1
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Routsi EA, Mantzourani C, Rrapi M, Mountanea OG, Kokotou MG, Tzeli D, Kokotos CG, Kokotos G. Computational and Spectroscopic Studies on the Formation of Halogen-Bonded Complexes Between Tertiary Amines and CBr 4 and Application in the Light-Mediated Amino Acid Coupling. Chempluschem 2024; 89:e202400019. [PMID: 38712501 DOI: 10.1002/cplu.202400019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2024] [Revised: 05/04/2024] [Accepted: 05/05/2024] [Indexed: 05/08/2024]
Abstract
In recent years, halogen-bonded complexes (XBCs), in solution, have played a pivotal role in inducing photochemical organic reactions. In this work, we explore the ability of various tertiary amines to act as XB acceptors in the presence of the XB donor CBr4 by computational and spectroscopic studies. DFT studies clearly showcase the formation of XBCs between the studied tertiary amines and CBr4. Simultaneously, computational and experimental UV-Vis studies display intense red shifts that are consistent with charge transfer observed from tertiary amines to CBr4. A detailed NMR study revealed a clear chemical shift of the carbon carrying the bromine atoms upon mixing the XB acceptor with the donor, suggesting that this spectroscopic technique is indeed an experimental tool to identify the generation of XBCs. An application of the ability of such XBCs to activate a carboxylic acid under UVA irradiation or sunlight is presented for amino acid coupling. Among the various tertiary amines studied, the pair DABCO-CBr4 was found to work well for the photochemical amide bond formation. Direct infusion-HRMS studies allowed us to propose a general mechanism for the photochemical amino acid coupling in the presence of a tertiary amine and CBr4, initiated by the photoactivation of an XBC.
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Affiliation(s)
- E Alexandros Routsi
- Laboratory of Organic Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis, Athens, 15771, Greece
- Center of Excellence for Drug Design and Discovery, National and Kapodistrian University of Athens, Athens, 15771, Greece
| | - Christiana Mantzourani
- Laboratory of Organic Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis, Athens, 15771, Greece
- Center of Excellence for Drug Design and Discovery, National and Kapodistrian University of Athens, Athens, 15771, Greece
| | - Marie Rrapi
- Laboratory of Organic Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis, Athens, 15771, Greece
- Center of Excellence for Drug Design and Discovery, National and Kapodistrian University of Athens, Athens, 15771, Greece
| | - Olga G Mountanea
- Laboratory of Organic Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis, Athens, 15771, Greece
- Center of Excellence for Drug Design and Discovery, National and Kapodistrian University of Athens, Athens, 15771, Greece
| | - Maroula G Kokotou
- Laboratory of Chemistry, Department of Food Science and Human Nutrition, Agricultural University of Athens, Iera Odos 75, Athens, 11855, Greece
| | - Demeter Tzeli
- Laboratory of Physical Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis, Athens, 15771, Greece
- Theoretical and Physical Chemistry Institute, National Hellenic Research Foundation, 48 Vassileos Constantinou Ave., Athens, 11635, Greece
| | - Christoforos G Kokotos
- Laboratory of Organic Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis, Athens, 15771, Greece
- Center of Excellence for Drug Design and Discovery, National and Kapodistrian University of Athens, Athens, 15771, Greece
| | - George Kokotos
- Laboratory of Organic Chemistry, Department of Chemistry, National and Kapodistrian University of Athens, Panepistimiopolis, Athens, 15771, Greece
- Center of Excellence for Drug Design and Discovery, National and Kapodistrian University of Athens, Athens, 15771, Greece
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2
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Liu C, Huo Y, Bu J, Yuan Z, Liang K, Xia C. Visible Light-Induced Oxy-perfluoroalkylation of Olefins via Ternary Electron Donor-Acceptor Complexes. J Org Chem 2024; 89:10805-10815. [PMID: 39008713 DOI: 10.1021/acs.joc.4c01061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/17/2024]
Abstract
Perfluoroalkyl iodides generally formed electron donor-acceptor (EDA) complexes by halogen bonding with a nitrogen atom containing Lewis bases. Since the electronegativity of the oxygen atom is stronger than that of the nitrogen atom, the resulting Rf-I···O-type halogen bonding EDA complex is less inclined to undergo electron transfer. Here, we reported rare ternary EDA complexes among perfluoroalkyl iodide, oxygen atom, and base. Mechanism experiments and density functional theory theoretical (DFT) calculations indicated that a base-promoted proton-coupled electron transfer (PCET) process was involved in this photochemical reaction. The intracomplex electron transfer event generated two radical species, perfluoroalkyl radical and TEMPO radical, enabling the subsequent oxy-perfluoroalkylation of olefins.
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Affiliation(s)
- Chuanwang Liu
- Key Laboratory of Medicinal Chemistry for Natural Resource, Ministry of Education, Yunnan Key Laboratory of Research and Development of Natural Products, School of Pharmacy, Yunnan University, Kunming 650500, China
| | - Yanman Huo
- Key Laboratory of Medicinal Chemistry for Natural Resource, Ministry of Education, Yunnan Key Laboratory of Research and Development of Natural Products, School of Pharmacy, Yunnan University, Kunming 650500, China
| | - Jiawei Bu
- Key Laboratory of Medicinal Chemistry for Natural Resource, Ministry of Education, Yunnan Key Laboratory of Research and Development of Natural Products, School of Pharmacy, Yunnan University, Kunming 650500, China
| | - Zhaoran Yuan
- Key Laboratory of Medicinal Chemistry for Natural Resource, Ministry of Education, Yunnan Key Laboratory of Research and Development of Natural Products, School of Pharmacy, Yunnan University, Kunming 650500, China
| | - Kangjiang Liang
- Key Laboratory of Medicinal Chemistry for Natural Resource, Ministry of Education, Yunnan Key Laboratory of Research and Development of Natural Products, School of Pharmacy, Yunnan University, Kunming 650500, China
| | - Chengfeng Xia
- Key Laboratory of Medicinal Chemistry for Natural Resource, Ministry of Education, Yunnan Key Laboratory of Research and Development of Natural Products, School of Pharmacy, Yunnan University, Kunming 650500, China
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3
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Jovanovic D, Poliyodath Mohanan M, Huber SM. Halogen, Chalcogen, Pnictogen, and Tetrel Bonding in Non-Covalent Organocatalysis: An Update. Angew Chem Int Ed Engl 2024; 63:e202404823. [PMID: 38728623 DOI: 10.1002/anie.202404823] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2024] [Revised: 04/24/2024] [Accepted: 04/24/2024] [Indexed: 05/12/2024]
Abstract
The use of noncovalent interactions based on electrophilic halogen, chalcogen, pnictogen, or tetrel centers in organocatalysis has gained noticeable attention. Herein, we provide an overview on the most important developments in the last years with a clear focus on experimental studies and on catalysts which act via such non-transient interactions.
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Affiliation(s)
- Dragana Jovanovic
- Faculty of Chemistry and Biochemistry, Ruhr-University Bochum, Universitätsstraße 150, 44801, Bochum, Germany
| | - Meghana Poliyodath Mohanan
- Faculty of Chemistry and Biochemistry, Ruhr-University Bochum, Universitätsstraße 150, 44801, Bochum, Germany
| | - Stefan M Huber
- Faculty of Chemistry and Biochemistry, Ruhr-University Bochum, Universitätsstraße 150, 44801, Bochum, Germany
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4
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Kim N, Jeyaraj VS, Elbert J, Seo SJ, Mironenko AV, Su X. Redox-Responsive Halogen Bonding as a Highly Selective Interaction for Electrochemical Separations. JACS AU 2024; 4:2523-2538. [PMID: 39055153 PMCID: PMC11267542 DOI: 10.1021/jacsau.4c00265] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/29/2024] [Revised: 05/04/2024] [Accepted: 05/16/2024] [Indexed: 07/27/2024]
Abstract
Leveraging specific noncovalent interactions can broaden the mechanims for selective electrochemical separations beyond solely electrostatic interactions. Here, we explore redox-responsive halogen bonding (XB) for selective electrosorption in nonaqueous media, by taking advantage of directional interactions of XB alongisde a cooperative and synergistic ferrocene redox-center. We designed and evaluated a new redox-active XB donor polymer, poly(5-iodo-4-ferrocenyl-1-(4-vinylbenzyl)-1H-1,2,3-triazole) (P(FcTS-I)), for the electrochemically switchable binding and release of target organic and inorganic ions at a heterogeneous interface. Under applied potential, the oxidized ferrocene amplifies the halogen binding site, leading to significantly enhanced uptake and selectivity towards key inorganic and organic species, including chloride, bisulfate, and benzenesulfonate, compared to the open-circuit potential or the hydrogen bonding donor analog. Density functional theory calculations, as well as spectroscopic analysis, offer mechanistic insight into the degree of amplification of σ-holes at a molecular level, with selectivity modulated by charge transfer and dispersion interactions. Our work highlights the potential of XB in selective electrosorption by uniquely leveraging noncovalent interactions for redox-mediated electrochemical separations.
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Affiliation(s)
- Nayeong Kim
- Department of Chemical and
Biomolecular Engineering, University of
Illinois Urbana−Champaign, 600 S Mathews Ave., Urbana, Illinois 61801, United States
| | - Vijaya S. Jeyaraj
- Department of Chemical and
Biomolecular Engineering, University of
Illinois Urbana−Champaign, 600 S Mathews Ave., Urbana, Illinois 61801, United States
| | - Johannes Elbert
- Department of Chemical and
Biomolecular Engineering, University of
Illinois Urbana−Champaign, 600 S Mathews Ave., Urbana, Illinois 61801, United States
| | - Sung Jin Seo
- Department of Chemical and
Biomolecular Engineering, University of
Illinois Urbana−Champaign, 600 S Mathews Ave., Urbana, Illinois 61801, United States
| | - Alexander V. Mironenko
- Department of Chemical and
Biomolecular Engineering, University of
Illinois Urbana−Champaign, 600 S Mathews Ave., Urbana, Illinois 61801, United States
| | - Xiao Su
- Department of Chemical and
Biomolecular Engineering, University of
Illinois Urbana−Champaign, 600 S Mathews Ave., Urbana, Illinois 61801, United States
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5
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Sherard MM, Kaplan JS, Simpson JH, Kittredge KW, Leopold MC. Functionalized Gold Nanoparticles and Halogen Bonding Interactions Involving Fentanyl and Fentanyl Derivatives. NANOMATERIALS (BASEL, SWITZERLAND) 2024; 14:917. [PMID: 38869542 PMCID: PMC11173406 DOI: 10.3390/nano14110917] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2024] [Revised: 05/14/2024] [Accepted: 05/19/2024] [Indexed: 06/14/2024]
Abstract
Fentanyl (FTN) and synthetic analogs of FTN continue to ravage populations across the globe, including in the United States where opioids are increasingly being used and abused and are causing a staggering and growing number of overdose deaths each year. This growing pandemic is worsened by the ease with which FTN can be derivatized into numerous derivatives. Understanding the chemical properties/behaviors of the FTN class of compounds is critical for developing effective chemical detection schemes using nanoparticles (NPs) to optimize important chemical interactions. Halogen bonding (XB) is an intermolecular interaction between a polarized halogen atom on a molecule and e--rich sites on another molecule, the latter of which is present at two or more sites on most fentanyl-type structures. Density functional theory (DFT) is used to identify these XB acceptor sites on different FTN derivatives. The high toxicity of these compounds necessitated a "fragmentation" strategy where smaller, non-toxic molecules resembling parts of the opioids acted as mimics of XB acceptor sites present on intact FTN and its derivatives. DFT of the fragments' interactions informed solution measurements of XB using 19F NMR titrations as well as electrochemical measurements of XB at self-assembled monolayer (SAM)-modified electrodes featuring XB donor ligands. Gold NPs, known as monolayer-protected clusters (MPCs), were also functionalized with strong XB donor ligands and assembled into films, and their interactions with FTN "fragments" were studied using voltammetry. Ultimately, spectroscopy and TEM analysis were combined to study whole-molecule FTN interactions with the functionalized MPCs in solution. The results suggested that the strongest XB interaction site on FTN, while common to most of the drug's derivatives, is not strong enough to induce NP-aggregation detection but may be better exploited in sensing schemes involving films.
