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Kimura Y, Matsumura K, Ono K, Tsuchido Y, Kawai H. Recognition of Amino Acid Salts by Temperature-Dependent Allosteric Binding with Stereodynamic Urea Receptors. Chemistry 2024; 30:e202400154. [PMID: 38488291 DOI: 10.1002/chem.202400154] [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: 01/13/2024] [Indexed: 04/11/2024]
Abstract
Positive homotropic artificial allosteric systems are important for the regulation of cooperativity, selectivity and nonlinear amplification. Stereodynamic homotropic allosteric receptors can transmit and amplify induced chirality by the first ligand binding to axial chirality between two chromophores. We herein report stereodynamic allosteric urea receptors consisting of a rotational shaft as the axial chirality unit, terphenyl units as structural transmission sites and four urea units as binding sites. NMR titration experiments revealed that the receptor can bind two carboxylate guests in a positive homotropic allosteric manner attributed to the inactivation by intramolecular hydrogen-bonding between urea units within the receptor. In addition, the VT-CD spectra observed upon binding of the urea receptor with l- or D-amino acid salts in MeCN showed interesting temperature-dependent Cotton effects, based on the differences of the receptor shaft unit and the guest structure. The successful discrimination of hydrocarbon-based side chains of amino acid salts indicated that the input of chiral and steric information for the guest was amplified as outputs of the Cotton effect and the temperature-dependence of VT-CD spectra through cooperativity of positive allosteric binding.
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Affiliation(s)
- Yuki Kimura
- Department of Chemistry, Faculty of Science, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo, 162-8601, Japan
| | - Kotaro Matsumura
- Department of Chemistry, Faculty of Science, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo, 162-8601, Japan
| | - Kosuke Ono
- School of Science, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo, 152-8551, Japan
| | - Yoshitaka Tsuchido
- Department of Chemistry, Faculty of Science, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo, 162-8601, Japan
| | - Hidetoshi Kawai
- Department of Chemistry, Faculty of Science, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo, 162-8601, Japan
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2
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Qiu Y, Zhang Y, Jiang Q, Wang H, Liao Y, Zhou H, Xie X. Highly Specific and Sensitive Naked-Eye Fluoride Ion Recognition via Unzipping a Helical Poly(phenylacetylene). Macromolecules 2022. [DOI: 10.1021/acs.macromol.2c01717] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yuan Qiu
- Key Laboratory of Material Chemistry for Energy Conversion and Storage, Ministry of Education, Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Hubei Key Laboratory of Materials Chemistry and Service Failure, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Yang Zhang
- Key Laboratory of Material Chemistry for Energy Conversion and Storage, Ministry of Education, Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Hubei Key Laboratory of Materials Chemistry and Service Failure, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Qian Jiang
- Key Laboratory of Material Chemistry for Energy Conversion and Storage, Ministry of Education, Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Hubei Key Laboratory of Materials Chemistry and Service Failure, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Hong Wang
- Key Laboratory of Material Chemistry for Energy Conversion and Storage, Ministry of Education, Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Hubei Key Laboratory of Materials Chemistry and Service Failure, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Yonggui Liao
- Key Laboratory of Material Chemistry for Energy Conversion and Storage, Ministry of Education, Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Hubei Key Laboratory of Materials Chemistry and Service Failure, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
- State Key Laboratory of Material Processing and Die & Mould Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Huamin Zhou
- State Key Laboratory of Material Processing and Die & Mould Technology, Huazhong University of Science and Technology, Wuhan 430074, China
| | - Xiaolin Xie
- Key Laboratory of Material Chemistry for Energy Conversion and Storage, Ministry of Education, Hubei Engineering Research Center for Biomaterials and Medical Protective Materials, Hubei Key Laboratory of Materials Chemistry and Service Failure, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology, Wuhan 430074, China
- State Key Laboratory of Material Processing and Die & Mould Technology, Huazhong University of Science and Technology, Wuhan 430074, China
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3
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Mostovaya OA, Vavilova AA, Stoikov II. Supramolecular Systems Based on Thiacalixarene Derivatives and Biopolymers. COLLOID JOURNAL 2022. [DOI: 10.1134/s1061933x22700041] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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4
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Gomez-Vega J, Soto-Cruz JM, Juárez-Sánchez O, Santacruz-Ortega H, Gálvez-Ruiz JC, Corona-Martínez DO, Pérez-González R, Ochoa Lara K. Tritopic Bis-Urea Receptors for Anion and Ion-Pair Recognition. ACS OMEGA 2022; 7:22244-22255. [PMID: 35811876 PMCID: PMC9260929 DOI: 10.1021/acsomega.2c00935] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2022] [Accepted: 06/07/2022] [Indexed: 06/15/2023]
Abstract
This work reports on the synthesis and characterization of three tritopic receptors and their binding properties toward various anions, as their tetrabutylammonium salts, and three alkali metal-acetate salts by UV-vis, fluorescence, 1H, 7Li, 23Na, and 39K NMR in MeCN/dimethyl sulfoxide (DMSO) 9:1 (v/v). Molecular recognition studies showed that the receptors have good affinity for oxyanions. Furthermore, these compounds are capable of ion-pair recognition of the alkali metal-acetate salts studied through a cooperative mechanism. Additionally, molecular modeling at the density functional theory (DFT) level of some lithium and sodium acetate complexes illustrates the ion-pair binding capacity of receptors. The anion is recognized through strong hydrogen bonds of the NH- groups from the two urea sites, while the cation interacts with the oxygen atoms of the polyether spacer. This work demonstrates that these compounds are good receptors for anions and ion pairs.
