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Ferguson Johns HP, Harrison EE, Stingley KJ, Waters ML. Mimicking Biological Recognition: Lessons in Binding Hydrophilic Guests in Water. Chemistry 2021; 27:6620-6644. [PMID: 33048395 DOI: 10.1002/chem.202003759] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2020] [Indexed: 01/25/2023]
Abstract
Selective molecular recognition of hydrophilic guests in water plays a fundamental role in a vast number of biological processes, but synthetic mimicry of biomolecular recognition in water still proves challenging both in terms of achieving comparable affinities and selectivities. This Review highlights strategies that have been developed in the field of supramolecular chemistry to selectively and non-covalently bind three classes of biologically relevant molecules: nucleotides, carbohydrates, and amino acids. As several groups have systematically modified receptors for a specific guest, an evolutionary perspective is also provided in some cases. Trends in the most effective binding forces for each class are described, providing insight into selectivity and potential directions for future work.
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Affiliation(s)
- Hannah P Ferguson Johns
- Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Emily E Harrison
- Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Kyla J Stingley
- Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Marcey L Waters
- Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
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2
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Ta S, Ghosh M, Salam N, Das J, Islam M, Brandão P, Félix V, Sanmartin J, Das D. X‐ray structurally characterized Mo (VI), Fe (III) and Cu (II) complexes of amide‐imine conjugate: (bio)catalytic and histidine recognition studies. Appl Organomet Chem 2020. [DOI: 10.1002/aoc.5823] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Sabyasachi Ta
- Department of Chemistry The University of Burdwan 713104, W Burdwan B India
| | - Milan Ghosh
- Department of Chemistry The University of Burdwan 713104, W Burdwan B India
| | - Noor Salam
- Department of Chemistry The University of Burdwan 713104, W Burdwan B India
| | - Jayanta Das
- Department of Chemistry The University of Burdwan 713104, W Burdwan B India
| | - Manirul Islam
- Department of Chemistry University of Kalyani Kalyani Nadia 741235 India
| | - Paula Brandão
- CICECO – Aveiro Institute of Materials, Department of Chemistry University of Aveiro Aveiro 3810‐193 Portugal
| | - Vítor Félix
- CICECO – Aveiro Institute of Materials, Department of Chemistry University of Aveiro Aveiro 3810‐193 Portugal
| | - Jesus Sanmartin
- Departamento de Química Inorgánica Facultad de Química, Avda Das Ciencias s/n Santiago de Compostela 15782 Spain
| | - Debasis Das
- Department of Chemistry The University of Burdwan 713104, W Burdwan B India
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Escobar L, Díaz-Moscoso A, Ballester P. Conformational selectivity and high-affinity binding in the complexation of N-phenyl amides in water by a phenyl extended calix[4]pyrrole. Chem Sci 2018; 9:7186-7192. [PMID: 30288237 PMCID: PMC6149442 DOI: 10.1039/c8sc03034k] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2018] [Accepted: 07/31/2018] [Indexed: 12/14/2022] Open
Abstract
We report the synthesis of a tetrapyridinium phenyl extended calix[4]pyrrole receptor that shows high binding affinity and selectivity for the complexation of the cis-conformers of N-phenyl amides in water.
We describe the synthesis of a tetrapyridinium phenyl extended calix[4]pyrrole that is soluble in neutral water solution at mM concentrations. We show that, in pure water, the synthesized calix[4]pyrrole receptor selectively binds the cis-(E) conformers of secondary N-phenyl-amides and tertiary N-methyl-N-phenyl-formamide with binding affinities larger than 103 M–1. The conformational selectivity is remarkable owing to the energetic preference of amides to adopt the trans-(Z) conformation in solution. In this respect, we used two binding models for the mathematical analyses of the titration data and calculated apparent and intrinsic binding constants. The combined action of hydrogen bonding and the hydrophobic effect that operates in the binding of the amides in water is responsible for the large affinities displayed by the receptor.