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Affiliation(s)
- Molly M. Sherard
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, VA 23173, USA; (M.M.S.); (J.S.K.); (J.H.S.)
| | - Jamie S. Kaplan
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, VA 23173, USA; (M.M.S.); (J.S.K.); (J.H.S.)
| | - Jeffrey H. Simpson
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, VA 23173, USA; (M.M.S.); (J.S.K.); (J.H.S.)
| | - Kevin W. Kittredge
- Department of Chemistry, Joan P. Brock School of Math and Natural Sciences, Virginia Wesleyan College, Virginia Beach, VA 23455, USA;
| | - Michael C. Leopold
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, VA 23173, USA; (M.M.S.); (J.S.K.); (J.H.S.)
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6
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Donald KJ, Pham N, Ravichandran P. Sigma Hole Potentials as Tools: Quantifying and Partitioning Substituent Effects. J Phys Chem A 2023; 127:10147-10158. [PMID: 38058158 DOI: 10.1021/acs.jpca.3c05797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/08/2023]
Abstract
Empirical substituent constants, such as the Hammett parameters, have found important utility in organic and other areas of chemistry. They are useful both in predicting the impact of substitutions on chemical processes and in rationalizing after-the-fact observations on chemical bonding and reactivity. We assess the impact of substitutions on monoiodinated benzene rings and find that the modifications that substituents induce on the electrostatic potentials at the sigma hole on the terminal I center correlate strongly with established trends of common substituents. As an alternative to the experimental procedures involved in obtaining empirically based substituent constants, the computationally determined constants based on induced electrostatic potentials offer a model for quantifying the influence of mono- and polyatomic, neutral, and ionic substituents on their compounds. A partitioning scheme is proposed that allows us to discretely separate σ and π contributions to generate quantitative measures of substituent effects.
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Affiliation(s)
- Kelling J Donald
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Nam Pham
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Pranav Ravichandran
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
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7
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Piedra HF, Gebler V, Valdés C, Plaza M. Photochemical halogen-bonding assisted carbothiophosphorylation reactions of alkenyl and 1,3-dienyl bromides. Chem Sci 2023; 14:12767-12773. [PMID: 38020380 PMCID: PMC10646874 DOI: 10.1039/d3sc05263j] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Accepted: 10/28/2023] [Indexed: 12/01/2023] Open
Abstract
Herein, we present a synthetic procedure for the facile and general preparation of novel S-alkenyl and dienyl phosphoro(di)thioates for the first time. Extensive mechanistic investigations support that the reactions rely on a photochemical excitation of a halogen-bonding complex, formed with a phosphorothioate salt and an alkenyl or dienyl bromide, which light-induced fragmentation leads to the formation of the desired products through a radical-based pathway. The substrate scope is broad and exhibits a wide functional group tolerance in the formation of the final compounds, including molecules derived from natural products, all with unknown and potentially interesting biological properties. Eventually, a very efficient continuous flow protocol was developed for the upscale of these reactions.
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Affiliation(s)
- Helena F Piedra
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica "Enrique Moles", Centro de Innovación en Química Avanzada (ORFEO-CINQA), Universidad de Oviedo Julián Clavería 8 33006 Oviedo Spain
| | - Victoria Gebler
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica "Enrique Moles", Centro de Innovación en Química Avanzada (ORFEO-CINQA), Universidad de Oviedo Julián Clavería 8 33006 Oviedo Spain
| | - Carlos Valdés
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica "Enrique Moles", Centro de Innovación en Química Avanzada (ORFEO-CINQA), Universidad de Oviedo Julián Clavería 8 33006 Oviedo Spain
| | - Manuel Plaza
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica "Enrique Moles", Centro de Innovación en Química Avanzada (ORFEO-CINQA), Universidad de Oviedo Julián Clavería 8 33006 Oviedo Spain
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8
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West AML, Dominelli‐Whiteley N, Smolyar IV, Nichol GS, Cockroft SL. Experimental Quantification of Halogen⋅⋅⋅Arene van der Waals Contacts. Angew Chem Int Ed Engl 2023; 62:e202309682. [PMID: 37470309 PMCID: PMC10953438 DOI: 10.1002/anie.202309682] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2023] [Revised: 07/18/2023] [Accepted: 07/19/2023] [Indexed: 07/21/2023]
Abstract
Crystallographic and computational studies suggest the occurrence of favourable interactions between polarizable arenes and halogen atoms. However, the systematic experimental quantification of halogen⋅⋅⋅arene interactions in solution has been hindered by the large variance in the steric demands of the halogens. Here we have synthesized molecular balances to quantify halogen⋅⋅⋅arene contacts in 17 solvents and solvent mixtures using 1 H NMR spectroscopy. Calculations indicate that favourable halogen⋅⋅⋅arene interactions arise from London dispersion in the gas phase. In contrast, comparison of our experimental measurements with partitioned SAPT0 energies indicate that dispersion is sufficiently attenuated by the solvent that the halogen⋅⋅⋅arene interaction trend was instead aligned with increasing exchange repulsion as the halogen increased in size (ΔGX ⋅⋅⋅Ph =0 to +1.5 kJ mol-1 ). Halogen⋅⋅⋅arene contacts were slightly less disfavoured in solvents with higher solvophobicities and lower polarizabilities, but strikingly, were always less favoured than CH3 ⋅⋅⋅arene contacts (ΔGMe ⋅⋅⋅Ph =0 to -1.4 kJ mol-1 ).
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Affiliation(s)
- Andrew M. L. West
- EaStCHEM School of ChemistryUniversity of Edinburgh Joseph Black BuildingDavid Brewster RoadEdinburghEH9 3FJUK
| | - Nicholas Dominelli‐Whiteley
- EaStCHEM School of ChemistryUniversity of Edinburgh Joseph Black BuildingDavid Brewster RoadEdinburghEH9 3FJUK
| | - Ivan V. Smolyar
- EaStCHEM School of ChemistryUniversity of Edinburgh Joseph Black BuildingDavid Brewster RoadEdinburghEH9 3FJUK
| | - Gary S. Nichol
- EaStCHEM School of ChemistryUniversity of Edinburgh Joseph Black BuildingDavid Brewster RoadEdinburghEH9 3FJUK
| | - Scott L. Cockroft
- EaStCHEM School of ChemistryUniversity of Edinburgh Joseph Black BuildingDavid Brewster RoadEdinburghEH9 3FJUK
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9
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Sun J, Decato DA, Bryantsev VS, John EA, Berryman OB. The interplay between hydrogen and halogen bonding: substituent effects and their role in the hydrogen bond enhanced halogen bond. Chem Sci 2023; 14:8924-8935. [PMID: 37621436 PMCID: PMC10445465 DOI: 10.1039/d3sc02348f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2023] [Accepted: 07/20/2023] [Indexed: 08/26/2023] Open
Abstract
The hydrogen bond enhanced halogen bond (HBeXB) has recently been used to effectively improve anion binding, organocatalysis, and protein structure/function. In this study, we present the first systematic investigation of substituent effects in the HBeXB. NMR analysis confirmed intramolecular HBing between the amine and the electron-rich belt of the XB donor (N-H⋯I). Gas-phase density functional theory studies showed that the influence of HBing on the halogen atom is more sensitive to substitution on the HB donor ring (R1). The NMR studies revealed that the intramolecular HBing had a significant impact on receptor performance, resulting in a 50-fold improvement. Additionally, linear free energy relationship (LFER) analysis was employed for the first time to study the substituent effect in the HBeXB. The results showed that substituents on the XB donor ring (R2) had a competing effect where electron donating groups strengthened the HB and weakened the XB. Therefore, selecting an appropriate substituent on the adjacent HB donor ring (R1) could be an alternative and effective way to enhance an electron-rich XB donor. X-ray crystallographic analysis demonstrated that intramolecular HBing plays an important role in the receptor adopting the bidentate conformation. Taken together, the findings imply that modifying distal substituents that affect neighboring noncovalent interactions can have a similar impact to conventional para substitution substituent effects.
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Affiliation(s)
- Jiyu Sun
- Department of Chemistry and Biochemistry, University of Montana, 32 Campus Drive Missoula MT 59812 USA
| | - Daniel A Decato
- Department of Chemistry and Biochemistry, University of Montana, 32 Campus Drive Missoula MT 59812 USA
| | | | - Eric A John
- Department of Chemistry and Biochemistry, University of Montana, 32 Campus Drive Missoula MT 59812 USA
| | - Orion B Berryman
- Department of Chemistry and Biochemistry, University of Montana, 32 Campus Drive Missoula MT 59812 USA
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10
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Niu Z, Wu Q, Li Q, Scheiner S. C∙∙∙O and Si∙∙∙O Tetrel Bonds: Substituent Effects and Transfer of the SiF 3 Group. Int J Mol Sci 2023; 24:11884. [PMID: 37569259 PMCID: PMC10418337 DOI: 10.3390/ijms241511884] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2023] [Revised: 07/19/2023] [Accepted: 07/21/2023] [Indexed: 08/13/2023] Open
Abstract
The tetrel bond (TB) between 1,2-benzisothiazol-3-one-2-TF3-1,1-dioxide (T = C, Si) and the O atom of pyridine-1-oxide (PO) and its derivatives (PO-X, X = H, NO2, CN, F, CH3, OH, OCH3, NH2, and Li) is examined by quantum chemical means. The Si∙∙∙O TB is quite strong, with interaction energies approaching a maximum of nearly 70 kcal/mol, while the C∙∙∙O TB is an order of magnitude weaker, with interaction energies between 2.0 and 2.6 kcal/mol. An electron-withdrawing substituent on the Lewis base weakens this TB, while an electron-donating group has the opposite effect. The SiF3 group transfers roughly halfway between the N of the acid and the O of the base without the aid of cooperative effects from a third entity.
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Affiliation(s)
- Zhihao Niu
- The Laboratory of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Yantai University, Yantai 264005, China; (Z.N.); (Q.W.)
| | - Qiaozhuo Wu
- The Laboratory of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Yantai University, Yantai 264005, China; (Z.N.); (Q.W.)
| | - Qingzhong Li
- The Laboratory of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Yantai University, Yantai 264005, China; (Z.N.); (Q.W.)
| | - Steve Scheiner
- Department of Chemistry and Biochemistry, Utah State University, Logan, UT 84322, USA
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11
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Otte F, Kleinheider J, Grabe B, Hiller W, Busse F, Wang R, Kreienborg NM, Merten C, Englert U, Strohmann C. Gauging the Strength of the Molecular Halogen Bond via Experimental Electron Density and Spectroscopy. ACS OMEGA 2023; 8:21531-21539. [PMID: 37360450 PMCID: PMC10286298 DOI: 10.1021/acsomega.3c00619] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/30/2023] [Accepted: 04/19/2023] [Indexed: 06/28/2023]
Abstract
Strong and weak halogen bonds (XBs) in discrete aggregates involving the same acceptor are addressed by experiments in solution and in the solid state. Unsubstituted and perfluorinated iodobenzenes act as halogen donors of tunable strength; in all cases, quinuclidine represents the acceptor. NMR titrations reliably identify the strong intermolecular interactions in solution, with experimental binding energies of approx. 7 kJ/mol. Interaction of the σ hole at the halogen donor iodine leads to a redshift in the symmetric C-I stretching vibration; this shift reflects the interaction energy in the halogen-bonded adducts and may be assessed by Raman spectroscopy in condensed phase even for weak XBs. An experimental picture of the electronic density for the XBs is achieved by high-resolution X-ray diffraction on suitable crystals. Quantum theory of atoms in molecules (QTAIM) analysis affords the electron densities and energy densities in the bond critical points of the halogen bonds and confirms stronger interaction for the shorter contacts. For the first time, the experimental electron density shows a significant effect on the atomic volumes and Bader charges of the quinuclidine N atoms, the halogen-bond acceptor: strong and weak XBs are reflected in the nature of their acceptor atom. Our experimental findings at the acceptor atom match the discussed effects of halogen bonding and thus the proposed concepts in XB activated organocatalysis.
