrostatic embedding being statistically uncorrelated to the ones obtained with the polarizable description.
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Affiliation(s)
- Michele Nottoli
- Institute of Applied Analysis and Numerical Simulation, Universität Stuttgart, Pfaffenwaldring 57, D-70569, Stuttgart, Germany
| | - Edoardo Vanich
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, I-56124 Pisa, Italy
| | - Lorenzo Cupellini
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, I-56124 Pisa, Italy
| | - Giovanni Scalmani
- Gaussian, Inc., 340 Quinnipiac Street Building 40, Wallingford, Connecticut 06492, United States
| | - Chiara Pelosi
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, I-56124 Pisa, Italy
| | - Filippo Lipparini
- Dipartimento di Chimica e Chimica Industriale, Università di Pisa, Via G. Moruzzi 13, I-56124 Pisa, Italy
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4
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Gustafson A, Sburlati S, Kahr B. Computed Gyration Tensors of Knotted Chiral and Achiral Topological Stereoisomers of C 60 Cyclocarbons. Chemphyschem 2024; 25:e202400277. [PMID: 38606486 DOI: 10.1002/cphc.202400277] [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: 03/12/2024] [Revised: 04/10/2024] [Accepted: 04/10/2024] [Indexed: 04/13/2024]
Abstract
The electronic origins of the computed optical rotations of the simplest chiral and achiral chemical knots with comparatively simple compositions and large, anticipated magnetoelectric polarizabilities are provided. Linear response theory (LRT) is used to calculate the gyration at 1064 nm of two knotted polyyne chains, topological stereoisomers of cyclo[60]carbon. One isomer is analogous to the trefoil knot with approximate D3 symmetry and the other to the figure eight knot with approximate S4 symmetry. The response in each case can be attributed largely to the magnetic dipole term that arises in a near degenerate E-like excited state. An oriented achiral figure eight knot is as optically active in some directions as the chiral knot in any direction, and its absolute eigenvalues are larger.
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Affiliation(s)
- Afton Gustafson
- Department of Chemistry and Molecular Design Institute, New York University, 100 Washington Square East, Room 1001, New York City, New York, 10003, USA
| | - Sophia Sburlati
- Department of Chemistry and Molecular Design Institute, New York University, 100 Washington Square East, Room 1001, New York City, New York, 10003, USA
| | - Bart Kahr
- Department of Chemistry and Molecular Design Institute, New York University, 100 Washington Square East, Room 1001, New York City, New York, 10003, USA
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5
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Guglielmi P, Pulitelli G, Arrighi F, Secci D, Pierini M, Cirilli R. Chiral Hydroxy Metabolite of Mebendazole: Analytical and Semi-Preparative High-Performance Liquid Chromatography Resolution and Chiroptical Properties. Pharmaceuticals (Basel) 2024; 17:696. [PMID: 38931363 PMCID: PMC11206943 DOI: 10.3390/ph17060696] [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: 03/27/2024] [Revised: 05/17/2024] [Accepted: 05/20/2024] [Indexed: 06/28/2024] Open
Abstract
Mebendazole (MBZ) is a benzimidazole carbamate anthelmintic used worldwide for the treatment and prevention of parasitic disorders in animals and humans. A large number of in vivo and in vitro studies have demonstrated that MBZ also has anticancer activity in multiple types of cancers. After oral administration, the phenylketone moiety of MBZ is rapidly reduced to the hydroxyl group to form the chiral hydroxy metabolite (MBZ-OH). To the best of our knowledge, there is no information in the literature on the stereochemical course of transformation and the anthelmintic and antitumor activity of individual enantiomers of MBZ-OH. In the present study, we describe in detail the direct HPLC resolution of MBZ-OH on a 100 mm × 4.6 mm Chirapak IG-3 column packed with 3 μm silica particles containing amylose (3-chloro-5-methylphenylcarbamate) as a selector. At 25 °C and using pure methanol as the mobile phase, the enantioseparation and resolution factors were 2.38 and 6.13, respectively. These conditions were scaled up at a semi-preparative scale using a 250 mm × 10 mm Chiralpak IG column to isolate multi-milligram amounts of both enantiomeric forms of the chiral metabolite. The chiroptical properties of the collected enantiomers were determined and, through a theoretical study, were related to the more stable conformations of MBZ-OH. The first and second eluted enantiomers were dextrorotatory and levorotatory, respectively, in dimethylformamide solution. Finally, by recording the retention factors of the enantiomers as the water content in the water-acetonitrile mobile phases was progressively varied, U-shaped retention maps were generated, indicating a dual and competitive hydrophilic interaction liquid chromatography and reversed-phase liquid chromatography retention mechanism on the Chirapak IG-3 chiral stationary phase.
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Affiliation(s)
- Paolo Guglielmi
- Department of Chemistry and Technology of Drugs, Sapienza University of Rome, 00185 Rome, Italy; (P.G.); (F.A.); (D.S.) (M.P.)
| | - Gaia Pulitelli
- Department of Chemistry and Technology of Drugs, Sapienza University of Rome, 00185 Rome, Italy; (P.G.); (F.A.); (D.S.) (M.P.)
- National Centre for the Control and Evaluation of Medicines, Chemical Medicines Unit, Istituto Superiore di Sanità, Viale Regina Elena 299, 00161 Rome, Italy
| | - Francesca Arrighi
- Department of Chemistry and Technology of Drugs, Sapienza University of Rome, 00185 Rome, Italy; (P.G.); (F.A.); (D.S.) (M.P.)
| | - Daniela Secci
- Department of Chemistry and Technology of Drugs, Sapienza University of Rome, 00185 Rome, Italy; (P.G.); (F.A.); (D.S.) (M.P.)
| | - Marco Pierini
- Department of Chemistry and Technology of Drugs, Sapienza University of Rome, 00185 Rome, Italy; (P.G.); (F.A.); (D.S.) (M.P.)
| | - Roberto Cirilli
- National Centre for the Control and Evaluation of Medicines, Chemical Medicines Unit, Istituto Superiore di Sanità, Viale Regina Elena 299, 00161 Rome, Italy
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6
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Parmar MP, Vala DP, Bhalodiya SS, Upadhyay DB, Patel CD, Patel SG, Gandholi SR, Shaik AH, Miller AD, Nogales J, Banerjee S, Padrón JM, Amri N, Kandukuri NK, Patel HM. A green bio-organic catalyst (taurine) promoted one-pot synthesis of ( R/ S)-2-thioxo-3,4-dihydropyrimidine(TDHPM)-5-carboxanilides: chiral investigations using circular dichroism and validation by computational approaches. RSC Adv 2024; 14:9300-9313. [PMID: 38505382 PMCID: PMC10949965 DOI: 10.1039/d4ra01391c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Accepted: 02/29/2024] [Indexed: 03/21/2024] Open
Abstract
Owing to the massive importance of dihydropyrimidine (DHPMs) scaffolds in the pharmaceutical industry and other areas, we developed an effective and sustainable one-pot reaction protocol for the synthesis of (R/S)-2-thioxo-DHPM-5-carboxanilides via the Biginelli-type cyclo-condensation reaction of aryl aldehydes, thiourea and various acetoacetanilide derivatives in ethanol at 100 °C. In this protocol, taurine was used as a green and reusable bio-organic catalyst. Twenty-three novel derivatives of (R/S)-TDHPM-5-carboxanilides and their structures were confirmed by various spectroscopy techniques. The aforementioned compounds were synthesized via the formation of one asymmetric centre, one new C-C bond, and two new C-N bonds in the final product. All the newly synthesized compounds were obtained in their racemic form with up to 99% yield. In addition, the separation of the racemic mixture of all the newly synthesized compounds was carried out by chiral HPLC (Prep LC), which provided up to 99.99% purity. The absolute configuration of all the enantiomerically pure isomers was determined using a circular dichroism study and validated by a computational approach. With up to 99% yield of 4d, this one-pot synthetic approach can also be useful for large-scale industrial production. One of the separated isomers (4R)-(+)-4S developed as a single crystal, and it was found that this crystal structure was orthorhombic.
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Affiliation(s)
- Mehul P Parmar
- P. G. Department of Chemistry, Sardar Patel University Near University Circle, Vallabh Vidyanagar 388120 Gujarat India
| | - Disha P Vala
- P. G. Department of Chemistry, Sardar Patel University Near University Circle, Vallabh Vidyanagar 388120 Gujarat India
| | - Savan S Bhalodiya
- P. G. Department of Chemistry, Sardar Patel University Near University Circle, Vallabh Vidyanagar 388120 Gujarat India
| | - Dipti B Upadhyay
- P. G. Department of Chemistry, Sardar Patel University Near University Circle, Vallabh Vidyanagar 388120 Gujarat India
| | - Chirag D Patel
- P. G. Department of Chemistry, Sardar Patel University Near University Circle, Vallabh Vidyanagar 388120 Gujarat India
| | - Subham G Patel
- P. G. Department of Chemistry, Sardar Patel University Near University Circle, Vallabh Vidyanagar 388120 Gujarat India
| | - Srinivasa R Gandholi
- YMC Application Lab Plot No. 78/A/6, Phase VI, Industrial Park Jeedimetla, Gajularamaram Village, Quthbullapur, Medchal Hyderabad-500055 Telangana India
| | - Althaf H Shaik
- YMC Application Lab Plot No. 78/A/6, Phase VI, Industrial Park Jeedimetla, Gajularamaram Village, Quthbullapur, Medchal Hyderabad-500055 Telangana India
| | - Amy Dunne Miller
- Department of Cellular and Systems Medicine, School of Medicine, University of Dundee Dundee UK
| | - Joaquina Nogales
- Department of Cellular and Systems Medicine, School of Medicine, University of Dundee Dundee UK
| | - Sourav Banerjee
- Department of Cellular and Systems Medicine, School of Medicine, University of Dundee Dundee UK
| | - José M Padrón
- BioLab, Instituto Universitario de Bio-Orgánica Antonio González, Universidad de La Laguna Avda. Astrofísico Francisco Sánchez 2 38206 La Laguna Spain
| | - Nasser Amri
- Department of Chemistry, College of Science, Jazan University P.O. Box 2097 Jazan 45142 Saudi Arabia
| | - Nagesh Kumar Kandukuri
- YMC Application Lab Plot No. 78/A/6, Phase VI, Industrial Park Jeedimetla, Gajularamaram Village, Quthbullapur, Medchal Hyderabad-500055 Telangana India
| | - Hitendra M Patel
- P. G. Department of Chemistry, Sardar Patel University Near University Circle, Vallabh Vidyanagar 388120 Gujarat India
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7
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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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8
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Parsons T, Balduf T, Caricato M. On the choice of coordinate origin in length gauge optical rotation calculations. Chirality 2023; 35:708-717. [PMID: 37137811 DOI: 10.1002/chir.23575] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2023] [Accepted: 04/11/2023] [Indexed: 05/05/2023]
Abstract
In this work, we explore the issue of origin dependence in optical rotation (OR) calculations in the length dipole gauge (LG) using standard approximate methods belonging to density functional theory (DFT) and coupled cluster (CC) theory. We use the origin-invariant LG approach, LG(OI), that we recently proposed as reference for the calculations, and we study whether a proper choice of coordinate origin and molecular orientation can be made such that diagonal elements of the LG-OR tensor match those of the LG(OI) tensor. Using a numerical search algorithm, we show that multiple spatial orientations can be found where the LG and LG(OI) results match. However, a simple analytical procedure provides a spatial orientation where the origin of the coordinate system is close to the center of mass of the molecule. At the same time, we also show that putting the origin at the center of mass is not an ideal choice for every molecule (relative errors in the OR up to 70% can be obtained in out test set). Finally, we show that the choice of coordinate origin based on the analytical procedure is transferable across different methods and it is superior to putting the origin in the center of mass or center of nuclear charge. This is important because the LG(OI) approach is trivial to implement for DFT, but not necessarily for nonvariational methods in the CC family. Therefore, one can determine an optimal coordinate origin at DFT level and use it for standard LG-CC response calculations.
