1
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D'haese LCG, Daugey N, Pitrat D, Brotin T, Kapitán J, Liégeois V. Understanding the surrounding effects on Raman optical activity signatures of a chiral cage system: Cryptophane-PP-111. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 306:123484. [PMID: 37898056 DOI: 10.1016/j.saa.2023.123484] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2023] [Revised: 09/18/2023] [Accepted: 10/01/2023] [Indexed: 10/30/2023]
Abstract
Cryptophane molecules are cage-like structures consisting in two hemispheres, each made of three benzene rings. These hemispheres are bound together with three O(CH2)nOlinkers of various lengths giving rise to a plethora of cryptophane derivatives. Moreover, they are able to encapsulate neutral guests: CH2Cl2, CHCl3, …; and charged species: Cs+, Tl+, …. Finally, they exhibit chiroptical properties thanks to the anti arrangement of the linkers between the hemispheres. This work focuses on the Raman optical activity (ROA) signatures of Cryptophane-111 (n=1 for each linker). More specifically, we aim at simulating accurately its ROA spectra with and without a xenon atom inside its cavity. Experimental data (Buffeteau et al., 2017) have already demonstrated the effect of the encapsulation in the low-wavenumbers region. To generate the initial structures, we rely on the novel Conformer-Rotamer Ensemble Sampling Tool (CREST) program, developed by S. Grimme and co-workers. This is required due to the flexibility provided by the linkers. The CREST algorithm seems promising and has already been used to sample the potential energy surface (PES) of target systems before the simulation of their vibrational spectroscopies (Eikås et al., 2022). We observe large similarities between the two sets of conformers (one with and one without Xe encapsulated), demonstrating the robustness of the CREST algorithm. For corresponding structures, the presence of xenon pushed the two hemispheres slightly further apart. After optimization at the DFT level, only one unique conformer has a Boltzmann population ratio greater than 1%, pointing out the relative rigidity of the cage. Based on this unique conformer, our simulations are in good agreement with the experimental data. Regarding xenon encapsulation, the (experimental and theoretical) ROA signatures at low wavenumbers are impacted: slight shifts in wavenumbers are observed as well as a decrease in relative ROA intensity for bands around 150 cm-1. The wavenumber shifts were very well reproduced by our simulations, but the experimental decrease in the ROA intensity was unfortunately not reproduced.
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Affiliation(s)
- Lou C G D'haese
- Theoretical Chemistry Laboratory (LCT), Namur Institute of Structured Matter (NISM), University of Namur, 5000 Namur, Belgium.
| | - Nicolas Daugey
- Groupe Spectroscopie Moléculaire (GSM), Institut des Sciences Moléculaires (ISM), UMR-5255 CNRS, University of Bordeaux, 33405 Talence, France
| | - Delphine Pitrat
- Laboratoire de Chimie de l'ENSL, UMR-5182 CNRS, University of Lyon, 69342 Lyon, France
| | - Thierry Brotin
- Laboratoire de Chimie de l'ENSL, UMR-5182 CNRS, University of Lyon, 69342 Lyon, France
| | - Josef Kapitán
- Department of Optics, Palacký University of Olomouc, 77146 Olomouc, Czech Republic
| | - Vincent Liégeois
- Theoretical Chemistry Laboratory (LCT), Namur Institute of Structured Matter (NISM), University of Namur, 5000 Namur, Belgium
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2
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Yamamoto S, Ishiro S, Kessler J, Bouř P. Intense chiral signal from α-helical poly-L-alanine observed in low-frequency Raman optical activity. Phys Chem Chem Phys 2021; 23:26501-26509. [PMID: 34806737 DOI: 10.1039/d1cp04401j] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Raman optical activity (ROA) spectral features reliably indicate the structure of peptides and proteins, but the signal is often weak. However, we observed significantly enhanced low-frequency bands for α-helical poly-L-alanine (PLA) in solution. The biggest ROA signal at ∼100 cm-1 is about 10 times stronger than higher-frequency bands described previously, which facilitates the detection. The low-frequency bands of PLA were compared to those of α-helical proteins. For PLA, density functional simulations well reproduced the experimental spectra and revealed that about 12 alanine residues within two turns of the α-helix generate the strong ROA band. Averaging based on molecular dynamics (MD) provided an even more realistic spectrum compared to the static model. The low-frequency bands could be largely related to a collective motion of the α-helical backbone, partially modulated by the solvent. Helical and intermolecular vibrational coordinates have been introduced and the helical unwinding modes were assigned to the strongest ROA signal at 101-128 cm-1. Further analysis indicated that the helically arranged amide and methyl groups are important for the strong chiral signal of PLA, while the local chiral centers CαH contribute in a minor way only. The strong low-frequency ROA can thus provide precious information about the motions of the peptide backbone and facilitate future protein studies.
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Affiliation(s)
- Shigeki Yamamoto
- Department of Chemistry, Graduate School of Science, Osaka University, Osaka 560-0043, Japan.
| | - Shota Ishiro
- Department of Chemistry, Graduate School of Science, Osaka University, Osaka 560-0043, Japan.
| | - Jiří Kessler
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo náměstí 2, 16610 Prague, Czech Republic.
| | - Petr Bouř
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo náměstí 2, 16610 Prague, Czech Republic.
