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Fuller AA, Moreno JL, Nguyen MT. Using Fluorescence to Enable Innovative Functions of Foldamers. Isr J Chem 2021. [DOI: 10.1002/ijch.202000109] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Amelia A. Fuller
- Department of Chemistry & Biochemistry Santa Clara University 500 El Camino Real Santa Clara CA 95053 USA
| | - Jose L. Moreno
- Department of Chemistry & Biochemistry Santa Clara University 500 El Camino Real Santa Clara CA 95053 USA
| | - Michelle T. Nguyen
- Department of Chemistry & Biochemistry Santa Clara University 500 El Camino Real Santa Clara CA 95053 USA
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Toniolo C, Moretto A, Formaggio F, Broxterman QB, Crisma M. From Amherst (Massachusetts, USA) to Padua (Italy) and back again: Louis A. Carpino's scientifically productive journey. Pept Sci (Hoboken) 2020. [DOI: 10.1002/pep2.24153] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Claudio Toniolo
- Department of ChemistryUniversity of Padua Via Marzolo 1, 35131 Padua Italy
- Institute of Biomolecular Chemistry, Padua UnitCNR Via Marzolo 1, 35131 Padua Italy
| | - Alessandro Moretto
- Department of ChemistryUniversity of Padua Via Marzolo 1, 35131 Padua Italy
- Institute of Biomolecular Chemistry, Padua UnitCNR Via Marzolo 1, 35131 Padua Italy
| | - Fernando Formaggio
- Department of ChemistryUniversity of Padua Via Marzolo 1, 35131 Padua Italy
- Institute of Biomolecular Chemistry, Padua UnitCNR Via Marzolo 1, 35131 Padua Italy
| | | | - Marco Crisma
- Institute of Biomolecular Chemistry, Padua UnitCNR Via Marzolo 1, 35131 Padua Italy
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Bojarska J, Remko M, Madura ID, Kaczmarek K, Zabrocki J, Wolf WM. Synthesis, experimental and in silico studies of N-fluorenylmethoxycarbonyl-O-tert-butyl-N-methyltyrosine, coupled with CSD data: a survey of interactions in the crystal structures of Fmoc-amino acids. ACTA CRYSTALLOGRAPHICA SECTION C-STRUCTURAL CHEMISTRY 2020; 76:328-345. [PMID: 32229714 DOI: 10.1107/s2053229620003009] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2019] [Accepted: 03/03/2020] [Indexed: 12/31/2022]
Abstract
Recently, fluorenylmethoxycarbonyl (Fmoc) amino acids (e.g. Fmoc-tyrosine or Fmoc-phenylalanine) have attracted growing interest in biomedical research and industry, with special emphasis directed towards the design and development of novel effective hydrogelators, biomaterials or therapeutics. With this in mind, a systematic knowledge of the structural and supramolecular features in recognition of those properties is essential. This work is the first comprehensive summary of noncovalent interactions combined with a library of supramolecular synthon patterns in all crystal structures of amino acids with the Fmoc moiety reported so far. Moreover, a new Fmoc-protected amino acid, namely, 2-{[(9H-fluoren-9-ylmethoxy)carbonyl](methyl)amino}-3-{4-[(2-hydroxypropan-2-yl)oxy]phenyl}propanoic acid or N-fluorenylmethoxycarbonyl-O-tert-butyl-N-methyltyrosine, Fmoc-N-Me-Tyr(t-Bu)-OH, C29H31NO5, was successfully synthesized and the structure of its unsolvated form was determined by single-crystal X-ray diffraction. The structural, conformational and energy landscape was investigated in detail by combined experimental and in silico approaches, and further compared to N-Fmoc-phenylalanine [Draper et al. (2015). CrystEngComm, 42, 8047-8057]. Geometries were optimized by the density functional theory (DFT) method either in vacuo or in solutio. The polarizable conductor calculation model was exploited for the evaluation of the hydration effect. Hirshfeld surface analysis revealed that H...H, C...H/H...C and O...H/H...O interactions constitute the major contributions to the total Hirshfeld surface area in all the investigated systems. The molecular electrostatic potentials mapped over the surfaces identified the electrostatic complementarities in the crystal packing. The prediction of weak hydrogen-bonded patterns via Full Interaction Maps was computed. Supramolecular motifs formed via C-H...O, C-H...π, (fluorenyl)C-H...Cl(I), C-Br...π(fluorenyl) and C-I...π(fluorenyl) interactions are observed. Basic synthons, in combination with the Long-Range Synthon Aufbau Modules, further supported by energy-framework calculations, are discussed. Furthermore, the relevance of Fmoc-based supramolecular hydrogen-bonding patterns in biocomplexes are emphasized, for the first time.