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Affiliation(s)
- Taylor Parsons
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
| | - Ty Balduf
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
| | - Marco Caricato
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
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9
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Naseem M, Asghar S, Farooq U, Lakhani A, Altaf Y, Hashmi MA. Determination of the Absolute Configuration of Ballonigrin Lactone A Using Density Functional Theory Calculations. ACS OMEGA 2023; 8:1923-1928. [PMID: 36687041 PMCID: PMC9850775 DOI: 10.1021/acsomega.2c03858] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/20/2022] [Accepted: 12/21/2022] [Indexed: 06/17/2023]
Abstract
We report the determination of the absolute configuration of a diterpenoid, namely, ballonigrin lactone A (BLA), by comparison of the computed optical rotations, [α]D, of its two diastereomers using density functional theory (DFT) calculations to the experimental [α]D value of +22.4. One of the diastereomers having configurations 4S, 5R, 6S, 10S, 15S was named "α-BLA," and the other one with configuration 4S, 5R, 6S, 10S, 15R was called "β-BLA". Six conformers for each diastereomer (α-BLA and β-BLA) of BLA were identified through their conformational analysis. [α]D values of these six conformations for each diastereomer were calculated using DFT at the mPW1PW91/6-311G(d,p)/SMDChloroform level of theory, leading to the conformationally averaged [α]D values of -96.8 for α-BLA and +65.1 for β-BLA. Thus, it was found that the experimental [α]D value of +22.4 was of 4S, 5R, 6S, 10S, 15R, i.e., β-BLA. Experimental and computed nuclear magnetic resonance (NMR) data were also compared, and this comparison was in accordance with the conclusion drawn from the comparison of [α]D values. Finally, the results were augmented with the calculation of the DP4 analysis, and the probability obtained also endorsed our earlier calculations.
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Affiliation(s)
- Misbah Naseem
- Department
of Chemistry, Division of Science & Technology, University of Education, 54770 Lahore, Pakistan
| | - Saleha Asghar
- Department
of Chemistry, Division of Science & Technology, University of Education, 54770 Lahore, Pakistan
| | - Umar Farooq
- Department
of Chemistry, COMSATS University Islamabad,
Abbottabad Campus, 22060 Abbottabad, Pakistan
| | - Ahmed Lakhani
- Department
of Biomedical and Health Sciences, Calumet
College of St. Joseph, 2400, New York Avenue, Whiting, Indiana 46394, United States
| | - Yasir Altaf
- Department
of Chemistry, Division of Science & Technology, University of Education, 54770 Lahore, Pakistan
| | - Muhammad Ali Hashmi
- Department
of Chemistry, Division of Science & Technology, University of Education, 54770 Lahore, Pakistan
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10
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Yang Y, Krin A, Cai X, Poopari MR, Zhang Y, Cheeseman JR, Xu Y. Conformations of Steroid Hormones: Infrared and Vibrational Circular Dichroism Spectroscopy. Molecules 2023; 28:molecules28020771. [PMID: 36677830 PMCID: PMC9864676 DOI: 10.3390/molecules28020771] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2022] [Revised: 01/09/2023] [Accepted: 01/10/2023] [Indexed: 01/13/2023] Open
Abstract
Steroid hormone molecules may exhibit very different functionalities based on the associated functional groups and their 3D arrangements in space, i.e., absolute configurations and conformations. Infrared (IR) and vibrational circular dichroism (VCD) spectra of four different steroid hormones, namely dehydroepiandrosterone (DHEA), 17α-methyltestosterone (MTTT), (16α,17)-epoxyprogesterone (Epoxy-P4), and dehydroepiandrosterone acetate (AcO-DHEA), were measured in deuterated dimethyl sulfoxide and some also in carbon tetrachloride. Extensive conformational searches were carried out using the recent developed conformer-rotamer ensemble sampling tool (CREST) which also accounts for solvent effects using an implicit solvation model. All the CREST conformational candidates were then reoptimized at the B3LYP-D3BJ/def2-TZVPD with the PCM of solvent. The good agreements between the experimental IR and VCD spectra and the theoretical simulations provide a conclusive information about their conformational distribution and absolute configurations. The experimental and theoretical IR and VCD spectra of AcO-DHEA in the carbonyl and alkene stretching region showed some discrepancies, and the possible causes related to solvent effects, large amplitude motions and levels of theory used in the modelling were explored in detail. As part of the investigation, additional calculations at the B3LYP-D3BJ/6-31++G (2d,p) and B3LYP-D3BJ/cc-pVTZ levels, as well as some 'mixed' calculations with the double-hybrid functional B2PLYP-D3 were also carried out. The results indicate that the double-hybrid functional is important for predicting the correct IR band pattern in the carbonyl and alkene stretching region.
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Affiliation(s)
- Yanqing Yang
- Department of Chemistry, University of Alberta, Edmonton, AB T6G 2G2, Canada
| | - Anna Krin
- Department of Chemistry, University of Alberta, Edmonton, AB T6G 2G2, Canada
- Centre for Science and Peace Research (ZNF), Universität Hamburg, Bogenallee 11, 20144 Hamburg, Germany
| | - Xiaoli Cai
- Department of Chemistry, University of Alberta, Edmonton, AB T6G 2G2, Canada
- Key Laboratory for Green Chemical Process of Ministry of Education, Wuhan Institute of Technology, Wuhan 430073, China
| | | | - Yuefei Zhang
- Key Laboratory for Green Chemical Process of Ministry of Education, Wuhan Institute of Technology, Wuhan 430073, China
| | - James R. Cheeseman
- Gaussian Inc., 340 Quinnipiac St., Bldg., 40, Wallingford, CT 06492-4050, USA
| | - Yunjie Xu
- Department of Chemistry, University of Alberta, Edmonton, AB T6G 2G2, Canada
- Correspondence: ; Tel.: +1-780-402-1244
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11
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Stereochemistry of Chiral 2-Substituted Chromanes: Twist of the Dihydropyran Ring and Specific Optical Rotation. MOLECULES (BASEL, SWITZERLAND) 2023; 28:molecules28010439. [PMID: 36615631 PMCID: PMC9823451 DOI: 10.3390/molecules28010439] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/10/2022] [Revised: 12/27/2022] [Accepted: 12/28/2022] [Indexed: 01/06/2023]
Abstract
Chiral 2-substituted chromanes are important substructures in organic synthesis and appear in numerous natural products. Herein, the correlation between specific optical rotations (SORs) and the stereochemistry at C2 of chiral 2-substituted chromanes was investigated through data mining, quantum-chemical calculations using density functional theory (DFT), and mechanistic analyses. For 2-aliphatic (including acyloxy and alkenyl) chromanes, the P-helicity of the dihydropyran ring usually corresponds to a positive SOR; however, 2-aryl chromanes with P-helicity tend to exhibit negative SORs. 2-Carboxyl (including alkoxycarbonyl and carbonyl) chromanes often display small experimental SORs, and theoretical calculations for them are prone to error because of the fluctuating conformational distribution with computational parameters. Several typical compounds were discussed, including detailed descriptions of the asymmetric synthesis, absolute configuration (AC) assignment methods, and systematic conformational analysis. We hope this work will enrich the knowledge of the stereochemistry of chiral 2-substituted chromanes.
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12
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Fuentes-Monteverde JCC, Nath N, Forero AM, Balboa EM, Navarro-Vázquez A, Griesinger C, Jiménez C, Rodríguez J. Connection of Isolated Stereoclusters by Combining 13C-RCSA, RDC, and J-Based Configurational Analyses and Structural Revision of a Tetraprenyltoluquinol Chromane Meroterpenoid from Sargassum muticum. Mar Drugs 2022; 20:462. [PMID: 35877755 PMCID: PMC9319238 DOI: 10.3390/md20070462] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Revised: 07/06/2022] [Accepted: 07/15/2022] [Indexed: 12/10/2022] Open
Abstract
The seaweed Sargassum muticum, collected on the southern coast of Galicia, yielded a tetraprenyltoluquinol chromane meroditerpene compound known as 1b, whose structure is revised. The relative configuration of 1b was determined by J-based configurational methodology combined with an iJ/DP4 statistical analysis and further confirmed by measuring two anisotropic properties: carbon residual chemical shift anisotropies (13C-RCSAs) and one-bond 1H-13C residual dipolar couplings (1DCH-RDCs). The absolute configuration of 1b was deduced by ECD/OR/TD-DFT methods and established as 3R,7S,11R.
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Affiliation(s)
- Juan Carlos C. Fuentes-Monteverde
- Departamento de Química e Centro de Investigacións Científicas Avanzadas (CICA), Universidade da Coruña, 15071 A Coruña, Spain; (J.C.C.F.-M.); (A.M.F.)