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Affiliation(s)
- Felix Otte
- Inorganic
Chemistry, TU Dortmund University, Otto-Hahn-Str. 6, 44227 Dortmund, Germany
| | - Johannes Kleinheider
- Inorganic
Chemistry, TU Dortmund University, Otto-Hahn-Str. 6, 44227 Dortmund, Germany
| | - Bastian Grabe
- Faculty
of Chemistry and Chemical Biology, TU Dortmund
University, Otto-Hahn-Str. 4a, 44227 Dortmund, Germany
| | - Wolf Hiller
- Faculty
of Chemistry and Chemical Biology, TU Dortmund
University, Otto-Hahn-Str. 4a, 44227 Dortmund, Germany
| | - Franziska Busse
- Inorganic
Chemistry, RWTH Aachen University, Landoltweg 1, 52056 Aachen, Germany
| | - Ruimin Wang
- Inorganic
Chemistry, RWTH Aachen University, Landoltweg 1, 52056 Aachen, Germany
- Institute
of Molecular Science, Shanxi University, Wucheng Road 92, 030006 Taiyuan, P. R. China
| | - Nora M. Kreienborg
- Organic Chemistry
II, Ruhr University Bochum, Universitätstraße 150, 44801 Bochum, Germany
| | - Christian Merten
- Organic Chemistry
II, Ruhr University Bochum, Universitätstraße 150, 44801 Bochum, Germany
| | - Ulli Englert
- Inorganic
Chemistry, RWTH Aachen University, Landoltweg 1, 52056 Aachen, Germany
- Institute
of Molecular Science, Shanxi University, Wucheng Road 92, 030006 Taiyuan, P. R. China
| | - Carsten Strohmann
- Inorganic
Chemistry, TU Dortmund University, Otto-Hahn-Str. 6, 44227 Dortmund, Germany
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12
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Piedra HF, Valdés C, Plaza M. Shining light on halogen-bonding complexes: a catalyst-free activation mode of carbon-halogen bonds for the generation of carbon-centered radicals. Chem Sci 2023; 14:5545-5568. [PMID: 37265729 PMCID: PMC10231334 DOI: 10.1039/d3sc01724a] [Citation(s) in RCA: 19] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2023] [Accepted: 05/03/2023] [Indexed: 06/03/2023] Open
Abstract
The discovery of new activation modes for the creation of carbon-centered radicals is a task of great interest in organic chemistry. Classical activation modes for the generation of highly reactive radical carbon-centered intermediates typically relied on thermal activation of radical initiators or irradiation with unsafe energetic UV light of adequate reaction precursors. In recent years, photoredox chemistry has emerged as a leading strategy towards the catalytic generation of C-centered radicals, which enabled their participation in novel synthetic organic transformations which is otherwise very challenging or even impossible to take place. As an alternative to these activation modes for the generation of C-centered radicals, the pursuit of greener, visible-light initiated reactions that do not necessitate a photoredox/metal catalyst has recently caught the attention of chemists. In this review, we covered recent transformations, which rely on photoactivation with low-energy light of a class of EDA complexes, known as halogen-bonding adducts, for the creation of C-centered radicals.
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Affiliation(s)
- Helena F Piedra
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica "Enrique Moles" and Centro de Innovación en Química Avanzada (ORFEO-CINQA), Universidad de Oviedo Julián Clavería 8 33006 Oviedo Spain
| | - Carlos Valdés
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica "Enrique Moles" and Centro de Innovación en Química Avanzada (ORFEO-CINQA), Universidad de Oviedo Julián Clavería 8 33006 Oviedo Spain
| | - Manuel Plaza
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica "Enrique Moles" and Centro de Innovación en Química Avanzada (ORFEO-CINQA), Universidad de Oviedo Julián Clavería 8 33006 Oviedo Spain
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13
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Sherard M, Dang QM, Reiff SC, Simpson JH, Leopold MC. On-Site Detection of Neonicotinoid Pesticides Using Functionalized Gold Nanoparticles and Halogen Bonding. ACS APPLIED NANO MATERIALS 2023; 6:8367-8381. [PMID: 37260915 PMCID: PMC10227770 DOI: 10.1021/acsanm.3c00618] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/09/2023] [Accepted: 04/10/2023] [Indexed: 06/02/2023]
Abstract
Neonicotinoid (NN) pesticides have emerged globally as one of the most widely used agricultural tools for protecting crops from pest damage and boosting food production. Unfortunately, some NN compounds, such as extensively employed imidacloprid-based pesticides, have also been identified as likely endangering critical pollinating insects like honey bees. To this end, NN pesticides pose a potential threat to world food supplies. As more countries restrict or prohibit the use of NN pesticides, tools are needed to effectively and quickly identify the presence of NN compounds like imidacloprid on site (e.g., in storage areas on farms or pesticide distribution warehouses). This study represents a proof-of-concept where the colloidal properties of specifically modified gold nanoparticles (Au-NPs) able to engage in the rare intermolecular interaction of halogen bonding (XB) can result in the detection of certain NN compounds. Density functional theory and diffusion-ordered NMR spectroscopy (DOSY NMR) are used to explore the fundamental XB interactions between strong XB-donor structures and NN compounds, with the latter found to possess multiple XB-acceptor binding sites. A fundamental understanding of these XB interactions allows for the functionalization of alkanethiolate-stabilized Au-NPs, known as monolayer-protected gold clusters (MPCs), with XB-donor capability (f-MPCs). In the presence of certain NN compounds such as imidacloprid, the f-MPCs subsequently exhibit visual XB-induced aggregation that is also measured with absorption (UV-vis) spectroscopy and verified with transmission electron microscopy (TEM) imaging. The demonstrated f-MPC-aggregation detection scheme has a number of favorable attributes, including quickly reporting the presence of the NN target, requiring only micrograms of suspect material, and being highly selective for imidacloprid, the most prevalent and most important NN insecticide compound. Requiring no instrumentation, the presented methodology can be envisioned as a simple screening test in which dipping a cotton swab of an unknown powder from a surface in a f-MPC solution causes f-MPCs to aggregate and yield a preliminary indication of imidacloprid presence.
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14
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Wang Y, Cao Z, He Q, Huang X, Liu J, Neumann H, Chen G, Beller M. Activation of perfluoroalkyl iodides by anions: extending the scope of halogen bond activation to C(sp 3)-H amidation, C(sp 2)-H iodination, and perfluoroalkylation reactions. Chem Sci 2023; 14:1732-1741. [PMID: 36819859 PMCID: PMC9930934 DOI: 10.1039/d2sc06145g] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Accepted: 12/29/2022] [Indexed: 01/26/2023] Open
Abstract
A simple, efficient, and convenient activation of perfluoroalkyl iodides by tBuONa or KOH, without expensive photo- or transition metal catalysts, allows the promotion of versatile α-sp3 C-H amidation reactions of alkyl ethers and benzylic hydrocarbons, C-H iodination of heteroaryl compounds, and perfluoroalkylations of electron-rich π bonds. Mechanistic studies show that these novel protocols are based on the halogen bond interaction between perfluoroalkyl iodides and tBuONa or KOH, which promote homolysis of perfluoroalkyl iodides under mild conditions.
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Affiliation(s)
- Yaxin Wang
- College of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023 China .,Leibniz-Institute for Catalysis Albert-Einstein-Str. 29a Rostock 18059 Germany
| | - Zehui Cao
- College of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023 China
| | - Qin He
- College of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023 China
| | - Xin Huang
- State Key Laboratory and Institute of Elemento-Organic Chemistry, Nankai UniversityTianjin 300071China
| | - Jiaxi Liu
- College of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023 China
| | - Helfried Neumann
- Leibniz-Institute for Catalysis Albert-Einstein-Str. 29a Rostock 18059 Germany
| | - Gong Chen
- State Key Laboratory and Institute of Elemento-Organic Chemistry, Nankai UniversityTianjin 300071China
| | - Matthias Beller
- Leibniz-Institute for Catalysis Albert-Einstein-Str. 29a Rostock 18059 Germany
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15
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Lo R, Mašínová A, Lamanec M, Nachtigallová D, Hobza P. The unusual stability of H-bonded complexes in solvent caused by greater solvation energy of complex compared to those of isolated fragments. J Comput Chem 2023; 44:329-333. [PMID: 35616117 DOI: 10.1002/jcc.26928] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2022] [Revised: 04/25/2022] [Accepted: 04/28/2022] [Indexed: 01/03/2023]
Abstract
Here, the effect of solvent on the stability of non-covalent complexes, was studied. These complexes were from previously published S22, S66, and X40 datasets, which include hydrogen-, halogen- and dispersion-bonded complexes. It was shown that the charge transfer in the complex determines whether the complex is stabilized or destabilized in solvent.
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Affiliation(s)
- Rabindranath Lo
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Prague, Czech Republic
| | - Anna Mašínová
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Prague, Czech Republic
| | - Maximilián Lamanec
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Prague, Czech Republic.,Regional Centre of Advanced Technologies and Materials, Czech Advanced Technology and Research Institute, Palacký University Olomouc, Olomouc, Czech Republic
| | - Dana Nachtigallová
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Prague, Czech Republic.,Regional Centre of Advanced Technologies and Materials, Czech Advanced Technology and Research Institute, Palacký University Olomouc, Olomouc, Czech Republic
| | - Pavel Hobza
- Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Prague, Czech Republic.,Regional Centre of Advanced Technologies and Materials, Czech Advanced Technology and Research Institute, Palacký University Olomouc, Olomouc, Czech Republic
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16
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Piedra HF, Plaza M. Photochemical halogen-bonding assisted generation of vinyl and sulfur-centered radicals: stereoselective catalyst-free C(sp 2)-S bond forming reactions. Chem Sci 2023; 14:650-657. [PMID: 36741527 PMCID: PMC9848158 DOI: 10.1039/d2sc05556b] [Citation(s) in RCA: 14] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2022] [Accepted: 12/06/2022] [Indexed: 12/13/2022] Open
Abstract
The combination of photochemistry and halogen bonding interactions has risen in the last few years as a powerful synthetic tool for the creation of radical intermediates under mild conditions. In the formation of carbon-centered radicals, this reactivity has been to date restricted to the employment of aryl and alkyl halides as precursors. We now envisioned that the halogen-bonding initiated formation of highly reactive vinyl radicals would be a feasible process for the photochemical cross-coupling between thiols and alkenyl halides under basic conditions. The reaction shows indeed a very broad functional group tolerance, is stereoselective, simple and scalable. In-depth mechanistic studies point at the formation of vinyl and sulfur-centered radicals as the intermediates of the reaction and DFT calculations support the pre-formation of a halogen-bonding complex as the initiator of the photochemical transformation. Synthetic applications were developed to extend the utility of this methodology.