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Affiliation(s)
- Joanna Bojarska
- Institute of General and Ecological Chemistry, Lodz University of Technology, Faculty of Chemistry, Żeromskiego 116, Lodz 90-924, Poland
| | - Milan Remko
- Remedika, Sustekova 1, 85104 Bratislava, Slovakia
| | - Izabela D Madura
- Warsaw University of Technology, Faculty of Chemistry, Noakowskiego 3, 00-664 Warszawa, Poland
| | - Krzysztof Kaczmarek
- Institute of Organic Chemistry, Lodz University of Technology, Faculty of Chemistry, Żeromskiego 116, Lodz 90-924, Poland
| | - Janusz Zabrocki
- Institute of Organic Chemistry, Lodz University of Technology, Faculty of Chemistry, Żeromskiego 116, Lodz 90-924, Poland
| | - Wojciech M Wolf
- Institute of General and Ecological Chemistry, Lodz University of Technology, Faculty of Chemistry, Żeromskiego 116, Lodz 90-924, Poland
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Herlan C, Bräse S. Lanthanide conjugates as versatile instruments for therapy and diagnostics. Dalton Trans 2020; 49:2397-2402. [PMID: 32030383 DOI: 10.1039/c9dt04851k] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Lanthanides have demonstrated outstanding properties in many fields of research including biology and medicinal chemistry. Their unique luminescence and magnetic properties make them the metals of choice for next generation theranostics that efficiently combine the two central pillars of medicine - diagnostics and therapy. Attached to targeting units, lanthanide complexes pave the way for real-time imaging of drug uptake and distribution as well as specific regulation of subcellular processes with few side effects. This enables individualized treatment options for severe diseases characterized by altered cell expression. The highly diverse results achieved as well as insights into the challenges that research in this area has to face in the upcoming years will be summarized in the present review.
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Affiliation(s)
- Claudine Herlan
- Institute of Organic Chemistry, Karlsruhe Institute of Technology, Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany.
| | - Stefan Bräse
- Institute of Organic Chemistry, Karlsruhe Institute of Technology, Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany. and Institute of Biological and Chemical Systems (IBCS-FMS), Karlsruhe Institute of Technology, Hermann-von-Helmholtz-Platz 1, 76344 Eggenstein-Leopoldshafen, Germany
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Reese HR, Shanahan CC, Proulx C, Menegatti S. Peptide science: A "rule model" for new generations of peptidomimetics. Acta Biomater 2020; 102:35-74. [PMID: 31698048 DOI: 10.1016/j.actbio.2019.10.045] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2019] [Revised: 10/17/2019] [Accepted: 10/30/2019] [Indexed: 02/07/2023]
Abstract
Peptides have been heavily investigated for their biocompatible and bioactive properties. Though a wide array of functionalities can be introduced by varying the amino acid sequence or by structural constraints, properties such as proteolytic stability, catalytic activity, and phase behavior in solution are difficult or impossible to impart upon naturally occurring α-L-peptides. To this end, sequence-controlled peptidomimetics exhibit new folds, morphologies, and chemical modifications that create new structures and functions. The study of these new classes of polymers, especially α-peptoids, has been highly influenced by the analysis, computational, and design techniques developed for peptides. This review examines techniques to determine primary, secondary, and tertiary structure of peptides, and how they have been adapted to investigate peptoid structure. Computational models developed for peptides have been modified to predict the morphologies of peptoids and have increased in accuracy in recent years. The combination of in vitro and in silico techniques have led to secondary and tertiary structure design principles that mirror those for peptides. We then examine several important developments in peptoid applications inspired by peptides such as pharmaceuticals, catalysis, and protein-binding. A brief survey of alternative backbone structures and research investigating these peptidomimetics shows how the advancement of peptide and peptoid science has influenced the growth of numerous fields of study. As peptide, peptoid, and other peptidomimetic studies continue to advance, we will expect to see higher throughput structural analyses, greater computational accuracy and functionality, and wider application space that can improve human health, solve environmental challenges, and meet industrial needs. STATEMENT OF SIGNIFICANCE: Many historical, chemical, and functional relations draw a thread connecting peptides to their recent cognates, the "peptidomimetics". This review presents a comprehensive survey of this field by highlighting the width and relevance of these familial connections. In the first section, we examine the experimental and computational techniques originally developed for peptides and their morphing into a broader analytical and predictive toolbox. The second section presents an excursus of the structures and properties of prominent peptidomimetics, and how the expansion of the chemical and structural diversity has returned new exciting properties. The third section presents an overview of technological applications and new families of peptidomimetics. As the field grows, new compounds emerge with clear potential in medicine and advanced manufacturing.