- NMR Based Structural Biology, MPI for Multidisciplinary Sciences, Am Fassberg 11, 37077 Göttingen, Germany
| | - Nilamoni Nath
- Department of Chemistry, Gauhati University, Gopinath Bardoloi Nagar, Guwahati 781014, India;
| | - Abel M. Forero
- Departamento de Química e Centro de Investigacións Científicas Avanzadas (CICA), Universidade da Coruña, 15071 A Coruña, Spain; (J.C.C.F.-M.); (A.M.F.)
| | - Elena M. Balboa
- Department of Chemical Engineering, Faculty of Science, Campus Ourense, University of Vigo, As Lagoas s/n, 32004 Ourense, Spain;
| | - Armando Navarro-Vázquez
- Departamento de Química Fundamental, CCEN, Universidade Federal de Pernambuco, Cidade Universitária, Recife 50740-550, Brazil;
| | - Christian Griesinger
- NMR Based Structural Biology, MPI for Multidisciplinary Sciences, Am Fassberg 11, 37077 Göttingen, Germany
| | - Carlos Jiménez
- Departamento de Química e Centro de Investigacións Científicas Avanzadas (CICA), Universidade da Coruña, 15071 A Coruña, Spain; (J.C.C.F.-M.); (A.M.F.)
| | - Jaime Rodríguez
- Departamento de Química e Centro de Investigacións Científicas Avanzadas (CICA), Universidade da Coruña, 15071 A Coruña, Spain; (J.C.C.F.-M.); (A.M.F.)
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13
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de Albuquerque Barros G, Henrique Morgon N. Finding reliable methodology for optical rotation and correct predictions of (s)-methyloxirane and (1R,5R)-β-pinene. Chirality 2022; 34:1197-1208. [PMID: 35670135 DOI: 10.1002/chir.23479] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2022] [Revised: 05/20/2022] [Accepted: 05/24/2022] [Indexed: 12/25/2022]
Abstract
Theoretical calculations of optical rotation (OR), although important to predict absolute configurations (ACs) and corroborate experiments, require efficient methodology able to reproduce enantiomer specificity and real OR values. Also, troublesome molecules are recurring in the literature, such as (S)-methyloxirane and (1R,5R)-β-pinene. This study evaluates DFT functionals B3LYP, CAM-B3LYP, ωB97X-D, M06-2X, and PBE0 considering basis sets aug-cc-pVDZ, aug-cc-pVTZ, 6-311++G(2d,p), and 6-311++G(3df,2p) in OR prediction of 42 rigid organic molecules assessing cases with wrong enantiomeric determination comparing to available experimental data at wavelengths 355, 589, and 633 nm. Functionals CAM-B3LYP and ωB97X-D with aug-cc-pVTZ are indicated here to reproduce experimental values more accurately considering fewer number of wrong AC predictions, normalized RMSD values below 0.70, and a good approximation to experimental values in hierarchical cluster analysis. Methyloxirane AC was reproduced in CAM-B3LYP and PBE0, with [ α ] 355 = 6 . 94 $$ {\left[\alpha \right]}_{355}=6.94 $$ for CAM-B3LYP/aug-cc-pVTZ close to experimental value [ α ] 355 = 7 . 49 ± 0 . 30 $$ {\left[\alpha \right]}_{355}=7.49\pm 0.30 $$ . Good results were found for AC of β-pinene in M06-2X, CAM-B3LYP, and ωB97X-D while the latter in 6-311++G(3df,2p) obtained OR values of [ α ] 589 = 3 . 44 $$ {\left[\alpha \right]}_{589}=3.44 $$ and [ α ] 689 = 4 . 20 $$ {\left[\alpha \right]}_{689}=4.20 $$ close to experimental values [ α ] 589 = 2 . 8 $$ {\left[\alpha \right]}_{589}=2.8 $$ and [ α ] 689 = 4 . 66 ± 0 . 60 $$ {\left[\alpha \right]}_{689}=4.66\pm 0.60 $$ . The two molecules aforementioned are, for the first time, reported to give valid theoretical OR values in such simple methodologies. OR calculations were all performed after geometry optimization at the same level of theory, and analysis of different functional combinations for each step in β-pinene showed it can interfere with AC prediction even in rigid molecules.
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Affiliation(s)
| | - Nelson Henrique Morgon
- Department of Physical Chemistry, Institute of Chemistry, Campinas State University, Campinas, Brazil
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14
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Parsons T, Balduf T, Cheeseman JR, Caricato M. Basis Set Dependence of Optical Rotation Calculations with Different Choices of Gauge. J Phys Chem A 2022; 126:1861-1870. [PMID: 35271772 DOI: 10.1021/acs.jpca.2c00201] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
In this work, the basis set dependence of optical rotation (OR) calculations is examined for various choices of gauge/level of theory. The OR is calculated for a set of 50 molecules using B3LYP and CAM-B3LYP and 17 molecules using coupled cluster with single and double excitations (CCSD). The calculations employ the correlation-consistent basis sets, aug-cc-pVζZ with ζ = D, T, Q. An inverse-power extrapolation formula is then utilized to obtain OR values at the complete basis set (CBS) limit. We investigate the basis set convergence for these methods and three choices of gauge: length gauge (with gauge-including atomic orbitals, LG(GIAOs), for DFT), the origin-invariant length gauge [LG(OI)], and the modified velocity gauge (MVG). The results show that all methods converge smoothly to the CBS limit and that the LG(OI) approach has a slightly faster convergence rate than the other choices of gauge. While the DFT methods reach gauge invariance at the CBS limit, CCSD does not. The significant difference between the MVG and LG(OI) results at the CBS limit, 26%, indicates that CCSD is not quite at convergence in the description of electron correlation for this property. On the other hand, gauge invariance at the CBS limit for DFT does not lead to the same OR values for the two density functionals, which is also due to electron correlation incompleteness. A limited comparison to gas-phase experimental OR values for the DFT methods shows that CAM-B3LYP seems more accurate than B3LYP. Overall, this study shows that the LG(OI) approach with the aug-cc-pVTZ basis set for DFT, and with the CBS(DT) extrapolation for CCSD, provides a good cost/accuracy balance.
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Affiliation(s)
- Taylor Parsons
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
| | - Ty Balduf
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
| | - James R Cheeseman
- Gaussian, Inc., 340 Quinnipiac Street, Building 40, Wallingford, Connecticut 06492, United States
| | - Marco Caricato
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
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15
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16
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Lim HJ, An JS, Bae ES, Cho E, Hwang S, Nam SJ, Oh KB, Lee SK, Oh DC. Ligiamycins A and B, Decalin-Amino-Maleimides from the Co-Culture of Streptomyces sp. and Achromobacter sp. Isolated from the Marine Wharf Roach, Ligia exotica. Mar Drugs 2022; 20:83. [PMID: 35200613 PMCID: PMC8878407 DOI: 10.3390/md20020083] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2021] [Revised: 01/08/2022] [Accepted: 01/11/2022] [Indexed: 02/04/2023] Open
Abstract
Streptomyces sp. GET02.ST and Achromobacter sp. GET02.AC were isolated together from the gut of the wharf roach, Ligia exotica, inhabiting the intertidal zone of the west coast of Korea. The co-cultivation of these two strains significantly induced the production of two new metabolites, ligiamycins A (1) and B (2), which were barely detected in the single culture of Streptomyces sp. GET02.ST. The planar structures of ligiamycins A (1) and B (2) were elucidated as new decalins coupled with amino-maleimides by the analysis of various spectroscopic data, including nuclear magnetic resonance (NMR), ultraviolet (UV), and mass (MS) data. The assignment of two nitrogen atoms in amino-maleimide in 1 was accomplished based on 1H-15N heteroatom single quantum coherence spectroscopy (HSQC) NMR experiments. The relative configurations of the ligiamycins were determined using rotating frame Overhauser effect spectroscopy (ROESY) NMR data, and their absolute configurations were deduced by comparing their experimental and calculated optical rotations. Ligiamycin A (1) displayed antibacterial effects against Staphylococcus aureus and Salmonella enterica, while ligiamycin B (2) exhibited mild cell cytotoxicity against human colorectal cancer cells.
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Affiliation(s)
- Hyung-Ju Lim
- Natural Products Research Institute, College of Pharmacy, Seoul National University, Seoul 08826, Korea; (H.-J.L.); (J.S.A.); (E.S.B.); (S.H.); (S.K.L.)
| | - Joon Soo An
- Natural Products Research Institute, College of Pharmacy, Seoul National University, Seoul 08826, Korea; (H.-J.L.); (J.S.A.); (E.S.B.); (S.H.); (S.K.L.)
| | - Eun Seo Bae
- Natural Products Research Institute, College of Pharmacy, Seoul National University, Seoul 08826, Korea; (H.-J.L.); (J.S.A.); (E.S.B.); (S.H.); (S.K.L.)
| | - Eunji Cho
- Department of Agriculture Biotechnology, College of Agriculture and Life Sciences, Seoul National University, Seoul 08826, Korea; (E.C.); (K.-B.O.)
| | - Sunghoon Hwang
- Natural Products Research Institute, College of Pharmacy, Seoul National University, Seoul 08826, Korea; (H.-J.L.); (J.S.A.); (E.S.B.); (S.H.); (S.K.L.)
| | - Sang-Jip Nam
- Department of Chemistry and Nanoscience, Ewha Womans University, Seoul 03760, Korea;
| | - Ki-Bong Oh
- Department of Agriculture Biotechnology, College of Agriculture and Life Sciences, Seoul National University, Seoul 08826, Korea; (E.C.); (K.-B.O.)
| | - Sang Kook Lee
- Natural Products Research Institute, College of Pharmacy, Seoul National University, Seoul 08826, Korea; (H.-J.L.); (J.S.A.); (E.S.B.); (S.H.); (S.K.L.)
| | - Dong-Chan Oh
- Natural Products Research Institute, College of Pharmacy, Seoul National University, Seoul 08826, Korea; (H.-J.L.); (J.S.A.); (E.S.B.); (S.H.); (S.K.L.)
