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Artigas A, Carissan Y, Hagebaum-Reignier D, Bock H, Durola F, Coquerel Y. Aromaticity in semi-condensed figure-eight molecules. Chemistry 2024:e202401016. [PMID: 38642001 DOI: 10.1002/chem.202401016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2024] [Revised: 04/08/2024] [Accepted: 04/19/2024] [Indexed: 04/22/2024]
Abstract
Electron delocalization and aromaticity was comparatively evaluated in recently synthesized figure-eight molecules made of two condensed U-shaped polycyclic aromatic hydrocarbon moieties connected either by two single bonds or by two para-phenylene groups. The selected examples include molecules that incorporate eight-membered and sixteen-membered rings, as well as a doubly [5]helicene-bridged (1,4)cyclophane. We probe whether some electron delocalization could occur through the stereogenic single bonds in these molecules: Is aromaticity purely (semi-)local, or possibly also global in these molecules? It was concluded that the situation can go from a purely (semi-)local character when the dihedral angle at the connecting single bonds is large, such as in biphenyl, to a predominantly (semi-)local character with a minor global contribution when the dihedral angle is small, such as in the para-phenylene connectors of the [5]helicene-bridged cyclophane.
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Affiliation(s)
- Albert Artigas
- Universitat de Girona Institute of Computational Chemistry and Catalysis, Facultat de Ciències, SPAIN
| | - Yannick Carissan
- Aix-Marseille Université, Institut des Sciences Moléculaires de Marseille, FRANCE
| | | | - Harald Bock
- Centre de Recherche Paul Pascal, CRPP, FRANCE
| | | | - Yoann Coquerel
- Aix-Marseille Université & CNRS, Institut des Sciences Moléculaires de Marseille - UMR7313, Centre St Jérôme, Case 531, Av. Escadrille Normandie-Niemen, 13397, Marseille Cedex 20, FRANCE
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2
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Hosokawa Y, Kajiya S, Ohshima A, Kawata S, Ishida N, Usuki A. Molecular-Simulation-Inspired Synthesis of [6]-Prismane via Photoisomerisation of Octafluoro[2.2]para cyclophane. Molecules 2024; 29:783. [PMID: 38398535 PMCID: PMC10891812 DOI: 10.3390/molecules29040783] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Revised: 02/05/2024] [Accepted: 02/06/2024] [Indexed: 02/25/2024] Open
Abstract
Prismanes have been attracting interest for nearly 50 years because of their geometric symmetry, highly strained structures, and unique applications due to their high carbon densities and bulky structures. Although [3]-, [4]-, and [5]-prismanes have been synthesised, [6]-prismanes and their derivatives remain elusive. Herein, fluorine chemistry, molecular mechanics, molecular orbital package, and density functional theory calculations were used to design and implement the photoisomerisation of octafluoro[2.2]paracyclophane (selected based on the good overlap of its lowest unoccupied molecular orbitals and short distance between the benzene rings) into octafluoro-[6]-prismane. Specifically, a dilute solution of the above precursor in CH3CN/H2O/dimethyl sulfoxide (DMSO) (2:1:8, v/v/v) solution was irradiated with ultraviolet light, with the formation of the desired product confirmed through the use of nuclear magnetic resonance spectroscopy and gas chromatography-mass spectrometry. The product was thermally stable in solution but not under work-up conditions, which complicated the further analysis and single-crystal preparation. The key criteria for successful photoisomerisation were the presence of fluorine substituents in the cyclophane structure and DMSO in the solvent system. A more stable derivative design requires the isolation of prismane products. The proposed fluorination-based synthetic strategy is applicable to developing novel high-strain molecules/materials with three-dimensional skeletons.
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Affiliation(s)
- Yoichi Hosokawa
- Toyota Central R&D Labs., Inc., 41-1, Yokomichi, Nagakute, Aichi 480-1192, Japan; (S.K.); (A.O.); (N.I.); (A.U.)
| | - Shuji Kajiya
- Toyota Central R&D Labs., Inc., 41-1, Yokomichi, Nagakute, Aichi 480-1192, Japan; (S.K.); (A.O.); (N.I.); (A.U.)
| | - Ayako Ohshima
- Toyota Central R&D Labs., Inc., 41-1, Yokomichi, Nagakute, Aichi 480-1192, Japan; (S.K.); (A.O.); (N.I.); (A.U.)
| | - Satoshi Kawata
- Department of Chemistry, Faculty of Science, Fukuoka University, 19-1 Nanakuma 8-Chome, Jonan-ku, Fukuoka 814-0180, Japan;
| | - Nobuhiro Ishida
- Toyota Central R&D Labs., Inc., 41-1, Yokomichi, Nagakute, Aichi 480-1192, Japan; (S.K.); (A.O.); (N.I.); (A.U.)
| | - Arimitsu Usuki
- Toyota Central R&D Labs., Inc., 41-1, Yokomichi, Nagakute, Aichi 480-1192, Japan; (S.K.); (A.O.); (N.I.); (A.U.)
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3
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Jabłoński M. Characteristics of Intermolecular Interactions between Encapsulated Molecules and the Lantern-Like Carcerand Superphanes. Molecules 2024; 29:601. [PMID: 38338345 PMCID: PMC10856625 DOI: 10.3390/molecules29030601] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2024] [Revised: 01/18/2024] [Accepted: 01/19/2024] [Indexed: 02/12/2024] Open
Abstract
The main topic of the article is to provide the characteristics of individual intermolecular interactions present between three lantern-like superphanes and the H2O, NH3, HF, HCN, and MeOH molecules trapped inside them. Despite the large cavity, the freedom of the trapped molecules is significantly limited by the presence of numerous interaction sites on the side chains of the superphane molecule. It is shown that the molecule trapped inside the superphane is stabilized mainly by only one or, less often, two strong hydrogen bonds involving the imino nitrogen atom, but QTAIM calculations also suggest the presence of many other intermolecular interactions, mainly hydrogen bonds involving imino or central hydrogen atoms from the side chains of the superphane molecule. Moreover, it is also shown that the structural simplification of the side chains does not significantly affect both the size of the superphane molecule and the obtained encapsulation energies, which is important in modeling this type of carceplexes. Noticeably, the parent superphane considered here was previously synthesized by the group of Qing He, so the results obtained will help in understanding this type and similar systems.