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Taniguchi M, Lindsey JS. Database of Absorption and Fluorescence Spectra of >300 Common Compounds for use in Photochem
CAD. Photochem Photobiol 2018; 94:290-327. [DOI: 10.1111/php.12860] [Citation(s) in RCA: 236] [Impact Index Per Article: 39.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2017] [Accepted: 10/22/2017] [Indexed: 12/11/2022]
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Althuon D, Rönicke F, Fürniss D, Quan J, Wellhöfer I, Jung N, Schepers U, Bräse S. Functionalized triazolopeptoids--a novel class for mitochondrial targeted delivery. Org Biomol Chem 2015; 13:4226-30. [PMID: 25739445 DOI: 10.1039/c5ob00250h] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Here we introduce linear 1,4-triazolopeptoids as a novel class of cell penetrating peptidomimetics suitable as organ targeting molecular transporters of bioactive cargo. Repetitive triazole moieties with up to three residues were assembled on solid supports using copper-catalyzed alkyne-azide cycloadditions (CuAAC) in a submonomer approach. Depending on the lipophilicity of their side chain appendages the 1,4-triazolopeptoids showed either endosomal localization or a strong colocalization with the mitochondria of HeLa cells with moderate toxicity. While the basic triazolopeptoids mainly target the neuromast cells in zebrafish embryos, the lipophilic ones colocalize with either cartilage in the jaws and the blood vessel system.
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Affiliation(s)
- Daniela Althuon
- Institute of Organic Chemistry, Karlsruhe Institute of Technology, Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany.
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Peschko K, Schade A, Vollrath SBL, Schwarz U, Luy B, Muhle-Goll C, Weis P, Bräse S. Dendrimer-Type Peptoid-Decorated Hexaphenylxylenes and Tetraphenylmethanes: Synthesis and Structure in Solution and in the Gas Phase. Chemistry 2014; 20:16273-8. [DOI: 10.1002/chem.201404024] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2014] [Indexed: 01/03/2023]
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9
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Kölmel DK, Hörner A, Rönicke F, Nieger M, Schepers U, Bräse S. Cell-penetrating peptoids: introduction of novel cationic side chains. Eur J Med Chem 2014; 79:231-43. [PMID: 24739871 DOI: 10.1016/j.ejmech.2014.03.078] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2013] [Revised: 03/25/2014] [Accepted: 03/27/2014] [Indexed: 12/17/2022]
Abstract
During the last decade peptoid-based molecular transporters have been broadly applied. They are highly valued for their easy synthesis and their superior stability against enzymatic degradation. The special structure of peptoids generally allows introducing a variety of different side chains. Yet, the cationic side chains of cell-penetrating peptoids displayed solely lysine- or arginine-like structures. Thus this report is intended to extend the spectrum of cationic peptoid side chains. Herein, we present novel functional groups, like polyamines, aza-crown ethers, or triphenylphosphonium ions that are introduced into peptoids for the first time. In addition, the obtained peptoids were tested for their cell-penetrating properties.