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17
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Domzalski A, Margent L, Vigo V, Dewan F, Pilarsetty NVK, Xu Y, Kawamura A. Unambiguous Stereochemical Assignment of Cyclo(Phe-Pro), Cyclo(Leu-Pro), and Cyclo(Val-Pro) by Electronic Circular Dichroic Spectroscopy. Molecules 2021; 26:molecules26195981. [PMID: 34641525 PMCID: PMC8512403 DOI: 10.3390/molecules26195981] [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: 08/19/2021] [Revised: 09/23/2021] [Accepted: 09/28/2021] [Indexed: 11/21/2022] Open
Abstract
2,5-diketopiperazines (DKPs) are cyclic dipeptides ubiquitously found in nature. In particular, cyclo(Phe-Pro), cyclo(Leu-Pro), and cyclo(Val-Pro) are frequently detected in many microbial cultures. Each of these DKPs has four possible stereoisomers due to the presence of two chirality centers. However, absolute configurations of natural DKPs are often ambiguous due to the lack of a simple, sensitive, and reproducible method for stereochemical assignment. This is an important problem because stereochemistry is a key determinant of biological activity. Here, we report a synthetic DKP library containing all stereoisomers of cyclo(Phe-Pro), cyclo(Leu-Pro), and cyclo(Val-Pro). The library was subjected to spectroscopic characterization using mass spectrometry, NMR, and electronic circular dichroism (ECD). It turned out that ECD can clearly differentiate DKP stereoisomers. Thus, our ECD dataset can serve as a reference for unambiguous stereochemical assignment of cyclo(Phe-Pro), cyclo(Leu-Pro), and cyclo(Val-Pro) samples from natural sources. The DKP library was also subjected to a biological screening using assays for E. coli growth and biofilm formation, which revealed distinct biological effects of cyclo(D-Phe-L-Pro).
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Affiliation(s)
- Alison Domzalski
- Biochemistry Ph.D. Program, The Graduate Center of CUNY, New York, NY 10016, USA; (A.D.); (F.D.); (Y.X.)
- Department of Chemistry, Hunter College of CUNY, New York, NY 10065, USA; (L.M.); (V.V.)
| | - Liliana Margent
- Department of Chemistry, Hunter College of CUNY, New York, NY 10065, USA; (L.M.); (V.V.)
| | - Valeria Vigo
- Department of Chemistry, Hunter College of CUNY, New York, NY 10065, USA; (L.M.); (V.V.)
| | - Faizunnahar Dewan
- Biochemistry Ph.D. Program, The Graduate Center of CUNY, New York, NY 10016, USA; (A.D.); (F.D.); (Y.X.)
- Department of Chemistry, Hunter College of CUNY, New York, NY 10065, USA; (L.M.); (V.V.)
| | | | - Yujia Xu
- Biochemistry Ph.D. Program, The Graduate Center of CUNY, New York, NY 10016, USA; (A.D.); (F.D.); (Y.X.)
- Department of Chemistry, Hunter College of CUNY, New York, NY 10065, USA; (L.M.); (V.V.)
- Chemistry Ph.D. Program, The Graduate Center of CUNY, New York, NY 10016, USA
| | - Akira Kawamura
- Biochemistry Ph.D. Program, The Graduate Center of CUNY, New York, NY 10016, USA; (A.D.); (F.D.); (Y.X.)
- Department of Chemistry, Hunter College of CUNY, New York, NY 10065, USA; (L.M.); (V.V.)
- Chemistry Ph.D. Program, The Graduate Center of CUNY, New York, NY 10016, USA
- Correspondence: ; Tel.: +1-212-772-5339
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18
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Tran DBA, Peverall R, Rosson S, Manfred KM, Ritchie GAD. High performance continuous-wave laser cavity enhanced polarimetry using RF-induced linewidth broadening. OPTICS EXPRESS 2021; 29:30114-30122. [PMID: 34614741 DOI: 10.1364/oe.435006] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2021] [Accepted: 08/10/2021] [Indexed: 06/13/2023]
Abstract
We present precise optical rotation measurements of gaseous chiral samples using near-IR continuous-wave cavity-enhanced polarimetry. Optical rotation is determined by comparing cavity ring-down signals for two counter-propagating beams of orthogonal polarisation which are subject to polarisation rotation by the presence of both an optically active sample and a magneto-optic crystal. A broadband RF noise source applied to the laser drive current is used to tune the laser linewidth and optimise the polarimeter, and this noise-induced laser linewidth is quantified using self-heterodyne beat-note detection. We demonstrate the optical rotation measurement of gas phase samples of enantiomers of α-pinene and limonene with an optimum detection precision of 10 µdeg per cavity pass and an uncertainty in the specific rotation of ∼0.1 deg dm-1 (g/ml)-1 and determine the specific rotation parameters at 730 nm, for (+)- and (-)-α-pinene to be 32.10 ± 0.13 and -32.21 ± 0.11 deg dm-1 (g/ml)-1, respectively. Measurements of both a pure R-(+)-limonene sample and a non-racemic mixture of limonene of unknown enantiomeric excess are also presented, illustrating the utility of the technique.
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19
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Ghosh S, Herink G, Perri A, Preda F, Manzoni C, Polli D, Cerullo G. Broadband Optical Activity Spectroscopy with Interferometric Fourier-Transform Balanced Detection. ACS PHOTONICS 2021; 8:2234-2242. [PMID: 34476287 PMCID: PMC8377715 DOI: 10.1021/acsphotonics.0c01866] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/09/2020] [Indexed: 06/13/2023]
Abstract
Spectrally resolved measurements of optical activity, such as circular dichroism (CD) and optical rotatory dispersion (ORD), are powerful tools to study chiroptical properties of (bio)molecular and nanoplasmonic systems. The wider utilization of these techniques, however, has been impeded by the bulky and slow design of conventional spectropolarimeters, which have been limited to a narrowband scanning approach for more than 50 years. In this work, we demonstrate broadband measurements of optical activity by combining a balanced detection scheme with interferometric Fourier-transform spectroscopy. The setup utilizes a linearly polarized light field that creates an orthogonally polarized weak chiral free-induction-decay field, along with a phase-locked achiral transmitted signal, which serves as the local oscillator for heterodyne amplification. By scanning the delay between the two fields with a birefringent common-path interferometer and recording their interferogram with a balanced detector that measures polarization rotation, broadband CD and ORD spectra are retrieved simultaneously with a Fourier transform. Using an incoherent thermal light source, we achieve state-of-the-art sensitivity for CD and ORD across a broad wavelength range in a remarkably simple setup. We further demonstrate the potential of our technique for highly sensitive measurements of glucose concentration and the real-time monitoring of ground-state chemical reactions. The setup also accepts broadband pulses and will be suitable for broadband transient optical activity spectroscopy and broadband optical activity imaging.
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Affiliation(s)
- Soumen Ghosh
- Dipartimento
di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, I-20133 Milano, Italy
| | - Georg Herink
- Experimental
Physics VIII, University of Bayreuth, D-95447 Bayreuth, Germany
| | - Antonio Perri
- Dipartimento
di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, I-20133 Milano, Italy
- NIREOS
S.R.L., Via G. Durando
39, 20158 Milano, Italy
| | - Fabrizio Preda
- Dipartimento
di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, I-20133 Milano, Italy
- NIREOS
S.R.L., Via G. Durando
39, 20158 Milano, Italy
| | - Cristian Manzoni
- Istituto
di Fotonica e Nanotecnologie (IFN)−CNR, Piazza Leonardo da Vinci 32, I-20133 Milano, Italy
| | - Dario Polli
- Dipartimento
di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, I-20133 Milano, Italy
- NIREOS
S.R.L., Via G. Durando
39, 20158 Milano, Italy
- Istituto
di Fotonica e Nanotecnologie (IFN)−CNR, Piazza Leonardo da Vinci 32, I-20133 Milano, Italy
| | - Giulio Cerullo
- Dipartimento
di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, I-20133 Milano, Italy
- NIREOS
S.R.L., Via G. Durando
39, 20158 Milano, Italy
- Istituto
di Fotonica e Nanotecnologie (IFN)−CNR, Piazza Leonardo da Vinci 32, I-20133 Milano, Italy
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20
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Caricato M, Balduf T. Origin invariant full optical rotation tensor in the length dipole gauge without London atomic orbitals. J Chem Phys 2021; 155:024118. [PMID: 34266245 DOI: 10.1063/5.0053450] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We present an origin-invariant approach to compute the full optical rotation tensor (Buckingham/Dunn tensor) in the length dipole gauge without recourse to London atomic orbitals, called LG(OI). The LG(OI) approach is simpler and less computationally demanding than the more common length gauge (LG)-London and modified velocity gauge (MVG) approaches, and it can be used with any approximate wave function or density functional method. We report an implementation at the coupled cluster with single and double excitations level (CCSD), for which we present the first simulations of the origin-invariant Buckingham/Dunn tensor in the LG. We compare LG(OI) and MVG results on a series of 22 organic molecules, showing good linear correlation between the approaches, although for small tensor elements, they provide values of opposite sign. We also attempt to decouple the effects of electron correlation and basis set incompleteness on the choice of gauge for specific rotation calculations on simple test systems. The simulations show a smooth convergence of the LG(OI) and MVG results with the basis set size toward the complete basis set limit. However, these preliminary results indicate that CCSD may not be close to a complete description of the electron correlation effects on this property even for small molecules and that basis set incompleteness may be a less important cause of discrepancy between choices of gauge than electron correlation incompleteness.
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Affiliation(s)
- Marco Caricato
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, USA
| | - Ty Balduf
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, USA
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21
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Pearce KC, Fuentes RG, Calderon S, Marolikar R, Kingston DGI, Crawford TD. Structure Elucidation and Confirmation of Phloroglucinols from the Roots of Garcinia dauphinensis by Comparison of Experimental and Calculated ECD Spectra and Specific Rotations. JOURNAL OF NATURAL PRODUCTS 2021; 84:1163-1174. [PMID: 33823109 DOI: 10.1021/acs.jnatprod.0c01208] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Eight phloroglucinols from Garcinia dauphinensis were recently reported to have good to moderate antiplasmodial and anticancer activities, consistent with other phloroglucinol derivatives isolated from natural sources. Chiroptical properties were previously calculated and compared to experimental data for compound 2 as a means to deduce its absolute configuration. Tentative assignments for the remaining compounds were also reported based on these data. In order to arrive at stereochemical assignments for phloroglucinols 1 and 3-8, ECD spectra and specific rotations were computed for all stereoisomers of each compound. Molecular orbital analyses were also carried out for the most energetically favorable conformers of each compound. Absolute configurations are reported for all eight phloroglucinols for the first time.