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Affiliation(s)
- L Escobar
- Institute of Chemical Research of Catalonia (ICIQ) , The Barcelona Institute of Science and Technology (BIST) , Av. Països Catalans, 16 , 43007-Tarragona , Spain . .,Universitat Rovira i Virgili , Departament de Química Analítica i Química Orgànica , c/Marcel·li Domingo, 1 , 43007-Tarragona , Spain
| | - A Díaz-Moscoso
- Institute of Chemical Research of Catalonia (ICIQ) , The Barcelona Institute of Science and Technology (BIST) , Av. Països Catalans, 16 , 43007-Tarragona , Spain .
| | - P Ballester
- Institute of Chemical Research of Catalonia (ICIQ) , The Barcelona Institute of Science and Technology (BIST) , Av. Països Catalans, 16 , 43007-Tarragona , Spain . .,ICREA , Pg. Lluís Companys, 23 , 08018-Barcelona , Spain
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4
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Schneider HJ. Logic-Gate Functions in Chemomechanical Materials. Chemphyschem 2017; 18:2306-2313. [DOI: 10.1002/cphc.201700186] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2017] [Revised: 06/16/2017] [Indexed: 01/04/2023]
Affiliation(s)
- Hans-Jörg Schneider
- FR Organische Chemie der; Universität des Saarlandes; 66123 Saarbrücken Germany
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5
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Zhao X, Zhang S, Bai C, Li B, Li Y, Wang L, Wen R, Zhang M, Ma L, Li S. Nano-diamond particles functionalized with single/double-arm amide–thiourea ligands for adsorption of metal ions. J Colloid Interface Sci 2016; 469:109-119. [DOI: 10.1016/j.jcis.2016.02.017] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2016] [Accepted: 02/04/2016] [Indexed: 01/15/2023]
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6
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Yu L, Liu X, Yuan W, Brown LJ, Wang D. Confined Flocculation of Ionic Pollutants by Poly(L-dopa)-Based Polyelectrolyte Complexes in Hydrogel Beads for Three-Dimensional, Quantitative, Efficient Water Decontamination. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2015; 31:6351-66. [PMID: 25981870 DOI: 10.1021/acs.langmuir.5b01084] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
The development of simple and recyclable adsorbents with high adsorption capacity is a technical imperative for water treatment. In this work, we have successfully developed new adsorbents for the removal of ionic pollutants from water via encapsulation of polyelectrolyte complexes (PECs) made from positively charged poly(allylamine hydrochloride) (PAH) and negatively charged poly(l-3,4-dihydroxyphenylalanine) (PDopa), obtained via the self-polymerization of l-3,4-dihydroxyphenylalanine (l-Dopa). Given the outstanding mass transport through the hydrogel host matrixes, the PDopa-PAH PEC guests loaded inside can effectively and efficiently remove various ionic pollutants, including heavy metal ions and ionic organic dyes, from water. The adsorption efficiency of the PDopa-PAH PECs can be quantitatively correlated to and tailored by the PDopa-to-PAH molar ratio. Because PDopa embodies one catechol group, one carboxyl group, and one amino group in each repeating unit, the resulting PDopa-PAH PECs exhibit the largest capacity of adsorption of heavy metal ions compared to available adsorbents. Because both PDopa and PAH are pH-sensitive, the PDopa-PAH PEC-loaded agarose hydrogel beads can be easily and completely recovered after the adsorption of ionic pollutants by adjusting the pH of the surrounding media. The present strategy is similar to the conventional process of using PECs to flocculate ionic pollutants from water, while in our system flocculation is confined to the agarose hydrogel beads, thus allowing easy separation of the resulting adsorbents from water.
