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Banaś K, Lenartowicz P, Staś M, Dziuk B, Siodłak D. Insight into the Structure of Victorin, the Host-Selective Toxin from the Oat Pathogen Cochliobolus victoriae. Studies of the Unique Dehydroamino Acid β-Chlorodehydroalanine. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023. [PMID: 37486973 PMCID: PMC10401702 DOI: 10.1021/acs.jafc.3c01387] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/26/2023]
Abstract
Victorins, a family of peptide toxins, produced by the fungal pathogen Cochliobolus victoriae and responsible for disease of some oat varieties, contain a β-chlorodehydroalanine residue, ΔAla(βCl). To determine the conformational properties of this unique dehydroamino acid, a series of model compounds was studied using X-ray, NMR, and FT-IR methods, supported by theoretical calculations. The ΔAla(βCl) geometrical isomers differ in conformational profile. The isomer Z prefers the helical conformation α (φ, ψ = -61°, -24°), PPII type conformation β (φ, ψ = -47°, 136°), and semiextended conformation β2 (φ, ψ = -116°, 9°) in weakly and more polar solutions. The isomer E prefers mainly the extended conformation C5 (φ, ψ = -177°, 160°), but with an increase of the environment polarity also conformations β (φ, ψ = -44°, 132°) and α (φ, ψ = -53°, -39°). In the most stable conformations the N-H···Cl hydrogen bond (5γ) occurs, created between the chlorine atom of the side chain and the N-H donor of the flanking amide group. The method of synthesis of the β-chlorodehydroalanine residue is proposed, by chlorination of dehydroalanine and then the photoisomerization from the isomer Z to E. The presented results indicate that the assignment of the geometrical isomer of the ΔAla(βCl) residue in naturally occurring victorins still remains an open question, despite being crucial for biological activity.
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Affiliation(s)
- Karolina Banaś
- Faculty of Chemistry, University of Opole, Oleska 48, 45-052 Opole, Poland
| | - Paweł Lenartowicz
- Faculty of Chemistry, University of Opole, Oleska 48, 45-052 Opole, Poland
| | - Monika Staś
- Faculty of Chemistry, University of Opole, Oleska 48, 45-052 Opole, Poland
| | - Błażej Dziuk
- Faculty of Chemistry, Wroclaw University of Science and Technology, Wybrzeze Wyspianskiego 27, 50-370 Wroclaw, Poland
- Faculty of Chemistry, University of Wroclaw, Joliot-Curie 14, Wroclaw 50-383, Poland
| | - Dawid Siodłak
- Faculty of Chemistry, University of Opole, Oleska 48, 45-052 Opole, Poland
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2
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Deciphering the conformational landscape of few selected aromatic noncoded amino acids (NCAAs) for applications in rational design of peptide therapeutics. Amino Acids 2022; 54:1183-1202. [PMID: 35723743 PMCID: PMC9207436 DOI: 10.1007/s00726-022-03175-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Accepted: 05/23/2022] [Indexed: 11/01/2022]
Abstract
Amino acids are the essential building blocks of both synthetic and natural peptides, which are crucial for biological functions and also important as biological probes for mapping the complex protein-protein interactions (PPIs) in both prokaryotic and eukaryotic systems. Mapping the PPIs through the chemical biology approach provides pharmacologically relevant peptides, which can have agonistic or antagonistic effects on the targeted biological systems. It is evidenced that ≥ 60 peptide-based drugs have been approved by the US-FDA so far, and the number will improve further in the foreseeable future, as ≥ 140 peptides are currently in clinical trials. However, natural peptides often require fine-tuning of their pharmacological properties by strategically replacing the αL-amino acids of the peptides with non-coded amino acids (NCAA), for which codons are absent in the genetic code for biosynthesis of proteins, prior to their applications as therapeutics. Considering the diverse repertoire of the NCAAs, the conformational space of many NCAAs is yet to be explored systematically in the context of the rational design of therapeutic peptides. The current study deciphers the conformational landscape of a few such Cα-substituted aromatic NCAAs (Ing: 2-indanyl-L-Glycine; Bpa: 4-benzoyl-L-phenylalanine; Aic: 2-aminoindane-2-carboxylic acid) both in the context of tripeptides and model synthetic peptide sequences, using alanine (Ala) and proline (Pro) as the reference. The combined data obtained from the computational and biophysical studies indicate the general success of this approach, which can be exploited further to rationally design optimized peptide sequences of unusual architecture with potent antimicrobial, antiviral, gluco-regulatory, immunomodulatory, and anti-inflammatory activities.