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Affiliation(s)
- Kirk C Pearce
- Department of Chemistry, Virginia Tech, Blacksburg, Virginia 24061, United States
| | - Rolly G Fuentes
- Department of Chemistry, Virginia Tech, Blacksburg, Virginia 24061, United States
- Virginia Tech Center for Drug Discovery, Virginia Tech, Blacksburg, Virginia 24061, United States
- Division of Natural Sciences and Mathematics, University of the Philippines Visayas Tacloban College, 6500 Tacloban City, Philippines
| | - Susana Calderon
- Department of Chemistry, Virginia Tech, Blacksburg, Virginia 24061, United States
| | - Rageshwari Marolikar
- Department of Chemistry, Virginia Tech, Blacksburg, Virginia 24061, United States
| | - David G I Kingston
- Department of Chemistry, Virginia Tech, Blacksburg, Virginia 24061, United States
- Virginia Tech Center for Drug Discovery, Virginia Tech, Blacksburg, Virginia 24061, United States
| | - T Daniel Crawford
- Department of Chemistry, Virginia Tech, Blacksburg, Virginia 24061, United States
- Molecular Sciences Software Institute, 1880 Pratt Drive, Suite 1100, Blacksburg, Virginia 24060, United States
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22
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Zhang K, Balduf T, Caricato M. Full optical rotation tensor at coupled cluster with single and double excitations level in the modified velocity gauge. Chirality 2021; 33:303-314. [PMID: 33826196 DOI: 10.1002/chir.23310] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2020] [Revised: 02/11/2021] [Accepted: 03/06/2021] [Indexed: 11/07/2022]
Abstract
This work presents the first simulations of the full optical rotation (OR) tensor at coupled cluster with single and double excitations (CCSD) level in the modified velocity gauge (MVG) formalism. The CCSD-MVG OR tensor is origin independent, and each tensor element can in principle be related directly to experimental measurements on oriented systems. We compare the CCSD results with those from two density functionals, B3LYP and CAM-B3LYP, on a test set of 22 chiral molecules. The results show that the functionals consistently overestimate the CCSD results for the individual tensor components and for the trace (which is related to the isotropic OR), by 10%-20% with CAM-B3LYP and 20%-30% with B3LYP. The data show that the contribution of the electric dipole-magnetic dipole polarizability tensor to the OR tensor is on average twice as large as that of the electric dipole-electric quadrupole polarizability tensor. The difficult case of (1S,4S)-(-)-norbornenone also reveals that the evaluation of the former polarizability tensor is more sensitive than the latter. We attribute the better agreement of CAM-B3LYP with CCSD to the ability of this functional to better reproduce electron delocalization compared with B3LYP, consistent with previous reports on isotropic OR. The CCSD-MVG approach allows the computation of reference data of the full OR tensor, which may be used to test more computationally efficient approximate methods that can be employed to study realistic models of optically active materials.
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Affiliation(s)
- Kaihua Zhang
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
| | - Ty Balduf
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
| | - Marco Caricato
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
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23
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Portnoy M, Barbano DM. Lactose: Use, measurement, and expression of results. J Dairy Sci 2021; 104:8314-8325. [PMID: 33814136 DOI: 10.3168/jds.2020-18706] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2020] [Accepted: 02/06/2021] [Indexed: 11/19/2022]
Abstract
Lactose has different uses in the dairy, food, and pharmaceutical industries. Being aware of the different forms of lactose and their concentrations can be very helpful in managing dairy product quality, properties, and manufacturing efficiency. Correct measurement and reporting of lactose concentration in milk and other dairy products will be of increased importance in the future as more value-added uses of lactose are developed and as milk lactose data are used in farm management decision making. Lactose should be reported as anhydrous lactose because lactose data will be used to make increasingly important decisions in dairy processing, dairy product labeling, and milk production in the future. Lactose also plays an important role in milk synthesis within a cow. Milk production factors and dairy cattle breed selection influence the amount of high value fat and protein produced per unit of lactose. If the off-farm value of lactose remains low, more attention may be focused on using ultrafiltration to process milk and leave 50 to 60% of the lactose and water from milk at the farm to recover the energy value of the lactose as feed and reduce the hauling cost of the high value components of milk to a dairy product manufacturing factory. Many methods exist to determine lactose concentration, but the most important methods are enzymatic assays, HPLC, and mid-infrared analysis. New, value-added uses for lactose need to be developed. Consistent and accurate methods of lactose measurement and consistent expression of lactose results will support this development process. Starting in January 2017, the USDA Federal Milk Market Laboratories began reporting lactose content of milk as anhydrous lactose and discontinued the reporting of lactose by difference.
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Affiliation(s)
- Matilde Portnoy
- Northeast Dairy Foods Research Center, Department of Food Science, Cornell University, Ithaca, NY 14853
| | - David M Barbano
- Northeast Dairy Foods Research Center, Department of Food Science, Cornell University, Ithaca, NY 14853.
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24
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Tran DBA, Manfred KM, Peverall R, Ritchie GAD. Continuous-Wave Cavity-Enhanced Polarimetry for Optical Rotation Measurement of Chiral Molecules. Anal Chem 2021; 93:5403-5411. [PMID: 33769036 DOI: 10.1021/acs.analchem.0c04651] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Precise optical rotation measurements play an important role in the analysis of chiral molecules in various fields, especially in biological chemistry and pharmacology. In this paper, we demonstrate a new variant of continuous-wave cavity-enhanced polarimetry for detecting the optical activity of two enantiomers of a chiral molecule at 730 nm. It is based on a signal-reversing technique for which the chiral specific rotation is directly determined by the cavity ring-down signal from two counter-propagating beams in a bow-tie cavity. In particular, we ensure reproducible excitation of both modes by broadening the linewidth of a diode laser source by application of a radio frequency perturbation to its injection current. The performance of the polarimeter is demonstrated for the specific rotation of (+)- and (-)-α-pinene in different environments, including the pure vapor, open air, and the liquid phase; the detection precision ranges between 10-5 and 10-4 degrees per cavity pass depending on the environment. The apparatus is a robust and practical tool for quantifying chirality and can be developed for the entire visible and near-infrared spectral regions.
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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
| | - Katherine M Manfred
- 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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Gogoi A, Konwer S, Zhuo GY. Polarimetric Measurements of Surface Chirality Based on Linear and Nonlinear Light Scattering. Front Chem 2021; 8:611833. [PMID: 33644001 PMCID: PMC7902787 DOI: 10.3389/fchem.2020.611833] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Accepted: 12/31/2020] [Indexed: 01/21/2023] Open
Abstract
A molecule, molecular aggregate, or protein that cannot be superimposed on its mirror image presents chirality. Most living systems are organized by chiral building blocks, such as amino acids, peptides, and carbohydrates, and any change in their molecular structure (i.e., handedness or helicity) alters the biochemical and pharmacological functions of the molecules, many of which take place at surfaces. Therefore, studying surface chirogenesis at the nanoscale is fundamentally important and derives various applications. For example, since proteins contain highly ordered secondary structures, the intrinsic chirality can be served as a signature to measure the dynamics of protein adsorption and protein conformational changes at biological surfaces. Furthermore, a better understanding of chiral recognition and separation at bio-nanointerfaces is helpful to standardize chiral drugs and monitor the synthesis of adsorbents with high precision. Thus, exploring the changes in surface chirality with polarized excitations would provide structural and biochemical information of the adsorbed molecules, which has led to the development of label-free and noninvasive measurement tools based on linear and nonlinear optical effects. In this review, the principles and selected applications of linear and nonlinear optical methods for quantifying surface chirality are introduced and compared, aiming to conceptualize new ideas to address critical issues in surface biochemistry.
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Affiliation(s)
- Ankur Gogoi
- Department of Physics, Jagannath Barooah College, Jorhat, India
| | - Surajit Konwer
- Department of Chemistry, Dibrugarh University, Dibrugarh, India
| | - Guan-Yu Zhuo
- Institute of New Drug Development, China Medical University, Taichung, Taiwan.,Integrative Stem Cell Center, China Medical University Hospital, Taichung, Taiwan
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26
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Gao Y, Stuhldreier F, Schmitt L, Wesselborg S, Guo Z, Zou K, Mándi A, Kurtán T, Liu Z, Proksch P. Induction of New Lactam Derivatives From the Endophytic Fungus Aplosporella javeedii Through an OSMAC Approach. Front Microbiol 2020; 11:600983. [PMID: 33250887 PMCID: PMC7672018 DOI: 10.3389/fmicb.2020.600983] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2020] [Accepted: 10/16/2020] [Indexed: 12/16/2022] Open
Abstract
Fermentation of the endophytic fungus Aplosporella javeedii on solid rice medium in presence of either 3.5% NaNO3 or 3.5% monosodium glutamate caused a significant change of the fungal metabolite pattern compared to fungal controls grown only on rice. Chemical investigation of the former fungal extracts yielded 11 new lactam derivatives, aplosporellins A-K (2-12), in addition to the known compound, pramanicin A (1). All of these compounds were not detected when the fungus was grown on rice medium without these activators thereby indicating the power of this OSMAC approach. The structures of the new compounds were elucidated by one- and two- dimensional NMR spectroscopy, DFT-NMR calculations and by mass spectrometry as well as by comparison with the literature whereas the absolute configuration of the lactam core was determined by TDDFT-ECD and OR calculations. Pramanicin A (1) showed strong cytotoxicity against human lymphoma (Ramos) and leukemia (Jurkat J16) cells with IC50 values of 4.7 and 4.4 μM, respectively. Mechanistic studies indicated that 1 activates caspase-3 and induces apoptotic cell death.
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Affiliation(s)
- Ying Gao
- Institute of Pharmaceutical Biology and Biotechnology, Heinrich Heine University Düsseldorf, Düsseldorf, Germany
| | - Fabian Stuhldreier
- Institute of Molecular Medicine I, Medical Faculty, Heinrich Heine University Düsseldorf, Düsseldorf, Germany
| | - Laura Schmitt
- Institute of Molecular Medicine I, Medical Faculty, Heinrich Heine University Düsseldorf, Düsseldorf, Germany
| | - Sebastian Wesselborg
- Institute of Molecular Medicine I, Medical Faculty, Heinrich Heine University Düsseldorf, Düsseldorf, Germany
| | - Zhiyong Guo
- Hubei Key Laboratory of Natural Products Research and Development, College of Biological and Pharmaceutical Sciences, China Three Gorges University, Yichang, China
| | - Kun Zou
- Hubei Key Laboratory of Natural Products Research and Development, College of Biological and Pharmaceutical Sciences, China Three Gorges University, Yichang, China
| | - Attila Mándi
- Department of Organic Chemistry, University of Debrecen, Debrecen, Hungary
| | - Tibor Kurtán
- Department of Organic Chemistry, University of Debrecen, Debrecen, Hungary
| | - Zhen Liu
- Institute of Pharmaceutical Biology and Biotechnology, Heinrich Heine University Düsseldorf, Düsseldorf, Germany
| | - Peter Proksch
- Institute of Pharmaceutical Biology and Biotechnology, Heinrich Heine University Düsseldorf, Düsseldorf, Germany
- Hubei Key Laboratory of Natural Products Research and Development, College of Biological and Pharmaceutical Sciences, China Three Gorges University, Yichang, China
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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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28
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Caricato M. Origin invariant optical rotation in the length dipole gauge without London atomic orbitals. J Chem Phys 2020; 153:151101. [PMID: 33092358 DOI: 10.1063/5.0028849] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We present an approach to perform origin invariant optical rotation calculations in the length dipole gauge without recourse to London atomic orbitals, called origin invariant length gauge [LG(OI)]. The LG(OI) approach works with any approximate wave function or density functional method, but here we focus on the implementation with the coupled cluster (CC) with single and double excitations method because of the lack of production-level alternatives. Preliminary numerical tests show the efficacy of the LG(OI) procedure and indicate that putting the origin in the center of mass of a molecule may not be an optimal choice for conventional CC-LG calculations.