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Affiliation(s)
- Li Yu
- Ian Wark Research Institute, University of South Australia, Mawson Lakes, SA 5095, Australia
| | - Xiaokong Liu
- Ian Wark Research Institute, University of South Australia, Mawson Lakes, SA 5095, Australia
| | - Weichang Yuan
- Ian Wark Research Institute, University of South Australia, Mawson Lakes, SA 5095, Australia
| | - Lauren Joan Brown
- Ian Wark Research Institute, University of South Australia, Mawson Lakes, SA 5095, Australia
| | - Dayang Wang
- Ian Wark Research Institute, University of South Australia, Mawson Lakes, SA 5095, Australia
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7
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8
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Ali OA, Olson EM, Urbach AR. Effects of sequence context on the binding of tryptophan-containing peptides by the cucurbit[8]uril–methyl viologen complex. Supramol Chem 2013. [DOI: 10.1080/10610278.2013.810338] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- Omar A. Ali
- Department of Chemistry, Trinity University, San Antonio, TX78212, USA
| | - Eric M. Olson
- Department of Chemistry, Trinity University, San Antonio, TX78212, USA
| | - Adam R. Urbach
- Department of Chemistry, Trinity University, San Antonio, TX78212, USA
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9
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Goswami S, Das AK, Aich K, Manna A. Competitive intra- and inter-molecular proton transfer in hydroxynaphthyl benzothiazole: selective ratiometric sensing of acetate. Tetrahedron Lett 2013. [DOI: 10.1016/j.tetlet.2013.05.119] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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10
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Rivera DG, León F, Concepción O, Morales FE, Wessjohann LA. A multiple multicomponent approach to chimeric peptide-peptoid podands. Chemistry 2013; 19:6417-28. [PMID: 23512744 DOI: 10.1002/chem.201201591] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2012] [Revised: 01/31/2013] [Indexed: 11/08/2022]
Abstract
The success of multi-armed, peptide-based receptors in supramolecular chemistry traditionally is not only based on the sequence but equally on an appropriate positioning of various peptidic chains to create a multivalent array of binding elements. As a faster, more versatile and alternative access toward (pseudo)peptidic receptors, a new approach based on multiple Ugi four-component reactions (Ugi-4CR) is proposed as a means of simultaneously incorporating several binding and catalytic elements into organizing scaffolds. By employing α-amino acids either as the amino or acid components of the Ugi-4CRs, this multiple multicomponent process allows for the one-pot assembly of podands bearing chimeric peptide-peptoid chains as appended arms. Tripodal, bowl-shaped, and concave polyfunctional skeletons are employed as topologically varied platforms for positioning the multiple peptidic chains formed by Ugi-4CRs. In a similar approach, steroidal building blocks with several axially-oriented isocyano groups are synthesized and utilized to align the chimeric chains with conformational constrains, thus providing an alternative to the classical peptido-steroidal receptors. The branched and hybrid peptide-peptoid appendages allow new possibilities for both rational design and combinatorial production of synthetic receptors. The concept is also expandable to other multicomponent reactions.
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Affiliation(s)
- Daniel G Rivera
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry, Weinberg 3, 06120 Halle/Saale, Germany
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11
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He X, Xu XB, Wang X, Zhao L. Positive homotropic allosteric binding of silver(i) ions in multidentate azacalixpyridine macrocycles: effect on the formation and stabilization of silver nanoparticles. Chem Commun (Camb) 2013; 49:7153-5. [PMID: 23831935 DOI: 10.1039/c3cc43415j] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Affiliation(s)
- Xin He
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (MOE), Department of Chemistry, Tsinghua University, Beijing 100084, China
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12
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Du J, Huang Z, Yu XQ, Pu L. Highly selective fluorescent recognition of histidine by a crown ether–terpyridine–Zn(ii) sensor. Chem Commun (Camb) 2013; 49:5399-401. [DOI: 10.1039/c3cc42081g] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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13
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Novel optical chemosensors for anions and cations based on an amino acid core functionalised with benzimidazoles. Tetrahedron 2012. [DOI: 10.1016/j.tet.2012.06.087] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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14
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Kim YH, Rhim S, Park JJ, Kang J. Anion receptor interacting with anions through hydrogen bonds and charge transfer complex. J INCL PHENOM MACRO 2012. [DOI: 10.1007/s10847-012-0118-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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15
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Lee SK, Han Y, Choi Y, Kang J. A new dihydrogen phosphate selective anion receptor utilizing carbazole and indole. J INCL PHENOM MACRO 2012. [DOI: 10.1007/s10847-011-0098-0] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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16