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3
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Zając G, Bouř P. Measurement and Theory of Resonance Raman Optical Activity for Gases, Liquids, and Aggregates. What It Tells about Molecules. J Phys Chem B 2021; 126:355-367. [PMID: 34792364 DOI: 10.1021/acs.jpcb.1c08370] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Resonance Raman Optical Activity (RROA) appeared as a natural extension of the nonresonance branch. It combines the structural sensitivity of chiroptical spectroscopy with the signal enhancement coming from the resonance of molecular electronic transitions with the excitation laser light. However, the idea has been hampered by many technical and theoretical problems that are being clarified only in recent years. We provide the theoretical basis and several examples documenting the problems, achievements, and potential of RROA, in particular in biomolecular studies.
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Affiliation(s)
- Grzegorz Zając
- Jagiellonian Centre for Experimental Therapeutics (JCET), Jagiellonian University, Bobrzynskiego 14, Krakow 30-348, Poland
| | - Petr Bouř
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo náměstí 2, Prague, 16610, Czech Republic
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4
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Barone V, Alessandrini S, Biczysko M, Cheeseman JR, Clary DC, McCoy AB, DiRisio RJ, Neese F, Melosso M, Puzzarini C. Computational molecular spectroscopy. ACTA ACUST UNITED AC 2021. [DOI: 10.1038/s43586-021-00034-1] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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5
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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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6
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Keiderling TA. Structure of Condensed Phase Peptides: Insights from Vibrational Circular Dichroism and Raman Optical Activity Techniques. Chem Rev 2020; 120:3381-3419. [DOI: 10.1021/acs.chemrev.9b00636] [Citation(s) in RCA: 50] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Timothy A. Keiderling
- Department of Chemistry, University of Illinois at Chicago 845 West Taylor Street m/c 111, Chicago, Illinois 60607-7061, United States
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7
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Mattiat J, Luber S. Vibrational (resonance) Raman optical activity with real time time dependent density functional theory. J Chem Phys 2019; 151:234110. [DOI: 10.1063/1.5132294] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Affiliation(s)
- Johann Mattiat
- Department of Chemistry, University of Zurich, Zurich, Switzerland
| | - Sandra Luber
- Department of Chemistry, University of Zurich, Zurich, Switzerland
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8
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Mensch C, Bultinck P, Johannessen C. The effect of protein backbone hydration on the amide vibrations in Raman and Raman optical activity spectra. Phys Chem Chem Phys 2019; 21:1988-2005. [PMID: 30633268 DOI: 10.1039/c8cp06423g] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Raman and specifically Raman optical activity (ROA) spectroscopy are very sensitive to the solution structure and conformation of biomolecules. Because of this strong conformational sensitivity, density functional theory (DFT) calculations are often used to get a better understanding of the experimentally observed spectral patterns. While e.g. for carbohydrate structure the water molecules that surround the solute have been demonstrated to be of vital importance to get accurate modelled ROA spectra, the effect of explicit water molecules on the calculated ROA patterns of peptides and proteins is less well studied. Here, the effect of protein backbone hydration was studied using DFT calculations of HCO-(l-Ala)5-NH2 in specific secondary structure conformations with different treatments of the solvation. The effect of the explicit water molecules on the calculated spectra mainly arises from the formation of hydrogen bonds with the amide C[double bond, length as m-dash]O and N-H groups. Hydrogen bonding of water with the C[double bond, length as m-dash]O group determines the shape and position of the amide I band. The C[double bond, length as m-dash]O bond length increases upon formation of C[double bond, length as m-dash]OH2O hydrogen bonds. The effect of the explicit water molecules on the amide III vibrations arises from hydrogen bonding of the solvent with both the C[double bond, length as m-dash]O and N-H group, but their contributions to this spectral region differ: geometrically, the formation of a C[double bond, length as m-dash]OH2O bond decreases the C-N bond length, while upon forming a N-HH2O hydrogen bond, the N-H bond length increases.
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Affiliation(s)
- Carl Mensch
- Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerp, Belgium.
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9
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The Influence of the Amino Acid Side Chains on the Raman Optical Activity Spectra of Proteins. Chemphyschem 2018; 20:42-54. [DOI: 10.1002/cphc.201800924] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2018] [Revised: 10/19/2018] [Indexed: 11/07/2022]
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10
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Mensch C, Johannessen C. Is Raman Optical Activity Spectroscopy Sensitive to β-Turns in Proteins? Secondary Structure and Side-Chain Dependence. Chemphyschem 2018; 19:3134-3143. [DOI: 10.1002/cphc.201800678] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2018] [Indexed: 12/20/2022]
Affiliation(s)
- Carl Mensch
- Department of Chemistry; University of Antwerp; Groenenborgerlaan 171 2020 Antwerp Belgium)
- Department of Chemistry; Ghent University; Krijgslaan 281 (S3) 9000 Ghent Belgium
| | - Christian Johannessen
- Department of Chemistry; University of Antwerp; Groenenborgerlaan 171 2020 Antwerp Belgium)
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11
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Luber S. Localized molecular orbitals for calculation and analysis of vibrational Raman optical activity. Phys Chem Chem Phys 2018; 20:28751-28758. [DOI: 10.1039/c8cp05880f] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
First calculations of vibrational Raman optical activity based on localized molecular orbitals are presented, which pave the way for novel insight into spectroscopic signatures of chiral systems.