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Affiliation(s)
- Marco Caricato
- Department of Chemistry, University of Kansas, Lawrence, Kansas 66045, USA
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29
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Calixto S, Garcia-Cordero JL, Cedillo-Alcantar DF, Naydenova I, Garnica G. Birefringent optofluidic gratings. OPTICS EXPRESS 2020; 28:31729-31742. [PMID: 33115139 DOI: 10.1364/oe.404182] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Accepted: 09/08/2020] [Indexed: 06/11/2023]
Abstract
A set of parallel microfluidic channels behaving as a diffraction grating operating in the Raman-Nath regime has been fabricated and studied. The diffraction efficiency of such structure can be tuned by selecting a liquid with a particular refractive index and/or optical anisotropy. Alternatively the optical properties of the liquid can be characterised by measuring the diffraction efficiency and the state of polarization of the diffracted beam. In this work, the microfluidic channels under study have been filled with penicillin molecules dissolved in water. Due to the chirality of the penicillin, the liquid has been found to have circular birefringence of 2.14 × 10-7. The addition of the anisotropic liquid modifies the polarization properties of the microfluidic diffraction grating. The diffraction efficiency of the grating has been characterised for different probe beam wavelengths and states of polarization. Currently the diffraction efficiency of the device is low - 1.7%, but different approaches for its improvement have been discussed.
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30
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Lu JM, Yang BB, Li L. Specific Optical Rotation and Absolute Configuration of Flexible Molecules Containing a 2-Methylbutyl Residue. European J Org Chem 2020. [DOI: 10.1002/ejoc.202000736] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Jia-Min Lu
- Beijing Key Laboratory of Active Substances Discovery and Druggability Evaluation; Institute of Materia Medica; Chinese Academy of Medical Sciences & Peking Union Medical College; 100050 Beijing China
| | - Bei-Bei Yang
- Beijing Key Laboratory of Active Substances Discovery and Druggability Evaluation; Institute of Materia Medica; Chinese Academy of Medical Sciences & Peking Union Medical College; 100050 Beijing China
| | - Li Li
- Beijing Key Laboratory of Active Substances Discovery and Druggability Evaluation; Institute of Materia Medica; Chinese Academy of Medical Sciences & Peking Union Medical College; 100050 Beijing China
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31
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Saito F, Schreiner PR. Determination of the Absolute Configurations of Chiral Alkanes – An Analysis of the Available Tools. European J Org Chem 2020. [DOI: 10.1002/ejoc.202000711] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Fumito Saito
- Institute of Organic Chemistry Justus Liebig University Heinrich‐Buff‐Ring 17 35392 Giessen Germany
| | - Peter R. Schreiner
- Institute of Organic Chemistry Justus Liebig University Heinrich‐Buff‐Ring 17 35392 Giessen Germany
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32
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Aharon T, Caricato M. Compact Basis Sets for Optical Rotation Calculations. J Chem Theory Comput 2020; 16:4408-4415. [DOI: 10.1021/acs.jctc.0c00446] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Tal Aharon
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
| | - Marco Caricato
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
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33
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Lkhamkhuu E, Zikihara K, Katsura H, Tokutomi S, Hosokawa T, Usami Y, Ichihashi M, Yamaguchi J, Monde K. Effect of circularly polarized light on germination, hypocotyl elongation and biomass production of arabidopsis and lettuce: Involvement of phytochrome B. PLANT BIOTECHNOLOGY (TOKYO, JAPAN) 2020; 37:57-67. [PMID: 32362749 PMCID: PMC7193831 DOI: 10.5511/plantbiotechnology.19.1219a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Accepted: 12/19/2019] [Indexed: 06/11/2023]
Abstract
Circular dichroism (CD), defined as the differential absorption of left- and right-handed circularly polarized light (CPL), is a useful spectroscopic technique for structural studies of biological systems composed of chiral molecules. The present study evaluated the effects of CPL on germination, hypocotyl elongation and biomass production of Arabidopsis and lettuce. Higher germination rates were observed when Arabidopsis and lettuce seedlings were irradiated with red right-handed CPL (R-CPL) than with red left-handed CPL (L-CPL). Hypocotyl elongation was effectively inhibited when Arabidopsis and lettuce seedlings were irradiated with red R-CPL than with red L-CPL. This difference was not observed when a phytochrome B (phyB) deficient mutant of Arabidopsis was irradiated, suggesting that inhibition of elongation by red R-CPL was mediated by phyB. White R-CPL induced greater biomass production by adult Arabidopsis plants, as determined by their fresh shoot weight, than white L-CPL. To determine the molecular basis of these CPL effects, CD spectra and the effect of CPL on the photoreaction of a sensory module of Arabidopsis phyB were measured. The red light-absorbing form of phyB showed a negative CD in the red light-absorbing region, consistent with the results of germination, inhibition of hypocotyl elongation and biomass production. L-CPL and R-CPL, however, did not differ in their ability to induce the interconversion of the red light-absorbing and far-red light-absorbing forms of phyB. These findings suggest that these CPL effects involve phyB, along with other photoreceptors and the photosynthetic process.
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Affiliation(s)
- Enkhsukh Lkhamkhuu
- Graduate School of Life Science, Faculty of Advanced Life Science, Hokkaido University, Sapporo 001-0021, Japan
| | - Kazunori Zikihara
- Department of Biological Science, Graduate School of Science, Osaka Prefecture University, Sakai, Osaka 599-8531
| | - Hitomi Katsura
- Department of Biological Science, Graduate School of Science, Osaka Prefecture University, Sakai, Osaka 599-8531
| | - Satoru Tokutomi
- Department of Biological Science, Graduate School of Science, Osaka Prefecture University, Sakai, Osaka 599-8531
- Botanical Gardens, Tohoku University, Sendai, Miyagi 980-0862, Japan
| | - Takafumi Hosokawa
- Research and Development Management Headquarters, Fuji Film Corporation, Kanagawa 258-8577, Japan
| | - Yoshihisa Usami
- Research and Development Management Headquarters, Fuji Film Corporation, Kanagawa 258-8577, Japan
| | - Mitsuyoshi Ichihashi
- Research and Development Management Headquarters, Fuji Film Corporation, Kanagawa 258-8577, Japan
| | - Junji Yamaguchi
- Faculty of Science, Hokkaido University, Sapporo 060-0810, Japan
| | - Kenji Monde
- Graduate School of Life Science, Faculty of Advanced Life Science, Hokkaido University, Sapporo 001-0021, Japan
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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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35
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Lee YY, Kim RM, Im SW, Balamurugan M, Nam KT. Plasmonic metamaterials for chiral sensing applications. NANOSCALE 2020; 12:58-66. [PMID: 31815994 DOI: 10.1039/c9nr08433a] [Citation(s) in RCA: 54] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Plasmonic metamaterials are artificially designed materials which exhibit optical properties that cannot be found in nature. They have unique and special abilities related to electromagnetic wave control, including strong field enhancement in the vicinity of the surfaces. Over the years, scientists have succeeded in dramatically improving the detection limit of molecular chirality utilizing a variety of plasmonic metamaterial platforms. In this mini-review, we will discuss the principles of most recent issues in chiral sensing applications of plasmonic metamaterials, including suggested formulas for signal enhancement of chiroptical plasmonic sensors, and studies on various platforms that employ different sensing mechanisms.
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Affiliation(s)
- Yoon Young Lee
- Department of Materials Science and Engineering, Seoul National University, Seoul 08826, Republic of Korea.
| | - Ryeong Myeong Kim
- Department of Materials Science and Engineering, Seoul National University, Seoul 08826, Republic of Korea.
| | - Sang Won Im
- Department of Materials Science and Engineering, Seoul National University, Seoul 08826, Republic of Korea.
| | - Mani Balamurugan
- Department of Materials Science and Engineering, Seoul National University, Seoul 08826, Republic of Korea.
| | - Ki Tae Nam
- Department of Materials Science and Engineering, Seoul National University, Seoul 08826, Republic of Korea.
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36
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A molecular orbital selection approach for fast calculations of specific rotation with density functional theory. Chirality 2019; 32:243-253. [DOI: 10.1002/chir.23158] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2019] [Revised: 11/08/2019] [Accepted: 11/13/2019] [Indexed: 11/07/2022]
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37
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Guerrero ML, Díaz AN, Sánchez FG, Corrall H. Chiral and Achiral Enantiomeric Separation of (±)-Alprenolol. OPEN CHEM 2019. [DOI: 10.1515/chem-2019-0049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
AbstractThe chiral separation of enantiomers is crucial for pharmacovigilance within drug discovery. Although a large number of prescribed medications are marketed as pure enantiomers, this is not always the case and many are in fact racemic mixtures. Drug scandals, such as that of Thalidomide in 1961, provide a clear example of the social and economic repercussions that can be caused by negligence of these chiral compounds. Two high performance liquid chromatography (HPLC) methods are presented to determine, separate and quantitate a commonly prescribed chiral beta blocker, (-)-Alprenolol. The first method utilises a chiral column to physically separate the two enantiomers of Alprenolol in 25 minutes, before quantitating with two detectors. Fluorimetry gave the better limit of detection of 0.16-0.41ng and a correlation coefficient of 0.999. The second method used an achiral column coupled with polarimetry to quantitate (-)-Alprenolol without the need for physical separation in 10 minutes. The limit of detection achieved was 27-37μg and demonstrated a correlation coefficient of -0.999.