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Huang Z, Du J, Zhang J, Yu XQ, Pu L. A simple and efficient fluorescent sensor for histidine. Chem Commun (Camb) 2012; 48:3412-4. [DOI: 10.1039/c2cc17156b] [Citation(s) in RCA: 86] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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17
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18
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Synthesis and binding properties of guanidinium biscarboxylates. MONATSHEFTE FUR CHEMIE 2011. [DOI: 10.1007/s00706-011-0660-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
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19
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Lee SK, Kang JM. A New Carboxylate Selective Anion Receptor Utilizing Amide and Carbamate Hydrogens. B KOREAN CHEM SOC 2011. [DOI: 10.5012/bkcs.2011.32.9.3215] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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20
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Lee SK, Kim H, Jang S, Kang J. Carboxylate selective anion receptor based on two anthracenes with malonamide spacer. Tetrahedron Lett 2011. [DOI: 10.1016/j.tetlet.2011.02.067] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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21
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Drewry JA, Gunning PT. Recent advances in biosensory and medicinal therapeutic applications of zinc(II) and copper(II) coordination complexes. Coord Chem Rev 2011. [DOI: 10.1016/j.ccr.2010.10.018] [Citation(s) in RCA: 115] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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22
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Novel highly emissive non-proteinogenic amino acids: synthesis of 1,3,4-thiadiazolyl asparagines and evaluation as fluorimetric chemosensors for biologically relevant transition metal cations. Amino Acids 2010; 40:1065-75. [DOI: 10.1007/s00726-010-0730-0] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2010] [Accepted: 08/21/2010] [Indexed: 10/19/2022]
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23
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Esteves CI, Raposo MMM, Costa SP. Synthesis and evaluation of benzothiazolyl and benzimidazolyl asparagines as amino acid based selective fluorimetric chemosensors for Cu2+. Tetrahedron 2010. [DOI: 10.1016/j.tet.2010.07.063] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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24
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Zhu K, Wu L, Yan X, Zheng B, Zhang M, Huang F. Anion-Assisted Complexation of Paraquat by Cryptands Based on Bis(m-phenylene)-[32]crown-10. Chemistry 2010; 16:6088-98. [DOI: 10.1002/chem.200903553] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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25
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Späth A, König B. Molecular recognition of organic ammonium ions in solution using synthetic receptors. Beilstein J Org Chem 2010; 6:32. [PMID: 20502608 PMCID: PMC2874414 DOI: 10.3762/bjoc.6.32] [Citation(s) in RCA: 162] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2010] [Accepted: 03/09/2010] [Indexed: 01/12/2023] Open
Abstract
Ammonium ions are ubiquitous in chemistry and molecular biology. Considerable efforts have been undertaken to develop synthetic receptors for their selective molecular recognition. The type of host compounds for organic ammonium ion binding span a wide range from crown ethers to calixarenes to metal complexes. Typical intermolecular interactions are hydrogen bonds, electrostatic and cation-π interactions, hydrophobic interactions or reversible covalent bond formation. In this review we discuss the different classes of synthetic receptors for organic ammonium ion recognition and illustrate the scope and limitations of each class with selected examples from the recent literature. The molecular recognition of ammonium ions in amino acids is included and the enantioselective binding of chiral ammonium ions by synthetic receptors is also covered. In our conclusion we compare the strengths and weaknesses of the different types of ammonium ion receptors which may help to select the best approach for specific applications.
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Affiliation(s)
- Andreas Späth
- Institut für Organische Chemie, Universität Regensburg, D-93040 Regensburg, Germany, Phone: +49-943-941-4576, Fax: +49-943-941-1717
| | - Burkhard König
- Institut für Organische Chemie, Universität Regensburg, D-93040 Regensburg, Germany, Phone: +49-943-941-4576, Fax: +49-943-941-1717
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26
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Uhlich NA, Sommer P, Bühr C, Schürch S, Reymond JL, Darbre T. Remote control of bipyridine-metal coordination within a peptide dendrimer. Chem Commun (Camb) 2009:6237-9. [PMID: 19826680 DOI: 10.1039/b912291e] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The metal coordinating ability of a bipyridine ligand at the core of a peptide dendrimer was found to be controlled by the nature of amino acids placed at the dendrimer periphery, with coordination being promoted by anionic residues and inhibited by cationic residues; heterotrimers with mixed charges were preferentially formed.
