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Jähnigen S. Vibrational Circular Dichroism Spectroscopy of Chiral Molecular Crystals: Insights from Theory. Angew Chem Int Ed Engl 2023; 62:e202303595. [PMID: 37071543 DOI: 10.1002/anie.202303595] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2023] [Revised: 04/18/2023] [Accepted: 04/18/2023] [Indexed: 04/19/2023]
Abstract
Chirality is a curious phenomenon that appears in various forms. While the concept of molecular (RS-)chirality is ubiquitous in chemistry, there are also more intricate forms of structural chirality. One of them is the enantiomorphism of crystals, especially molecular crystals, that describes the lack of mirror symmetry in the unit cell. Its relation to molecular chirality is not obvious, but still an open question, which can be addressed with chiroptical tools. Vibrational circular dichroism (VCD) denotes chiral infrared (IR) spectroscopy that is susceptible to both, the molecular as well as the intermolecular space by means of vibrational transitions. When carried out in the solid state, VCD delivers a very rich set of non-local contributions that are determined by crystal packing and collective motion. Since its discovery in the 1970s, VCD has become the method of choice for the determination of absolute configurations, but its applicability reaches beyond towards the study of different crystal forms and polymorphism. This brief review summarises the theoretical concepts of crystal chirality and how computations of solid-state VCD can shed light into the intimate connection of chiral structure and vibrational optical activity.
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Affiliation(s)
- Sascha Jähnigen
- PASTEUR, Département de Chimie, Ecole Normale Supérieure, PSL University, Sorbonne Université, CNRS, 75005, Paris, France
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2
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Pagacz-Kostrzewa M, Szaniawska W, Wierzejewska M. NIR and UV induced transformations of indazole-3-carboxylic acid isolated in low temperature matrices. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 290:122283. [PMID: 36586171 DOI: 10.1016/j.saa.2022.122283] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2022] [Accepted: 12/26/2022] [Indexed: 06/17/2023]
Abstract
The molecular structure and NIR and UV induced phototransformations of indazole-3-carboxylic acid were studied in low temperature argon and nitrogen matrices by FTIR spectroscopy and B3LYP/6-311++G(2d,2p) calculations. Eleven minima of IC were located on the S0 potential energy surface. The three most stable structures were detected experimentally in both matrices after deposition. Upon NIR irradiation a dominant process was rotamerization within the carboxylic group leading to changes in the population of the trans 1HIC1 and cis 1HIC2 forms. In turn, at UV irradiation at λ = 260 nm two new tautomers (2HIC2 and 2HIC3) were generated indicating that the hydrogen atom transfer in pyrazole ring took place. Based on the obtained kinetic curves, differences in the phototransformation rates in different matrices were indicated.
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Affiliation(s)
- M Pagacz-Kostrzewa
- Faculty of Chemistry, University of Wrocław, F. Joliot-Curie 14, 50-383 Wrocław, Poland.
| | - W Szaniawska
- Faculty of Chemistry, University of Wrocław, F. Joliot-Curie 14, 50-383 Wrocław, Poland
| | - M Wierzejewska
- Faculty of Chemistry, University of Wrocław, F. Joliot-Curie 14, 50-383 Wrocław, Poland
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3
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Dupont J, Guillot R, Lepère V, Zehnacker A. Jet-cooled laser spectroscopy and solid-state vibrational circular dichroism of the cyclo-(Tyr-Phe) diketopiperazine dipeptide. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133059] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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Buelna-García CE, Robles-Chaparro E, Parra-Arellano T, Quiroz-Castillo JM, del-Castillo-Castro T, Martínez-Guajardo G, Castillo-Quevedo C, de-León-Flores A, Anzueto-Sánchez G, Martin-del-Campo-Solis MF, Mendoza-Wilson AM, Vásquez-Espinal A, Cabellos JL. Theoretical Prediction of Structures, Vibrational Circular Dichroism, and Infrared Spectra of Chiral Be 4B 8 Cluster at Different Temperatures. Molecules 2021; 26:3953. [PMID: 34203563 PMCID: PMC8271876 DOI: 10.3390/molecules26133953] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2021] [Revised: 06/18/2021] [Accepted: 06/22/2021] [Indexed: 11/16/2022] Open
Abstract
Lowest-energy structures, the distribution of isomers, and their molecular properties depend significantly on geometry and temperature. Total energy computations using DFT methodology are typically carried out at a temperature of zero K; thereby, entropic contributions to the total energy are neglected, even though functional materials work at finite temperatures. In the present study, the probability of the occurrence of one particular Be4B8 isomer at temperature T is estimated by employing Gibbs free energy computed within the framework of quantum statistical mechanics and nanothermodynamics. To identify a list of all possible low-energy chiral and achiral structures, an exhaustive and efficient exploration of the potential/free energy surfaces is carried out using a multi-level multistep global genetic algorithm search coupled with DFT. In addition, we discuss the energetic ordering of structures computed at the DFT level against single-point energy calculations at the CCSD(T) level of theory. The total VCD/IR spectra as a function of temperature are computed using each isomer's probability of occurrence in a Boltzmann-weighted superposition of each isomer's spectrum. Additionally, we present chemical bonding analysis using the adaptive natural density partitioning method in the chiral putative global minimum. The transition state structures and the enantiomer-enantiomer and enantiomer-achiral activation energies as a function of temperature evidence that a change from an endergonic to an exergonic type of reaction occurs at a temperature of 739 K.