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Affiliation(s)
- Sandra Luber
- Department of Chemistry
- University of Zurich
- Zurich
- Switzerland
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12
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Jungwirth J, Šebestík J, Šafařík M, Kapitán J, Bouř P. Quantitative Determination of Ala-Ala Conformer Ratios in Solution by Decomposition of Raman Optical Activity Spectra. J Phys Chem B 2017; 121:8956-8964. [DOI: 10.1021/acs.jpcb.7b07154] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jakub Jungwirth
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo
náměstí 2, 16610 Prague, Czech Republic
- Faculty
of Mathematics and Physics, Charles University, Ke Karlovu 3, 12116 Prague, Czech Republic
| | - Jaroslav Šebestík
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo
náměstí 2, 16610 Prague, Czech Republic
| | - Martin Šafařík
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo
náměstí 2, 16610 Prague, Czech Republic
| | - Josef Kapitán
- Department
of Optics, Palacký University, 17. listopadu 12, 77146 Olomouc, Czech Republic
| | - Petr Bouř
- Institute
of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo
náměstí 2, 16610 Prague, Czech Republic
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13
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Giovannini T, Olszówka M, Egidi F, Cheeseman JR, Scalmani G, Cappelli C. Polarizable Embedding Approach for the Analytical Calculation of Raman and Raman Optical Activity Spectra of Solvated Systems. J Chem Theory Comput 2017; 13:4421-4435. [DOI: 10.1021/acs.jctc.7b00628] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
| | - Marta Olszówka
- Scuola Normale
Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Franco Egidi
- Scuola Normale
Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - James R. Cheeseman
- Gaussian
Inc., 340 Quinnipiac Street Building
40, Wallingford, Connecticut 06492, United States
| | - Giovanni Scalmani
- Gaussian
Inc., 340 Quinnipiac Street Building
40, Wallingford, Connecticut 06492, United States
| | - Chiara Cappelli
- Scuola Normale
Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
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14
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Luber S. Raman Optical Activity Spectra from Density Functional Perturbation Theory and Density-Functional-Theory-Based Molecular Dynamics. J Chem Theory Comput 2017; 13:1254-1262. [DOI: 10.1021/acs.jctc.6b00820] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Sandra Luber
- Department of Chemistry C, University of Zurich, Winterthurerstrasse 190, 8057 Zurich, Switzerland
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15
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Nagy PR, Koltai J, Surján PR, Kürti J, Szabados Á. Resonance Raman Optical Activity of Single Walled Chiral Carbon Nanotubes. J Phys Chem A 2016; 120:5527-38. [DOI: 10.1021/acs.jpca.6b04594] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Péter R. Nagy
- MTA-BME
Lendület Quantum Chemistry Research Group, Department of Physical
Chemistry and Materials Science, Budapest University of Technology and Economics, P.O. Box 91, H-1521 Budapest, Hungary
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16
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Mensch C, Barron LD, Johannessen C. Ramachandran mapping of peptide conformation using a large database of computed Raman and Raman optical activity spectra. Phys Chem Chem Phys 2016; 18:31757-31768. [DOI: 10.1039/c6cp05862k] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
A novel ROA database is reported that assigns peptide structures in detail by pattern recognition of the experimental spectrum.
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Affiliation(s)
- Carl Mensch
- Department of Chemistry
- University of Antwerp
- Antwerp
- Belgium
- Department of Inorganic and Physical Chemistry
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17
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Mutter ST, Zielinski F, Popelier PLA, Blanch EW. Calculation of Raman optical activity spectra for vibrational analysis. Analyst 2015; 140:2944-56. [DOI: 10.1039/c4an02357a] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This review provides the necessary knowledge to accurately model ROA spectra of solvated systems and interpret their vibrational characteristics.
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Affiliation(s)
- Shaun T. Mutter
- Manchester Institute of Biotechnology and Faculty of Life Sciences
- University of Manchester
- Manchester
- UK
| | - François Zielinski
- Manchester Institute of Biotechnology and School of Chemistry
- University of Manchester
- Manchester
- UK
| | - Paul L. A. Popelier
- Manchester Institute of Biotechnology and School of Chemistry
- University of Manchester
- Manchester
- UK
| | - Ewan W. Blanch
- Manchester Institute of Biotechnology and Faculty of Life Sciences
- University of Manchester
- Manchester
- UK
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18
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Mutter ST, Blanch EW. Carbohydrate Secondary and Tertiary Structure Using Raman Spectroscopy. POLYSACCHARIDES 2015. [DOI: 10.1007/978-3-319-16298-0_36] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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19
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Tommasini M, Longhi G, Mazzeo G, Abbate S, Nieto-Ortega B, Ramírez FJ, Casado J, López Navarrete JT. Mode Robustness in Raman Optical Activity. J Chem Theory Comput 2014; 10:5520-7. [DOI: 10.1021/ct500697e] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Affiliation(s)
- Matteo Tommasini
- Dipartimento di Chimica, Materiali e Ingegneria Chimica − Politecnico di Milano, Piazza Leonardo da Vinci, 32 − 20133 Milano, Italy,
- Consorzio Interuniversitario per la Scienza
e Tecnologia dei Materiali (INSTM), Unità di Ricerca del Politecnico di Milano (Dip. CMIC), Piazza Leonardo da Vinci 32, 20133 Milano, Italy,
| | - Giovanna Longhi
- Dipartimento di Medicina Molecolare e Traslazionale − Università di Brescia, Viale Europa 11 − 25123 Brescia, Italy,