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3
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Yadav S, Bharti S, Srivastava P, Mathur P. PepEngine: A Manually Curated Structural Database of Peptides Containing α, β- Dehydrophenylalanine (ΔPhe) and α-Amino Isobutyric Acid (Aib). Int J Pept Res Ther 2022. [DOI: 10.1007/s10989-022-10362-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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4
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Parker PD, Hou X, Dong VM. Reducing Challenges in Organic Synthesis with Stereoselective Hydrogenation and Tandem Catalysis. J Am Chem Soc 2021; 143:6724-6745. [PMID: 33891819 DOI: 10.1021/jacs.1c00750] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Tandem catalysis enables the rapid construction of complex architectures from simple building blocks. This Perspective shares our interest in combining stereoselective hydrogenation with transformations such as isomerization, oxidation, and epimerization to solve diverse challenges. We highlight the use of tandem hydrogenation for preparing complex natural products from simple prochiral building blocks and present tandem catalysis involving transfer hydrogenation and dynamic kinetic resolution. Finally, we underline recent breakthroughs and opportunities for asymmetric hydrogenation.
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Affiliation(s)
- Patrick D Parker
- Department of Chemistry, University of California, Irvine, California 92697, United States
| | - Xintong Hou
- Department of Chemistry, University of California, Irvine, California 92697, United States
| | - Vy M Dong
- Department of Chemistry, University of California, Irvine, California 92697, United States
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5
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Jervis PJ, Amorim C, Pereira T, Martins JA, Ferreira PMT. Dehydropeptide Supramolecular Hydrogels and Nanostructures as Potential Peptidomimetic Biomedical Materials. Int J Mol Sci 2021; 22:2528. [PMID: 33802425 PMCID: PMC7959283 DOI: 10.3390/ijms22052528] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2021] [Revised: 02/24/2021] [Accepted: 02/25/2021] [Indexed: 12/20/2022] Open
Abstract
Supramolecular peptide hydrogels are gaining increased attention, owing to their potential in a variety of biomedical applications. Their physical properties are similar to those of the extracellular matrix (ECM), which is key to their applications in the cell culture of specialized cells, tissue engineering, skin regeneration, and wound healing. The structure of these hydrogels usually consists of a di- or tripeptide capped on the N-terminus with a hydrophobic aromatic group, such as Fmoc or naphthalene. Although these peptide conjugates can offer advantages over other types of gelators such as cross-linked polymers, they usually possess the limitation of being particularly sensitive to proteolysis by endogenous proteases. One of the strategies reported that can overcome this barrier is to use a peptidomimetic strategy, in which natural amino acids are switched for non-proteinogenic analogues, such as D-amino acids, β-amino acids, or dehydroamino acids. Such peptides usually possess much greater resistance to enzymatic hydrolysis. Peptides containing dehydroamino acids, i.e., dehydropeptides, are particularly interesting, as the presence of the double bond also introduces a conformational restraint to the peptide backbone, resulting in (often predictable) changes to the secondary structure of the peptide. This review focuses on peptide hydrogels and related nanostructures, where α,β-didehydro-α-amino acids have been successfully incorporated into the structure of peptide hydrogelators, and the resulting properties are discussed in terms of their potential biomedical applications. Where appropriate, their properties are compared with those of the corresponding peptide hydrogelator composed of canonical amino acids. In a wider context, we consider the presence of dehydroamino acids in natural compounds and medicinally important compounds as well as their limitations, and we consider some of the synthetic strategies for obtaining dehydropeptides. Finally, we consider the future direction for this research area.
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Affiliation(s)
- Peter J. Jervis
- Centre of Chemistry, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal; (C.A.); (T.P.); (J.A.M.); (P.M.T.F.)
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6
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Kabra R, Singh S. ABC Exporters in Pathogenesis: Role of Synthetic Anti-Microbial Peptides. Protein J 2020; 39:657-670. [PMID: 33068233 DOI: 10.1007/s10930-020-09931-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/12/2020] [Indexed: 11/28/2022]
Abstract
ABC exporters are involved in diverse cellular processes including lipid trafficking, drug resistance, pathogenesis etc. The greatest thrust has been in the area of drug resistance that explains the underlying well-crafted canonical architecture of its structure. Interestingly, ranging from structural organisation to subsequent design and delivery aspects lays the niche of antimicrobial peptides. One of the major highlight of this paper is the role of synthetic antimicrobial peptides in current scenario.
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Affiliation(s)
- Ritika Kabra
- National Centre for Cell Science, NCCS Complex, Ganeshkhind, Pune, 411007, India
| | - Shailza Singh
- National Centre for Cell Science, NCCS Complex, Ganeshkhind, Pune, 411007, India.