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Affiliation(s)
- Nicolas A Uhlich
- Department of Chemistry and Biochemistry, University of Berne, Freiestrasse 3, CH-3012 Berne, Switzerland
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27
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Kitamura M, Shabbir SH, Anslyn EV. Guidelines for Pattern Recognition Using Differential Receptors and Indicator Displacement Assays. J Org Chem 2009; 74:4479-89. [DOI: 10.1021/jo900433j] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Masanori Kitamura
- Department of Chemistry and Biochemistry, The University of Texas at Austin, Austin, Texas 78712
| | - Shagufta H. Shabbir
- Department of Chemistry and Biochemistry, The University of Texas at Austin, Austin, Texas 78712
| | - Eric V. Anslyn
- Department of Chemistry and Biochemistry, The University of Texas at Austin, Austin, Texas 78712
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28
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Zhu K, Li S, Wang F, Huang F. Anion-Controlled Ion-Pair Recognition of Paraquat by a Bis(m-phenylene)-32-crown-10 Derivative Heteroditopic Host. J Org Chem 2009; 74:1322-8. [DOI: 10.1021/jo802683d] [Citation(s) in RCA: 97] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kelong Zhu
- Department of Chemistry, Zhejiang University, Hangzhou 310027, People's Republic of China
| | - Shijun Li
- Department of Chemistry, Zhejiang University, Hangzhou 310027, People's Republic of China
| | - Feng Wang
- Department of Chemistry, Zhejiang University, Hangzhou 310027, People's Republic of China
| | - Feihe Huang
- Department of Chemistry, Zhejiang University, Hangzhou 310027, People's Republic of China
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29
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SUMAOKA J, KOMIYAMA M. Molecularly Imprinted Polymers for the Recognition of Bimolecules in Water. KOBUNSHI RONBUNSHU 2009. [DOI: 10.1295/koron.66.191] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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30
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Kiewitz SD, Kruppa M, Riechers A, König B, Cabrele C. Recognition of the helix-loop-helix domain of the Id proteins by an artificial luminescent metal complex receptor. J Mol Recognit 2008; 21:79-88. [PMID: 18383104 DOI: 10.1002/jmr.872] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
Synthetic agents specifically interacting with a protein interface are important not only for the better understanding of protein dimer or complex formation but also for medical applications. Here we describe the recognition of the helix-loop-helix (HLH) dimerization domain of the Id proteins by an artificial luminescent receptor containing two binding sites for a Lewis acid and a Lewis base, respectively. The Id proteins are inhibitors of bHLH transcription factors and play key roles during development of cancer. We show that a receptor/Id-HLH-domain complex was formed cooperatively (K(0.5) approximately 2 microM under physiological conditions) and with moderate specificity, as compared to the related MyoD and Max HLH domains. Accordingly, a preferred receptor binding motif, CYSR(K), was identified within the Id HLH domains. These results are promising and may be exploited to design highly selective synthetic receptors for the Id HLH domain.
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Affiliation(s)
- Sebastian D Kiewitz
- Fakultät für Chemie und Pharmazie, Universität Regensburg, Universitätsstr. 31, 93053 Regensburg, Germany
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31
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Lo PK, Wong MS. Extended Calix[4]arene-Based Receptors for Molecular Recognition and Sensing. SENSORS 2008; 8:5313-5335. [PMID: 27873816 PMCID: PMC3705506 DOI: 10.3390/s8095313] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2008] [Revised: 08/28/2008] [Accepted: 08/29/2008] [Indexed: 11/16/2022]
Abstract
Recent advances in the area of recognition and sensing have shown that artificial receptors derived from extended calix[4]arenes bearing multiple π-conjugated fluorophoric or chromophoric systems have found useful to enhance binding affinity, selectivity and sensitivity for recognition and sensing of a targeted ion or molecule. A comprehensive review of various π-conjugation-extended calyx[4]arene-based receptors with the highlight on the design and binding characterization for recognition and sensing is presented.
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Affiliation(s)
- Pik Kwan Lo
- Department of Chemistry and Centre for Advanced Luminescence Materials, Hong Kong Baptist University, Kowloon Tong, Hong Kong SAR, P.R. China
| | - Man Shing Wong
- Department of Chemistry and Centre for Advanced Luminescence Materials, Hong Kong Baptist University, Kowloon Tong, Hong Kong SAR, P.R. China.
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32
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Rekharsky MV, Yamamura H, Ko YH, Selvapalam N, Kim K, Inoue Y. Sequence recognition and self-sorting of a dipeptide by cucurbit[6]uril and cucurbit[7]uril. Chem Commun (Camb) 2008:2236-8. [PMID: 18463751 DOI: 10.1039/b719902c] [Citation(s) in RCA: 85] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Cucurbit[7]uril forms very strong complex with zwitterionic dipeptide Phe-Gly with affinity exceeding 10(7) M(-1) and effectively recognizes peptide sequence of Phe-Gly over Gly-Phe as well as Tyr-Gly over Gly-Tyr and Trp-Gly over Gly-Trp with relative affinities of 23 000, 18 000 and 2000, respectively.