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Affiliation(s)
- Mirosław Jabłoński
- Faculty of Chemistry, Nicolaus Copernicus University in Toruń, Gagarina 7, 87-100 Torun, Poland
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Jabłoński M. Bader's Topological Bond Path Does Not Necessarily Indicate Stabilizing Interaction-Proof Studies Based on the Ng@[3 n] cyclophane Endohedral Complexes. Molecules 2023; 28:6353. [PMID: 37687183 PMCID: PMC10490063 DOI: 10.3390/molecules28176353] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2023] [Revised: 08/25/2023] [Accepted: 08/28/2023] [Indexed: 09/10/2023] Open
Abstract
According to Bader's quantum theory of atoms in molecules (QTAIM), the simultaneous presence of a bond path and the corresponding bond critical point between any two atoms is both a necessary and sufficient condition for the atoms to be bonded to one another. In principle, this means that this pair of atoms should make a stabilizing contribution to the molecular system. However, the multitude of so-called counterintuitive bond paths strongly suggests that this statement is not necessarily true. Particularly 'troublesome' are endohedral complexes, in which encapsulation-enforced proximity between the trapped guest (e.g., an atom) and the host's cage system usually 'produces' many counterintuitive bond paths. In the author's opinion, the best evidence to demonstrate the repulsive nature of the intra-cage guest⋯host interaction is the use of some trapping systems containing small escape channels and then showing that the initially trapped entity spontaneously escapes outside the host's cage during geometry optimization of the initially built guest@host endohedral complex. For this purpose, a group of 24 Ng@[3n]cyclophane (3≤n≤6) endohedral complexes is used. As a result, arguments are presented showing that Bader's topological bond path does not necessarily indicate a stabilizing interaction.
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Affiliation(s)
- Mirosław Jabłoński
- Faculty of Chemistry, Nicolaus Copernicus University, Gagarina 7, 87-100 Toruń, Poland
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5
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Jabłoński M. The physical nature of the ultrashort spike-ring interaction in iron maiden molecules. J Comput Chem 2022; 43:1206-1220. [PMID: 35593685 DOI: 10.1002/jcc.26879] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2022] [Revised: 04/11/2022] [Accepted: 04/13/2022] [Indexed: 11/08/2022]
Abstract
The so-called 'iron maiden' molecules belong to one of the most interesting subgroups of cyclophanes due to the presence of the ultrashort interaction between the CX apical bond and the benzene ring. This article presents an in-depth theoretical study of 16 'iron maiden' molecules, in which X = H, F, Cl or Br and the side chains are of various lengths and types: CSC, CSCC, CCC, and CCCC. It is shown that the H → F → Cl → Br substitution leads to a significant expansion of the 'iron maiden' molecule. Shorter chains lead to more pronounced effects, while insertion of sulfur atoms into the side chains lowers them. Structural changes are associated with an increase in energetic destabilization of X. Moreover, unlike for H, in the case of X = halogen, the out → in isomerization is energetically disadvantageous. The 'iron maiden' molecules are characterized by the presence of only three X⋯CAr bond paths. Particularly noteworthy are unusually large (even up to 32) values of the X⋯CAr bond ellipticity, which results from flat electron density distribution. The X⋯π interaction in each of the investigated 'iron maiden' molecule turned out to be multi-center, stabilizing and almost purely covalent in nature as indicated by the definitely dominant percentage (94.8%-101.6%) of the exchange-correlation energy. The spatial hindrance within the 'iron maiden' molecules appears to be not so much due to the X⋯π repulsion, but due to unfavorable steric interactions between X and the CC side bonds. It is also confirmed that some CH⋯HC interactions in aliphatic chains can be very weakly stabilizing.
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Affiliation(s)
- Mirosław Jabłoński
- Faculty of Chemistry, Nicolaus Copernicus University in Toruń, Toruń, Poland
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6
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Abstract
Superphane, i.e., [2.2.2.2.2.2](1,2,3,4,5,6)cyclophane, is a very convenient molecule in studying the nature of guest⋯host interactions in endohedral complexes. Nevertheless, the presence of as many as six ethylene bridges in the superphane molecule makes it practically impossible for the trapped entity to escape out of the superphane cage. Thus, in this article, I have implemented the idea of using the superphane derivatives with a reduced number of ethylene linkers, which leads to the [2n] cyclophanes where n<6. Seven such cyclophanes are then allowed to form endohedral complexes with noble gas (Ng) atoms (He, Ne, Ar, Kr). It is shown that in the vast majority of cases, the initially trapped Ng atom spontaneously escapes from the cyclophane cage, creating an exohedral complex. This is the best proof that the Ng⋯cyclophane interaction in endohedral complexes is indeed highly repulsive, i.e., destabilizing. Apart from the ‘sealed’ superphane molecule, endohedral complexes are only formed in the case of the smallest He atom. However, it has been shown that in these cases, the Ng⋯cyclophane interaction inside the cyclophane cage is nonbonding, i.e., repulsive. This highly energetically unfavorable effect causes the cyclophane molecule to ‘swell’.
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7
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Jabłoński M. Endo- and exohedral complexes of superphane with cations. J Comput Chem 2022; 43:1120-1133. [PMID: 35470905 DOI: 10.1002/jcc.26874] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Revised: 03/28/2022] [Accepted: 04/01/2022] [Indexed: 11/07/2022]
Abstract
Quite recently it has been shown in a previous study that superphane, that is, [2.2.2.2.2.2](1,2,3,4,5,6)cyclophane, is a very convenient molecule in the study of endohedral complexes and especially in the study of the influence of the caged entity (i.e., guest) on the structure of the host molecule. This advantage results from the presence of two parallel benzene rings joined together by six quite flexible ethylene bridges (spacers). This article examines the energetic and structural properties of endo- and exohedral complexes of superphane with the following cations: H+ , Li+ , Na+ , K+ , Be2+ , Mg2+ , Ca2+ , B3+ , Al3+ , Ga3+ . The stability of endohedral complexes has been shown to be strongly dependent on the charge and radius of the caged cation. The inclusion of the cation inside the superphane molecule causes its 'swelling', which is manifested by an increase in the distance between the benzene rings and elongations of the ring and spacer C-C bonds. In the case of exohedral complexes, three forms are investigated: with the cation above the benzene ring, with the cation interacting with the superphane window in the equatorial position, and with the cation interacting with the center of the C-C spacer bond. The first of these forms has been shown to be preferred. The cation⋯acceptor distance depends on the cation radius. Among the cations investigated, H+ and Be2+ are particularly reactive and predisposed to induce significant structural changes in the superphane molecule, forming C-H bond or C-Be-C bridges, respectively.