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Affiliation(s)
- Carlos Emiliano Buelna-García
- Departamento de Investigación en Polímeros y Materiales, Edificio 3G, Universidad de Sonora, Hermosillo 83000, Sonora, Mexico; (C.E.B.-G.); (J.M.Q.-C.); (T.d.-C.-C.)
- Organización Científica y Tecnológica del Desierto, Hermosillo 83150, Sonora, Mexico
| | - Eduardo Robles-Chaparro
- Departamento de Ciencias Químico Biologicas, Edificio 5A, Universidad de Sonora, Hermosillo 83000, Sonora, Mexico; (E.R.-C.); (T.P.-A.); (A.d.-L.-F.)
| | - Tristan Parra-Arellano
- Departamento de Ciencias Químico Biologicas, Edificio 5A, Universidad de Sonora, Hermosillo 83000, Sonora, Mexico; (E.R.-C.); (T.P.-A.); (A.d.-L.-F.)
| | - Jesus Manuel Quiroz-Castillo
- Departamento de Investigación en Polímeros y Materiales, Edificio 3G, Universidad de Sonora, Hermosillo 83000, Sonora, Mexico; (C.E.B.-G.); (J.M.Q.-C.); (T.d.-C.-C.)
| | - Teresa del-Castillo-Castro
- Departamento de Investigación en Polímeros y Materiales, Edificio 3G, Universidad de Sonora, Hermosillo 83000, Sonora, Mexico; (C.E.B.-G.); (J.M.Q.-C.); (T.d.-C.-C.)
| | - Gerardo Martínez-Guajardo
- Unidad Académica de Ciencias Químicas, Área de Ciencias de la Salud, Universidad Autónomade Zacatecas, Km. 6 Carretera Zacatecas-Guadalajara s/n, Ejido La Escondida C.P., Zacatecas 98160, Zac, Mexico;
| | - Cesar Castillo-Quevedo
- Departamento de Fundamentos del Conocimiento, Centro Universitario del Norte, Universidad de Guadalajara, Carretera Federal No. 23, Km. 191, C.P., Colotlán 46200, Jalisco, Mexico; (C.C.-Q.); (M.F.M.-d.-C.-S.)
| | - Aned de-León-Flores
- Departamento de Ciencias Químico Biologicas, Edificio 5A, Universidad de Sonora, Hermosillo 83000, Sonora, Mexico; (E.R.-C.); (T.P.-A.); (A.d.-L.-F.)
| | | | - Martha Fabiola Martin-del-Campo-Solis
- Departamento de Fundamentos del Conocimiento, Centro Universitario del Norte, Universidad de Guadalajara, Carretera Federal No. 23, Km. 191, C.P., Colotlán 46200, Jalisco, Mexico; (C.C.-Q.); (M.F.M.-d.-C.-S.)