- C.N.I.S.M. Consorzio Interuniversitario
Scienze Fisiche della Materia, c/o
Università Roma 3, via della Vasca Navale 84, 00146 Roma, Italy, and
| | - Giuseppe Mazzeo
- Dipartimento di Medicina Molecolare e Traslazionale − Università di Brescia, Viale Europa 11 − 25123 Brescia, Italy,
- C.N.I.S.M. Consorzio Interuniversitario
Scienze Fisiche della Materia, c/o
Università Roma 3, via della Vasca Navale 84, 00146 Roma, Italy, and
| | - Sergio Abbate
- Dipartimento di Medicina Molecolare e Traslazionale − Università di Brescia, Viale Europa 11 − 25123 Brescia, Italy,
- C.N.I.S.M. Consorzio Interuniversitario
Scienze Fisiche della Materia, c/o
Università Roma 3, via della Vasca Navale 84, 00146 Roma, Italy, and
| | - Belén Nieto-Ortega
- Department of Physical
Chemistry, University of Málaga, 29071 Málaga, Spain
| | | | - Juan Casado
- Department of Physical
Chemistry, University of Málaga, 29071 Málaga, Spain
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20
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Parchaňský V, Kapitán J, Bouř P. Inspecting chiral molecules by Raman optical activity spectroscopy. RSC Adv 2014. [DOI: 10.1039/c4ra10416a] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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21
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Daugey N, Brotin T, Vanthuyne N, Cavagnat D, Buffeteau T. Raman Optical Activity of Enantiopure Cryptophanes. J Phys Chem B 2014; 118:5211-7. [DOI: 10.1021/jp502652p] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Nicolas Daugey
- Institut
des Sciences Moléculaires (UMR 5255 - CNRS), Université de Bordeaux, 351 Cours de la Libération, 33405 Talence, France
| | - Thierry Brotin
- Laboratoire
de
Chimie de l’ENS LYON (UMR 5182 - CNRS), École Normale
Supérieure de Lyon, 46 Allée
d’Italie, 69364 Lyon, France
| | - Nicolas Vanthuyne
- Aix Marseille Université, Centrale Marseille, CNRS,
iSm2 UMR 7313, 13397 Marseille, France
| | - Dominique Cavagnat
- Institut
des Sciences Moléculaires (UMR 5255 - CNRS), Université de Bordeaux, 351 Cours de la Libération, 33405 Talence, France
| | - Thierry Buffeteau
- Institut
des Sciences Moléculaires (UMR 5255 - CNRS), Université de Bordeaux, 351 Cours de la Libération, 33405 Talence, France
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22
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Nagy PR, Surján PR, Szabados Á. Vibrational optical activity of chiral carbon nanoclusters treated by a generalized π-electron method. J Chem Phys 2014; 140:044112. [DOI: 10.1063/1.4862682] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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23
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Humbert-Droz M, Oulevey P, Lawson Daku LM, Luber S, Hagemann H, Bürgi T. Where does the Raman optical activity of [Rh(en)3]3+ come from? Insight from a combined experimental and theoretical approach. Phys Chem Chem Phys 2014; 16:23260-73. [DOI: 10.1039/c4cp02145b] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Raman optical activity (ROA) spectra are measured and calculated for Δ- and Λ-tris-(ethylenediamine)rhodium(iii) chloride in aqueous solution.
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Affiliation(s)
- Marie Humbert-Droz
- Department of Physical Chemistry
- University of Geneva
- CH-1211 Geneva 4, Switzerland
| | - Patric Oulevey
- Department of Physical Chemistry
- University of Geneva
- CH-1211 Geneva 4, Switzerland
| | | | - Sandra Luber
- Department of Chemistry
- University of Zurich
- CH-8057 Zurich, Switzerland
| | - Hans Hagemann
- Department of Physical Chemistry
- University of Geneva
- CH-1211 Geneva 4, Switzerland
| | - Thomas Bürgi
- Department of Physical Chemistry
- University of Geneva
- CH-1211 Geneva 4, Switzerland
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24
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Carbohydrate Secondary and Tertiary Structure Using Raman Spectroscopy. POLYSACCHARIDES 2014. [DOI: 10.1007/978-3-319-03751-6_36-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
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25
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Qiu S, De Gussem E, Abbaspour Tehrani K, Sergeyev S, Bultinck P, Herrebout W. Stereochemistry of the Tadalafil Diastereoisomers: A Critical Assessment of Vibrational Circular Dichroism, Electronic Circular Dichroism, and Optical Rotatory Dispersion. J Med Chem 2013; 56:8903-14. [DOI: 10.1021/jm401407w] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
| | - Ewoud De Gussem
- Department
of Inorganic and Physical Chemistry, Ghent University, Krijgslaan
281-S3, B-9000 Ghent, Belgium
| | | | | | - Patrick Bultinck
- Department
of Inorganic and Physical Chemistry, Ghent University, Krijgslaan
281-S3, B-9000 Ghent, Belgium
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26
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Jagau TC, Gauss J, Ruud K. Analytic evaluation of the dipole Hessian matrix in coupled-cluster theory. J Chem Phys 2013; 139:154106. [DOI: 10.1063/1.4824715] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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27
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Implementation in the Pyvib2 program of the localized mode method and application to a helicene. Theor Chem Acc 2012. [DOI: 10.1007/s00214-012-1284-x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Thorvaldsen AJ, Gao B, Ruud K, Fedorovsky M, Zuber G, Hug W. Efficient Calculation of ROA Tensors with Analytical Gradients and Fragmentation. Chirality 2012; 24:1018-30. [DOI: 10.1002/chir.22090] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2012] [Accepted: 03/28/2012] [Indexed: 11/10/2022]
Affiliation(s)
- Andreas J. Thorvaldsen
- Centre for Theoretical and Computational Chemistry, Department of Chemistry; University of Tromsø; Tromsø Norway
| | - Bin Gao
- Centre for Theoretical and Computational Chemistry, Department of Chemistry; University of Tromsø; Tromsø Norway
| | - Kenneth Ruud
- Centre for Theoretical and Computational Chemistry, Department of Chemistry; University of Tromsø; Tromsø Norway