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Affiliation(s)
- Jancarlo Gomez-Vega
- Departamento de Investigación en Polímeros y Materiales, Universidad de Sonora, Rosales y Encinas s/n, Col. Centro, CP 83000 Hermosillo, Sonora, México
| | - Jesús Martín Soto-Cruz
- Departamento de Investigación en Polímeros y Materiales, Universidad de Sonora, Rosales y Encinas s/n, Col. Centro, CP 83000 Hermosillo, Sonora, México
| | - Octavio Juárez-Sánchez
- Departamento de Investigación en Física, Universidad de Sonora, Rosales y Encinas s/n, Col. Centro, CP 83000 Hermosillo, Sonora, México
| | - Hisila Santacruz-Ortega
- Departamento de Investigación en Polímeros y Materiales, Universidad de Sonora, Rosales y Encinas s/n, Col. Centro, CP 83000 Hermosillo, Sonora, México
| | - Juan Carlos Gálvez-Ruiz
- Departamento de Ciencias Químico Biológicas, Universidad de Sonora, Rosales y Encinas s/n, Col. Centro, CP 83000 Hermosillo, Sonora, México
| | - David Octavio Corona-Martínez
- Departamento de Ciencias Químico Biológicas, Universidad de Sonora, Rosales y Encinas s/n, Col. Centro, CP 83000 Hermosillo, Sonora, México
| | - Refugio Pérez-González
- Departamento de Investigación en Polímeros y Materiales, Universidad de Sonora, Rosales y Encinas s/n, Col. Centro, CP 83000 Hermosillo, Sonora, México
| | - Karen Ochoa Lara
- Departamento de Investigación en Polímeros y Materiales, Universidad de Sonora, Rosales y Encinas s/n, Col. Centro, CP 83000 Hermosillo, Sonora, México
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Mostovaya O, Padnya P, Shurpik D, Shiabiev I, Stoikov I. Novel lactide derivatives of p-tert-butylthiacalix[4]arene: Directed synthesis and molecular recognition of catecholamines. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2020.114806] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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6
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Hoffrichter G, Lützen A. Allosteric binding of sodium deoxycholate by a bis(β-cyclodextrin)-2,2′-bipyridine receptor. Org Chem Front 2021. [DOI: 10.1039/d1qo01173a] [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
The allosteric effect of a new bis(β-cyclodextrin) receptor amounts to a more than 18-fold increase of its binding affinity towards sodium deoxycholate upon addition of a zinc(ii) phenanthroline complex as an effector.
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Affiliation(s)
- Gabriel Hoffrichter
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Straße 1, 53121 Bonn, Germany
| | - Arne Lützen
- Kekulé-Institut für Organische Chemie und Biochemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Straße 1, 53121 Bonn, Germany
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7
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Alkorta I, Elguero J. Theoretical studies of conformational analysis and intramolecular dynamic phenomena. Struct Chem 2019. [DOI: 10.1007/s11224-019-01370-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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8
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Murphy RB, Pham DT, Johnston MR. A Tetra-Porphyrin Host Exhibiting Interannular Cooperativity. Chemistry 2019; 25:13037-13043. [PMID: 31402518 DOI: 10.1002/chem.201903636] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2019] [Indexed: 12/11/2022]
Abstract
Recently identified as another form of cooperativity, interannular cooperativity is rarely observed in supramolecular chemistry. A tetra-porphyrin molecular tweezer with two bis-porphyrin binding sites is reported that exhibits archetypal interannular cooperativity when complexing 1,4-diazabicyclo[2.2.2]octane (DABCO). The UV/Vis titration data best supported a 1:2 plus 2:2 plus 1:4 complexation model (host:guest), giving K12 =6.32×1013 m-2 , K22 =3.04×1020 m-3 , and K14 =1.92×1016 m-4 in CHCl3 . The NMR titration data supported the formation of two sandwich species, including tetra-porphyrin⋅(DABCO)2 as the major species, although there are speciation differences between UV/Vis and NMR concentrations. Using statistical analysis, interannular cooperativity (γ) for tetra-porphyrin⋅(DABCO)2 was determined to be negative (γ=2.41×10-3 ), which may be explained by DABCO being too small to be optimally bound simultaneously at both bis-porphyrin binding sites.