| | - Ana Maria Mendoza-Wilson
- Coordinación de Tecnología de Alimentos de Origen Vegetal, CIAD, A.C., Carretera Gustavo Enrique Astiazarán Rosas, No. 46, Hermosillo 83304, Sonora, Mexico;
| | - Alejandro Vásquez-Espinal
- Computational and Theoretical Chemistry Group Departamento de Ciencias Químicas, Facultad de Ciencias Exactas, Universidad Andres Bello, Republica 498, Santiago 8370035, Chile;
| | - Jose Luis Cabellos
- Departamento de Investigación en Física, Edificio 3M, Universidad de Sonora, Hermosillo 83000, Sonora, Mexico
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Quesada-Moreno MM, Avilés-Moreno JR, López-González JJ, Zúñiga FJ, María DS, Claramunt RM, Reviriego F, Alkorta I, Elguero J. The synergy of different solid-state techniques to elucidate the supramolecular assembly of two 1H-benzotriazole polymorphs. Phys Chem Chem Phys 2019; 21:19879-19889. [PMID: 31475282 DOI: 10.1039/c9cp03209f] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
1H-Benzotriazole crystallizes as two different polymorphs, namely 4aα and 4aβ. One polymorph is chiral and it resolves spontaneously as conglomerates. The other polymorph crystallizes in a centrosymmetric space group and it is therefore achiral. In both polymorphs supramolecular structures are formed starting from achiral monomers. An analysis of these two polymorphs of 1H-benzotriazole has been carried out by a complete strategy involving different solid-state experimental techniques and quantum chemical calculations (DFT, Density Functional Theory). In particular, X-ray crystallography, NMR spectroscopy and vibrational spectroscopy techniques (FarIR, IR and Raman) that are not sensitive to chirality have been used to characterize the two polymorphs structurally. Vibrational spectroscopy (VCD, Vibrational Circular Dichroism) that is sensitive to chirality was employed to determine the absolute configuration (M or P helices) of the chiral supramolecular structure of 4aα.
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Affiliation(s)
- María Mar Quesada-Moreno
- Departamento de Química Física y Analítica, Universidad de Jaén, Campus Las Lagunillas, E-23071, Jaén, Spain.
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6
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Quesada-Moreno MM, Virgili A, Monteagudo E, Claramunt RM, Avilés-Moreno JR, López-González JJ, Alkorta I, Elguero J. A vibrational circular dichroism (VCD) methodology for the measurement of enantiomeric excess in chiral compounds in the solid phase and for the complementary use of NMR and VCD techniques in solution: the camphor case. Analyst 2018; 143:1406-1416. [PMID: 29457166 DOI: 10.1039/c7an01855j] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
For the first time, the success of a methodology for the determination of enantiomeric excess (% ee) in chiral solid samples by vibrational circular dichroism (VCD) spectroscopy is reported. We have used camphor to determine the % ee in a blind sample constituted by a mixture of its two enantiomers as a test for the validity of our approach. IR and VCD spectra of different enantiomeric mixtures of R/S-camphor in Nujol mulls were recorded and linear regressions of VCD intensities (ΔAbs.) vs. % ee for selected bands were found. Finally, the VCD intensities of a blind sample were interpolated in these linear regressions, obtaining its % ee with a rms of 2.4. These results in the solid phase were complemented with the determination of % ee in the liquid phase by VCD and NMR techniques, which are proved to be complementary techniques to carry out this kind of analysis. In the same way as in the VCD solid phase, linear regressions of ΔAbs. vs. % ee for selected bands were established, obtaining a rms of 1.1 in the % ee determination of a blind sample. 1H NMR experiments at 600 MHz using the chiral solvating agent, (S,S)-ABTE, allow the determination of the proportions of enantiomers in CD2Cl2 solution with great accuracy. 13C CPMAS NMR spectra prove that this technique cannot be used for conglomerates and/or solid solutions.
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Affiliation(s)
- María Mar Quesada-Moreno
- Grupo de Investigación Química Física Teórica y Experimental (FQM-173), Departamento de Química Física y Analítica, Facultad de Ciencias Experimentales, Universidad de Jaén, Campus de Las Lagunillas, E-23071 Jaén, Spain.