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Affiliation(s)
- Mirosław Jabłoński
- Faculty of Chemistry, Nicolaus Copernicus University in Toruń, Toruń, Poland
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8
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Hasegawa M, Ishida Y, Sasaki H, Ishioka S, Usui K, Hara N, Kitahara M, Imai Y, Mazaki Y. Helical Oligophenylene Linked with [2.2]Para cyclophane: Stereogenic π-Conjugated Dye for Highly Emissive Chiroptical Properties. Chemistry 2021; 27:16225-16231. [PMID: 34549839 DOI: 10.1002/chem.202103158] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Indexed: 12/18/2022]
Abstract
A stereogenic π-system based on dimer (2) and trimer (3) of [2.2]paracyclophane (PC) and biphenyl was prepared and its structural, photophysical, and chiroptical properties were investigated. X-ray analysis revealed that the quaterphenyl moieties in 2 adopt a double helical structure anchoring [2.2]PC from both sides. Furthermore, 3 forms a isosceles triangle structure with a large chiral cavity. A homodesmotic reaction using DFT calculations revealed that 2 has a larger strain energy than 3 owing to its highly twisted phenylene linkers. Electronic and circular dichroic (CD) spectra were recorded in CH2 Cl2 solution. The spectra of both 2 and 3 are similar, and their longest absorption band accompanying a remarkable Cotton effect is attributed to the transition from HOMO to LUMO, which is delocalized to the quaterphenyl moiety. These compounds exhibit fairly high fluorescence quantum yields (ϕ=0.70-0.83) and moderate dissymmetry factor (|gCPL |=1.6×10-3 ) in circularly polarized luminescence (CPL).
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Affiliation(s)
- Masashi Hasegawa
- Graduate School of Science, Kitasato University, Sagamihara, Kanagawa, 252-0373, Japan
| | - Yuki Ishida
- Graduate School of Science, Kitasato University, Sagamihara, Kanagawa, 252-0373, Japan
| | - Hiroaki Sasaki
- Graduate School of Science, Kitasato University, Sagamihara, Kanagawa, 252-0373, Japan
| | - Sumire Ishioka
- Graduate School of Science, Kitasato University, Sagamihara, Kanagawa, 252-0373, Japan
| | - Kazuteru Usui
- Faculty of Pharmaceutical Sciences, Showa Pharmaceutical University, 3-3165 Higashi-Tamagawagakuen, Machida, Tokyo, 194-8543, Japan
| | - Nobuyuki Hara
- Department of Applied Chemistry, Faculty of Science and Engineering, Kindai University, Higashi-Osaka, Osaka, 577-8502, Japan
| | - Maho Kitahara
- Department of Applied Chemistry, Faculty of Science and Engineering, Kindai University, Higashi-Osaka, Osaka, 577-8502, Japan
| | - Yoshitane Imai
- Department of Applied Chemistry, Faculty of Science and Engineering, Kindai University, Higashi-Osaka, Osaka, 577-8502, Japan
| | - Yasuhiro Mazaki
- Graduate School of Science, Kitasato University, Sagamihara, Kanagawa, 252-0373, Japan
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9
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Mackenzie CFR, Delforce L, Rota Martir D, Cordes DB, Slawin AMZ, Zysman-Colman E. A Luminescent 1D Silver Polymer Containing [2.2]Para cyclophane Ligands. Front Chem 2021; 9:728845. [PMID: 34422772 PMCID: PMC8371969 DOI: 10.3389/fchem.2021.728845] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2021] [Accepted: 07/12/2021] [Indexed: 11/14/2022] Open
Abstract
[2.2]Paracyclophane scaffolds have seen limited use as building blocks in supramolecular chemistry. Here, we report the synthesis and characterization of a 1D coordination polymer consisting of silver(I) ions bound to a [2.2]paracyclophane scaffold functionalized with two 4-pyridyl units. The structure of the polymer has been determined from single crystal X-ray diffraction analysis and reveals two different silver coordination motifs that alternate along the 1D coordination polymer. The coordination polymer exhibits strong blue and sky-blue fluorescence in solution and in the crystalline solid state, respectively.
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Affiliation(s)
- Campbell F R Mackenzie
- Organic Semiconductor Centre, EaStCHEM School of Chemistry, University of St Andrews, Fife, United Kingdom
| | - Lucie Delforce
- Organic Semiconductor Centre, EaStCHEM School of Chemistry, University of St Andrews, Fife, United Kingdom
| | - D Rota Martir
- Organic Semiconductor Centre, EaStCHEM School of Chemistry, University of St Andrews, Fife, United Kingdom
| | - David B Cordes
- Organic Semiconductor Centre, EaStCHEM School of Chemistry, University of St Andrews, Fife, United Kingdom
| | - Alexandra M Z Slawin
- Organic Semiconductor Centre, EaStCHEM School of Chemistry, University of St Andrews, Fife, United Kingdom
| | - Eli Zysman-Colman
- Organic Semiconductor Centre, EaStCHEM School of Chemistry, University of St Andrews, Fife, United Kingdom
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10
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Takemura H. Synthesis of Azacalixarenes and Development of Their Properties. Molecules 2021; 26:4885. [PMID: 34443473 PMCID: PMC8398485 DOI: 10.3390/molecules26164885] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2021] [Revised: 08/07/2021] [Accepted: 08/10/2021] [Indexed: 11/17/2022] Open
Abstract
This review focuses on the synthesis, structure, and interactions of metal ions, the detection of some weak interactions using the structure, and the construction of supramolecules of azacalixarenes that have been reported to date. Azacalixarenes are characterized by the presence of shallow or deep cavities, the simultaneous presence of a basic nitrogen atom and an acidic phenolic hydroxyl group, and the ability to introduce various side chains into the cyclic skeleton. These molecules can be given many functions by substituting groups on the benzene ring, modifying phenolic hydroxyl groups, and converting side chains. The author discusses the evidence of azacalixarene utilizing these characteristics.