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Affiliation(s)
- Helena F. Piedra
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica “Enrique Moles”, Universidad de OviedoJulián Clavería 833006 OviedoSpain
| | - Manuel Plaza
- Departamento de Química Orgánica e Inorgánica, Instituto Universitario de Química Organometálica “Enrique Moles”, Universidad de OviedoJulián Clavería 833006 OviedoSpain
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17
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Achiri R, Fouzia M, Benomari FZ, Djabou N, Boufeldja T, Muselli A, Dib MEA. Chemical composition/pharmacophore modelling- based, virtual screening, molecular docking and dynamic simulation studies for the discovery of novel superoxide dismutase ( SODs) of bioactive molecules from aerial parts of Inula Montana as antioxydant's agents. J Biomol Struct Dyn 2022; 40:12439-12460. [PMID: 34472418 DOI: 10.1080/07391102.2021.1971563] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
The accumulation of free radicals in the body develops chronic and degenerative diseases such as cancer, autoimmune diseases, rheumatoid arthritis, cardiovascular and neurodegenerative diseases. The first aim of this work was to study the chemical composition of Inula Montana essential oil using GC-FID and GC/MS analysis and the antioxidant activities using radical scavenging (DPPH) and the Ferric -Reducing Antioxidant Power (FRAP) tests. The second aim was to describe the assess the antioxidant activity and computational study of Superoxide Dismutase (SODs) and ctDNA inhibition. Sixty-nine compounds were identified in the essential oil of the aerial part of Inula montana. Shyobunol and α-Cadinol were the major compounds in the essential oil. The antioxidant power of the essential oil showed an important antioxidant effect compared to ascorbic acid and the methionine co-crystallized inhibitor. The results of the docking simulation revealed that E, E-Farnesyl acetate has an affinity to interact with binding models and the antioxidant activities of the ctDNA sequence and Superoxide Dismutase target. The penetration through the Blood-Brain Barrier came out to be best for E, E-Farnesyl acetate and E-Nerolidolacetate and was significantly higher than the control molecule and Lref. Finally, the application of ADMET filters gives us positive information on the compound E, E-Farnesyl acetate, which appears as a new inhibitor potentially more active towards ctDNA and SODs target. The active compounds, E,E-Farnesyl acetate can be used as templates for further development of more potent antioxidative agents.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Radja Achiri
- Laboratoire des Substances Naturelles & Bioactives (LASNABIO), Département de Chimie, Faculté des Sciences, Université Abou BekrBelkaıd, Tlemcen, Algeria
| | - Mesli Fouzia
- Laboratoire des Substances Naturelles & Bioactives (LASNABIO), Département de Chimie, Faculté des Sciences, Université Abou BekrBelkaıd, Tlemcen, Algeria
| | - Fatima Zohra Benomari
- Laboratoire de Chimie Organique, Substances Naturelles et Analyses (COSNA), Faculte des Sciences, Universite Abou BekrBelkaıd, Tlemcen, Algeria
| | - Nassim Djabou
- Laboratoire de Chimie Organique, Substances Naturelles et Analyses (COSNA), Faculte des Sciences, Universite Abou BekrBelkaıd, Tlemcen, Algeria
| | - Tabti Boufeldja
- Laboratoire des Substances Naturelles & Bioactives (LASNABIO), Département de Chimie, Faculté des Sciences, Université Abou BekrBelkaıd, Tlemcen, Algeria
| | - Alain Muselli
- Laboratoire Chimie des Produits Naturels, Université de Corse, UMR CNRS 6134, Corté, France
| | - Mohammed El Amine Dib
- Laboratoire des Substances Naturelles & Bioactives (LASNABIO), Département de Chimie, Faculté des Sciences, Université Abou BekrBelkaıd, Tlemcen, Algeria
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18
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Storer MC, Hunter CA. The surface site interaction point approach to non-covalent interactions. Chem Soc Rev 2022; 51:10064-10082. [PMID: 36412990 DOI: 10.1039/d2cs00701k] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The functional properties of molecular systems are generally determined by the sum of many weak non-covalent interactions, and therefore methods for predicting the relative magnitudes of these interactions is fundamental to understanding the relationship between function and structure in chemistry, biology and materials science. This review focuses on the Surface Site Interaction Point (SSIP) approach which describes molecules as a set of points that capture the properties of all possible non-covalent interactions that the molecule might make with another molecule. The first half of the review focuses on the empirical non-covalent interaction parameters, α and β, and provides simple rules of thumb to estimate free energy changes for interactions between different types of functional group. These parameters have been used to have been used to establish a quantitative understanding of the role of solvent in solution phase equilibria, and to describe non-covalent interactions at the interface between macroscopic surfaces as well as in the solid state. The second half of the review focuses on a computational approach for obtaining SSIPs and applications in multi-component systems where many different interactions compete. Ab initio calculation of the Molecular Electrostatic Potential (MEP) surface is used to derive an SSIP description of a molecule, where each SSIP is assigned a value equivalent to the corresponding empirical parameter, α or β. By considering the free energies of all possible pairing interactions between all SSIPs in a molecular ensemble, it is possible to calculate the speciation of all intermolecular interactions and hence predict thermodynamic properties using the SSIMPLE algorithm. SSIPs have been used to describe both the solution phase and the solid state and provide accurate predictions of partition coefficients, solvent effects on association constants for formation of intermolecular complexes, and the probability of cocrystal formation. SSIPs represent a simple and intuitive tool for describing the relationship between chemical structure and non-covalent interactions with sufficient accuracy to understand and predict the properties of complex molecular ensembles without the need for computationally expensive simulations.
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Affiliation(s)
- Maria Chiara Storer
- Yusuf Hamied Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK.
| | - Christopher A Hunter
- Yusuf Hamied Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK.
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19
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Winiewska-Szajewska M, Czapinska H, Kaus-Drobek M, Fricke A, Mieczkowska K, Dadlez M, Bochtler M, Poznański J. Competition between electrostatic interactions and halogen bonding in the protein-ligand system: structural and thermodynamic studies of 5,6-dibromobenzotriazole-hCK2α complexes. Sci Rep 2022; 12:18964. [PMID: 36347916 PMCID: PMC9641685 DOI: 10.1038/s41598-022-23611-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2022] [Accepted: 11/02/2022] [Indexed: 11/11/2022] Open
Abstract
CK2 is a member of the CMGC group of eukaryotic protein kinases and a cancer drug target. It can be efficiently inhibited by halogenated benzotriazoles and benzimidazoles. Depending on the scaffold, substitution pattern, and pH, these compounds are either neutral or anionic. Their binding poses are dictated by a hydrophobic effect (desolvation) and a tug of war between a salt bridge/hydrogen bond (to K68) and halogen bonding (to E114 and V116 backbone oxygens). Here, we test the idea that binding poses might be controllable by pH for ligands with near-neutral pKa, using the conditionally anionic 5,6-DBBt and constitutively anionic TBBt as our models. We characterize the binding by low-volume Differential Scanning Fluorimetry (nanoDSF), Isothermal Calorimetry (ITC), Hydrogen/Deuterium eXchange (HDX), and X-ray crystallography (MX). The data indicate that the ligand pose away from the hinge dominates for the entire tested pH range (5.5-8.5). The insensitivity of the binding mode to pH is attributed to the perturbation of ligand pKa upon binding that keeps it anionic in the ligand binding pocket at all tested pH values. However, a minor population of the ligand, detectable only by HDX, shifts towards the hinge in acidic conditions. Our findings demonstrate that electrostatic (ionic) interactions predominate over halogen bonding.
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Affiliation(s)
- Maria Winiewska-Szajewska
- grid.418825.20000 0001 2216 0871Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland ,grid.12847.380000 0004 1937 1290Division of Biophysics, Institute of Experimental Physics, University of Warsaw, Pasteura 5, 02-089 Warsaw, Poland
| | - Honorata Czapinska
- grid.418825.20000 0001 2216 0871Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland ,grid.419362.bInternational Institute of Molecular and Cell Biology, Trojdena 4, 02-109 Warsaw, Poland
| | - Magdalena Kaus-Drobek
- grid.418825.20000 0001 2216 0871Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland
| | - Anna Fricke
- grid.418825.20000 0001 2216 0871Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland ,grid.419362.bInternational Institute of Molecular and Cell Biology, Trojdena 4, 02-109 Warsaw, Poland
| | - Kinga Mieczkowska
- grid.418825.20000 0001 2216 0871Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland
| | - Michał Dadlez
- grid.418825.20000 0001 2216 0871Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland
| | - Matthias Bochtler
- grid.418825.20000 0001 2216 0871Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland ,grid.419362.bInternational Institute of Molecular and Cell Biology, Trojdena 4, 02-109 Warsaw, Poland
| | - Jarosław Poznański
- grid.418825.20000 0001 2216 0871Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland
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Chen R, Li Q, Xu K, Wang T, Ma J, Cao L, Teng B, Wu H. Structural and spectroscopic analysis, solvent effect on the molecular properties and molecular docking of trans-2-(4-(dimethylamino) styryl)-benzothiazole. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.140192] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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21
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Shin D, Jung Y. Molecular electrostatic potential as a general and versatile indicator for electronic substituent effects: statistical analysis and applications. Phys Chem Chem Phys 2022; 24:25740-25752. [PMID: 36155687 DOI: 10.1039/d2cp03244a] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
It is necessary to quantitatively determine substituent effects to accurately elucidate reaction mechanisms in the field of organic chemistry. This paper reports that the molecular electrostatic potential (MESP) can be used as a general and versatile measure for the substituent effects in various chemical reactions by performing extensive density functional theory (DFT) calculations for more than 400 molecules, followed by statistical analyses. We observed a robust and linear correlation between the electrostatic potential and the substituent parameters for various cases of reactive systems, regardless of the DFT functionals, basis sets, and solvation models used. In addition, we statistically analysed the normality of the residuals from the linear regression to demonstrate that strong linear relationships hold universally, which indicates that the electrostatic potential can serve as a physically meaningful quantity for the predictive estimation of substituent effects. In contrast, conventionally used methods based on the charge deviation in the aromatic carbons, as computed using various charge analysis methods, (e.g., Hirshfeld charge analysis) do not demonstrate the statistical normality. Furthermore, we illustrate that MESP can be extensively adopted to strengthen the validity of the linear free energy relationships (LFERs) under various chemical conditions. The results revealed that the MESP shift derived by a functional group on a mono-substituted benzene ring is a strong predictor for the substituent effects on the electronic behaviours in chemical reactions; thus, it can serve as an alternative to other empirical parameters such as the Hammett or Swain-Lupton parameters, or the charge shift.
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Affiliation(s)
- Donghan Shin
- Seoul National University, 1, Gwanak-ro, Gwanak-gu, Seoul, Republic of Korea.
| | - YounJoon Jung
- Seoul National University, 1, Gwanak-ro, Gwanak-gu, Seoul, Republic of Korea.
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22
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Scheiner S. On the reliability of atoms in molecules, noncovalent index, and natural bond orbital to identify and quantify noncovalent bonds. J Comput Chem 2022; 43:1814-1824. [DOI: 10.1002/jcc.26983] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Accepted: 08/03/2022] [Indexed: 11/12/2022]
Affiliation(s)
- Steve Scheiner
- Department of Chemistry and Biochemistry Utah State University Logan Utah USA
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23
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Mo Y, Danovich D, Shaik S. The roles of charge transfer and polarization in non-covalent interactions: a perspective from ab initio valence bond methods. J Mol Model 2022; 28:274. [PMID: 36006511 DOI: 10.1007/s00894-022-05187-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2021] [Accepted: 12/03/2021] [Indexed: 11/28/2022]
Abstract
Noncovalent interactions are ubiquitous and have been well recognized in chemistry, biology and material science. Yet, there are still recurring controversies over their natures, due to the wide range of noncovalent interaction terms. In this Essay, we employed the Valence Bond (VB) methods to address two types of interactions which recently have drawn intensive attention, i.e., the halogen bonding and the CH‧‧‧HC dihydrogen bonding. The VB methods have the advantage of interpreting molecular structures and properties in the term of electron-localized Lewis (resonance) states (structures), which thereby shed specific light on the alteration of the bonding patterns. Due to the electron localization nature of Lewis states, it is possible to define individually and measure both polarization and charge transfer effects which have different physical origins. We demonstrated that both the ab initio VB method and the block-localized wavefunction (BLW) method can provide consistent pictures for halogen bonding systems, where strong Lewis bases NH3, H2O and NMe3 partake as the halogen bond acceptors, and the halogen bond donors include dihalogen molecules and XNO2 (X = Cl, Br, I). Based on the structural, spectral, and energetic changes, we confirm the remarkable roles of charge transfer in these halogen bonding complexes. Although the weak C-H∙∙∙H-C interactions in alkane dimers and graphene sheets are thought to involve dispersion only, we show that this term embeds delicate yet important charge transfer, bond reorganization and polarization interactions.
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Affiliation(s)
- Yirong Mo
- Department of Nanoscience, Joint School of Nanoscience and Nanoengineering, University of North Carolina at Greensboro, Greensboro, NC, 27401, USA.
| | - David Danovich
- Institute of Chemistry, The Hebrew University of Jerusalem, 9190407, Jerusalem, Israel
| | - Sason Shaik
- Institute of Chemistry, The Hebrew University of Jerusalem, 9190407, Jerusalem, Israel.