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7
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Quesada-Moreno MM, Cruz-Cabeza AJ, Avilés-Moreno JR, Cabildo P, Claramunt RM, Alkorta I, Elguero J, Zúñiga FJ, López-González JJ. The Curious Case of 2-Propyl-1H-benzimidazole in the Solid State: An Experimental and Theoretical Study. J Phys Chem A 2017; 121:5665-5674. [DOI: 10.1021/acs.jpca.7b05220] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- María Mar Quesada-Moreno
- Departamento
de Química Física y Analítica, Universidad de Jaén, Campus Las Lagunillas, E-23071 Jaén, Spain
| | - Aurora J. Cruz-Cabeza
- School
of Chemical Engineering and Analytical Sciences, The University of Manchester, The Mill, Sackville Street, Manchester M13 9PL, United Kingdom
| | - Juan Ramón Avilés-Moreno
- Departamento
de Sistemas Físicos, Químicos y Naturales, Universidad Pablo de Olavide, E-41013 Sevilla, Spain
| | - Pilar Cabildo
- Facultad
de Ciencias, Dpto. Química Orgánica y Bio-Orgánica, Universidad Nacional de Educación a Distancia (UNED), Senda del Rey
9, E-28040 Madrid, Spain
| | - Rosa M. Claramunt
- Facultad
de Ciencias, Dpto. Química Orgánica y Bio-Orgánica, Universidad Nacional de Educación a Distancia (UNED), Senda del Rey
9, E-28040 Madrid, Spain
| | - Ibon Alkorta
- Instituto
de Química Médica, Centro de Química Orgánica
Manuel Lora-Tamayo, CSIC, Juan de la Cierva 3, E-28006 Madrid, Spain
| | - José Elguero
- Instituto
de Química Médica, Centro de Química Orgánica
Manuel Lora-Tamayo, CSIC, Juan de la Cierva 3, E-28006 Madrid, Spain
| | - Francisco J. Zúñiga
- Facultad
de Ciencia y Tecnología, Dpto. Física Materia Condensada, Universidad del País Vasco, Apdo. 644, E-48080 Bilbao, Spain
| | - Juan Jesús López-González
- Departamento
de Química Física y Analítica, Universidad de Jaén, Campus Las Lagunillas, E-23071 Jaén, Spain
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Pérez-Mellor A, Zehnacker A. Vibrational circular dichroism of a 2,5-diketopiperazine (DKP) peptide: Evidence for dimer formation in cyclo LL or LD diphenylalanine in the solid state. Chirality 2017; 29:89-96. [DOI: 10.1002/chir.22674] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2016] [Revised: 11/12/2016] [Accepted: 11/14/2016] [Indexed: 12/24/2022]
Affiliation(s)
- Ariel Pérez-Mellor
- Institut des Sciences Moléculaires d'Orsay (ISMO); CNRS and Univ Paris-Sud, Université Paris-Saclay; Orsay France
| | - Anne Zehnacker
- Institut des Sciences Moléculaires d'Orsay (ISMO); CNRS and Univ Paris-Sud, Université Paris-Saclay; Orsay France
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9
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Quesada-Moreno MM, Avilés-Moreno JR, López-González JJ, Jacob K, Vendier L, Etienne M, Alkorta I, Elguero J, Claramunt RM. Supramolecular organization of perfluorinated 1H-indazoles in the solid state using X-ray crystallography, SSNMR and sensitive (VCD) and non sensitive (MIR, FIR and Raman) to chirality vibrational spectroscopies. Phys Chem Chem Phys 2017; 19:1632-1643. [DOI: 10.1039/c6cp04940k] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The determination of the AC of three perfluorinated 1H-indazoles that resolve spontaneously as conglomerates.
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Affiliation(s)
- María M. Quesada-Moreno
- Grupo de Investigación Química Física Teórica y Experimental (FQM-173)
- Departamento de Química Física y Analítica
- Facultad de Ciencias Experimentales
- Universidad de Jaén
- E-23071 Jaén
| | - Juan Ramón Avilés-Moreno
- Departamento de Sistemas Físicos
- Químicos y Naturales
- Facultad de Ciencias Experimentales
- Universidad Pablo de Olavide
- E-41013 Sevilla
| | - Juan Jesús López-González
- Grupo de Investigación Química Física Teórica y Experimental (FQM-173)
- Departamento de Química Física y Analítica
- Facultad de Ciencias Experimentales
- Universidad de Jaén
- E-23071 Jaén
| | - Kane Jacob
- Laboratoire de Chimie de Coordination du CNRS (LCC)
- 31077 Toulouse Cedex 4
- France
- Université de Toulouse
- UPS
| | - Laure Vendier
- Laboratoire de Chimie de Coordination du CNRS (LCC)
- 31077 Toulouse Cedex 4
- France
- Université de Toulouse
- UPS
| | - Michel Etienne
- Laboratoire de Chimie de Coordination du CNRS (LCC)
- 31077 Toulouse Cedex 4
- France
- Université de Toulouse
- UPS
| | - Ibon Alkorta
- Instituto de Química Médica
- CSIC
- E-28006 Madrid
- Spain
| | - José Elguero
- Instituto de Química Médica
- CSIC
- E-28006 Madrid
- Spain
| | - Rosa M. Claramunt
- Departamento de Química Orgánica y Bio-Orgánica