| | - Maxim Fedorovsky
- Department of Chemistry; University of Fribourg; Fribourg Switzerland
| | - Gérard Zuber
- Department of Chemistry; University of Fribourg; Fribourg Switzerland
| | - Werner Hug
- Department of Chemistry; University of Fribourg; Fribourg Switzerland
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Hudecová J, Horníček J, Buděšínský M, Šebestík J, Šafařík M, Zhang G, Keiderling TA, Bouř P. Three types of induced tryptophan optical activity compared in model dipeptides: theory and experiment. Chemphyschem 2012; 13:2748-60. [PMID: 22706803 DOI: 10.1002/cphc.201200201] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2012] [Revised: 04/27/2012] [Indexed: 11/08/2022]
Abstract
The tryptophan (Trp) aromatic residue in chiral matrices often exhibits a large optical activity and thus provides valuable structural information. However, it can also obscure spectral contributions from other peptide parts. To better understand the induced chirality, electronic circular dichroism (ECD), vibrational circular dichroism (VCD), and Raman optical activity (ROA) spectra of Trp-containing cyclic dipeptides c-(Trp-X) (where X = Gly, Ala, Trp, Leu, nLeu, and Pro) are analyzed on the basis of experimental spectra and density functional theory (DFT) computations. The results provide valuable insight into the molecular conformational and spectroscopic behavior of Trp. Whereas the ECD is dominated by Trp π-π* transitions, VCD is dominated by the amide modes, well separated from minor Trp contributions. The ROA signal is the most complex. However, an ROA marker band at 1554 cm(-1) indicates the local χ(2) angle value in this residue, in accordance with previous theoretical predictions. The spectra and computations also indicate that the peptide ring is nonplanar, with a shallow potential so that the nonplanarity is primarily induced by the side chains. Dispersion-corrected DFT calculations provide better results than plain DFT, but comparison with experiment suggests that they overestimate the stability of the folded conformers. Molecular dynamics simulations and NMR results also confirm a limited accuracy of the dispersion-DFT model in nonaqueous solvents. Combination of chiral spectroscopies with theoretical analysis thus significantly enhances the information that can be obtained from the induced chirality of the Trp aromatic residue.
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Affiliation(s)
- Jana Hudecová
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo náměstí 2, 16610 Prague 6, Czech Republic.
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Polavarapu PL. Molecular structure determination using chiroptical spectroscopy: where we may go wrong? Chirality 2012; 24:909-20. [PMID: 22544541 DOI: 10.1002/chir.22015] [Citation(s) in RCA: 62] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2011] [Accepted: 01/12/2012] [Indexed: 11/10/2022]
Abstract
Chiroptical spectroscopy is being widely used for determining the three-dimensional molecular structures (i.e., absolute configurations and conformations) of chiral molecules. The general procedure used with any of the chiroptical spectroscopic methods is to analyze the experimental data using corresponding quantum chemical predictions. Such analysis involves multiple steps, including consideration of conformations, solvent effects, electronic transitions, stereoisomers, and experimental artifacts, each of which possesses certain limitations. These limitations, when not recognized or properly taken into account, may lead to incorrect conclusions. This review emphasizes on selected examples that illustrate the potential limitations in utilizing the chiroptical spectroscopic methods. The examples used include hibiscus acid dimethylester, hibiscus acid disodium salt, 3,3'-diphenyl-[2,2'-binaphthalene]-1,1'-diol, tartaric acid esters, and 6,6'-dibromo-[1,1'-binaphthalene]-2,2'-diol.
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Feugmo CGT, Champagne B, Caudano Y, Cecchet F, Chabal YJ, Liégeois V. Towards modelling the vibrational signatures of functionalized surfaces: carboxylic acids on H-Si(111) surfaces. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2012; 24:124111. [PMID: 22394578 DOI: 10.1088/0953-8984/24/12/124111] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
In this work, we investigate the adsorption process of two carboxylic acids (stearic and undecylenic) on a H-Si(111) surface via the calculation of structural and energy changes as well as the simulation of their IR and Raman spectra. The two molecules adsorb differently at the surface since the stearic acid simply physisorbs while the undecylenic acid undergoes a chemical reaction with the hydrogen atoms of the surface. This difference is observed in the change of geometry during the adsorption. Indeed, the chemisorption of the undecylenic acid has a bigger impact on the structure than the physisorption of the stearic acid. Consistently, the former is also characterized by a larger value of adsorption energy and a smaller value of the tilting angle with respect to the normal plane. For both the IR and Raman signatures, the spectra of both molecules adsorbed at the surface are in a first approximation the superposition of the spectra of the Si cluster and of the carboxylic acid considered individually. The main deviation from this simple observation is the peak of the stretching Si-H (ν(Si-H)) mode, which is split into two peaks upon adsorption. As expected, the splitting is bigger for the chemisorption than the physisorption. The modes corresponding to atomic displacements close to the adsorption site display a frequency upshift by a dozen wavenumbers. One can also see the disappearance of the peaks associated with the C=C double bond when the undecylenic acid chemisorbs at the surface. The Raman and IR spectra are complementary and one can observe here that the most active Raman modes are generally IR inactive. Two exceptions to this are the two ν(Si-H) modes which are active in both spectroscopies. Finally, we compare our simulated spectra with some experimental measurements and we find an overall good agreement.