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33
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Stadlbauer S, Riechers A, Späth A, König B. Utilizing Reversible Copper(II) Peptide Coordination in a Sequence-Selective Luminescent Receptor. Chemistry 2008; 14:2536-41. [DOI: 10.1002/chem.200701442] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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34
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Wright A, Edwards N, Anslyn E, McDevitt J. The Discriminatory Power of Differential Receptor Arrays Is Improved by Prescreening—A Demonstration in the Analysis of Tachykinins and Similar Peptides. Angew Chem Int Ed Engl 2007. [DOI: 10.1002/ange.200701236] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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Wright AT, Edwards NY, Anslyn EV, McDevitt JT. The Discriminatory Power of Differential Receptor Arrays Is Improved by Prescreening—A Demonstration in the Analysis of Tachykinins and Similar Peptides. Angew Chem Int Ed Engl 2007; 46:8212-5. [PMID: 17899565 DOI: 10.1002/anie.200701236] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Aaron T Wright
- Department of Chemistry and Biochemistry, University of Texas at Austin, 1 University Station A5300, Austin, TX 78712, USA
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36
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Schmuck C, Hernandez-Folgado L. Synthesis of a new artificial host for the binding of dipeptides in water. Org Biomol Chem 2007; 5:2390-4. [PMID: 17637958 DOI: 10.1039/b707873k] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
An artificial peptide receptor was prepared by a simple procedure. Initial binding studies (UV titrations) in buffered water showed preferential complexation of N-acetyl-dipeptide carboxylates containing alanine in the C-terminal position in comparison with simple amino acids, other dipeptides and two tripeptides.
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Affiliation(s)
- Carsten Schmuck
- Institut für Organische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany.
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37
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Sun XH, Li W, Xia PF, Luo HB, Wei Y, Wong MS, Cheng YK, Shuang S. Phenyl-calix[4]arene-Based Fluorescent Sensors: Cooperative Binding for Carboxylates. J Org Chem 2007; 72:2419-26. [PMID: 17343417 DOI: 10.1021/jo062258z] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Tetrakis-(4-carbamoylphenyl)-substituted and tetrakis-(4-amidophenyl)-substituted calix[4]arenes as well as the monomeric biphenylcarbamate have been synthesized as fluorescent receptors for anion sensing. Their binding properties with various anions including F-, CH3COO-, Ph-COO-, and H2PO4- were investigated by fluorescence titrations, Job plot experiments, 1H NMR spectroscopies, and ESI-MS measurements. Importantly, we have found that calix[4]arene-based sensors exhibit greatly enhanced binding affinity and selectivity toward carboxylates. The binding associations of tetrakis-(4-carbamoylphenyl)-substituted calix[4]arene for carboxylates are 1-2 orders of magnitude greater than those of the monomeric biphenylcarbamate sensor. Such an enhancement in the binding affinity and selectivity is attributed to the cooperative binding of the multiple ligating groups as revealed from the ab inito DFT calculations. Although tetrakis-(4-amidophenyl)-substituted calix[4]arene exhibited relatively weaker binding affinity toward anions, its superior binding selectivity for acetate ion over fluoride ion is evident. Our results also suggest that carbamate functionality is a useful H-bond donor for hydrogen-bonding interactions in molecular recognition and supramolecular chemistry.
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Affiliation(s)
- Xiao Hua Sun
- Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong SAR, China
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38
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Tsubaki K, Tanima D, Sasamori T, Tokitoh N, Kawabata T. Colorimetric recognition of the length of α,ω-diamines in water. Tetrahedron Lett 2007. [DOI: 10.1016/j.tetlet.2007.01.099] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Abstract
A large fraction of the field of supramolecular chemistry has focused in previous decades upon the study and use of synthetic receptors as a means of mimicking natural receptors. Recently, the demand for synthetic receptors is rapidly increasing within the analytical sciences. These classes of receptors are finding uses in simple indicator chemistry, cellular imaging, and enantiomeric excess analysis, while also being involved in various truly practical assays of bodily fluids. Moreover, one of the most promising areas for the use of synthetic receptors is in the arena of differential sensing. Although many synthetic receptors have been shown to yield exquisite selectivities, in general, this class of receptor suffers from cross-reactivities. Yet, cross-reactivity is an attribute that is crucial to the success of differential sensing schemes. Therefore, both selective and nonselective synthetic receptors are finding uses in analytical applications. Hence, a field of chemistry that herein is entitled "Supramolecular Analytical Chemistry" is emerging, and is predicted to undergo increasingly rapid growth in the near future.