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Lyna B, Fouzia M, Okkacha B, Dib MEA, Muselli A. A combined in vitro-in silico approach for the discovery of novel endogenous enzymatic and ctDNA sequence of bioactive molecules from aerial and root parts of Centaurea sulphurea as antioxidant's agents. J Biomol Struct Dyn 2022:1-22. [PMID: 35766214 DOI: 10.1080/07391102.2022.2090438] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Abstract
The excess free radicals not neutralized by the antioxidant defenses damage the essential macromolecules of our cells, causing abnormalities in the expression of genes and membrane receptors, cell proliferation or death, immune disorders, mutagenesis, deposits of proteins or lipofuschin in tissues. The first objective of this study was to elucidate the composition of the essential oil of the aerial and root part of Centaurea sulphurea during beginning of the vegetative cycle (March), beginning of the flowering stage (April) and full bloom (May/June) using GC/FID and GC/MS. The second aim was to describe the antioxidant activity using three methods (2,2-diphenyl-1-picrylhydrazyl (DPPH), ferric-reducing antioxidant power (FRAP), β-carotene bleaching assay) and bioinformatical study of ctDNA sequence and three endogenous enzymes inhibition. The essential oils obtained from the root during the full bloom period consisted mainly of caryophyllene oxide, aplotaxene and (Z)-phytol. While, the aerial parts were dominated by caryophyllene oxide, verridiflorol and humulene epoxide II. The results showed that essential oil presented an excellent antioxidant activity with IC50 values of 2.06 g/L and 1.29 g/L, for aerial and root parts, compared to butylated hydroxyltoluene (BHT) and Ethylenediaminetetraacetic acid (EDTA) controls and the nicotinamide adenine dinucleotide phosphate (NADPH) co-crystallized inhibitor. The results of the molecular docking revealed that (Z)-phytol (Ligand 39) has an affinity to interact with ctDNA sequence, and three targets Endogenous enzymes. The molecular dynamics study was conducted for the best inhibitors (Z)-phytol. A few key residues were identified at the binding site of receptors. The in-silico assessment of the ADME properties and BOILED-Egg plot reveals that compound (Z)-phytol (L39) is permeable to the blood brain barrier and have high lipophilicity and high coefficient of skin permeability in the intestines with good bioavailability. The ADMET analysis also showed that this oxygenated diterpene is safer to replace the synthetic drugs with side effects. Further testing is needed to assess its effectiveness in reducing oxidative stress for use in the pharmaceutical industry.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Benhamidat Lyna
- Laboratoire des Substances Naturelles & Bioactives (LASNABIO), Département de Chimie, Faculté des Sciences, Université Abou BekrBelkaıd, Tlemcen, Algeria
| | - Mesli Fouzia
- Laboratoire des Substances Naturelles & Bioactives (LASNABIO), Département de Chimie, Faculté des Sciences, Université Abou BekrBelkaıd, Tlemcen, Algeria
| | - Bensaid Okkacha
- Laboratoire des Substances Naturelles & Bioactives (LASNABIO), Département de Chimie, Faculté des Sciences, Université Abou BekrBelkaıd, Tlemcen, Algeria
| | - Mohammed El Amine Dib
- Laboratoire des Substances Naturelles & Bioactives (LASNABIO), Département de Chimie, Faculté des Sciences, Université Abou BekrBelkaıd, Tlemcen, Algeria
| | - Alain Muselli
- Laboratoire Chimie des Produits Naturels, Université de Corse, UMR CNRS 6134, Corté, France
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25
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Jena S, Dutta J, Tulsiyan KD, Sahu AK, Choudhury SS, Biswal HS. Noncovalent interactions in proteins and nucleic acids: beyond hydrogen bonding and π-stacking. Chem Soc Rev 2022; 51:4261-4286. [PMID: 35560317 DOI: 10.1039/d2cs00133k] [Citation(s) in RCA: 42] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Understanding the noncovalent interactions (NCIs) among the residues of proteins and nucleic acids, and between drugs and proteins/nucleic acids, etc., has extraordinary relevance in biomolecular structure and function. It helps in interpreting the dynamics of complex biological systems and enzymatic activity, which is esential for new drug design and efficient drug delivery. NCIs like hydrogen bonding (H-bonding) and π-stacking have been researchers' delight for a long time. Prominent among the recently discovered NCIs are halogen, chalcogen, pnictogen, tetrel, carbo-hydrogen, and spodium bonding, and n → π* interaction. These NCIs have caught the imaginations of various research groups in recent years while explaining several chemical and biological processes. At this stage, a holistic view of these new ideas and findings lying scattered can undoubtedly trigger our minds to explore more. The present review attempts to address NCIs beyond H-bonding and π-stacking, which are mainly n → σ*, n → π* and σ → σ* type interactions. Five of the seven NCIs mentioned earlier are linked to five non-inert end groups of the modern periodic table. Halogen (group-17) bonding is one of the oldest and most explored NCIs, which finds its relevance in biomolecules due to the phase correction and inhibitory properties of halogens. Chalcogen (group 16) bonding serves as a redox-active functional group of different active sites of enzymes and acts as a nucleophile in proteases and phosphates. Pnictogen (group 15), tetrel (group 14), triel (group 13) and spodium (group 12) bonding does exist in biomolecules. The n → π* interactions are linked to backbone carbonyl groups and protein side chains. Thus, they are crucial in determining the conformational stability of the secondary structures in proteins. In addition, a more recently discovered to and fro σ → σ* type interaction, namely carbo-hydrogen bonding, is also present in protein-ligand systems. This review summarizes these grand epiphanies routinely used to elucidate the structure and dynamics of biomolecules, their enzymatic activities, and their application in drug discovery. It also briefs about the future perspectives and challenges posed to the spectroscopists and theoreticians.
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Affiliation(s)
- Subhrakant Jena
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), PO- Bhimpur-Padanpur, Via-Jatni, District- Khurda, PIN - 752050, Bhubaneswar, India.,Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, 400094, India.
| | - Juhi Dutta
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), PO- Bhimpur-Padanpur, Via-Jatni, District- Khurda, PIN - 752050, Bhubaneswar, India.,Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, 400094, India.
| | - Kiran Devi Tulsiyan
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), PO- Bhimpur-Padanpur, Via-Jatni, District- Khurda, PIN - 752050, Bhubaneswar, India.,Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, 400094, India.
| | - Akshay Kumar Sahu
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), PO- Bhimpur-Padanpur, Via-Jatni, District- Khurda, PIN - 752050, Bhubaneswar, India.,Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, 400094, India.
| | - Shubhranshu Shekhar Choudhury
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), PO- Bhimpur-Padanpur, Via-Jatni, District- Khurda, PIN - 752050, Bhubaneswar, India.,Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, 400094, India.
| | - Himansu S Biswal
- School of Chemical Sciences, National Institute of Science Education and Research (NISER), PO- Bhimpur-Padanpur, Via-Jatni, District- Khurda, PIN - 752050, Bhubaneswar, India.,Homi Bhabha National Institute, Training School Complex, Anushakti Nagar, Mumbai, 400094, India.
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26
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Nieland E, Komisarek D, Hohloch S, Wurst K, Vasylyeva V, Weingart O, Schmidt BM. Supramolecular networks by imine halogen bonding. Chem Commun (Camb) 2022; 58:5233-5236. [PMID: 35388831 DOI: 10.1039/d2cc00799a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Halogen bonding of neutral donors using imine groups of porous organic cage compounds as acceptors leads to the formation of halogen-bonded frameworks. We report the use of two different imine cages, in combination with three electron-poor halogen bond donors. Four resulting solid-state structures elucidated by single-crystal X-ray analysis are presented and analysed for the first time by plane-wave DFT calculations and QTAIM-analyses of the entire unit cells, demonstrating the formation of halogen bonds within the networks. The supramolecular frameworks can be obtained either from solution or mechanochemically by liquid-assisted grinding.
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Affiliation(s)
- Esther Nieland
- Institut für Organische Chemie und Makromolekulare Chemie, Heinrich-Heine-Universität Düsseldorf, Universitätsstrasse 1, 40225 Düsseldorf, Germany.
| | - Daniel Komisarek
- Institut für Anorganische Chemie und Strukturchemie I, Heinrich-Heine-Universität Düsseldorf, Universitätsstrasse 1, 40225 Düsseldorf, Germany
| | - Stephan Hohloch
- Institut für Allgemeine, Anorganische und Theoretische Chemie, Universität Innsbruck, Innrain 80-82, 6020 Innsbruck, Austria
| | - Klaus Wurst
- Institut für Allgemeine, Anorganische und Theoretische Chemie, Universität Innsbruck, Innrain 80-82, 6020 Innsbruck, Austria
| | - Vera Vasylyeva
- Institut für Anorganische Chemie und Strukturchemie I, Heinrich-Heine-Universität Düsseldorf, Universitätsstrasse 1, 40225 Düsseldorf, Germany
| | - Oliver Weingart
- Institut für Theoretische Chemie und Computerchemie, Heinrich-Heine-Universität Düsseldorf, Universitätsstrasse 1, 40225 Düsseldorf, Germany.
| | - Bernd M Schmidt
- Institut für Organische Chemie und Makromolekulare Chemie, Heinrich-Heine-Universität Düsseldorf, Universitätsstrasse 1, 40225 Düsseldorf, Germany.
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27
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Dang QM, Gilmore ST, Lalwani K, Conk RJ, Simpson JH, Leopold MC. Monolayer-Protected Gold Nanoparticles Functionalized with Halogen Bonding Capability─An Avenue for Molecular Detection Schemes. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2022; 38:4747-4762. [PMID: 35385292 DOI: 10.1021/acs.langmuir.2c00381] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The use of functionalized nanoparticles (NPs) and their aggregation in the presence of a targeted analyte is a well-established molecular detection strategy predicated on harnessing specific molecular interactions to the NP periphery. Molecules able to specifically interact with the functionalized NPs alter the unique optical and electrochemical properties of the NPs as a function of interparticle spacing. While many intermolecular interactions have been successfully exploited in this manner in conjunction with aqueous NP systems, the use of non-aqueous NPs in the same capacity is significantly less explored. A fundamental interaction that has not been previously investigated in NP schemes is halogen bonding (XB). XB is an orthogonal, electrostatic interaction between a region of positive electrostatic potential (δ+) on a halogen atom (i.e., XB donor) and a negative (δ-) Lewis base (XB acceptor) molecule. To couple XB with NP systems, ligands featuring a molecular structure that promotes XB interactions need to be identified, optimized, and synthesized for subsequent attachment to NPs. Herein, density functional theory (DFT) and NMR techniques are used to identify a strong XB-donor moiety (-C6F4I) and a synthetic scheme for a thiolate ligand featuring that functionality is devised and executed with high purity/yield (78%). Ligand-exchange reactions allow functionalization of non-aqueous alkanethiolate-protected gold NPs or monolayer-protected clusters (MPCs) with the XB-donor ligands. Functionalized MPCs (f-MPCs), within both assembled films and in solution, are shown to engage in XB interactions with target XB-acceptor molecules. Molecular recognition events, including induced aggregation of the f-MPCs, are characterized with UV-vis spectroscopy, cyclic voltammetry, TEM imaging, and diffusion-ordered spectroscopy NMR with limits of detection of 50-100 nM for strong XB acceptors. While fundamental exploration of XB interactions is ongoing, this study represents a step toward utilizing XB within molecular detection schemes, an application with implications for supramolecular chemistry, forensic, and environmental chemical sensing.
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Affiliation(s)
- Quang Minh Dang
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Samuel T Gilmore
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Karthik Lalwani
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Richard J Conk
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Jeffrey H Simpson
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Michael C Leopold
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
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28
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Kelly AW, Holman KT. “Click”‐Like η
6
‐Metalation/Demetalation of Aryl Iodides as a Means of Turning “ON/OFF” Halogen Bond Donor Functionality. Angew Chem Int Ed Engl 2022; 61:e202115556. [DOI: 10.1002/anie.202115556] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2021] [Indexed: 11/10/2022]
Affiliation(s)
- Andrew W. Kelly
- Department of Chemistry Georgetown University Box 571227 Washington DC 20057 USA
| | - K. Travis Holman
- Department of Chemistry Georgetown University Box 571227 Washington DC 20057 USA
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29
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Piña MDLN, Burguera S, Buils J, Crespí MÀ, Morales JE, Pons J, Bauzá A, Frontera A. Substituent effects in π-hole regium bonding interactions between Au(p-X-Py)2 complexes and Lewis bases: an ab initio study. Chemphyschem 2022; 23:e202200010. [PMID: 35191571 DOI: 10.1002/cphc.202200010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2022] [Revised: 02/09/2022] [Indexed: 11/10/2022]
Abstract
For the first time, long range substituent effects in regium bonding interactions involving Au(I) linear complexes are investigated. The Au(I) atom is coordinated to two para -substituted pyridine ligands. The interaction energy (RI-MP2/def2-TZVP level of theory) of the π-hole regium bonding assemblies is affected by the pyridine substitution. The Hammett's plot representations for several sets of Lewis bases have been carried out and, in all cases, good regression plots have been obtained (interaction energies vs. Hammett's σ parameter). The Bader's theory of "atoms-in-molecules" has been used to evidence that the electron density computed at the bond critical point that connects the Au-atom to the electron donor can be used as a measure of bond order in regium bonding. Several X-ray structures retrieved from the Cambridge Structural Database (CSD) provide some experimental support to the existence of regium π-hole bonding in [Au(Py) 2 ] + derivatives.