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Affiliation(s)
- Rhys B Murphy
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Bedford Park, Adelaide, Australia.,Present address: ANSTO, Locked Bag 2001, Kirrawee DC, NSW, 2232, Australia
| | - Duc-Truc Pham
- Department of Chemistry, The University of Adelaide, Adelaide, Australia
| | - Martin R Johnston
- Flinders Institute for Nanoscale Science and Technology, College of Science and Engineering, Flinders University, Bedford Park, Adelaide, Australia
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Schneider HJ. Strain effects determine the performance of artificial allosteric systems: calixarenes as models. Chem Commun (Camb) 2019; 55:3433-3444. [PMID: 30843901 DOI: 10.1039/c9cc00573k] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
It is shown that the performance of allosteric systems regarding the efficiency and the speed of response depends critically on the strain energy of the equilibrating conformers and of the corresponding interconversion transition state. The affinity of a substrate A can be large enough to overcome in the absence of an effector E by induced fit the strain involved in the formation of an optimal conformation for binding A. The efficiency as given by the ratio KAE/KA of binding constants in the presence or absence of an effector is, for many published synthetic allosteric systems, relatively low; in practice this means that these only function within rather limited concentration ranges. A small KAE/KA ratio means that the binding strength of A or the corresponding signal will increase only little by adding an effector, and may need higher concentration of E. Implementation of steric distortion in the minor conformer can lead to reduced binding of A in the absence of the effector E. Destabilization of conformers can also result from the inclusion of high energy water molecules within a cavity. Furthermore, until now it has been overlooked that strain in the transition state can lead to reaction times of up to days, and thus to the neglect of experimental observation. The role of conformational changes within an allosteric molecule is characterized with a variety of calixarenes and other compound classes, offering a clue for the design of more efficient synthetic systems with high cooperativity.
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Affiliation(s)
- Hans-Jörg Schneider
- FR Organische Chemie, Universität des Saarlandes, D 66041 Saarbrücken, Germany.
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10
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Sairenji S, Akine S, Nabeshima T. Response speed control of helicity inversion based on a "regulatory enzyme"-like strategy. Sci Rep 2018; 8:137. [PMID: 29317654 PMCID: PMC5760571 DOI: 10.1038/s41598-017-16503-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2017] [Accepted: 11/14/2017] [Indexed: 02/07/2023] Open
Abstract
In biological systems, there are many signal transduction cascades in which a chemical signal is transferred as a series of chemical events. Such successive reaction systems are advantageous because the efficiency of the functions can be finely controlled by regulatory enzymes at an earlier stage. However, most of artificial responsive molecules developed so far rely on single-step conversion, whose response speeds have been difficult to be controlled by external stimuli. In this context, developing artificial conversion systems that have a regulation step similar to the regulatory enzymes has been anticipated. Here we report a novel artificial two-step structural conversion system in which the response speed can be controlled based on a regulatory enzyme-like strategy. In this system, addition of fluoride ion caused desilylation of the siloxycarboxylate ion attached to a helical complex, resulting in the subsequent helicity inversion. The response speeds of the helicity inversion depended on the reactivity of the siloxycarboxylate ions; when a less-reactive siloxycarboxylate ion was used, the helicity inversion rate was governed by the desilylation rate. This is the first artificial responsive molecule in which the overall response speed can be controlled at the regulation step separated from the function step.
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Affiliation(s)
- Shiho Sairenji
- Faculty of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki, 305-8571, Japan
| | - Shigehisa Akine
- Graduate School of Natural Science and Technology / Nano Life Science Institute (WPI-NanoLSI), Kanazawa University, Kakuma-machi, Kanazawa, 920-1192, Japan.
| | - Tatsuya Nabeshima
- Faculty of Pure and Applied Sciences, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki, 305-8571, Japan.
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Baudet K, Guerra S, Piguet C. Chemical Potential of the Solvent: A Crucial Player for Rationalizing Host-Guest Affinities. Chemistry 2017; 23:16787-16798. [DOI: 10.1002/chem.201703184] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2017] [Indexed: 11/07/2022]
Affiliation(s)
- Karine Baudet
- Department of Inorganic, Analytical and Applied Chemistry; University of Geneva; 30 quai E. Ansermet 1211 Geneva 4 Switzerland
| | - Sebastiano Guerra
- Department of Inorganic, Analytical and Applied Chemistry; University of Geneva; 30 quai E. Ansermet 1211 Geneva 4 Switzerland
| | - Claude Piguet
- Department of Inorganic, Analytical and Applied Chemistry; University of Geneva; 30 quai E. Ansermet 1211 Geneva 4 Switzerland
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12
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Schneider HJ. Spatial mismatch, non-additive binding energies and selectivity in supramolecular complexes. Org Biomol Chem 2017; 15:2146-2151. [DOI: 10.1039/c6ob02755e] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A geometric mismatch in supramolecular complexes often leads to deviations from the additivity of binding energies with the consequence of large changes in selectivity and binding mode.
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Affiliation(s)
- Hans-Jörg Schneider
- FR Organische Chemie der Universität des Saarlandes
- D 66123 Saarbrücken
- Germany
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