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Affiliation(s)
- Dominik K Kölmel
- Karlsruhe Institute of Technology (KIT), Institute of Organic Chemistry, Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
| | - Anna Hörner
- Karlsruhe Institute of Technology (KIT), Institute of Organic Chemistry, Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany; Karlsruhe Institute of Technology (KIT), Light Technology Institute, Engesserstraße 13, D-76131 Karlsruhe, Germany
| | - Franziska Rönicke
- Karlsruhe Institute of Technology (KIT), Institute of Toxicology and Genetics, Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany
| | - Martin Nieger
- University of Helsinki, Laboratory of Inorganic Chemistry, PO Box 55, FIN-00014, Finland
| | - Ute Schepers
- Karlsruhe Institute of Technology (KIT), Institute of Toxicology and Genetics, Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany
| | - Stefan Bräse
- Karlsruhe Institute of Technology (KIT), Institute of Organic Chemistry, Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany; Karlsruhe Institute of Technology (KIT), Institute of Toxicology and Genetics, Hermann-von-Helmholtz-Platz 1, D-76344 Eggenstein-Leopoldshafen, Germany.
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Kölmel DK, Rudat B, Braun DM, Bednarek C, Schepers U, Bräse S. Rhodamine F: a novel class of fluorous ponytailed dyes for bioconjugation. Org Biomol Chem 2014; 11:3954-62. [PMID: 23615749 DOI: 10.1039/c3ob40267c] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Incorporation of fluorous ponytails such as polyfluorinated alkyl residues (CH2)m(CF2)nCF3 leads to a novel class of bright rhodamine-based fluorescence dyes. These dyes combine the excellent photophysical properties of the frequently used rhodamine dyes with the unique features of "light" fluorous molecules. One of those features is the possibility to separate substances utilizing fluorous solid-phase extraction (F-SPE), which is based on the specific intermolecular interaction between fluorous compounds. Thus, molecules, which are labeled with these new dyes, are not only accessible to fluorescence experiments, but can also be easily purified (via so-called FluoroFlash columns) prior to use. The dyes were bound to a cell penetrating peptoid (polycationic oligo(N-substituted) glycine) on solid supports. These conjugates were purified with F-SPE before their photophysical and biological properties were investigated.
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Affiliation(s)
- Dominik K Kölmel
- Karlsruhe Institute of Technology (KIT), Institute of Organic Chemistry, Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
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Kölmel DK, Rudat B, Schepers U, Bräse S. Peptoid-Based Rare-Earth (Group 3 and Lanthanide) Transporters. European J Org Chem 2013. [DOI: 10.1002/ejoc.201300219] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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12
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Vollrath SBL, Fürniss D, Schepers U, Bräse S. Amphiphilic peptoid transporters – synthesis and evaluation. Org Biomol Chem 2013; 11:8197-201. [DOI: 10.1039/c3ob41139g] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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13
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Cardenal C, Vollrath SBL, Schepers U, Bräse S. Synthesis of Functionalized Glutamine- and Asparagine-Type Peptoids - Scope and Limitations. Helv Chim Acta 2012. [DOI: 10.1002/hlca.201200451] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Lu Q, Gao W, Du J, Zhou L, Lian Y. Discovery of environmental rhodamine B contamination in paprika during the vegetation process. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2012; 60:4773-4778. [PMID: 22524706 DOI: 10.1021/jf300067z] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
Recently, rhodamine B (RhB) in paprika and chilli has attracted much attention. Almost all the literature has deemed that the detectable RhB was attributed to malicious intents in the fabrication process. However, the occurrence of increasing cases with ultratrace levels of RhB was difficult to understand on the basis of that statement. Here, we report on the discovery of environmental RhB contamination in paprika during its vegetation process. Samples including paprika, soils, and stems collected from seven fields in the Xinjiang Region, China, were detected by ultraperformance liquid chromatography-tandem mass spectrometry. Far from any anthropogenic addition, the ultratrace RhB concentrations in all the paprika samples provided unambiguous evidence that environmental RhB contamination in paprika had really occurred over its growth period. Further illation suggests that the soil contaminated by RhB is one of the major contamination sources and that there may be a degradation of RhB in paprika during the late maturation stage. The discovery has significant implications for re-evaluating the origin of the RhB in paprika- and chilli-containing products.
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Affiliation(s)
- Qingguo Lu
- Chenguang Biotech Group Limited Corporation, Quzhou County 057250, China
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