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Affiliation(s)
- Hiroyuki Takemura
- Department of Chemical and Biological Sciences, Faculty of Science, Japan Women's University, Mejirodai 2-8-1, Bunkyo-ku, Tokyo 112-8681, Japan
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11
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Patel S, Dais TN, Plieger PG, Rowlands GJ. Breaking para cyclophane: the unexpected formation of non-symmetric disubstituted nitro[2.2]metaparacyclophanes. Beilstein J Org Chem 2021; 17:1518-1526. [PMID: 34285723 PMCID: PMC8261525 DOI: 10.3762/bjoc.17.109] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2021] [Accepted: 06/20/2021] [Indexed: 12/14/2022] Open
Abstract
Substituted [2.2]metaparacyclophanes are amongst the least studied of the simple cyclophanes. This is undoubtedly the result of the lengthy syntheses of these compounds. We report the simple synthesis of a rare example of a non-symmetric [2.2]metaparacyclophane. Treatment of [2.2]paracyclophane under standard nitration conditions gives a mixture of 4-nitro[2.2]paracyclophane, 4-hydroxy-5-nitro[2.2]metaparacyclophane and a cyclohexadienone cyclophane.
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Affiliation(s)
- Suraj Patel
- School of Fundamental Sciences, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand
| | - Tyson N Dais
- School of Fundamental Sciences, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand
| | - Paul G Plieger
- School of Fundamental Sciences, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand
| | - Gareth J Rowlands
- School of Fundamental Sciences, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand
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12
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Wang CS, Wei YC, Pan ML, Wu CH, Chou PT, Wu YT. New [2,2]Fluorenophanes Give Insights into Asymmetric Charge Transfer-Mediated Exciton Delocalization along the π-π Packing Direction. Chemistry 2021; 27:8678-8683. [PMID: 33860557 DOI: 10.1002/chem.202100234] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Indexed: 12/30/2022]
Abstract
A series of new [2,2]fluorenophanes has been synthesized and characterized; among them, molecules of crystallographically asymmetric anti-[2.2](1,4)(4,1)fluorenophane (K2C-2) aggregate to form one-dimensional supramolecular chain structures through effective intermolecular π-π overlapping. This, in combination with the synergistic intramolecular π-π interaction, leads to prominent dual emission mediated by charge transfer (CT) exciton delocalization. Support of this new insight is given by mapping the transition density along the π-π packing direction where the intramolecular excitation and intermolecular CT coexist in K2C-2.
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Affiliation(s)
- Chi-Shin Wang
- Department of Chemistry, National Cheng Kung University, 70101, Tainan, Taiwan
| | - Yu-Chen Wei
- Department of Chemistry, National Taiwan University, 10617, Taipei, Taiwan
| | - Ming-Lun Pan
- Department of Chemistry, National Cheng Kung University, 70101, Tainan, Taiwan
| | - Cheng-Ham Wu
- Department of Chemistry, National Taiwan University, 10617, Taipei, Taiwan
| | - Pi-Tai Chou
- Department of Chemistry, National Taiwan University, 10617, Taipei, Taiwan
| | - Yao-Ting Wu
- Department of Chemistry, National Cheng Kung University, 70101, Tainan, Taiwan
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13
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Abstract
The cyclopeptide alkaloids are cyclic depsipeptides incorporating cyclophanes with polyamide units 13-, 14- and 15-membered macrocyclic systems. Although various pharmacological activities have been ascribed to cyclopeptide alkaloids from plants of the Rhamnacea family, these studies have been hampered by their low availability due to the lack of reasonable amounts distributed in nature. Therefore, novel and efficient synthetic approaches should be an important aim, which inspired us to examine how to diversely construct the unique structures of this type of natural products. In this account, several typical strategies are presented in terms of efficient, stereocontrolled and regioselective synthesis of cyclopeptide alkaloids.
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Affiliation(s)
- Yuanhao Wang
- Department of Chemistry, University of Pennsylvania, 231 S. 34th St., Philadelphia, PA 19104, USA
| | - Madeleine M Joullié
- Department of Chemistry, University of Pennsylvania, 231 S. 34th St., Philadelphia, PA 19104, USA
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14
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Agafontsev AM, Oshchepkov AS, Shumilova TA, Kataev EA. Binding and Sensing Properties of a Hybrid Naphthalimide-Pyrene Aza- Cyclophane towards Nucleotides in an Aqueous Solution. Molecules 2021; 26:980. [PMID: 33673272 DOI: 10.3390/molecules26040980] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2021] [Revised: 02/08/2021] [Accepted: 02/09/2021] [Indexed: 11/20/2022] Open
Abstract
Selective recognition of nucleotides with synthetic receptors is an emerging direction to solve a series of nucleic acid-related challenges in biochemistry. Towards this goal, a new aza-cyclophane with two different dyes, naphthalimide and pyrene, connected through a triamine linker has been synthesized and studied for the ability to bind and detect nucleoside triphosphates in an aqueous solution. The receptor shows Foerster resonance energy transfer (FRET) in fluorescence spectra upon excitation in DMSO, which is diminished dramatically in the presence of water. According to binding studies, the receptor has a preference to bind ATP (adenosine triphosphate) and CTP (cytidine triphosphate) with a “turn-on” fluorescence response. Two separate emission bands of dyes allow one to detect nucleotides in a ratiometric manner in a broad concentration range of 10−5–10−3 M. Spectroscopic measurements and quantum chemical calculations suggest the formation of receptor–nucleotide complexes, which are stabilized by dispersion interactions between a nucleobase and dyes, while hydrogen bonding interactions of nucleobases with the amine linkers are responsible for selectivity.