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7
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Cao HQ, Liu HN, Liu ZY, Qiao B, Zhang FG, Ma JA. Silver-Promoted Direct Phosphorylation of Bulky C(sp 2)-H Bond to Build Fully Substituted β-Phosphonodehydroamino Acids. Org Lett 2020; 22:6414-6419. [PMID: 32806196 DOI: 10.1021/acs.orglett.0c02229] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
A general and practical cross-dehydrogenative coupling protocol between readily available trisubstituted α,β-dehydro α-amino carboxylic esters and H-phosphites is described. This C(sp2)-H phosphorylation reaction proceeds with absolute Z-selectivity promoted by silver salt in a radical relay manner. The bulky tetrasubstituted β-phosphonodehydroamino acids were obtained in grams and added new modules to the toolkit for peptide modifications.
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Affiliation(s)
- Hao-Qiang Cao
- Department of Chemistry, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Frontiers Science Center for Synthetic Biology (Ministry of Education), and Tianjin Collaborative Innovation Center of Chemical Science & Engineering, Tianjin University, Tianjin, 350072, P.R. China.,Joint School of National University of Singapore and Tianjin University, International Campus of Tianjin University, Binhai New City, Fuzhou 350207, P.R. China
| | - Hao-Nan Liu
- Department of Chemistry, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Frontiers Science Center for Synthetic Biology (Ministry of Education), and Tianjin Collaborative Innovation Center of Chemical Science & Engineering, Tianjin University, Tianjin, 350072, P.R. China.,Joint School of National University of Singapore and Tianjin University, International Campus of Tianjin University, Binhai New City, Fuzhou 350207, P.R. China
| | - Zhe-Yuan Liu
- Department of Chemistry, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Frontiers Science Center for Synthetic Biology (Ministry of Education), and Tianjin Collaborative Innovation Center of Chemical Science & Engineering, Tianjin University, Tianjin, 350072, P.R. China.,Joint School of National University of Singapore and Tianjin University, International Campus of Tianjin University, Binhai New City, Fuzhou 350207, P.R. China
| | - Baokun Qiao
- Department of Chemistry, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Frontiers Science Center for Synthetic Biology (Ministry of Education), and Tianjin Collaborative Innovation Center of Chemical Science & Engineering, Tianjin University, Tianjin, 350072, P.R. China.,Joint School of National University of Singapore and Tianjin University, International Campus of Tianjin University, Binhai New City, Fuzhou 350207, P.R. China
| | - Fa-Guang Zhang
- Department of Chemistry, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Frontiers Science Center for Synthetic Biology (Ministry of Education), and Tianjin Collaborative Innovation Center of Chemical Science & Engineering, Tianjin University, Tianjin, 350072, P.R. China.,Joint School of National University of Singapore and Tianjin University, International Campus of Tianjin University, Binhai New City, Fuzhou 350207, P.R. China
| | - Jun-An Ma
- Department of Chemistry, Tianjin Key Laboratory of Molecular Optoelectronic Sciences, Frontiers Science Center for Synthetic Biology (Ministry of Education), and Tianjin Collaborative Innovation Center of Chemical Science & Engineering, Tianjin University, Tianjin, 350072, P.R. China.,Joint School of National University of Singapore and Tianjin University, International Campus of Tianjin University, Binhai New City, Fuzhou 350207, P.R. China
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8
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Gupta S, Singh I, Sharma AK, Kumar P. Ultrashort Peptide Self-Assembly: Front-Runners to Transport Drug and Gene Cargos. Front Bioeng Biotechnol 2020; 8:504. [PMID: 32548101 PMCID: PMC7273840 DOI: 10.3389/fbioe.2020.00504] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2020] [Accepted: 04/29/2020] [Indexed: 12/18/2022] Open
Abstract
The translational therapies to promote interaction between cell and signal come with stringent eligibility criteria. The chemically defined, hierarchically organized, and simpler yet blessed with robust intermolecular association, the peptides, are privileged to make the cut-off for sensing the cell-signal for biologics delivery and tissue engineering. The signature service and insoluble network formation of the peptide self-assemblies as hydrogels have drawn a spell of research activity among the scientists all around the globe in the past decades. The therapeutic peptide market players are anticipating promising growth opportunities due to the ample technological advancements in this field. The presence of the other organic moieties, enzyme substrates and well-established protecting groups like Fmoc and Boc etc., bring the best of both worlds. Since the large sequences of peptides severely limit the purification and their isolation, this article reviews the account of last 5 years' efforts on novel approaches for formulation and development of single molecule amino acids, ultra-short peptide self-assemblies (di- and tri- peptides only) and their derivatives as drug/gene carriers and tissue-engineering systems.