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Affiliation(s)
- M.M. López Guerrero
- Faculty of Sciences, University of Málaga, Av. Cervantes, 2, 29071Málaga, Spain
| | - A. Navas Díaz
- Faculty of Sciences, University of Málaga, Av. Cervantes, 2, 29071Málaga, Spain
| | - F. García Sánchez
- Faculty of Sciences, University of Málaga, Av. Cervantes, 2, 29071Málaga, Spain
| | - H. Corrall
- Faculty of Sciences, University of Málaga, Av. Cervantes, 2, 29071Málaga, Spain
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38
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Grauso L, Teta R, Esposito G, Menna M, Mangoni A. Computational prediction of chiroptical properties in structure elucidation of natural products. Nat Prod Rep 2019; 36:1005-1030. [PMID: 31166350 DOI: 10.1039/c9np00018f] [Citation(s) in RCA: 65] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Covering: up to 2019This review covers the current status of the quantum mechanical prediction of chiroptical properties, such as electronic CD and optical rotation, as needed for stereochemical assignments in new natural products. The reliability of the prediction of chiroptical properties is steadily increasing, with a parallel decrease in the required computational resources. Now, quantum mechanical calculations for a medium-sized natural product can be reliably performed by natural product chemists on a mainstream PC. This review is aimed to guide natural product chemists through the numerous steps involved in such calculations. Through a concise, but comprehensive, discussion of the current computational practice, enriched by a few illustrative examples, this review provides readers with the theoretical background and practical knowledge needed to select the most appropriate parameters for performing the calculations, to anticipate possible problems, and to critically evaluate the reliability of their computational results. Common reasons for mistakes are also discussed; in particular, the importance of the correct evaluation of conformational ensembles of flexible molecules (an aspect often overlooked in current research) is stressed.
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Affiliation(s)
- Laura Grauso
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici (NA), Italy
| | - Roberta Teta
- Department of Pharmacy, University of Naples Federico II, Via Domenico Montesano 49, 80131 Napoli, Italy.
| | - Germana Esposito
- Department of Pharmacy, University of Naples Federico II, Via Domenico Montesano 49, 80131 Napoli, Italy.
| | - Marialuisa Menna
- Department of Pharmacy, University of Naples Federico II, Via Domenico Montesano 49, 80131 Napoli, Italy.
| | - Alfonso Mangoni
- Department of Pharmacy, University of Naples Federico II, Via Domenico Montesano 49, 80131 Napoli, Italy.
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39
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Aharon T, Caricato M. Configuration Space Analysis of the Specific Rotation of Helicenes. J Phys Chem A 2019; 123:4406-4418. [DOI: 10.1021/acs.jpca.9b01823] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Tal Aharon
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
| | - Marco Caricato
- Department of Chemistry, University of Kansas, 1567 Irving Hill Road, Lawrence, Kansas 66045, United States
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40
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Raghavan V, Johnson JL, Stec DF, Song B, Zajac G, Baranska M, Harris CM, Schley ND, Polavarapu PL, Harris TM. Absolute Configurations of Naturally Occurring [5]- and [3]-Ladderanoic Acids: Isolation, Chiroptical Spectroscopy, and Crystallography. JOURNAL OF NATURAL PRODUCTS 2018; 81:2654-2666. [PMID: 30562024 DOI: 10.1021/acs.jnatprod.8b00458] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
We have isolated mixtures of [5]- and [3]-ladderanoic acids 1a and 2a from the biomass of an anammox bioreactor and have separated the acids and their phenacyl esters for the first time by HPLC. The absolute configurations of the naturally occurring acids and their phenacyl esters are assigned as R at the site of side-chain attachment by comparison of experimental specific rotations with corresponding values predicted using quantum chemical (QC) methods. The absolute configurations for 1a and 2a were independently verified by comparison of experimental Raman optical activity spectra with corresponding spectra predicted using QC methods. The configurational assignments of 1a and 2a and of the phenacyl ester of 1a were also confirmed by X-ray crystallography.
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Affiliation(s)
- Vijay Raghavan
- Department of Chemistry , Vanderbilt University , Nashville , Tennessee 37235 , United States
| | - Jordan L Johnson
- Department of Chemistry , Vanderbilt University , Nashville , Tennessee 37235 , United States
| | - Donald F Stec
- Department of Chemistry , Vanderbilt University , Nashville , Tennessee 37235 , United States
| | - Bongkeun Song
- Department of Biological Sciences , Virginia Institute of Marine Science , Gloucester Point , Virginia 23062 , United States
| | - Grzegorz Zajac
- Faculty of Chemistry , Jagiellonian University , Gronostajowa 2 , 30-387 Krakow , Poland
| | - Malgorzata Baranska
- Faculty of Chemistry , Jagiellonian University , Gronostajowa 2 , 30-387 Krakow , Poland
- Jagiellonian Centre for Experimental Therapeutics (JCET) , Jagiellonian University , Bobrzynskiego 14 , 30-348 Krakow , Poland
| | - Constance M Harris
- Department of Chemistry , Vanderbilt University , Nashville , Tennessee 37235 , United States
| | - Nathan D Schley
- Department of Chemistry , Vanderbilt University , Nashville , Tennessee 37235 , United States
| | - Prasad L Polavarapu
- Department of Chemistry , Vanderbilt University , Nashville , Tennessee 37235 , United States
| | - Thomas M Harris
- Department of Chemistry , Vanderbilt University , Nashville , Tennessee 37235 , United States
- Department of Biological Sciences , Virginia Institute of Marine Science , Gloucester Point , Virginia 23062 , United States
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41
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Ye HY, Tang YY, Li PF, Liao WQ, Gao JX, Hua XN, Cai H, Shi PP, You YM, Xiong RG. Metal-free three-dimensional perovskite ferroelectrics. Science 2018; 361:151-155. [PMID: 30002249 DOI: 10.1126/science.aas9330] [Citation(s) in RCA: 363] [Impact Index Per Article: 60.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2018] [Accepted: 06/06/2018] [Indexed: 01/17/2023]
Abstract
Inorganic perovskite ferroelectrics are widely used in nonvolatile memory elements, capacitors, and sensors because of their excellent ferroelectric and other properties. Organic ferroelectrics are desirable for their mechanical flexibility, low weight, environmentally friendly processing, and low processing temperatures. Although almost a century has passed since the first ferroelectric, Rochelle salt, was discovered, examples of highly desirable organic perovskite ferroelectrics are lacking. We found a family of metal-free organic perovskite ferroelectrics with the characteristic three-dimensional structure, among which MDABCO (N-methyl-N'-diazabicyclo[2.2.2]octonium)-ammonium triiodide has a spontaneous polarization of 22 microcoulombs per square centimeter [close to that of barium titanate (BTO)], a high phase transition temperature of 448 kelvins (above that of BTO), and eight possible polarization directions. These attributes make it attractive for use in flexible devices, soft robotics, biomedical devices, and other applications.
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Affiliation(s)
- Heng-Yun Ye
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China
| | - Yuan-Yuan Tang
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China
| | - Peng-Fei Li
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China
| | - Wei-Qiang Liao
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China.,Ordered Matter Science Research Center, Nanchang University, Nanchang 330031, P.R. China
| | - Ji-Xing Gao
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China
| | - Xiu-Ni Hua
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China
| | - Hu Cai
- Ordered Matter Science Research Center, Nanchang University, Nanchang 330031, P.R. China
| | - Ping-Ping Shi
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China.,Institute for Advanced Interdisciplinary Research, Nanjing University of Aeronautics and Astronautics, Nanjing 211106, P.R. China
| | - Yu-Meng You
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China.
| | - Ren-Gen Xiong
- Jiangsu Key Laboratory for Science and Applications of Molecular Ferroelectrics, Southeast University, Nanjing 211189, P.R. China. .,Ordered Matter Science Research Center, Nanchang University, Nanchang 330031, P.R. China
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42
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Ren J, Mistry TL, Su PC, Mehboob S, Demissie R, Fung LWM, Ghosh AK, Johnson ME. Determination of absolute configuration and binding efficacy of benzimidazole-based FabI inhibitors through the support of electronic circular dichroism and MM-GBSA techniques. Bioorg Med Chem Lett 2018; 28:2074-2079. [PMID: 29730028 DOI: 10.1016/j.bmcl.2018.04.052] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2018] [Revised: 04/19/2018] [Accepted: 04/20/2018] [Indexed: 01/12/2023]
Abstract
We have previously reported benzimidazole-based compounds to be potent inhibitors of FabI for Francisella tularensis (FtFabI), making them promising antimicrobial hits. Optically active enantiomers exhibit markedly differing affinities toward FtFabI. The IC50 of benzimidazole (-)-1 is ∼100× lower than the (+)-enantiomer, with similar results for the 2 enantiomers. Determining the absolute configuration for these optical compounds and elucidating their binding modes is important for further design. Electronic circular dichroism (ECD) quantum calculations have become important in determining absolute configurations of optical compounds. We determined the absolute configuration of (-)/(+)-1 and (-)/(+)-2 by comparing experimental spectra and theoretical density functional theory (DFT) simulations of ECD spectra at the B3LYP/6-311+G(2d, p) level using Gaussian09. Comparison of experimental and calculated ECD spectra indicates that the S configuration corresponds to the (-)-rotation for both compounds 1 and 2, while the R configuration corresponds to the (+)-rotation. Further, molecular dynamics simulations and MM-GBSA binding energy calculations for these two pairs of enantiomers with FtFabI show much tighter binding MM-GBSA free energies for S-1 and S-2 than for their enantiomers, R-1 and R-2, consistent with the S configuration being the more active one, and with the ECD determination of the S configuration corresponding to (-) and the R configuration corresponding to (+). Thus, our computational studies allow us to assign (-) to (S)- and (+) to (R)- for compounds 1 and 2, and to further evaluate structural changes to improve efficacy.
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Affiliation(s)
- Jinhong Ren
- Center for Biomolecular Sciences, University of Illinois at Chicago, 900 S. Ashland Ave, Chicago, IL 60607, USA
| | - Tina L Mistry
- Center for Biomolecular Sciences, University of Illinois at Chicago, 900 S. Ashland Ave, Chicago, IL 60607, USA
| | - Pin-Chih Su
- Center for Biomolecular Sciences, University of Illinois at Chicago, 900 S. Ashland Ave, Chicago, IL 60607, USA
| | - Shahila Mehboob
- Novalex Therapeutics, Inc., 2242 W Harrison, Chicago, IL 60612, USA
| | - Robel Demissie
- Department of Chemistry, University of Illinois at Chicago, 845 W. Taylor St, Chicago, IL 60607, USA
| | - Leslie Wo-Mei Fung
- Department of Chemistry, University of Illinois at Chicago, 845 W. Taylor St, Chicago, IL 60607, USA
| | - Arun K Ghosh
- Department of Chemistry and Department of Medicinal Chemistry, Purdue University, 560 Oval Drive, West Lafayette, IN 47907, USA
| | - Michael E Johnson
- Center for Biomolecular Sciences, University of Illinois at Chicago, 900 S. Ashland Ave, Chicago, IL 60607, USA; Novalex Therapeutics, Inc., 2242 W Harrison, Chicago, IL 60612, USA.