- Facultad de Ciencias
- Universidad Nacional de Educación a Distancia
- E-28040 Madrid
- Spain
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10
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Quesada-Moreno MM, Avilés-Moreno JR, Márquez-García AA, López-González JJ. Deducing the molecular properties of zwitterionic, protonated, deprotonated, and double-deprotonated forms of L-cysteine from vibrational spectroscopy (IR, Raman, VCD) and quantum chemical calculations. J Mol Model 2014; 20:2229. [PMID: 24916344 DOI: 10.1007/s00894-014-2229-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2013] [Accepted: 04/02/2014] [Indexed: 10/25/2022]
Abstract
The behavior of L-cysteine (C3H7NO2S, (2R)-2-amino-3-sulfanylpropanoic acid) in water at different pH values was analyzed both experimentally and theoretically. The behavior was studied at pH values of 5.21 (at this pH, L-cysteine is a zwitterionic species), 1.00 (protonated species), 8.84 (monodeprotonated species), and 13.00 (dideprotonated species). We carried out a vibrational study using nonchiroptical (IR-Raman) and chiroptical (VCD) techniques complemented by quantum chemical calculations. We adopted a dual strategy, as follows. (i) The hybrid density functionals B3LYP and M062X and the ab initio MP2 method were employed, with the same 6-311++G (d,p) basis set, in order to characterize the relative energies and structures of an extensive set of conformers of L-cysteine. The presence of water was included by utilizing the IEF-PCM implicit solvation model. (ii) The vibrational analysis was made using a chirality-sensitive using a chirality-sensitive technique (VCD) and chirality-insensitive techniques (IR, including MIR and FIR, and Raman), especially in aqueous solution. The results obtained theoretically and experimentally were compared in order to deduce the most stable structures at each pH. Moreover, for the first time, the monodeprotonated anion of L-cysteine was detected in aqueous solution by means of IR, Raman and vibrational circular dichroism (VCD). Finally, analysis of the low-frequency region using the IR and Raman techniques was shown to be a very important way to understanding the conformational preference of the zwitterionic species.
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Affiliation(s)
- María Mar Quesada-Moreno
- Department of Physical and Analytical Chemistry, University of Jaén, Campus Las Lagunillas, 23071, Jaén, Spain
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11
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Quesada-Moreno MM, Avilés-Moreno JR, López-González JJ, Claramunt RM, López C, Alkorta I, Elguero J. Chiral self-assembly of enantiomerically pure (4S,7R)-campho[2,3-c]pyrazole in the solid state: a vibrational circular dichroism (VCD) and computational study. ACTA ACUST UNITED AC 2014. [DOI: 10.1016/j.tetasy.2014.02.015] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Muñoz BK, Ojo WS, Jacob K, Romero N, Vendier L, Despagnet-Ayoub E, Etienne M. Perfluorinated 1H-indazoles and hydrotris(indazol-1-yl)borates. Supramolecular organization and a new synthetic procedure to form scorpionate ligands. NEW J CHEM 2014. [DOI: 10.1039/c4nj00136b] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The molecular and supramolecular structures of new perfluorinated indazoles and hydrotris(indazolyl)borates reveal various types of intra- and intermolecular interactions and organizations.
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Affiliation(s)
- Bianca K. Muñoz
- CNRS
- LCC (Laboratoire de Chimie de Coordination)
- F-31077 Toulouse Cedex 4, France
- Université de Toulouse
- UPS
| | - Wilfried-Solo Ojo
- CNRS
- LCC (Laboratoire de Chimie de Coordination)
- F-31077 Toulouse Cedex 4, France
- Université de Toulouse
- UPS
| | - Kane Jacob
- CNRS
- LCC (Laboratoire de Chimie de Coordination)
- F-31077 Toulouse Cedex 4, France
- Université de Toulouse
- UPS
| | - Nuria Romero
- CNRS
- LCC (Laboratoire de Chimie de Coordination)
- F-31077 Toulouse Cedex 4, France
- Université de Toulouse
- UPS
| | - Laure Vendier
- CNRS
- LCC (Laboratoire de Chimie de Coordination)
- F-31077 Toulouse Cedex 4, France
- Université de Toulouse
- UPS
| | - Emmanuelle Despagnet-Ayoub
- CNRS
- LCC (Laboratoire de Chimie de Coordination)
- F-31077 Toulouse Cedex 4, France
- Université de Toulouse
- UPS
| | - Michel Etienne
- CNRS
- LCC (Laboratoire de Chimie de Coordination)
- F-31077 Toulouse Cedex 4, France
- Université de Toulouse
- UPS
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