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Affiliation(s)
| | | | - Jordi Buils
- Universitat de les Illes Balears, Chemistry, SPAIN
| | | | | | - Jordi Pons
- Universitat de les Illes Balears, Chemistry, SPAIN
| | | | - Antonio Frontera
- Universitat Illes Balears, Chemistry, Crta de Valldemossa km 7.5, 07122, Palma de Mallorca, SPAIN
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30
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Kelly AW, Holman KT. “Click”‐Like η
6
‐Metalation/Demetalation of Aryl Iodides as a Means of Turning “ON/OFF” Halogen Bond Donor Functionality. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202115556] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Andrew W. Kelly
- Department of Chemistry Georgetown University Box 571227 Washington DC 20057 USA
| | - K. Travis Holman
- Department of Chemistry Georgetown University Box 571227 Washington DC 20057 USA
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31
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Abstract
Detection and characterisation of very weak, non-covalent interactions in solution is inherently challenging. Low affinity, short complex lifetime and a constant battle against entropy brings even the most sensitive spectroscopic methods to their knees. Herein we introduce a strategy for the accurate experimental description of weak chemical forces in solution. Its scope is demonstrated by the detailed geometric and thermodynamic characterisation of the weak halogen bond of a non-fluorinated aryl iodide and an ether oxygen (0.6 kJ mol-1 ). Our approach makes use of the entropic advantage of studying a weak force intramolecularly, embedded into a cooperatively folding system, and of the combined use of NOE- and RDC-based ensemble analyses to accurately describe the orientation of the donor and acceptor sites. Thermodynamic constants (ΔG, ΔH and ΔS), describing the specific interaction, were derived from variable temperature chemical shift analysis. We present a methodology for the experimental investigation of remarkably weak halogen bonds and other related weak forces in solution, paving the way for their improved understanding and strategic use in chemistry and biology.
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Affiliation(s)
- Stefan Peintner
- Department of Chemistry – BMCUppsala UniversitySE-75123UppsalaSweden
| | - Máté Erdélyi
- Department of Chemistry – BMCUppsala UniversitySE-75123UppsalaSweden
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32
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Yeo CI, Tan YS, Kwong HC, Lee VS, Tiekink ERT. I⋯N halogen bonding in 1 : 1 co-crystals formed between 1,4-diiodotetrafluorobenzene and the isomeric n-pyridinealdazines ( n = 2, 3 and 4): assessment of supramolecular association and influence upon solid-state photoluminescence properties. CrystEngComm 2022. [DOI: 10.1039/d2ce01165d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
1 : 1 co-crystals formed between 1,4-diiodotetrafluorobenzene and each of the three isomeric n-pyridinealdazines (n = 2, 3 and 4), featuring I⋯N halogen bonding contacts within one-dimensional chains, are described.
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Affiliation(s)
- Chien Ing Yeo
- Research Centre for Crystalline Materials, School of Medical and Life Sciences, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia
| | - Yee Seng Tan
- Research Centre for Crystalline Materials, School of Medical and Life Sciences, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia
| | - Huey Chong Kwong
- Research Centre for Crystalline Materials, School of Medical and Life Sciences, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia
| | | | - Edward R. T. Tiekink
- Research Centre for Crystalline Materials, School of Medical and Life Sciences, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia
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33
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Dang QM, Simpson JH, Parish CA, Leopold MC. Evaluating Halogen-Bond Strength as a Function of Molecular Structure Using Nuclear Magnetic Resonance Spectroscopy and Computational Analysis. J Phys Chem A 2021; 125:9377-9393. [PMID: 34661411 DOI: 10.1021/acs.jpca.1c07554] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Halogen bonding (XB) is a highly directional, non-covalent intermolecular interaction between a molecule (XB donor) presenting a halogen with an electron-deficient region or sigma hole (σ-hole) and an electron-rich or Lewis-base molecule (XB acceptor). A systematic, experimental, and theoretical study of solution-phase XB strength as a function of the molecular structure for both XB donor and acceptor molecules is presented. The impact of specific structural features is assessed using 19F and 1H nuclear magnetic resonance (NMR) titrations to determine association constants, density functional theory calculations for interaction energies and bond lengths, as well as 19F-1H HOESY NMR measurements of intermolecular cross-relaxation between the interacting XB donor-acceptor adducts. For XB donor molecules (perfluoro-halogenated benzenes), results indicate the critical importance of iodine coupled with electron-withdrawing entities. Prominent structural components of XB acceptor molecules include a central atom working in conjunction with a Lewis-base atom to present high electron density directed at the σ-hole (e.g., tributylphosphine oxide). Additionally, larger surrounding aliphatic R groups (e.g., butyl and octyl) were found to significantly stabilize strong XB, particularly in solvents that promote the interaction. With a more thorough understanding of structure-optimized XB, one can envision harnessing XB interactions more strategically for specific design of optimal materials and chemical applications.
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Affiliation(s)
- Quang Minh Dang
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Jeffrey H Simpson
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Carol A Parish
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
| | - Michael C Leopold
- Department of Chemistry, Gottwald Center for the Sciences, University of Richmond, Richmond, Virginia 23173, United States
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34
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Sysoeva AA, Novikov AS, Il'in MV, Suslonov VV, Bolotin DS. Predicting the catalytic activity of azolium-based halogen bond donors: an experimentally-verified theoretical study. Org Biomol Chem 2021; 19:7611-7620. [PMID: 34323914 DOI: 10.1039/d1ob01158h] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
This report demonstrates the successful application of electrostatic surface potential distribution analysis for evaluating the relative catalytic activity of a series of azolium-based halogen bond donors. A strong correlation (R2 > 0.97) was observed between the positive electrostatic potential of the σ-hole on the halogen atom and the Gibbs free energy of activation of the model reactions (i.e., halogen abstraction and carbonyl activation). The predictive ability of the applied approach was confirmed experimentally. It was also determined that the catalytic activity of azolium-based halogen bond donors was generally governed by the structure of the azolium cycle, whereas the substituents on the heterocycle had a limited impact on the activity. Ultimately, this study highlighted four of the most promising azolium halogen bond donors, which are expected to exhibit high catalytic activity.
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Affiliation(s)
- Alexandra A Sysoeva
- Institute of Chemistry, Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg, 199034, Russian Federation.
| | - Alexander S Novikov
- Institute of Chemistry, Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg, 199034, Russian Federation.
| | - Mikhail V Il'in
- Institute of Chemistry, Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg, 199034, Russian Federation.
| | - Vitalii V Suslonov
- Institute of Chemistry, Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg, 199034, Russian Federation.
| | - Dmitrii S Bolotin
- Institute of Chemistry, Saint Petersburg State University, Universitetskaya Nab. 7/9, Saint Petersburg, 199034, Russian Federation.
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35
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Jimmink B, Sethio D, Turunen L, von der Heiden D, Erdélyi M. Probing Halogen Bonds by Scalar Couplings. J Am Chem Soc 2021; 143:10695-10699. [PMID: 34236837 PMCID: PMC8397312 DOI: 10.1021/jacs.1c04477] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
![]()
As halogen bonding
is a weak, transient interaction, its description
in solution is challenging. We demonstrate that scalar coupling constants
(J) are modulated by halogen bonding. The binding-induced
magnitude change of one-bond couplings, even up to five bonds from
the interaction site, correlates to the interaction strength. We demonstrate
this using the NMR data of 42 halogen-bonded complexes in dichloromethane
solution and by quantum chemical calculations. Our observation puts
scalar couplings into the toolbox of methods for characterization
of halogen bond complexes in solution and paves the way for their
applicability for other types of weak σ-hole interactions.
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Affiliation(s)
- Bono Jimmink
- Department of Chemistry-BMC, Uppsala University, SE-75123 Uppsala, Sweden
| | - Daniel Sethio
- Department of Chemistry-BMC, Uppsala University, SE-75123 Uppsala, Sweden
| | - Lotta Turunen
- Department of Chemistry-BMC, Uppsala University, SE-75123 Uppsala, Sweden
| | | | - Máté Erdélyi
- Department of Chemistry-BMC, Uppsala University, SE-75123 Uppsala, Sweden
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36
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Visible-light induced photochemistry of Electron Donor-Acceptor Complexes in Perfluoroalkylation Reactions: Investigation of halogen bonding interactions through UV–Visible absorption and Raman spectroscopies combined with DFT calculations. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.115993] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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37
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Momiyama N, Izumiseki A, Ohtsuka N, Suzuki T. Correlations between Substituent Effects and Catalytic Activities: A Quantitative Approach for the Development of Halogen-Bonding-Driven Anion-Binding Catalysts. Chempluschem 2021; 86:913-919. [PMID: 34145787 DOI: 10.1002/cplu.202100147] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2021] [Revised: 05/24/2021] [Indexed: 01/07/2023]
Abstract
A quantitative approach for the development of halogen-bonding-driven anion-binding catalysts was studied using 4-substituted perfluorinated iodobenzene. 19 F NMR titrations were used to determine the binding constants K for chloride, and their catalytic activities were evaluated in the allylation reaction of a N-activated pyridine. We discovered that the log K and product yields were linearly correlated, and that they were dependent on the Hammett substituent parameter, σmeta (r2 =0.99). This linear correlation provided a quantitative predictive model for both the binding constant and the reaction yield. Concomitantly, this efficiently permitted the development of a highly active anion-binding catalyst, namely 4-CNC6 F4 I (K=489±5 M-1 ). Additionally, the catalytic activity of 4-CNC6 F4 I was established in the allylation and crotylation of N-activated isoquinolines (7 examples). Overall, this approach highlights the value of quantitative analysis by exploring experimentally informed correlations in the development of halogen bond donor catalysts.
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Affiliation(s)
- Norie Momiyama
- Institute for Molecular Science, Okazaki, Aichi, 444-8787, Japan.,SOKENDAI, The Graduate University for Advanced Studies), Okazaki, Aichi, 444-8787, Japan
| | - Atsuto Izumiseki
- Institute for Molecular Science, Okazaki, Aichi, 444-8787, Japan.,SOKENDAI, The Graduate University for Advanced Studies), Okazaki, Aichi, 444-8787, Japan
| | - Naoya Ohtsuka
- Institute for Molecular Science, Okazaki, Aichi, 444-8787, Japan.,SOKENDAI, The Graduate University for Advanced Studies), Okazaki, Aichi, 444-8787, Japan
| | - Toshiyasu Suzuki
- Institute for Molecular Science, Okazaki, Aichi, 444-8787, Japan
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38
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Mahmud S, Islam MJ, Parves MR, Khan MA, Tabussum L, Ahmed S, Ali MA, Fakayode SO, Halim MA. Designing potent inhibitors against the multidrug resistance P-glycoprotein. J Biomol Struct Dyn 2021; 40:9403-9415. [PMID: 34060432 DOI: 10.1080/07391102.2021.1930159] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
The multidrug transporter P-glycoprotein is an ATP binding cassette (ABC) exporter responsible for resistance to tumor cells during chemotherapy. This study was designed with computational approaches aimed at identifying the best potent inhibitors of P-glycoprotein. Although many compounds have been suggested to inhibit P-glycoprotein, however, their information on bioavailability, selectivity, ADMET properties, and molecular interactions has not been revealed. Molecular docking, ADMET analysis, molecular dynamics, Principal component analysis (PCA), and binding free energy calculations were performed. Two compounds D1 and D2 showed the best docking score against P-glycoprotein and both compounds have 4-thiazolidinone derivatives containing indolin-3 one moiety are novel anti-tumor compounds. ADMET calculation analysis predicted D1 and D2 to have acceptable pharmacokinetic properties. The MD simulation discloses that D1-P-glycoprotein and D2-P-glycoprotein complexes are in stable conformation as apo-form. Hydrophobic amino acid such as phenylalanine plays significant on the interactions of inhibitors. Principal component analysis shows that both complexes are relatively similar variables as apo-form except planarity and Columbo energy profile. In addition, Quantitative Structural Activity Relationship (QSAR) of the ligand candidates were subjected to the principal component analysis (PCA) for pattern recognition. Partial-least-square (PLS) regression analysis was further utilized to model drug candidates' QSAR for subsequent prediction of the binding energy of validated drug candidates. PCA revealed groupings of the drug candidates based on the similarity or differences in drug candidates QSAR. Moreover, the developed PLS regression accurately predicted the values of the binding energy of drug candidates, with low residual error of prediction.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Shafi Mahmud
- Division of Computer Aided Drug-Design, The Red-Green Research Center, BICCB, Tejgaon, Dhaka, Bangladesh.,Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi, Bangladesh
| | - Md Jahirul Islam
- Division of Computer Aided Drug-Design, The Red-Green Research Center, BICCB, Tejgaon, Dhaka, Bangladesh
| | - Md Rimon Parves
- Division of Computer Aided Drug-Design, The Red-Green Research Center, BICCB, Tejgaon, Dhaka, Bangladesh.,Department of Biochemistry and Biotechnology, University of Science and Technology Chittagong (USTC), Chittagong, Bangladesh
| | - Md Arif Khan
- Division of Computer Aided Drug-Design, The Red-Green Research Center, BICCB, Tejgaon, Dhaka, Bangladesh.,Department of Biotechnology and Genetic Engineering, University of Development Alternative (UODA), Dhaka, Bangladesh
| | - Lamiya Tabussum
- Division of Computer Aided Drug-Design, The Red-Green Research Center, BICCB, Tejgaon, Dhaka, Bangladesh.,Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi, Bangladesh
| | - Sinthyia Ahmed
- Division of Computer Aided Drug-Design, The Red-Green Research Center, BICCB, Tejgaon, Dhaka, Bangladesh
| | - Md Ackas Ali
- Division of Computer Aided Drug-Design, The Red-Green Research Center, BICCB, Tejgaon, Dhaka, Bangladesh
| | - Sayo O Fakayode
- Department of Physical Sciences, University of Arkansas-Fort Smith, Fort Smith, Arkansas, USA
| | - Mohammad A Halim
- Department of Physical Sciences, University of Arkansas-Fort Smith, Fort Smith, Arkansas, USA
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Hamilton V, Harris C, Hall CL, Potticary J, Cremeens ME, D'Ambruoso GD, Matsumoto M, Warren SD, Pridmore NE, Sparkes HA, Hall SR. Structural effects of halogen bonding in iodochalcones. ACTA CRYSTALLOGRAPHICA SECTION B, STRUCTURAL SCIENCE, CRYSTAL ENGINEERING AND MATERIALS 2021; 77:347-356. [PMID: 34096516 DOI: 10.1107/s2052520621002961] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Accepted: 03/20/2021] [Indexed: 06/12/2023]
Abstract
The structures of three iodochalcones, functionalized with fluorine or a nitro group, have been investigated to explore the impact of different molecular electrostatic distributions on the halogen bonding within each crystal structure. The strongly withdrawing nitro group presented a switch of the halogen bond from a lateral to a linear motif. Surprisingly, this appears to be influenced by a net positive shift in charge distribution around the lateral edges of the σ-hole, making the lateral I...I bonding motif less preferable. A channel of amphoteric I...I type II halogen bonds is observed for a chalcone molecule, which was not previously reported in chalcones, alongside an example of the common synthon involving extended linear chains of I...O2N donor-acceptor halogen bonds. This work shows that halogenated chalcones may be an interesting target for developing halogen bonding as a significant tool within crystal engineering, a thus far underexplored area for this common structural motif.