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43
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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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44
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Forbes KA, Andrews DL. Optical orbital angular momentum: twisted light and chirality. OPTICS LETTERS 2018; 43:435-438. [PMID: 29400808 DOI: 10.1364/ol.43.000435] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2017] [Accepted: 12/19/2017] [Indexed: 06/07/2023]
Abstract
The question of how the orbital angular momentum of structured light might engage with chiral matter is a topic of resurgent interest. By taking account of electric quadrupole transition moments, it is shown that the handedness of the beam can indeed be exhibited in local chiral effects, being dependent on the sign of the topological charge. In the specific case of absorption, a significant interplay of wavefront structure and polarization is resolved, and clear differences in behavior are identified for systems possessing a degree of orientational order and for those that are randomly oriented.
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45
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Da Costa L, Scheers E, Coluccia A, Rosetti A, Roche M, Neyts J, Terme T, Cirilli R, Mirabelli C, Silvestri R, Vanelle P. Heterocyclic pharmacochemistry of new rhinovirus antiviral agents: A combined computational and experimental study. Eur J Med Chem 2017; 140:528-541. [PMID: 28987610 DOI: 10.1016/j.ejmech.2017.09.036] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2017] [Revised: 09/16/2017] [Accepted: 09/18/2017] [Indexed: 12/15/2022]
Abstract
Rhinovirus (RV), member of the Enterovirus genus, is known to be involved in more than half of the common colds. Through advances in molecular biology, rhinoviruses have also been associated with exacerbations of chronic pulmonary diseases (e.g. asthma, chronic obstructive pulmonary disease (COPD) and cystic fibrosis). In the current investigation, we develop a novel series of 4,5-dimethoxybenzyl derivatives that potently inhibits rhinovirus replication. Compound (S)-7f blocks RV-B14 replication with an EC50 value of 0.25 μM and shows a low toxicity in HeLa cells (CC50 > 271 μM). Enantioseparation followed by an absolute configuration determination by a Mosher's method revealed the interest of enantiopure compounds. Molecular docking studies permitted the identification of key biological interactions within the drug-binding pocket and an in silico drug-like study revealed a good potential for the development of these derivatives.
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Affiliation(s)
- Laurène Da Costa
- Aix-Marseille Univ, Institut de Chimie Radicalaire, Laboratoire de Pharmacochimie Radicalaire, UMR 7273 CNRS, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
| | - Els Scheers
- KU Leuven-University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Virology and Chemotherapy, B-3000 Leuven, Belgium
| | - Antonio Coluccia
- Department of Drug Chemistry and Technologies, Sapienza University of Rome, Laboratory Affiliated to Istituto Pasteur Italia-Fondazione Cenci Bolognetti, Piazzale Aldo Moro 5, I-00185 Roma, Italy
| | - Alessia Rosetti
- Centro Nazionale per il Controllo e la Valutazione dei Farmaci, Istituto Superiore di Sanità, Viale Regina Elena 299, I-00161 Roma, Italy
| | - Manon Roche
- Aix-Marseille Univ, Institut de Chimie Radicalaire, Laboratoire de Pharmacochimie Radicalaire, UMR 7273 CNRS, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
| | - Johan Neyts
- KU Leuven-University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Virology and Chemotherapy, B-3000 Leuven, Belgium
| | - Thierry Terme
- Aix-Marseille Univ, Institut de Chimie Radicalaire, Laboratoire de Pharmacochimie Radicalaire, UMR 7273 CNRS, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
| | - Roberto Cirilli
- Centro Nazionale per il Controllo e la Valutazione dei Farmaci, Istituto Superiore di Sanità, Viale Regina Elena 299, I-00161 Roma, Italy
| | - Carmen Mirabelli
- KU Leuven-University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research, Laboratory of Virology and Chemotherapy, B-3000 Leuven, Belgium
| | - Romano Silvestri
- Department of Drug Chemistry and Technologies, Sapienza University of Rome, Laboratory Affiliated to Istituto Pasteur Italia-Fondazione Cenci Bolognetti, Piazzale Aldo Moro 5, I-00185 Roma, Italy
| | - Patrice Vanelle
- Aix-Marseille Univ, Institut de Chimie Radicalaire, Laboratoire de Pharmacochimie Radicalaire, UMR 7273 CNRS, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France.
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Shahzadi I, Shaukat A, Zara Z, Irfan M, Eliasson B, Ayub K, Iqbal J. Estimation of optical rotation of γ-alkylidenebutenolide, cyclopropylamine, cyclopropyl-methanol and cyclopropenone based compounds by a Density Functional Theory (DFT) approach. Chirality 2017; 29:634-647. [PMID: 28810058 DOI: 10.1002/chir.22737] [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: 04/29/2017] [Revised: 06/19/2017] [Accepted: 06/21/2017] [Indexed: 11/06/2022]
Abstract
Computing the optical rotation of organic molecules can be a real challenge, and various theoretical approaches have been developed in this regard. A benchmark study of optical rotation of various classes of compounds was carried out by Density Functional Theory (DFT) methods. The aim of the present research study was to find out the best-suited functional and basis set to estimate the optical rotations of selected compounds with respect to experimental literature values. Six DFT functional LSDA, BVP86, CAM-B3LYP, B3PW91, and PBE were applied on 22 different compounds. Furthermore, six different basis sets, i.e., 3-21G, 6-31G, aug-cc-pVDZ, aug-cc-pVTZ, DGDZVP, and DGDZVP2 were also applied with the best-suited functional B3LYP. After rigorous effort, it can be safely said that the best combination of functional and basis set is B3LYP/aug-cc-pVTZ for the estimation of optical rotation for selected compounds.
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Affiliation(s)
- Iram Shahzadi
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - Aqsa Shaukat
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - Zeenat Zara
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | - Muhammad Irfan
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | | | - Khurshid Ayub
- Department of Chemistry, COMSATS Institute of Information Technology Abbottabad, KPK, Pakistan
| | - Javed Iqbal
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan.,Punjab Bio-energy Institute (PBI), University of Agriculture, Faisalabad, Pakistan
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47
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Burtea A, Rychnovsky SD. Determination of the Absolute Configuration of Cyclic Amines with Bode’s Chiral Hydroxamic Esters Using the Competing Enantioselective Conversion Method. Org Lett 2017; 19:4195-4198. [DOI: 10.1021/acs.orglett.7b01748] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Alexander Burtea
- Department of Chemistry, University of California at Irvine, 1102 Natural Sciences II, Irvine, California 92697, United States
| | - Scott D. Rychnovsky
- Department of Chemistry, University of California at Irvine, 1102 Natural Sciences II, Irvine, California 92697, United States
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48
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Chi Y, Wu Z, Zhong Y, Dong S. Enantiomeric resolution, stereochemical assignment and toxicity evaluation of TPA enantiomers. Biomed Chromatogr 2017; 31. [DOI: 10.1002/bmc.3924] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2016] [Revised: 11/11/2016] [Accepted: 12/19/2016] [Indexed: 11/08/2022]
Affiliation(s)
- Yulang Chi
- Key Laboratory of Urban Environment and Health; Institute of Urban Environment, Chinese Academy of Sciences; Xiamen China
- College of Resources and Environment; University of Chinese Academy of Sciences; Beijing China
| | - Zhijun Wu
- School of Life Sciences and Biotechnology; Heilongjiang Bayi Agricultural University; Daqing China
| | - Yi Zhong
- South China Institute of Environmental Sciences; Ministry of Environmental Protection; Guangzhou China
| | - Sijun Dong
- Key Laboratory of Urban Environment and Health; Institute of Urban Environment, Chinese Academy of Sciences; Xiamen China
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49
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Alenaizan A, Al-Basheer W, Musa MM. Solvent, temperature and concentration effects on the optical rotatory dispersion of (R)-3-methylcyclohexanone. J Mol Struct 2017. [DOI: 10.1016/j.molstruc.2016.10.009] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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50
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Li PF, Tang YY, Wang ZX, Ye HY, You YM, Xiong RG. Anomalously rotary polarization discovered in homochiral organic ferroelectrics. Nat Commun 2016; 7:13635. [PMID: 27876788 PMCID: PMC5494196 DOI: 10.1038/ncomms13635] [Citation(s) in RCA: 105] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2016] [Accepted: 10/20/2016] [Indexed: 12/24/2022] Open
Abstract
Molecular ferroelectrics are currently an active research topic in the field of ferroelectric materials. As complements or alternatives of conventional inorganic ferroelectrics, they have been designed to realize various novel properties, ranging from multiferroicity and semiconductive ferroelectricity to ferroelectric photovoltaics and ferroelectric luminescence. The stabilizing of ferroelectricity in various systems is owing to the flexible tailorability of the organic components. Here we describe the construction of optically active molecular ferroelectrics by introducing homochiral molecules as polar groups. We find that the ferroelectricity in (R)-(-)-3-hydroxlyquinuclidinium halides is due to the alignment of the homochiral molecules. We observe that both the specific optical rotation and rotatory direction change upon paraelectric-ferroelectric phase transitions, due to the existence of two origins from the molecular chirality and spatial arrangement, whose contributions vary upon the transitions. The optical rotation switching effect may find applications in electro-optical elements.
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Affiliation(s)
- Peng-Fei Li
- Ordered Matter Science Research Center, Southeast University, Nanjing 211189, China
| | - Yuan-Yuan Tang
- Ordered Matter Science Research Center, Southeast University, Nanjing 211189, China
| | - Zhong-Xia Wang
- Ordered Matter Science Research Center, Southeast University, Nanjing 211189, China
| | - Heng-Yun Ye
- Ordered Matter Science Research Center, Southeast University, Nanjing 211189, China
| | - Yu-Meng You
- Ordered Matter Science Research Center, Southeast University, Nanjing 211189, China
| | - Ren-Gen Xiong
- Ordered Matter Science Research Center, Southeast University, Nanjing 211189, China
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