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Affiliation(s)
- Conrard Giresse Tetsassi Feugmo
- Laboratory of Theoretical Chemistry (LCT), Unité de Chimie-Physique Théorique et Structurale (UCPTS), FUNDP, Rue de Bruxelles, 61, B-5000 Namur, Belgium
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32
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Conformational analyses of peptides and proteins by vibrational Raman optical activity. Anal Bioanal Chem 2012; 403:2203-12. [DOI: 10.1007/s00216-012-5891-0] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2011] [Revised: 02/09/2012] [Accepted: 02/20/2012] [Indexed: 10/28/2022]
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Yamamoto S, Kaminský J, Bouř P. Structure and Vibrational Motion of Insulin from Raman Optical Activity Spectra. Anal Chem 2012; 84:2440-51. [DOI: 10.1021/ac2032436] [Citation(s) in RCA: 59] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Shigeki Yamamoto
- Institute of Organic Chemistry and
Biochemistry, Academy of Sciences, Flemingovo
nám. 2, 166 10, Prague 6, Czech Republic
| | - Jakub Kaminský
- Institute of Organic Chemistry and
Biochemistry, Academy of Sciences, Flemingovo
nám. 2, 166 10, Prague 6, Czech Republic
| | - Petr Bouř
- Institute of Organic Chemistry and
Biochemistry, Academy of Sciences, Flemingovo
nám. 2, 166 10, Prague 6, Czech Republic
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Helgaker T, Coriani S, Jørgensen P, Kristensen K, Olsen J, Ruud K. Recent Advances in Wave Function-Based Methods of Molecular-Property Calculations. Chem Rev 2012; 112:543-631. [DOI: 10.1021/cr2002239] [Citation(s) in RCA: 463] [Impact Index Per Article: 38.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Trygve Helgaker
- Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Oslo, P.O. Box 1033 Blindern, N-0315 Oslo, Norway
| | - Sonia Coriani
- Dipartimento di Scienze Chimiche e Farmaceutiche, Università degli Studi di Trieste, Via Giorgieri 1, I-34127 Trieste, Italy
| | - Poul Jørgensen
- Lundbeck Center for Theoretical Chemistry, Department of Chemistry, Aarhus University, 8000 Aarhus C, Denmark
| | - Kasper Kristensen
- Lundbeck Center for Theoretical Chemistry, Department of Chemistry, Aarhus University, 8000 Aarhus C, Denmark
| | - Jeppe Olsen
- Lundbeck Center for Theoretical Chemistry, Department of Chemistry, Aarhus University, 8000 Aarhus C, Denmark
| | - Kenneth Ruud
- Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Tromsø, N-9037 Tromsø, Norway
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Profant V, Baumruk V, Li X, Šafařík M, Bouř P. Tracking of the Polyproline Folding by Density Functional Computations and Raman Optical Activity Spectra. J Phys Chem B 2011; 115:15079-89. [DOI: 10.1021/jp207706p] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Václav Profant
- Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 12116, Prague 2, Czech Republic
| | - Vladimír Baumruk
- Faculty of Mathematics and Physics, Charles University, Ke Karlovu 5, 12116, Prague 2, Czech Republic
| | - Xiaojun Li
- Department of Chemistry, Centre for Theoretical and Computational Chemistry, University of Tromsø, N-9037 Tromsø, Norway
| | - Martin Šafařík
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, 166 10 Prague, Czech Republic
| | - Petr Bouř
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, 166 10 Prague, Czech Republic
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Liégeois V, Champagne B. Theoretical investigation of Raman optical activity signatures of Tröger's base. J Phys Chem A 2011; 115:13706-13. [PMID: 21967042 DOI: 10.1021/jp208591j] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The Raman and VROA spectra of (S,S)-Tröger's base are simulated. We mainly discuss the peaks in the 1140-1400 cm(-1) wavenumber range where an intense VROA signature is found. In this range, nearly all of the Raman-active bands belong to the irreducible representation A (C(2) point group), whereas no such observation is made for the VROA spectrum. The vibrational normal modes associated with the peaks in this range mainly consist of wagging and twisting motions of the hydrogen atoms. From the atomic contribution patterns (ACPs) and the group coupling matrices (GCMs), one finds that the VROA backward-scattering intensities mainly arise from hydrogen and carbon atoms in the vicinity of the two chiral nitrogen atoms. The VROA signatures in the 1140-1400 cm(-1) range are therefore a fingerprint of the local chirality around the two chiral nitrogen centers.
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Affiliation(s)
- Vincent Liégeois
- Laboratoire de Chimie Théorique, Facultés Universitaires Notre-Dame de la Paix, Namur, Belgium.