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Affiliation(s)
- Seema Gupta
- Chemistry Department, Acharya Narendra Dev College, University of Delhi, New Delhi, India
| | - Indu Singh
- Chemistry Department, Acharya Narendra Dev College, University of Delhi, New Delhi, India
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics and Integrative Biology, New Delhi, India
| | - Ashwani K. Sharma
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics and Integrative Biology, New Delhi, India
| | - Pradeep Kumar
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics and Integrative Biology, New Delhi, India
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9
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Joaquin D, Lee MA, Kastner DW, Singh J, Morrill ST, Damstedt G, Castle SL. Impact of Dehydroamino Acids on the Structure and Stability of Incipient 3 10-Helical Peptides. J Org Chem 2019; 85:1601-1613. [PMID: 31730750 DOI: 10.1021/acs.joc.9b02747] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
A comparative study of the impact of small, medium-sized, and bulky α,β-dehydroamino acids (ΔAAs) on the structure and stability of Balaram's incipient 310-helical peptide (1) is reported. Replacement of the N-terminal Aib residue of 1 with a ΔAA afforded peptides 2a-c that maintained the 310-helical shape of 1. In contrast, installation of a ΔAA in place of Aib-3 yielded peptides 3a-c that preferred a β-sheet-like conformation. The impact of the ΔAA on peptide structure was independent of size, with small (ΔAla), medium-sized (Z-ΔAbu), and bulky (ΔVal) ΔAAs exerting similar effects. The proteolytic stabilities of 1 and its analogs were determined by incubation with Pronase. Z-ΔAbu and ΔVal increased the resistance of peptides to proteolysis when incorporated at the 3-position and had negligible impact on stability when placed at the 1-position, whereas ΔAla-containing peptides degraded rapidly regardless of position. Exposure of peptides 2a-c and 3a-c to the reactive thiol cysteamine revealed that ΔAla-containing peptides underwent conjugate addition at room temperature, while Z-ΔAbu- and ΔVal-containing peptides were inert even at elevated temperatures. These results suggest that both bulky and more accessible medium-sized ΔAAs should be valuable tools for bestowing rigidity and proteolytic stability on bioactive peptides.
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Affiliation(s)
- Daniel Joaquin
- Department of Chemistry and Biochemistry , Brigham Young University , Provo , Utah 84602 , United States
| | - Michael A Lee
- Department of Chemistry and Biochemistry , Brigham Young University , Provo , Utah 84602 , United States
| | - David W Kastner
- Department of Chemistry and Biochemistry , Brigham Young University , Provo , Utah 84602 , United States
| | - Jatinder Singh
- Department of Chemistry and Biochemistry , Brigham Young University , Provo , Utah 84602 , United States
| | - Shardon T Morrill
- Department of Chemistry and Biochemistry , Brigham Young University , Provo , Utah 84602 , United States
| | - Gracie Damstedt
- Department of Chemistry and Biochemistry , Brigham Young University , Provo , Utah 84602 , United States
| | - Steven L Castle
- Department of Chemistry and Biochemistry , Brigham Young University , Provo , Utah 84602 , United States
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Yadav N, Chauhan MK, Chauhan VS. Short to ultrashort peptide-based hydrogels as a platform for biomedical applications. Biomater Sci 2019; 8:84-100. [PMID: 31696870 DOI: 10.1039/c9bm01304k] [Citation(s) in RCA: 66] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Short peptides have attracted significant attention from researchers in the past few years due to their easy design, synthesis and characterization, diverse functionalisation possibilities, low cost, possibility to make a large range of hierarchical nanostructures and most importantly their high biocompatibility and biodegradability. Generally, short peptides are also relatively more stable than their longer variants, non-immunogenic in nature and many of them self-assemble to provide an exciting range of nanostructures, including hydrogels. Thus, the development of short peptide-based hydrogels has become an area of intense investigation. Although these hydrogels have a water content of greater than 90%, they are surprisingly highly stable structures, and thus have been used for various biomedical applications, including cell therapeutics, drug delivery, tissue engineering and regeneration, contact lenses, biosensors, and wound healing, by different researchers. Herein, we review the progress of research in the rapidly expanding field of short to ultrashort peptide-based hydrogels and their possible applications. Special attention is paid to address and review this field with regard to the stability of peptide-based hydrogels, particularly to enzymatic degradation.
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Affiliation(s)
- Nitin Yadav
- Molecular Medicine Group, International Centre for Genetic Engineering & Biotechnology, Aruna Asaf Ali Marg, New Delhi-110067, India. and Delhi Institute of Pharmaceutical Sciences and Research, Mehrauli-Badarpur Road, Sector-3, Pushpvihar, New Delhi-110017, India
| | - Meenakshi K Chauhan
- Delhi Institute of Pharmaceutical Sciences and Research, Mehrauli-Badarpur Road, Sector-3, Pushpvihar, New Delhi-110017, India
| | - Virander S Chauhan
- Molecular Medicine Group, International Centre for Genetic Engineering & Biotechnology, Aruna Asaf Ali Marg, New Delhi-110067, India.