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Affiliation(s)
- Eric V Anslyn
- Department of Chemistry and Biochemistry, The University of Texas, Austin, Texas 78712, USA
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40
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Fitzmaurice RJ, Gaggini F, Srinivasan N, Kilburn JD. Carboxylate binding in polar solvents using pyridylguanidinium salts. Org Biomol Chem 2007; 5:1706-14. [PMID: 17520138 DOI: 10.1039/b700988g] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A series of thiourea and guanidinium derivatives have been prepared and their ability to bind a carboxylate group has been investigated. Guanidinium 33, featuring two additional amides and a pyridine moiety, proved to be the most potent carboxylate binding site and was able to bind acetate in aqueous solvent systems (K(ass) = 480 M(-1) in 30% H(2)O-DMSO). The pyridine moiety is critical to obtaining strong binding, and comparison with the binding properties of analogous compounds in which the pyridine is replaced by a benzene ring provides a striking example of enthalpy-entropy compensation.
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41
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Schmuck C, Rupprecht D, Wienand W. Sequence-Dependent Binding of Dipeptides by an Artificial Receptor in Water. Chemistry 2006; 12:9186-95. [PMID: 16969772 DOI: 10.1002/chem.200600573] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
An artificial dipeptide receptor (1) was designed and observed to bind the deprotonated dipeptide Ac-D-Ala-D-Ala-OH in buffered water with K = 33,100 M(-1), whereas other dipeptides such as Ac-Gly-Gly-OH or Ac-D-Val-D-Val-OH were bound less efficiently, by factors of more than 10 (K < 3000 M(-1)). The efficient binding and the pronounced sequence selectivity are the result of a combination of strong electrostatic contacts and size-discriminating hydrophobic interactions. To provide such a combination, a guanidiniocarbonylpyrrole cation was attached to a novel cyclotribenzylene-substituted alanine derivative 5, to provide a hydrophobic bowl-shaped cavity just large enough to bind a methyl group but not any larger alkyl chains, thus causing the receptor to prefer alanine to valine. We describe the synthesis of 1 and the evaluation of its complexation properties in UV and fluorescence titration studies.
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Affiliation(s)
- Carsten Schmuck
- Institut für Organische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany.
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Heitmann LM, Taylor AB, Hart PJ, Urbach AR. Sequence-Specific Recognition and Cooperative Dimerization of N-Terminal Aromatic Peptides in Aqueous Solution by a Synthetic Host. J Am Chem Soc 2006; 128:12574-81. [PMID: 16984208 DOI: 10.1021/ja064323s] [Citation(s) in RCA: 270] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
This article describes the selective recognition and noncovalent dimerization of N-terminal aromatic peptides in aqueous solution by the synthetic host compound, cucurbit[8]uril (Q8). Q8 is known to bind two aromatic guests simultaneously and, in the presence of methyl viologen, to recognize N-terminal tryptophan over internal and C-terminal sequence isomers. Here, the binding of Q8 to aromatic peptides in the absence of methyl viologen was studied by isothermal titration calorimetry (ITC), (1)H NMR spectroscopy, and X-ray crystallography. The peptides studied were of sequence X-Gly-Gly, Gly-X-Gly, and Gly-Gly-X (X = Trp, Phe, Tyr, and His). Q8 selectively binds and dimerizes Trp-Gly-Gly (1) and Phe-Gly-Gly (4) with high affinity (ternary K = 10(9)-10(11) M(-)(2)); binding constants for the other 10 peptides were too small to be measured by ITC. Both peptides bound in a stepwise manner, and peptide 4 bound with positive cooperativity. Crystal structures of Q8.1 and Q8.4(2) reveal the basis for selective recognition as simultaneous inclusion of the hydrophobic aromatic side chain into the cavity of Q8 and chelation of the proximal N-terminal ammonium group by carbonyl groups of Q8. The peptide sequence selectivity and positively cooperative dimerization reported here are, to the best of our knowledge, unprecedented for synthetic hosts in aqueous solution. Specific peptide recognition and dimerization by synthetic hosts such as Q8 should be important in the study of dimer-mediated biochemical processes and for the separation of peptides and proteins.