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Jacob CR. Theoretical Study of the Raman Optical Activity Spectra of 310-Helical Polypeptides. Chemphyschem 2011; 12:3291-306. [DOI: 10.1002/cphc.201100593] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2011] [Indexed: 11/06/2022]
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Cheeseman JR, Frisch MJ. Basis Set Dependence of Vibrational Raman and Raman Optical Activity Intensities. J Chem Theory Comput 2011; 7:3323-34. [DOI: 10.1021/ct200507e] [Citation(s) in RCA: 106] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- James R. Cheeseman
- Gaussian Inc., 340 Quinnipiac St., Bldg. 40, Wallingford, Connecticut 06492-4050, United States
| | - Michael J. Frisch
- Gaussian Inc., 340 Quinnipiac St., Bldg. 40, Wallingford, Connecticut 06492-4050, United States
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39
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Crawford TD, Ruud K. Coupled-Cluster Calculations of Vibrational Raman Optical Activity Spectra. Chemphyschem 2011; 12:3442-8. [DOI: 10.1002/cphc.201100547] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2011] [Revised: 08/13/2011] [Indexed: 11/06/2022]
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40
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Mennucci B, Cappelli C, Cammi R, Tomasi J. Modeling solvent effects on chiroptical properties. Chirality 2011; 23:717-29. [DOI: 10.1002/chir.20984] [Citation(s) in RCA: 91] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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41
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Bieler NS, Haag MP, Jacob CR, Reiher M. Analysis of the Cartesian Tensor Transfer Method for Calculating Vibrational Spectra of Polypeptides. J Chem Theory Comput 2011; 7:1867-81. [DOI: 10.1021/ct2001478] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Noah S. Bieler
- ETH Zurich, Laboratorium für Physikalische Chemie, Wolfgang-Pauli-Strasse 10, 8093 Zurich, Switzerland
| | - Moritz P. Haag
- ETH Zurich, Laboratorium für Physikalische Chemie, Wolfgang-Pauli-Strasse 10, 8093 Zurich, Switzerland
| | - Christoph R. Jacob
- Karlsruhe Institute of Technology (KIT), Center for Functional Nanostructures, Wolfgang-Gaede-Str. 1a, 76131 Karlsruhe, Germany
| | - Markus Reiher
- ETH Zurich, Laboratorium für Physikalische Chemie, Wolfgang-Pauli-Strasse 10, 8093 Zurich, Switzerland
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42
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Johannessen C, Hecht L, Merten C. Comparative Study of Measured and Computed Raman Optical Activity of a Chiral Transition Metal Complex. Chemphyschem 2011; 12:1419-21. [DOI: 10.1002/cphc.201100128] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2011] [Indexed: 11/09/2022]
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Hopmann KH, Ruud K, Pecul M, Kudelski A, Dračínský M, Bouř P. Explicit versus Implicit Solvent Modeling of Raman Optical Activity Spectra. J Phys Chem B 2011; 115:4128-37. [DOI: 10.1021/jp110662w] [Citation(s) in RCA: 87] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Kathrin H. Hopmann
- Centre for Theoretical and Computational Chemistry (CTCC), Department of Chemistry, University of Tromsø, N-9037 Tromsø, Norway
| | - Kenneth Ruud
- Centre for Theoretical and Computational Chemistry (CTCC), Department of Chemistry, University of Tromsø, N-9037 Tromsø, Norway
| | - Magdalena Pecul
- Centre for Theoretical and Computational Chemistry (CTCC), Department of Chemistry, University of Tromsø, N-9037 Tromsø, Norway
- Department of Chemistry, Warsaw University, Pasteura 1, 02-093 Warsaw, Poland
| | - Andrzej Kudelski
- Department of Chemistry, Warsaw University, Pasteura 1, 02-093 Warsaw, Poland
| | - Martin Dračínský
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, 166 10 Prague, Czech Republic
| | - Petr Bouř
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, 166 10 Prague, Czech Republic
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44
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Yamamoto S, Watarai H, Bouř P. Monitoring the Backbone Conformation of Valinomycin by Raman Optical Activity. Chemphyschem 2011; 12:1509-18. [DOI: 10.1002/cphc.201000917] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2010] [Revised: 01/18/2011] [Indexed: 11/11/2022]
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Bast R, Ekström U, Gao B, Helgaker T, Ruud K, Thorvaldsen AJ. The ab initio calculation of molecular electric, magnetic and geometric properties. Phys Chem Chem Phys 2011; 13:2627-51. [DOI: 10.1039/c0cp01647k] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
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46
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Drooghaag X, Marchand-Brynaert J, Champagne B, Liégeois V. Combined Experimental and Theoretical Study on the Raman and Raman Optical Activity Signatures of Pentamethylundecane Diastereoisomers. J Phys Chem B 2010; 114:11753-60. [DOI: 10.1021/jp105028q] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xavier Drooghaag
- Institute of Condensed Matter and Nanosciences, Université Catholique de Louvain, Place Louis Pasteur 1, B-1348 Louvain-la-Neuve, Belgium, and Laboratoire de Chimie Théorique, Unité de Chimie Physique Théorique et Structurale, Facultés Universitaires Notre-Dame de la Paix, rue de Bruxelles, 61, B-5000 Namur, Belgium
| | - Jacqueline Marchand-Brynaert
- Institute of Condensed Matter and Nanosciences, Université Catholique de Louvain, Place Louis Pasteur 1, B-1348 Louvain-la-Neuve, Belgium, and Laboratoire de Chimie Théorique, Unité de Chimie Physique Théorique et Structurale, Facultés Universitaires Notre-Dame de la Paix, rue de Bruxelles, 61, B-5000 Namur, Belgium
| | - Benoît Champagne
- Institute of Condensed Matter and Nanosciences, Université Catholique de Louvain, Place Louis Pasteur 1, B-1348 Louvain-la-Neuve, Belgium, and Laboratoire de Chimie Théorique, Unité de Chimie Physique Théorique et Structurale, Facultés Universitaires Notre-Dame de la Paix, rue de Bruxelles, 61, B-5000 Namur, Belgium