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11
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Impact of the ΔPhe configuration on the Boc-Gly-ΔPhe-NHMe conformation: experiment and theory. Struct Chem 2019. [DOI: 10.1007/s11224-019-01387-w] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
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12
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Thota CK, Berger AA, Harms B, Seidel M, Böttcher C, von Berlepsch H, Xie C, Süssmuth R, Roth C, Koksch B. Short self‐assembling cationic antimicrobial peptide mimetics based on a 3,5‐diaminobenzoic acid scaffold. Pept Sci (Hoboken) 2019. [DOI: 10.1002/pep2.24130] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Chaitanya K. Thota
- Department of Chemistry and BiochemistryFreie Universität Berlin Berlin Germany
| | - Allison A. Berger
- Department of Chemistry and BiochemistryFreie Universität Berlin Berlin Germany
| | - Björn Harms
- Department of Chemistry and BiochemistryFreie Universität Berlin Berlin Germany
| | - Maria Seidel
- Institute of ChemistryTechnische Universität Berlin Berlin Germany
| | - Christoph Böttcher
- Research Center for Electron MicroscopyFreie Universität Berlin Berlin Germany
| | - Hans von Berlepsch
- Research Center for Electron MicroscopyFreie Universität Berlin Berlin Germany
| | - Chaunxiong Xie
- Department of Chemistry and BiochemistryFreie Universität Berlin Berlin Germany
| | | | - Christian Roth
- Department of Biomolecular SystemsMax Planck Institute of Colloids and Interfaces Berlin Germany
| | - Beate Koksch
- Department of Chemistry and BiochemistryFreie Universität Berlin Berlin Germany
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13
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Jiménez-Andreu MM, Sayago FJ, Cativiela C. An Improved Synthesis of the Antibiotic Dehydrophos. European J Org Chem 2018. [DOI: 10.1002/ejoc.201800689] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Affiliation(s)
- M. Mercedes Jiménez-Andreu
- Departamento de Química Orgánica; Instituto de Síntesis Química y Catálisis Homogénea (ISQCH); CSIC-Universidad de Zaragoza; 50009 Zaragoza Spain
| | - Francisco J. Sayago
- Departamento de Química Orgánica; Instituto de Síntesis Química y Catálisis Homogénea (ISQCH); CSIC-Universidad de Zaragoza; 50009 Zaragoza Spain
| | - Carlos Cativiela
- Departamento de Química Orgánica; Instituto de Síntesis Química y Catálisis Homogénea (ISQCH); CSIC-Universidad de Zaragoza; 50009 Zaragoza Spain
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14
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Wołczański G, Lisowski M. A general method for preparation of N-Boc-protected or N-Fmoc-protected α,β-didehydropeptide building blocks and their use in the solid-phase peptide synthesis. J Pept Sci 2018; 24:e3091. [PMID: 29862598 DOI: 10.1002/psc.3091] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2018] [Revised: 04/24/2018] [Accepted: 05/02/2018] [Indexed: 12/14/2022]
Abstract
N-(tert-butyloxycarbonyl) or N-(9-fluorenylmethoxycarbonyl) dipeptides with C-terminal (Z)-α,β-didehydrophenylalanine (∆Z Phe), (Z)-α,β-didehydrotyrosine (∆Z Tyr), (Z)-α,β-didehydrotryptophan (∆Z Trp), (Z)-α,β-didehydromethionine (∆Z Met), (Z)-α,β-didehydroleucine (∆Z Leu), and (Z/E)-α,β-didehydroisoleucine (∆Z/E Ile) were synthesised from their saturated analogues via oxidation of intermediate 2,5-disubstituted-oxazol-5-(4H)-ones (also known as azlactones) with pyridinium tribromide followed by opening of the produced unsaturated oxazol-5-(4H)-one derivatives in organic-aqueous solution with a catalytic amount of trifluoroacetic acid or by a basic hydrolysis. In all cases, a very strong preference for Z isomers of α,β-didehydro-α-amino acid residues was observed except of the ΔIle, which was obtained as the equimolar mixture of Z and E isomers. Reasons for the (Z)-stereoselectivity and the increased stability of the aromatic α,β-didehydro-α-amino acid residue oxazol-5-(4H)-ones over the corresponding aliphatic ones are also discussed. It is the first use of such a procedure to synthesise peptides with the C-terminal unsaturated residues and a peptide with 2 consecutive ΔPhe residues. This approach is very effective especially in the synthesis of peptides with aliphatic α,β-didehydro-α-amino acid residues that are difficult to obtain by other methods. It allowed the first synthesis of the ∆Met residue. It is also more cost-effective and less laborious than other synthesis protocols. The dipeptide building blocks obtained were used in the solid-phase synthesis of model peptides on a polystyrene-based solid support. Peptides containing aromatic α,β-didehydro-α-amino acid residues were obtained with PyBOP or TBTU as a coupling agent with good yields and purities. In the case of aliphatic α,β-didehydro-α-amino acid residues, a good efficiency was achieved only with DPPA as a coupling agent.