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Affiliation(s)
- Victoria Hamilton
- School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
| | - Connah Harris
- School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
| | - Charlie L Hall
- School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
| | - Jason Potticary
- School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
| | - Matthew E Cremeens
- Department of Chemistry and Biochemistry, Gonzaga University, 502 E Boone Ave, Spokane, WA 99258, USA
| | - Gemma D D'Ambruoso
- Department of Chemistry and Biochemistry, Gonzaga University, 502 E Boone Ave, Spokane, WA 99258, USA
| | - Masaomi Matsumoto
- Department of Chemistry and Biochemistry, Gonzaga University, 502 E Boone Ave, Spokane, WA 99258, USA
| | - Stephen D Warren
- Department of Chemistry and Biochemistry, Gonzaga University, 502 E Boone Ave, Spokane, WA 99258, USA
| | - Natalie E Pridmore
- School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
| | - Hazel A Sparkes
- School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
| | - Simon R Hall
- School of Chemistry, University of Bristol, Bristol BS8 1TS, United Kingdom
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40
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Winiewska-Szajewska M, Maciejewska AM, Speina E, Poznański J, Paprocki D. Synthesis of Novel Halogenated Heterocycles Based on o-Phenylenediamine and Their Interactions with the Catalytic Subunit of Protein Kinase CK2. Molecules 2021; 26:molecules26113163. [PMID: 34070615 PMCID: PMC8198750 DOI: 10.3390/molecules26113163] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2021] [Revised: 05/18/2021] [Accepted: 05/22/2021] [Indexed: 01/07/2023] Open
Abstract
Protein kinase CK2 is a highly pleiotropic protein kinase capable of phosphorylating hundreds of protein substrates. It is involved in numerous cellular functions, including cell viability, apoptosis, cell proliferation and survival, angiogenesis, or ER-stress response. As CK2 activity is found perturbed in many pathological states, including cancers, it becomes an attractive target for the pharma. A large number of low-mass ATP-competitive inhibitors have already been developed, the majority of them halogenated. We tested the binding of six series of halogenated heterocyclic ligands derived from the commercially available 4,5-dihalo-benzene-1,2-diamines. These ligand series were selected to enable the separation of the scaffold effect from the hydrophobic interactions attributed directly to the presence of halogen atoms. In silico molecular docking was initially applied to test the capability of each ligand for binding at the ATP-binding site of CK2. HPLC-derived ligand hydrophobicity data are compared with the binding affinity assessed by low-volume differential scanning fluorimetry (nanoDSF). We identified three promising ligand scaffolds, two of which have not yet been described as CK2 inhibitors but may lead to potent CK2 kinase inhibitors. The inhibitory activity against CK2α and toxicity against four reference cell lines have been determined for eight compounds identified as the most promising in nanoDSF assay.
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41
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Würthner F. Solvent Effects in Supramolecular Chemistry: Linear Free Energy Relationships for Common Intermolecular Interactions. J Org Chem 2021; 87:1602-1615. [PMID: 33973476 DOI: 10.1021/acs.joc.1c00625] [Citation(s) in RCA: 31] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The proper choice of solvent is of major importance for all studies in supramolecular chemistry, including molecular recognition in host-guest systems, intramolecular folding, self-assembly, and supramolecular polymerization. In this Perspective, the usefulness of linear free energy relationships (LFERs) is highlighted to unravel the effect of solvents on coordinate bonding (e.g., cation-crown ether), hydrogen bonding, halogen bonding, dipolar aggregation, and π-π-stacking. For all of these intermolecular interactions widely applied in supramolecular systems, LFER relationships between the Gibbs binding energies and common solvent polarity scales including ET(30), π*, α or β based on solvatochromic dyes, scales derived from binding processes such as Gutmann donor and acceptor numbers or hydrogen bond donor and acceptor scales, or physical functions like the Kirkwood-Onsager or the Liptay-Onsager functions could be demonstrated. These relationships can now be applied toward a better understanding of the prevailing intermolecular forces for supramolecular interactions. They further enable a rational selection of the most suitable solvent for the preparation of self-assembled materials and the estimation of binding constants without the need for time-consuming comprehensive investigations of solvents.
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Affiliation(s)
- Frank Würthner
- Center for Nanosystems Chemistry (CNC), Universität Würzburg, Theodor-Boveri-Weg, 97074 Würzburg, Germany.,Institut für Organische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
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42
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Loy C, Holthoff JM, Weiss R, Huber SM, Rosokha SV. "Anti-electrostatic" halogen bonding in solution. Chem Sci 2021; 12:8246-8251. [PMID: 34194716 PMCID: PMC8208320 DOI: 10.1039/d1sc01863a] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2021] [Accepted: 05/08/2021] [Indexed: 01/14/2023] Open
Abstract
Halogen-bonded (XB) complexes between halide anions and a cyclopropenylium-based anionic XB donor were characterized in solution for the first time. Spontaneous formation of such complexes confirms that halogen bonding is sufficiently strong to overcome electrostatic repulsion between two anions. The formation constants of such "anti-electrostatic" associations are comparable to those formed by halides with neutral halogenated electrophiles. However, while the latter usually show charge-transfer absorption bands, the UV-Vis spectra of the anion-anion complexes examined herein are determined by the electronic excitations within the XB donor. The identification of XB anion-anion complexes substantially extends the range of the feasible XB systems, and it provides vital information for the discussion of the nature of this interaction.
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Affiliation(s)
- Cody Loy
- Department of Chemistry, Ball State University Muncie Indiana 47306 USA
| | - Jana M Holthoff
- Fakultät für Chemie und Biochemie, Ruhr-Universität Bochum Universitätsstr. 150 44801 Bochum Germany
| | - Robert Weiss
- Institut für Organische Chemie, Friedrich-Alexander-Universität Erlangen-Nürnberg Henkestr. 42 91054 Erlangen Germany
| | - Stefan M Huber
- Fakultät für Chemie und Biochemie, Ruhr-Universität Bochum Universitätsstr. 150 44801 Bochum Germany
| | - Sergiy V Rosokha
- Department of Chemistry, Ball State University Muncie Indiana 47306 USA
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43
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Lin Y, Sun J, Tang M, Zhang G, Yu L, Zhao X, Ai R, Yu H, Shao B, He Y. Synergistic Recognition-Triggered Charge Transfer Enables Rapid Visual Colorimetric Detection of Fentanyl. Anal Chem 2021; 93:6544-6550. [PMID: 33855847 DOI: 10.1021/acs.analchem.1c00723] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
As a new psychoactive substance, abuse of fentanyl (FTN) is currently spreading around the world, resulting in an urgent need of on-site and rapid analytical methods for detection of FTN. Here, we present a synergistic recognition strategy for rapid, cost-effective, selective, sensitive, and visual colorimetric detection of FTN by taking advantage of Rose Bengal (RB) as the specific probe. This assay is based on the halogen- and hydrogen-bonding interactions between them, generating a charge transfer and accompanying a red shift in the RB absorption band as well as color change from red to purple. The utility of the present visual colorimetric assay is demonstrated in aqueous solution, diluted urine, and domestic sewage samples. A detection limit of 0.7 mg·L-1 in aqueous solution is achieved, and the naked-eye detection of FTN is also realized in different real matrices within 6 min. Moreover, this method is insusceptible to interference from various substances (other opioids, cutting agents of street drugs, FTN precursors, amino acids, and small-molecular amines). Additionally, we successfully fabricate a smartphone-based portable device to determine FTN, which is appropriate for field tests. The present work not only provides the first visual assay for FTN but also reveals the molecular structure-property relationship, which will guide the design and development of various probes for recognizing FTN.
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Affiliation(s)
- Ying Lin
- National Collaborative Innovation Center for Nuclear Waste and Environmental Safety, School of National Defence Science & Technology, Southwest University of Science and Technology, Mianyang 621010, P. R. China
| | - Jiefang Sun
- Beijing Key Laboratory of Diagnostic and Traceability Technologies for Food Poisoning, Beijing Center for Disease Prevention and Control, Beijing 100013, P. R. China
| | - Mei Tang
- National Collaborative Innovation Center for Nuclear Waste and Environmental Safety, School of National Defence Science & Technology, Southwest University of Science and Technology, Mianyang 621010, P. R. China
| | - Guihua Zhang
- National Collaborative Innovation Center for Nuclear Waste and Environmental Safety, School of National Defence Science & Technology, Southwest University of Science and Technology, Mianyang 621010, P. R. China
| | - Ling Yu
- National Collaborative Innovation Center for Nuclear Waste and Environmental Safety, School of National Defence Science & Technology, Southwest University of Science and Technology, Mianyang 621010, P. R. China
| | - Xiaobing Zhao
- National Collaborative Innovation Center for Nuclear Waste and Environmental Safety, School of National Defence Science & Technology, Southwest University of Science and Technology, Mianyang 621010, P. R. China
| | - Rui Ai
- National Collaborative Innovation Center for Nuclear Waste and Environmental Safety, School of National Defence Science & Technology, Southwest University of Science and Technology, Mianyang 621010, P. R. China
| | - Haili Yu
- National Collaborative Innovation Center for Nuclear Waste and Environmental Safety, School of National Defence Science & Technology, Southwest University of Science and Technology, Mianyang 621010, P. R. China
| | - Bing Shao
- Beijing Key Laboratory of Diagnostic and Traceability Technologies for Food Poisoning, Beijing Center for Disease Prevention and Control, Beijing 100013, P. R. China
| | - Yi He
- National Collaborative Innovation Center for Nuclear Waste and Environmental Safety, School of National Defence Science & Technology, Southwest University of Science and Technology, Mianyang 621010, P. R. China
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44
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Kaasik M, Martõnova J, Erkman K, Metsala A, Järving I, Kanger T. Enantioselective Michael addition to vinyl phosphonates via hydrogen bond-enhanced halogen bond catalysis. Chem Sci 2021; 12:7561-7568. [PMID: 34163847 PMCID: PMC8171314 DOI: 10.1039/d1sc01029h] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Accepted: 04/24/2021] [Indexed: 02/01/2023] Open
Abstract
An asymmetric Michael addition of malononitrile to vinyl phosphonates was accomplished by hydrogen bond-enhanced bifunctional halogen bond (XB) catalysis. NMR titration experiments were used to demonstrate that halogen bonding, with the support of hydrogen-bonding, played a key role in the activation of the Michael acceptors through the phosphonate group. This is the first example of the use of XBs for the activation of organophosphorus compounds in synthesis. In addition, the iodo-perfluorophenyl group proved to be a better directing unit than different iodo- and nitro-substituted phenyl groups. The developed approach afforded products with up to excellent yields and diastereoselectivities and up to good enantioselectivities.