| | - Vincent Liégeois
- Institute of Condensed Matter and Nanosciences, Université Catholique de Louvain, Place Louis Pasteur 1, B-1348 Louvain-la-Neuve, Belgium, and Laboratoire de Chimie Théorique, Unité de Chimie Physique Théorique et Structurale, Facultés Universitaires Notre-Dame de la Paix, rue de Bruxelles, 61, B-5000 Namur, Belgium
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Hudecová J, Kapitán J, Baumruk V, Hammer RP, Keiderling TA, Bouř P. Side Chain and Flexibility Contributions to the Raman Optical Activity Spectra of a Model Cyclic Hexapeptide. J Phys Chem A 2010; 114:7642-51. [DOI: 10.1021/jp104744a] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jana Hudecová
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, Prague 6, 16610, Czech Republic, Institute of Physics, Charles University, Ke Karlovu 5, 12116, Prague 2, Czech Republic, Department of Chemistry, Louisiana State University, 232 Choppin Hall, Baton Rouge, Louisiana 70803-1804, and Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago Illinois 60607-7061
| | - Josef Kapitán
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, Prague 6, 16610, Czech Republic, Institute of Physics, Charles University, Ke Karlovu 5, 12116, Prague 2, Czech Republic, Department of Chemistry, Louisiana State University, 232 Choppin Hall, Baton Rouge, Louisiana 70803-1804, and Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago Illinois 60607-7061
| | - Vladimír Baumruk
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, Prague 6, 16610, Czech Republic, Institute of Physics, Charles University, Ke Karlovu 5, 12116, Prague 2, Czech Republic, Department of Chemistry, Louisiana State University, 232 Choppin Hall, Baton Rouge, Louisiana 70803-1804, and Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago Illinois 60607-7061
| | - Robert P. Hammer
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, Prague 6, 16610, Czech Republic, Institute of Physics, Charles University, Ke Karlovu 5, 12116, Prague 2, Czech Republic, Department of Chemistry, Louisiana State University, 232 Choppin Hall, Baton Rouge, Louisiana 70803-1804, and Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago Illinois 60607-7061
| | - Timothy A. Keiderling
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, Prague 6, 16610, Czech Republic, Institute of Physics, Charles University, Ke Karlovu 5, 12116, Prague 2, Czech Republic, Department of Chemistry, Louisiana State University, 232 Choppin Hall, Baton Rouge, Louisiana 70803-1804, and Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago Illinois 60607-7061
| | - Petr Bouř
- Institute of Organic Chemistry and Biochemistry, Academy of Sciences, Flemingovo nám. 2, Prague 6, 16610, Czech Republic, Institute of Physics, Charles University, Ke Karlovu 5, 12116, Prague 2, Czech Republic, Department of Chemistry, Louisiana State University, 232 Choppin Hall, Baton Rouge, Louisiana 70803-1804, and Department of Chemistry, University of Illinois at Chicago, 845 West Taylor Street, Chicago Illinois 60607-7061
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Ruud K, Thorvaldsen AJ. Theoretical approaches to the calculation of Raman optical activity spectra. Chirality 2010; 21 Suppl 1:E54-67. [PMID: 19750498 DOI: 10.1002/chir.20777] [Citation(s) in RCA: 73] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
In this article, we will give a brief account of the different approaches that have been presented in the literature for calculating Raman optical activity (ROA) spectra by ab initio methods. We will also outline the general structure of a self-consistent-field-based approach for analytic calculations of ROA spectra, including also contributions from London orbitals. The use of London orbitals ensures that the relevant ROA parameters are gauge origin independent. We will also give an outlook on the future of ab initio calculations of Raman optical activity spectra.
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Affiliation(s)
- Kenneth Ruud
- Centre for Theoretical and Computational Chemistry, Department of Chemistry, University of Tromsø, N-9037 Tromsø, Norway.
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50
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Kapitán J, Johannessen C, Bour P, Hecht L, Barron LD. Vibrational Raman optical activity of 1-phenylethanol and 1-phenylethylamine: revisiting old friends. Chirality 2010; 21 Suppl 1:E4-12. [PMID: 19544353 DOI: 10.1002/chir.20747] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
The samples used for the first observations of vibrational Raman optical activity (ROA) in 1972, namely both enantiomers of 1-phenylethanol and 1-phenylethylamine, have been revisited using a modern commercial ROA instrument together with state-of-the-art ab initio calculations. The simulated ROA spectra reveal for the first time the vibrational origins of the first reported ROA signals, which comprised similar couplets in the alcohol and amine in the spectral range approximately 280-400 cm(-1). The results demonstrate how easy and routine ROA measurements have become, and how current ab initio quantum-chemical calculations are capable of simulating experimental ROA spectra quite closely provided sufficient averaging over accessible conformations is included. Assignment of absolute configuration is, inter alia, completely secure from results of this quality. Anharmonic corrections provided small improvements in the simulated Raman and ROA spectra. The importance of conformational averaging emphasized by this and previous related work provides the underlying theoretical background to ROA studies of dynamic aspects of chiral molecular and biomolecular structure and behavior.
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Affiliation(s)
- Josef Kapitán
- WestChem, Department of Chemistry, University of Glasgow, Glasgow, UK
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