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Affiliation(s)
- Grzegorz Wołczański
- Faculty of Chemistry, University of Wrocław, F. Joliot-Curie 14, 50-383, Wrocław, Poland
| | - Marek Lisowski
- Faculty of Chemistry, University of Wrocław, F. Joliot-Curie 14, 50-383, Wrocław, Poland
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Saavedra CJ, Hernández D, Boto A. Metal-Free, Site-Selective Peptide Modification by Conversion of “Customizable” Units into β-Substituted Dehydroamino Acids. Chemistry 2017; 24:599-607. [DOI: 10.1002/chem.201703758] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2017] [Indexed: 12/18/2022]
Affiliation(s)
- Carlos J. Saavedra
- Instituto de Productos Naturales y Agrobiología, CSIC (Spanish Research Council); Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Tenerife SPAIN
| | - Dácil Hernández
- Instituto de Productos Naturales y Agrobiología, CSIC (Spanish Research Council); Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Tenerife SPAIN
| | - Alicia Boto
- Instituto de Productos Naturales y Agrobiología, CSIC (Spanish Research Council); Avda. Astrofísico Fco. Sánchez 3 38206 La Laguna Tenerife SPAIN
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16
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Videira RA, Andrade PB, Monteiro LS, Valentão P, Ferreira PMT, Pereira DM. Toxicity and structure-activity relationship (SAR) of α,β-dehydroamino acids against human cancer cell lines. Toxicol In Vitro 2017; 47:26-37. [PMID: 29107685 DOI: 10.1016/j.tiv.2017.10.027] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2017] [Revised: 10/06/2017] [Accepted: 10/26/2017] [Indexed: 12/18/2022]
Abstract
A library of N-protected dehydroamino acids, namely dehydroalanine, dehydroaminobutyric acid and dehydrophenylalanine derivatives, was screened in three human cancer cell lines [(lung (A549), gastric (AGS) and neuroblastoma (SH-SY5Y)] in order to characterize their toxicological profile and identify new molecules with potential anticancer activity. Results showed N-protected dehydrophenylalanine and dehydroaminobutyric acid derivatives have no or low toxicity for all tested cell lines. The N-protected dehydroalanines exhibit significant toxic effects and the AGS and SH-SY5Y cells were significantly more vulnerable than A549 cells. Four α,β-dehydroalanine derivatives, with IC50<62.5μM, were selected to investigate the pathways by which these compounds promote cell death. All compounds, at their IC50 concentrations, were able to induce apoptosis in both AGS and SH-SY5Y cell lines. In both cell lines, loss of mitochondrial membrane potential (ΔΨm) was found and caspase activity was increased, namely endoplasmic reticulum-resident caspase-4 in AGS cells and caspase-3/7 in SH-SY5Y cells. When evaluated in a non-cancer cell line, the molecules displayed no to low toxicity, thus suggesting some degree of selectivity for cancer cells. The results indicate that α,β-dehydroalanine derivatives can be considered a future resource of compounds able to work as anticancer drugs.
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Affiliation(s)
- Romeu A Videira
- REQUIMTE/LAQV, Laboratório de Farmacognosia, Departamento de Química, Faculdade de Farmácia, Universidade do Porto, Rua de Jorge Viterbo Ferreira, No 228, 4050-213 Porto, Portugal.
| | - Paula B Andrade
- REQUIMTE/LAQV, Laboratório de Farmacognosia, Departamento de Química, Faculdade de Farmácia, Universidade do Porto, Rua de Jorge Viterbo Ferreira, No 228, 4050-213 Porto, Portugal.
| | - Luís S Monteiro
- Centre of Chemistry, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal.
| | - Patrícia Valentão
- REQUIMTE/LAQV, Laboratório de Farmacognosia, Departamento de Química, Faculdade de Farmácia, Universidade do Porto, Rua de Jorge Viterbo Ferreira, No 228, 4050-213 Porto, Portugal.
| | - Paula M T Ferreira
- Centre of Chemistry, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal.
| | - David M Pereira
- REQUIMTE/LAQV, Laboratório de Farmacognosia, Departamento de Química, Faculdade de Farmácia, Universidade do Porto, Rua de Jorge Viterbo Ferreira, No 228, 4050-213 Porto, Portugal.