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15
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Sugiura KI. [2.2]Para cyclophane-Based Chiral Platforms for Circularly Polarized Luminescence Fluorophores and Their Chiroptical Properties: Past and Future. Front Chem 2020; 8:700. [PMID: 33195008 PMCID: PMC7658607 DOI: 10.3389/fchem.2020.00700] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Accepted: 07/07/2020] [Indexed: 11/13/2022] Open
Abstract
Quality of CPL fluorophore is defined by the vectors of electric dipole transition moment and imaginary magnetic dipole transition moment. The aim of this review is to introduce readers to a chiral moiety applicable to CPL studies focusing on chiral cyclophanes because the rigid cyclophanes are able to hold the vector directions of electric dipole transition moment and imaginary magnetic dipole transition moment.
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Affiliation(s)
- Ken-Ichi Sugiura
- Department of Chemistry, Tokyo Metropolitan University, Hachioji, Japan
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16
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Agafontsev AM, Shumilova TA, Oshchepkov AS, Hampel F, Kataev EA. Ratiometric Detection of ATP by Fluorescent Cyclophanes with Bellows-Type Sensing Mechanism. Chemistry 2020; 26:9991-9997. [PMID: 32497327 PMCID: PMC7496914 DOI: 10.1002/chem.202001523] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Revised: 06/01/2020] [Indexed: 12/13/2022]
Abstract
Pyrene-based cyclophanes have been synthesized with the aim to realize a bellows-type sensing mechanism for the ratiometric detection of nucleotide concentrations in a buffered aqueous solution. The sensing mechanism involves the encapsulation of a nucleobase between two pyrene rings, which affects the monomer-excimer equilibrium of the receptor in the excited state. The nature of the spacer and its connection pattern to pyrene rings have been varied to achieve high selectivity for ATP. The 1,8-substituted pyrene-based cyclophane with the 2,2'-diaminodiethylamine spacer demonstrates the best selectivity for ATP showing a 50-fold increase in the monomer-excimer emission ratio upon saturation with the nucleotide. The receptor can detect ATP within the biological concentrations range over a wide pH range. NMR and spectroscopic studies have revealed the importance of hydrogen bonding and stacking interactions for achieving a required receptor selectivity. The probe has been successfully applied for the real-time monitoring of creatine kinase activity.
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Affiliation(s)
- Aleksandr M. Agafontsev
- N. N. Vorozhtsov Institute of Organic Chemistry SB RAS9 Lavrentiev Avenue630090NovosibirskRussian Federation
- Institute of ChemistryTechnische Universität Chemnitz09107ChemnitzGermany
| | | | | | - Frank Hampel
- Department of Chemistry and PharmacyUniversity of Erlangen-NürnbergNikolaus-Fiebiger-Str. 1091058ErlangenGermany
| | - Evgeny A. Kataev
- Department of Chemistry and PharmacyUniversity of Erlangen-NürnbergNikolaus-Fiebiger-Str. 1091058ErlangenGermany
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17
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Rieux C, Goffinont S, Coste F, Tber Z, Cros J, Roy V, Guérin M, Gaudon V, Bourg S, Biela A, Aucagne V, Agrofoglio L, Garnier N, Castaing B. Thiopurine Derivative-Induced Fpg/Nei DNA Glycosylase Inhibition: Structural, Dynamic and Functional Insights. Int J Mol Sci 2020; 21:ijms21062058. [PMID: 32192183 PMCID: PMC7139703 DOI: 10.3390/ijms21062058] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2020] [Revised: 03/12/2020] [Accepted: 03/14/2020] [Indexed: 02/06/2023] Open
Abstract
DNA glycosylases are emerging as relevant pharmacological targets in inflammation, cancer and neurodegenerative diseases. Consequently, the search for inhibitors of these enzymes has become a very active research field. As a continuation of previous work that showed that 2-thioxanthine (2TX) is an irreversible inhibitor of zinc finger (ZnF)-containing Fpg/Nei DNA glycosylases, we designed and synthesized a mini-library of 2TX-derivatives (TXn) and evaluated their ability to inhibit Fpg/Nei enzymes. Among forty compounds, four TXn were better inhibitors than 2TX for Fpg. Unexpectedly, but very interestingly, two dithiolated derivatives more selectively and efficiently inhibit the zincless finger (ZnLF)-containing enzymes (human and mimivirus Neil1 DNA glycosylases hNeil1 and MvNei1, respectively). By combining chemistry, biochemistry, mass spectrometry, blind and flexible docking and X-ray structure analysis, we localized new TXn binding sites on Fpg/Nei enzymes. This endeavor allowed us to decipher at the atomic level the mode of action for the best TXn inhibitors on the ZnF-containing enzymes. We discovered an original inhibition mechanism for the ZnLF-containing Fpg/Nei DNA glycosylases by disulfide cyclic trimeric forms of dithiopurines. This work paves the way for the design and synthesis of a new structural class of inhibitors for selective pharmacological targeting of hNeil1 in cancer and neurodegenerative diseases.
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Affiliation(s)
- Charlotte Rieux
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
| | - Stéphane Goffinont
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
| | - Franck Coste
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
| | - Zahira Tber
- Institut de Chimie Organique et Analytique, UMR7311 CNRS-Orleans University, Université d’Orléans, Pôle de Chimie, rue de Chartres, F-45100 Orléans, France; (Z.T.); (S.B.); (L.A.)
| | - Julien Cros
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
| | - Vincent Roy
- Institut de Chimie Organique et Analytique, UMR7311 CNRS-Orleans University, Université d’Orléans, Pôle de Chimie, rue de Chartres, F-45100 Orléans, France; (Z.T.); (S.B.); (L.A.)
- Université d’Orléans, UFR Sciences et Techniques, rue de Chartres, 45100 Orléans, France
- Correspondence: (V.R.); (N.G.); (B.C.)
| | - Martine Guérin
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
- Université d’Orléans, UFR Sciences et Techniques, rue de Chartres, 45100 Orléans, France
| | - Virginie Gaudon
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
| | - Stéphane Bourg
- Institut de Chimie Organique et Analytique, UMR7311 CNRS-Orleans University, Université d’Orléans, Pôle de Chimie, rue de Chartres, F-45100 Orléans, France; (Z.T.); (S.B.); (L.A.)
| | - Artur Biela
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
| | - Vincent Aucagne
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
| | - Luigi Agrofoglio
- Institut de Chimie Organique et Analytique, UMR7311 CNRS-Orleans University, Université d’Orléans, Pôle de Chimie, rue de Chartres, F-45100 Orléans, France; (Z.T.); (S.B.); (L.A.)