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Affiliation(s)
- Lisa M Heitmann
- Department of Chemistry, Trinity University, San Antonio, Texas 78212, USA
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45
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Affiliation(s)
- Michael Kruppa
- Institut für Organische Chemie, Universität Regensburg, D-93040 Regensburg, Germany
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46
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Schneider HJ, Tianjun L, Lomadze N. Dimension Changes in a Chemomechanical Polymer Containing Ethylenediamine and Alkyl Functions as Selective Recognition Units. European J Org Chem 2006. [DOI: 10.1002/ejoc.200500633] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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47
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Schmuck C, Heil M. One-Armed Artificial Receptors for the Binding of Polar Tetrapeptides in Water: Probing the Substrate Selectivity of a Combinatorial Receptor Library. Chemistry 2006; 12:1339-48. [PMID: 16315202 DOI: 10.1002/chem.200501062] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
We have recently developed a new class of one-armed artificial receptors 1 for the binding of the polar tetrapeptide N-Ac-D-Glu-L-Lys-D-Ala-D-Ala-OH (EKAA) 2 in water using a combined combinatorial and statistical approach. We have now further probed the substrate selectivity of this receptor library 1 by screening a second tetrapeptide substrate (3) with the inverse sequence N-Ac-D-Ala-D-Ala-L-Lys-D-Glu-OH (AAKE). This "inverse" substrate is also efficiently bound by our receptors, with K(ass) approximately 6000 M(-1) for the best receptors, as determined both by a quantitative on-bead binding assay and by UV and fluorescence titration studies in free solution. Hence, the inverse tetrapeptide 3 is in general bound two to three times less efficiently than the "normal" peptide 2 (K(ass) approximately 17,000 M(-1)), even though the complexation mainly involves long-range electrostatic interactions and both the receptor and substrate are rather flexible. Molecular modeling and ab initio calculations have been used to rationalize the observed substrate selectivity and to analyze the various binding interactions within the complex.
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Affiliation(s)
- Carsten Schmuck
- Institut für Organische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany.
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48
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Wright AT, Anslyn EV, McDevitt JT. A Differential Array of Metalated Synthetic Receptors for the Analysis of Tripeptide Mixtures. J Am Chem Soc 2005; 127:17405-11. [PMID: 16332090 DOI: 10.1021/ja055696g] [Citation(s) in RCA: 55] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
A novel library of resin-bound receptors within a cross-reactive differential array for the identification and discrimination of tripeptides and tripeptide mixtures is reported. Pattern recognition using principal component analysis showed complete discrimination of four similar tripeptides and three tripeptide mixtures. The library is comprised of a Cu(II)-centered core with two proximally appended tripeptide arms emanating outward. One tripeptide arm was prepared using combinatorial chemistry to generate the differential nature of the library. Thirty resin-bound receptors were randomly selected from the library and placed within a silicon microchip array that included integrated microfluidics elements, and an indicator-uptake assay was used for colorimetric signaling. The indicator Orange G yielded an accurate measure of the degree of association between receptors and analytes as determined by kinetic analysis of the indicator-uptake assays. Within this paper we detail the method used for differential sensing using a novel receptor library. This work further demonstrates the power and utility of a differential array of synthetic receptors for identification and discrimination of complex bioanalytes.
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Affiliation(s)
- Aaron T Wright
- Department of Chemistry and Biochemistry, The University of Texas at Austin, Austin, Texas 78712, USA
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Schmuck C, Heil M, Scheiber J, Baumann K. Ladungswechselwirkungen machen es möglich: ein kombinierter statistischer und kombinatorischer Ansatz zur Auffindung künstlicher Rezeptoren für die Bindung von Tetrapeptiden in Wasser. Angew Chem Int Ed Engl 2005. [DOI: 10.1002/ange.200501812] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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50
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Schmuck C, Heil M, Scheiber J, Baumann K. Charge Interactions Do the Job: A Combined Statistical and Combinatorial Approach to Finding Artificial Receptors for Binding Tetrapeptides in Water. Angew Chem Int Ed Engl 2005; 44:7208-12. [PMID: 16231382 DOI: 10.1002/anie.200501812] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Carsten Schmuck
- Universität Würzburg, Institut für Organische Chemie, Am Hubland, 97074 Würzburg, Germany.
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