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Affiliation(s)
- Mikk Kaasik
- Department of Chemistry and Biotechnology, Tallinn University of Technology Akadeemia tee 15 12618 Tallinn Estonia
| | - Jevgenija Martõnova
- Department of Chemistry and Biotechnology, Tallinn University of Technology Akadeemia tee 15 12618 Tallinn Estonia
| | - Kristin Erkman
- Department of Chemistry and Biotechnology, Tallinn University of Technology Akadeemia tee 15 12618 Tallinn Estonia
| | - Andrus Metsala
- Department of Chemistry and Biotechnology, Tallinn University of Technology Akadeemia tee 15 12618 Tallinn Estonia
| | - Ivar Järving
- Department of Chemistry and Biotechnology, Tallinn University of Technology Akadeemia tee 15 12618 Tallinn Estonia
| | - Tõnis Kanger
- Department of Chemistry and Biotechnology, Tallinn University of Technology Akadeemia tee 15 12618 Tallinn Estonia
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45
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Inscoe B, Rathnayake H, Mo Y. Role of Charge Transfer in Halogen Bonding. J Phys Chem A 2021; 125:2944-2953. [PMID: 33797922 DOI: 10.1021/acs.jpca.1c01412] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Halogen bonding has received intensive attention recently for its applications in the construction of supramolecular assemblies and crystal engineering and its implications and potentials in chemical and biological processes and rational drug design. Peculiarly, in intermolecular interactions, halogen atoms are known as electron-donating groups carrying partial negative charges in molecules due to its high electronegativity, but they can counterintuitively act as Lewis acids and bind with Lewis bases in the form of a halogen bond. The unsettling issue regarding the nature of the halogen bonding is whether the electrostatics or charge transfer interaction dominates. The recently proposed σ-hole concept nicely reinforces the role of electrostatic attraction. Also, good correlations between the halogen bonding strength and the interaction energy from the simple point-charge model have been found. This leads to the claim that there is no need to invoke the charge transfer concept in the halogen bond. But there is alternative evidence supporting the importance of charge transfer interaction. Here, we visited a series of prominent halogen bonded complexes of the types Y3C-X···Z (X = Br, I; Y = F, Cl, Br; Z = F-, Cl-, Br-, I-, NMe3) with the block-localized wave function (BLW) method at the M06-2X-D3/6-311+G(d,p) (def2-SVP for iodine) level of theory. As the simplest variant of ab initio valence bond (VB) theory, the BLW method is unique in the strict localization of electrons within interacting moieties, allowing for quantitative evaluation of the charge transfer effect on geometries, spectral properties, and energetics in halogen bonding complexes. By comparing the halogen bonding complexes with and without the charge transfer interaction, we proved that the charge transfer interaction significantly shortens the X···Z bonding distance and stretches the C-X bonds. But the shortening of the halogen bonding results in the less favorable steric effect, which is composed of Pauli repulsion, electrostatics, and electron correlation. There are approximate linear correlations between the charge transfer effect and binding energy and between bonding distance and binding energy. These correlations may lead to the illusion that the charge transfer interaction is unimportant or irrelevant, but further analyses showed that the inclusion of charge transfer is critical for the proper description of the halogen bonding, as considering only electrostatics and polarization leads to only about 45-60% of the binding strengths and much elongated bonding distances.
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Affiliation(s)
- Brandon Inscoe
- Department of Nanoscience, Joint School of Nanoscience and Nanoengineering, University of North Carolina at Greensboro, Greensboro, North Carolina 27401, United States
| | - Hemali Rathnayake
- Department of Nanoscience, Joint School of Nanoscience and Nanoengineering, University of North Carolina at Greensboro, Greensboro, North Carolina 27401, United States
| | - Yirong Mo
- Department of Nanoscience, Joint School of Nanoscience and Nanoengineering, University of North Carolina at Greensboro, Greensboro, North Carolina 27401, United States
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46
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Barcelona-Cazanave L, Trejo-Carbajal N, Rodríguez-González RJ, Larios-López L, Felix-Serrano I, Mata-Padilla JM, Navarro-Rodríguez D. Synthesis and thermotropic liquid-crystalline properties of a hexyloxy-substituted pyridyl-ethynylene-azobenzene and its halogen-bonded complex with tetrafluoroiodophenyl decanoate. J Fluor Chem 2021. [DOI: 10.1016/j.jfluchem.2021.109739] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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47
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Frosch J, Koneczny M, Bannenberg T, Tamm M. Halogen Complexes of Anionic N-Heterocyclic Carbenes. Chemistry 2021; 27:4349-4363. [PMID: 33094865 PMCID: PMC7986712 DOI: 10.1002/chem.202004418] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2020] [Indexed: 12/12/2022]
Abstract
The lithium complexes [(WCA-NHC)Li(toluene)] of anionic N-heterocyclic carbenes with a weakly coordinating anionic borate moiety (WCA-NHC) reacted with iodine, bromine, or CCl4 to afford the zwitterionic 2-halogenoimidazolium borates (WCA-NHC)X (X=I, Br, Cl; WCA=B(C6 F5 )3 , B{3,5-C6 H3 (CF3 )2 }3 ; NHC=IDipp=1,3-bis(2,6-diisopropylphenyl)imidazolin-2-ylidene, or NHC=IMes=1,3-bis(2,4,6-trimethylphenyl)imidazolin-2-ylidene). The iodine derivative (WCA-IDipp)I (WCA=B(C6 F5 )3 ) formed several complexes of the type (WCA-IDipp)I⋅L (L=C6 H5 Cl, C6 H5 Me, CH3 CN, THF, ONMe3 ), revealing its ability to act as an efficient halogen bond donor, which was also exploited for the preparation of hypervalent bis(carbene)iodine(I) complexes of the type [(WCA-IDipp)I(NHC)] and [PPh4 ][(WCA-IDipp)I(WCA-NHC)] (NHC=IDipp, IMes). The corresponding bromine complex [PPh4 ][(WCA-IDipp)2 Br] was isolated as a rare example of a hypervalent (10-Br-2) system. DFT calculations reveal that London dispersion contributes significantly to the stability of the bis(carbene)halogen(I) complexes, and the bonding was further analyzed by quantum theory of atoms in molecules (QTAIM) analysis.
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Affiliation(s)
- Jenni Frosch
- Institut für Anorganische und Analytische ChemieTechnische Universität BraunschweigHagenring 3038106BraunschweigGermany
| | - Marvin Koneczny
- Institut für Anorganische und Analytische ChemieTechnische Universität BraunschweigHagenring 3038106BraunschweigGermany
| | - Thomas Bannenberg
- Institut für Anorganische und Analytische ChemieTechnische Universität BraunschweigHagenring 3038106BraunschweigGermany
| | - Matthias Tamm
- Institut für Anorganische und Analytische ChemieTechnische Universität BraunschweigHagenring 3038106BraunschweigGermany
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48
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Decato DA, Riel AMS, May JH, Bryantsev VS, Berryman OB. Theoretical, Solid‐State, and Solution Quantification of the Hydrogen Bond‐Enhanced Halogen Bond. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202012262] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Daniel A. Decato
- Department of Chemistry and Biochemistry University of Montana 32 Campus Drive Missoula MT 59812 USA
| | - Asia Marie S. Riel
- Department of Chemistry and Biochemistry University of Montana 32 Campus Drive Missoula MT 59812 USA
| | - James H. May
- Department of Chemistry and Biochemistry University of Montana 32 Campus Drive Missoula MT 59812 USA
| | | | - Orion B. Berryman
- Department of Chemistry and Biochemistry University of Montana 32 Campus Drive Missoula MT 59812 USA
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49
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Ostler F, Piekarski DG, Danelzik T, Taylor MS, García Mancheño O. Neutral Chiral Tetrakis-Iodo-Triazole Halogen-Bond Donor for Chiral Recognition and Enantioselective Catalysis. Chemistry 2021; 27:2315-2320. [PMID: 33210767 PMCID: PMC7898328 DOI: 10.1002/chem.202005016] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2020] [Indexed: 12/18/2022]
Abstract
Halogen bonding represents a powerful tool in the field of noncovalent interactions. However, applications in enantioselective recognition and catalysis remain almost nonexistent, due in part to the distinct features of halogen bonds, including long covalent and noncovalent bond distances and high directionality. Herein, this work presents a novel chiral tetrakis-iodo-triazole structure as a neutral halogen bond donor for both chiral anion-recognition and enantioinduction in ion-pair organocatalysis. NMR-titration studies revealed significant differences in anion affinity between the halogen bonding receptor and its hydrogen bonding parent. Selective recognition of chiral dicarboxylates and asymmetric induction in a benchmark organocatalytic reaction were demonstrated using the halogen bond donor. Inversions in the absolute sense of chiral recognition, enantioselectivity, and chiroptical properties relative to the related hydrogen donor were observed. Computational modeling suggested that these effects were the result of distinct anion-binding modes for the halogen- versus hydrogen-bond donors.
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Affiliation(s)
- Florian Ostler
- Organic Chemistry InstituteUniversity of MünsterCorrensstraße 3648149MünsterGermany
| | - Dariusz G. Piekarski
- Organic Chemistry InstituteUniversity of MünsterCorrensstraße 3648149MünsterGermany
- Current affiliation: Institute of Physical ChemistryPolish Academy of SciencesKasprzaka 44/5201-224WarsawPoland
| | - Tobias Danelzik
- Organic Chemistry InstituteUniversity of MünsterCorrensstraße 3648149MünsterGermany
| | - Mark S. Taylor
- University of TorontoDepartment of Chemistry80 St. George StreetONM5S 3H6TorontoCanada
| | - Olga García Mancheño
- Organic Chemistry InstituteUniversity of MünsterCorrensstraße 3648149MünsterGermany
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50
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Decato DA, Riel AMS, May JH, Bryantsev VS, Berryman OB. Theoretical, Solid-State, and Solution Quantification of the Hydrogen Bond-Enhanced Halogen Bond. Angew Chem Int Ed Engl 2020; 60:3685-3692. [PMID: 33150716 DOI: 10.1002/anie.202012262] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2020] [Revised: 10/20/2020] [Indexed: 01/02/2023]
Abstract
Proximal noncovalent forces are commonplace in natural systems and understanding the consequences of their juxtaposition is critical. This paper experimentally quantifies for the first time a Hydrogen Bond-Enhanced Halogen Bond (HBeXB) without the complexities of protein structure or preorganization. An HBeXB is a halogen bond that has been strengthened when the halogen donor simultaneously accepts a hydrogen bond. Our theoretical studies suggest that electron-rich halogen bond donors are strengthened most by an adjacent hydrogen bond. Furthermore, stronger hydrogen bond donors enhance the halogen bond the most. X-ray crystal structures of halide complexes (X- =Br- , I- ) reveal that HBeXBs produce shorter halogen bonds than non-hydrogen bond analogues. 19 F NMR titrations with chloride highlight that the HBeXB analogue exhibits stronger binding. Together, these results form the foundation for future studies concerning hydrogen bonds and halogen bonds in close proximity.
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Affiliation(s)
- Daniel A Decato
- Department of Chemistry and Biochemistry, University of Montana, 32 Campus Drive, Missoula, MT, 59812, USA
| | - Asia Marie S Riel
- Department of Chemistry and Biochemistry, University of Montana, 32 Campus Drive, Missoula, MT, 59812, USA
| | - James H May
- Department of Chemistry and Biochemistry, University of Montana, 32 Campus Drive, Missoula, MT, 59812, USA
| | | | - Orion B Berryman
- Department of Chemistry and Biochemistry, University of Montana, 32 Campus Drive, Missoula, MT, 59812, USA
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