- Université d’Orléans, UFR Sciences et Techniques, rue de Chartres, 45100 Orléans, France
| | - Norbert Garnier
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
- Université d’Orléans, UFR Sciences et Techniques, rue de Chartres, 45100 Orléans, France
- Correspondence: (V.R.); (N.G.); (B.C.)
| | - Bertrand Castaing
- Centre de Biophysique Moléculaire, UPR4301 CNRS, rue Charles Sadron, CEDEX 2, F-45071 Orléans, France; (C.R.); (S.G.); (F.C.); (J.C.); (M.G.); (V.G.); (A.B.); (V.A.)
- Correspondence: (V.R.); (N.G.); (B.C.)
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18
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Nakai A, Yoneda T, Ishida SI, Kato K, Osuka A. Aromatic and Antiaromatic Cyclophane-type Hexaphyrin Dimers. Chem Asian J 2019; 14:256-260. [PMID: 30548418 DOI: 10.1002/asia.201801751] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2018] [Revised: 12/11/2018] [Indexed: 11/12/2022]
Abstract
A peripherally strapped [28]hexaphyrin takes a rectangular conformation and exhibits antiaromatic character. A cyclophane-type dimer consisting of such [28]hexaphyrins was synthesized from hexakis(pentafluorophenyl) [26]hexaphyrin via SN Ar reaction with allyl alcohol, one-pot intra- and intermolecular olefin metathesis under improved Hoveyda-Grubbs catalysis, and final reduction with NaBH4 . The cyclophane-type structures of [26]- and [28]hexaphyrin dimers have been revealed by X-ray analysis. Studies on the structural, optical, and electronic properties have led to a conclusion that there is no favorable electronic interaction between the two [28]hexaphyrin segments and thus no indication of 3D aromaticity.
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Affiliation(s)
- Akito Nakai
- Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, 606-8502, Japan
| | - Tomoki Yoneda
- Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, 606-8502, Japan
| | - Shin-Ichiro Ishida
- Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, 606-8502, Japan
| | - Kenichi Kato
- Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, 606-8502, Japan
| | - Atsuhiro Osuka
- Department of Chemistry, Graduate School of Science, Kyoto University, Sakyo-ku, Kyoto, 606-8502, Japan
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19
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Dialer CR, Stazzoni S, Drexler DJ, Müller FM, Veth S, Pichler A, Okamura H, Witte G, Hopfner KP, Carell T. A Click-Chemistry Linked 2'3'-cGAMP Analogue. Chemistry 2019; 25:2089-2095. [PMID: 30536650 DOI: 10.1002/chem.201805409] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2018] [Indexed: 11/09/2022]
Abstract
2'3'-cGAMP is an uncanonical cyclic dinucleotide where one A and one G base are connected via a 3'-5' and a unique 2'-5' linkage. The molecule is produced by the cyclase cGAS in response to cytosolic DNA binding. cGAMP activates STING and hence one of the most powerful pathways of innate immunity. cGAMP analogues with uncharged linkages that feature better cellular penetrability are currently highly desired. Here, the synthesis of a cGAMP analogue with one amide and one triazole linkage is reported. The molecule is best prepared via a first CuI -catalyzed click reaction, which establishes the triazole, while the cyclization is achieved by macrolactamization.
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Affiliation(s)
- Clemens Reto Dialer
- Department of Chemistry, Ludwig-Maximilians-Universität München, Butenandtstrasse 5-13, 81377, Munich, Germany
| | - Samuele Stazzoni
- Department of Chemistry, Ludwig-Maximilians-Universität München, Butenandtstrasse 5-13, 81377, Munich, Germany
| | - David Jan Drexler
- Gene Center and Department of Biochemistry, Ludwig-Maximilians-Universität München, Feodor-Lynen-Strasse 25, 81377, Munich, Germany
| | - Felix Moritz Müller
- Department of Chemistry, Ludwig-Maximilians-Universität München, Butenandtstrasse 5-13, 81377, Munich, Germany
| | - Simon Veth
- Department of Chemistry, Ludwig-Maximilians-Universität München, Butenandtstrasse 5-13, 81377, Munich, Germany
| | - Alexander Pichler
- Department of Chemistry, Ludwig-Maximilians-Universität München, Butenandtstrasse 5-13, 81377, Munich, Germany
| | - Hidenori Okamura
- Department of Chemistry, Ludwig-Maximilians-Universität München, Butenandtstrasse 5-13, 81377, Munich, Germany
| | - Gregor Witte
- Gene Center and Department of Biochemistry, Ludwig-Maximilians-Universität München, Feodor-Lynen-Strasse 25, 81377, Munich, Germany
| | - Karl-Peter Hopfner
- Gene Center and Department of Biochemistry, Ludwig-Maximilians-Universität München, Feodor-Lynen-Strasse 25, 81377, Munich, Germany
| | - Thomas Carell
- Department of Chemistry, Ludwig-Maximilians-Universität München, Butenandtstrasse 5-13, 81377, Munich, Germany
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20
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Servalli M, Trapp N, Schlüter AD. Single-Crystal-to-Single-Crystal (SCSC) Linear Polymerization of a Desymmetrized Anthraphane. Chemistry 2018; 24:15003-15012. [PMID: 29984526 DOI: 10.1002/chem.201802513] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2018] [Indexed: 11/06/2022]
Abstract
In this work we present one of the rare cases of single-crystal-to-single-crystal (SCSC) linear polymerizations, resulting in a novel ladder-type polymer. The polymerization is based on the photoinduced [4+4]-cycloaddition reactions between trifunctional anthracene-based monomers. The careful design of the monomer anthraphane-tri(OMe), results in perfectly stacked anthracene pairs in the crystal structure, with Schmidt's distances d=3.505-3.666 Å and shift s=1.109 Å, allowing a selective linear polymerization in quantitative yields and in a matter of minutes, without compromising the integrity of the single crystals. The obtained polyanthraphane-tri(OMe), reveals moreover a very interesting and unprecedented case of stereoisomerism, which is characteristic for polyanthraphanes.