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17
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Synthesis and preliminary biological evaluation of new phenolic and catecholic dehydroamino acid derivatives. Tetrahedron 2017. [DOI: 10.1016/j.tet.2017.09.012] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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18
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Tomar K, Soni S, Bhadauriya P, Parihar R, Ganesh S, Nair NN, Ramanathan G. Mercuric Ion Sensing by an Overlapping β-turn Containing Peptide. ChemistrySelect 2017. [DOI: 10.1002/slct.201701058] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Kalpana Tomar
- Department of Chemistry; Indian Institute of Technology Kanpur; Kanpur, Uttar Pradesh INDIA -208016
| | - Satyendra Soni
- Department of Chemistry; Indian Institute of Technology Kanpur; Kanpur, Uttar Pradesh INDIA -208016
| | - Pratibha Bhadauriya
- Department of Biological Sciences and Bioengineering; Indian Institute of Technology Kanpur; Kanpur, Uttar Pradesh INDIA -208016
| | - Rashmi Parihar
- Department of Biological Sciences and Bioengineering; Indian Institute of Technology Kanpur; Kanpur, Uttar Pradesh INDIA -208016
| | - Subramaniam Ganesh
- Department of Biological Sciences and Bioengineering; Indian Institute of Technology Kanpur; Kanpur, Uttar Pradesh INDIA -208016
| | - Nisanth N. Nair
- Department of Chemistry; Indian Institute of Technology Kanpur; Kanpur, Uttar Pradesh INDIA -208016
| | - Gurunath Ramanathan
- Department of Chemistry; Indian Institute of Technology Kanpur; Kanpur, Uttar Pradesh INDIA -208016
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19
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Marshall GR, Ballante F. Limiting Assumptions in the Design of Peptidomimetics. Drug Dev Res 2017; 78:245-267. [DOI: 10.1002/ddr.21406] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Garland R. Marshall
- Department of Biochemistry and Molecular Biophysics; Washington University School of Medicine; St. Louis Missouri 63110
| | - Flavio Ballante
- Department of Biochemistry and Molecular Biophysics; Washington University School of Medicine; St. Louis Missouri 63110
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20
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Shivhare K, Garg C, Priyam A, Gupta A, Sharma AK, Kumar P. Enzyme sensitive smart inulin-dehydropeptide conjugate self-assembles into nanostructures useful for targeted delivery of ornidazole. Int J Biol Macromol 2017; 106:775-783. [PMID: 28818724 DOI: 10.1016/j.ijbiomac.2017.08.071] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2017] [Revised: 08/09/2017] [Accepted: 08/10/2017] [Indexed: 01/14/2023]
Abstract
Molecular self-assembly of biodegradable amphiphilic polymers allows rational design of biocompatible nanomaterials for drug delivery. Use of substituted polysaccharides for such applications offers the ease of design and synthesis, and provides higher biofunctionality and biocompatibility to nanomaterials. The present work focuses on the synthesis, characterization and potential biomedical applications of self-assembled polysaccharide-based materials. We demonstrated that the synthesized amphiphilic inulin self-assembled in aqueous medium into nanostructures with average size in the range of 146-486nm and encapsulated hydrophobic therapeutic molecule, ornidazole. Hydrophophic dehydropeptide was conjugated with inulin via a biocompatible ester linkage. Dehydrophenylalanine, an unusual amino acid, was incorporated in the peptide to make it stable at a broader range of pH as well as against proteases. The resulting core-shell type of nanostructures could encapsulate ornidazole in the hydrophobic core and released it in a controlled fashion. By taking the advantage of inulin, which gets degraded in the colon by colonic bacteria, the effect of enzyme, inulinase, present in the microflora of the large intestine, on inulin-peptide degradation followed by drug release has been studied. Altogether, small peptide conjugated to inulin offers novel scaffold for the future design of nanostructures with potential applications in the field of targeted drug delivery.
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Affiliation(s)
- Kriti Shivhare
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics and Integrative Biology, Mall Road, Delhi 110007, India
| | - Charu Garg
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics and Integrative Biology, Mall Road, Delhi 110007, India; Department of Chemistry, Dyal Singh College, University of Delhi, Lodhi Road, New Delhi 110003, India
| | - Ayushi Priyam
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics and Integrative Biology, Mall Road, Delhi 110007, India
| | - Alka Gupta
- Department of Chemistry, Dyal Singh College, University of Delhi, Lodhi Road, New Delhi 110003, India
| | - Ashwani Kumar Sharma
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics and Integrative Biology, Mall Road, Delhi 110007, India.
| | - Pradeep Kumar
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics and Integrative Biology, Mall Road, Delhi 110007, India.