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Affiliation(s)
- Marco Servalli
- Department of Materials, ETH Zürich, Vladimir-Prelog-Weg 5, 8093, Zürich, Switzerland
| | - Nils Trapp
- Small Molecule Crystallography Center (SMoCC), Department of Chemistry and Applied Biosciences, ETH Zürich, Vladimir-Prelog-Weg 1, 8093, Zürich, Switzerland
| | - A Dieter Schlüter
- Department of Materials, ETH Zürich, Vladimir-Prelog-Weg 5, 8093, Zürich, Switzerland
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21
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Chen Y, Jami-Alahmadi Y, Unikela KS, Bodwell GJ, Fridgen TD. Endo or Exo? Structures of Gas-Phase Alkali Metal Cation/Aromatic Half-Belt Complexes. Chemphyschem 2018; 19:2194-2199. [PMID: 29741278 DOI: 10.1002/cphc.201800371] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2018] [Indexed: 11/11/2022]
Abstract
1,1,9,9-Tetramethyl[9](2,11)teropyrenophane (TM9TP), a belt-shaped molecule, has a sizable cavity that molecules or ions could occupy. In this study, the question of whether TM9TP forms gas-phase ion-molecule complexes with metal cations (K+ , Rb+ , Cs+ ) situated inside or outside the TM9TP cavity was addressed using both experimental and computational methods. Complexes were trapped in a Fourier transform ion cyclotron resonance mass spectrometer and their structures were explored by some novel physical chemistry/mass spectrometry methods. Blackbody infrared radiative dissociation kinetics reveal two populations of ions, a fast dissociating fraction and a persistent fraction. Infrared multiphoton dissociation spectra (vibrational spectra) provide very strong evidence that the most abundant population is a complex where the metal cation is inside the TM9TP cavity, endo-TM9TP. Red-shifted C-H stretching bands present in the gas-phase vibrational spectra of these ionic complexes show that there is an interaction between the metal cation and bridge C-H bonds due to the cation sitting inside the cavity of TM9TP. B3LYP/6-31+G(d,p) calculations showed the endo complexes to be the lowest in energy; about 60 kJ mol-1 more thermodynamically stable and more than 120 kJ mol-1 kinetically more stable than the exo complex.
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Affiliation(s)
- Yanyang Chen
- Department of Chemistry, Memorial University of Newfoundland, Memorial University, St. John's, NL, A1B 3X7, Canada
| | - Yasaman Jami-Alahmadi
- Department of Chemistry, Memorial University of Newfoundland, Memorial University, St. John's, NL, A1B 3X7, Canada
| | - Kiran Sagar Unikela
- Department of Chemistry, Memorial University of Newfoundland, Memorial University, St. John's, NL, A1B 3X7, Canada
| | - Graham J Bodwell
- Department of Chemistry, Memorial University of Newfoundland, Memorial University, St. John's, NL, A1B 3X7, Canada
| | - Travis D Fridgen
- Department of Chemistry, Memorial University of Newfoundland, Memorial University, St. John's, NL, A1B 3X7, Canada
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22
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Beyeh N, Nonappa, Liljeström V, Mikkilä J, Korpi A, Bochicchio D, Pavan GM, Ikkala O, Ras RHA, Kostiainen MA. Crystalline Cyclophane-Protein Cage Frameworks. ACS Nano 2018; 12:8029-8036. [PMID: 30028590 PMCID: PMC6150715 DOI: 10.1021/acsnano.8b02856] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2018] [Accepted: 07/13/2018] [Indexed: 10/13/2023]
Abstract
Cyclophanes are macrocyclic supramolecular hosts famous for their ability to bind atomic or molecular guests via noncovalent interactions within their well-defined cavities. In a similar way, porous crystalline networks, such as metal-organic frameworks, can create microenvironments that enable controlled guest binding in the solid state. Both types of materials often consist of synthetic components, and they have been developed within separate research fields. Moreover, the use of biomolecules as their structural units has remained elusive. Here, we have synthesized a library of organic cyclophanes and studied their electrostatic self-assembly with biological metal-binding protein cages (ferritins) into ordered structures. We show that cationic pillar[5]arenes and ferritin cages form biohybrid cocrystals with an open protein network structure. Our cyclophane-protein cage frameworks bridge the gap between molecular frameworks and colloidal nanoparticle crystals and combine the versatility of synthetic supramolecular hosts with the highly selective recognition properties of biomolecules. Such host-guest materials are interesting for porous material applications, including water remediation and heterogeneous catalysis.
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Affiliation(s)
- Ngong
Kodiah Beyeh
- HYBER
Centre of Excellence, Department of Applied Physics, Aalto University, FI-00076 Aalto, Finland
- Department
of Chemistry and Biochemistry, University
of Windsor, N9B 3P4 Windsor, Canada
- Department
of Chemistry, Oakland University, 146 Library Drive, Rochester, Michigan 48309-4479, United States
| | - Nonappa
- HYBER
Centre of Excellence, Department of Applied Physics, Aalto University, FI-00076 Aalto, Finland
| | - Ville Liljeström
- HYBER
Centre of Excellence, Department of Applied Physics, Aalto University, FI-00076 Aalto, Finland
| | - Joona Mikkilä
- Department
of Bioproducts and Biosystems, Aalto University, FI-00076 Aalto, Finland
| | - Antti Korpi
- Department
of Bioproducts and Biosystems, Aalto University, FI-00076 Aalto, Finland
| | - Davide Bochicchio
- Department
of Innovative Technologies, University of
Applied Sciences and Arts of Southern Switzerland, CH-6928 Manno, Switzerland
| | - Giovanni M. Pavan
- Department
of Innovative Technologies, University of
Applied Sciences and Arts of Southern Switzerland, CH-6928 Manno, Switzerland
| | - Olli Ikkala
- HYBER
Centre of Excellence, Department of Applied Physics, Aalto University, FI-00076 Aalto, Finland
| | - Robin H. A. Ras
- HYBER
Centre of Excellence, Department of Applied Physics, Aalto University, FI-00076 Aalto, Finland
- Department
of Bioproducts and Biosystems, Aalto University, FI-00076 Aalto, Finland
| | - Mauri A. Kostiainen
- HYBER
Centre of Excellence, Department of Applied Physics, Aalto University, FI-00076 Aalto, Finland
- Department
of Bioproducts and Biosystems, Aalto University, FI-00076 Aalto, Finland
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23
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Kotha S, Chinnam AK, Shirbhate ME. Design and synthesis of hybrid cyclophanes containing thiophene and indole units via Grignard reaction, Fischer indolization and ring-closing metathesis as key steps. Beilstein J Org Chem 2015; 11:1514-1519. [PMID: 26425209 PMCID: PMC4578400 DOI: 10.3762/bjoc.11.165] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2015] [Accepted: 08/13/2015] [Indexed: 11/23/2022] Open
Abstract
We demonstrate a new synthetic strategy to cyclophanes containing thiophene and indole moieties via Grignard addition, Fischer indolization and ring-closing metathesis as key steps.
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Affiliation(s)
- Sambasivarao Kotha
- Department of Chemistry, Indian Institute of Technology-Bombay, Powai, Mumbai-400 076, India
| | - Ajay Kumar Chinnam
- Department of Chemistry, Indian Institute of Technology-Bombay, Powai, Mumbai-400 076, India
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24
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Abstract
In this review we cover various approaches to meta- and paracyclophanes involving popular reactions. Generally, we have included a strategy where the reaction was used for assembling the cyclophane skeleton for further functionalization. In several instances, after the cyclophane is made several popular reactions are used and these are not covered here. We included various natural products related to cyclophanes. To keep the length of the review at a manageable level the literature related to orthocyclophanes was not included.
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Affiliation(s)
- Sambasivarao Kotha
- Department of Chemistry, Indian Institute of Technology-Bombay, Powai, Mumbai-400 076, India
| | - Mukesh Eknath Shirbhate
- Department of Chemistry, Indian Institute of Technology-Bombay, Powai, Mumbai-400 076, India
| | - Gopalkrushna T Waghule
- Department of Chemistry, Indian Institute of Technology-Bombay, Powai, Mumbai-400 076, India
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25
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Abstract
This work demonstrates edge-on chemical gating effect in molecular wires utilizing the pyridinoparacyclophane (PC) moiety as the gate. Different substituents with varied electronic demands are attached to the gate to simulate the effect of varying gating voltages similar to that in field-effect transistor (FET). It was observed that the orbital energy level and charge carrier's tunneling barriers can be tuned by changing the gating group from strong electron acceptors to strong electron donors. The single molecule conductance and current-voltage characteristics of this molecular system are truly similar to those expected for an actual single molecular transistor.
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Affiliation(s)
- Wai-Yip Lo
- Department of Chemistry and the James Franck Institute, The University of Chicago , 929 E 57th Street, Chicago, Illinois 60637, United States
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26
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Wu Y, Frasconi M, Gardner DM, McGonigal PR, Schneebeli ST, Wasielewski MR, Stoddart JF. Electron delocalization in a rigid cofacial naphthalene-1,8:4,5-bis(dicarboximide) dimer. Angew Chem Int Ed Engl 2014; 53:9476-81. [PMID: 25044761 DOI: 10.1002/anie.201403816] [Citation(s) in RCA: 104] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2014] [Indexed: 12/12/2022]
Abstract
Investigating through-space electronic communication between discrete cofacially oriented aromatic π-systems is fundamental to understanding assemblies as diverse as double-stranded DNA, organic photovoltaics and thin-film transistors. A detailed understanding of the electronic interactions involved rests on making the appropriate molecular compounds with rigid covalent scaffolds and π-π distances in the range of ca. 3.5 Å. Reported herein is an enantiomeric pair of doubly-bridged naphthalene-1,8:4,5-bis(dicarboximide) (NDI) cyclophanes and the characterization of four of their electronic states, namely 1) the ground state, 2) the exciton coupled singlet excited state, 3) the radical anion with strong through-space interactions between the redox-active NDI molecules, and 4) the diamagnetic diradical dianion using UV/Vis/NIR, EPR and ENDOR spectroscopies in addition to X-ray crystallography. Despite the unfavorable Coulombic repulsion, the singlet diradical dianion dimer of NDI shows a more pronounced intramolecular π-π stacking interaction when compared with its neutral analog.
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Affiliation(s)
- Yilei Wu
- Center for the Chemistry of Integrated Systems, Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, IL 60208-3113 (USA); Argonne-Northwestern Solar Energy Research (ANSER) Center, Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, IL 60208-3113 (USA)
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27
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Lin HC, Jin BY. Charge-Transfer Interactions in Organic Functional Materials. Materials (Basel) 2010; 3:4214-51. [PMID: 28883326 DOI: 10.3390/ma3084214] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/11/2010] [Accepted: 07/30/2010] [Indexed: 11/27/2022]
Abstract
Our goal in this review is three-fold. First, we provide an overview of a number of quantum-chemical methods that can abstract charge-transfer (CT) information on the excited-state species of organic conjugated materials, which can then be exploited for the understanding and design of organic photodiodes and solar cells at the molecular level. We stress that the Composite-Molecule (CM) model is useful for evaluating the electronic excited states and excitonic couplings of the organic molecules in the solid state. We start from a simple polyene dimer as an example to illustrate how interchain separation and chain size affect the intercahin interaction and the role of the charge transfer interaction in the excited state of the polyene dimers. With the basic knowledge from analysis of the polyene system, we then study more practical organic materials such as oligophenylenevinylenes (OPVn), oligothiophenes (OTn), and oligophenylenes (OPn). Finally, we apply this method to address the delocalization pathway (through-bond and/or through-space) in the lowest excited state for cyclophanes by combining the charge-transfer contributions calculated on the cyclophanes and the corresponding hypothetical molecules with tethers removed. This review represents a step forward in the understanding of the nature of the charge-transfer interactions in the excited state of organic functional materials.
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