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21
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Deka SR, Yadav S, Kumar D, Garg S, Mahato M, Sharma AK. Self-assembled dehydropeptide nano carriers for delivery of ornidazole and curcumin. Colloids Surf B Biointerfaces 2017; 155:332-340. [PMID: 28454062 DOI: 10.1016/j.colsurfb.2017.04.036] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2016] [Revised: 04/13/2017] [Accepted: 04/17/2017] [Indexed: 02/01/2023]
Abstract
In the recent studies, it has been demonstrated that incorporation of unnatural amino acid, α,β-dehydrophenylalanine, in small peptides results in stable self-assembled nanostructures with different sizes and shapes. Here, we have replaced the natural amino acid, phenylalanine, from our earlier reported work on self-assembled peptide, Boc-Pro-Phe-Gly-OMe, with a constrained dehydro amino acid, α,β-dehydrophenylalanine, to study its influence on self-assembled nanostructures. Dehydrotripeptide, Boc-Pro-ΔPhe-Gly-OMe, self-assembled into nanostructures in aqueous solutions and formed hydrophobic matrix with improved encapsulation efficiency of hydrophobic molecules. The hydrodynamic size of peptide nanostructures from DLS study was found to be ∼257nm. The morphology and size of the loaded nanoparticles were also determined by TEM. To improve aqueous dispersibility the projected nanostructures for efficient use in drug delivery, self-assembled dehydropeptide nano carriers were further stabilized with Vitamin-E-TPGS. The final complex drug nanoparticles provided controlled drug release. These findings demonstrated that incorporation of constrained dehydro amino acids in peptides have the potential to construct stable nanostructures for development of nano materials with controlled drug release.
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Affiliation(s)
- Smriti Rekha Deka
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics Integrative Biology, Mall Road, Delhi, 110 007, India
| | - Santosh Yadav
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics Integrative Biology, Mall Road, Delhi, 110 007, India; Academy of Scientific and Innovative Research, New Delhi, India
| | - Dheeresh Kumar
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics Integrative Biology, Mall Road, Delhi, 110 007, India
| | - Sumit Garg
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics Integrative Biology, Mall Road, Delhi, 110 007, India
| | - Manohar Mahato
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics Integrative Biology, Mall Road, Delhi, 110 007, India
| | - Ashwani Kumar Sharma
- Nucleic Acids Research Laboratory, CSIR-Institute of Genomics Integrative Biology, Mall Road, Delhi, 110 007, India.
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22
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Zhu M, Liu P, Niu ZW. A perspective on general direction and challenges facing antimicrobial peptides. CHINESE CHEM LETT 2017. [DOI: 10.1016/j.cclet.2016.10.001] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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23
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Sergeant K, Printz B, Gutsch A, Behr M, Renaut J, Hausman JF. Didehydrophenylalanine, an abundant modification in the beta subunit of plant polygalacturonases. PLoS One 2017; 12:e0171990. [PMID: 28207764 PMCID: PMC5313189 DOI: 10.1371/journal.pone.0171990] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2016] [Accepted: 01/30/2017] [Indexed: 01/07/2023] Open
Abstract
The structure and the activity of proteins are often regulated by transient or stable post- translational modifications (PTM). Different from well-known, abundant modifications such as phosphorylation and glycosylation some modifications are limited to one or a few proteins across a broad range of related species. Although few examples of the latter type are known, the evolutionary conservation of these modifications and the enzymes responsible for their synthesis suggest an important physiological role. Here, the first observation of a new, fold-directing PTM is described. During the analysis of alfalfa cell wall proteins a -2Da mass shift was observed on phenylalanine residues in the repeated tetrapeptide FxxY of the beta-subunit of polygalacturonase. This modular protein is known to be involved in developmental and stress-responsive processes. The presence of this modification was confirmed using in-house and external datasets acquired by different commonly used techniques in proteome studies. Based on these analyses it was found that all identified phenylalanine residues in the sequence FxxY of this protein were modified to α,β-didehydro-Phe (ΔPhe). Besides showing the reproducible identification of ΔPhe in different species arguments that substantiate the fold-determining role of ΔPhe are given.
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Affiliation(s)
- Kjell Sergeant
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) department, Esch-sur-Alzette, Luxembourg
- * E-mail:
| | - Bruno Printz
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) department, Esch-sur-Alzette, Luxembourg
- Université catholique de Louvain, Earth and Life Institute Agronomy, Groupe de Recherche en Physiologie Végétale Louvain-la-Neuve, Belgium
| | - Annelie Gutsch
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) department, Esch-sur-Alzette, Luxembourg
- University of Hasselt, Centre for Environmental Sciences, Environmental Biology, Diepenbeek, Belgium
| | - Marc Behr
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) department, Esch-sur-Alzette, Luxembourg
- Université catholique de Louvain, Earth and Life Institute Agronomy, Groupe de Recherche en Physiologie Végétale Louvain-la-Neuve, Belgium
| | - Jenny Renaut
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) department, Esch-sur-Alzette, Luxembourg
| | - Jean-Francois Hausman
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) department, Esch-sur-Alzette, Luxembourg
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24
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Le DN, Riedel J, Kozlyuk N, Martin RW, Dong VM. Cyclizing Pentapeptides: Mechanism and Application of Dehydrophenylalanine as a Traceless Turn-Inducer. Org Lett 2016; 19:114-117. [DOI: 10.1021/acs.orglett.6b03308] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Affiliation(s)
- Diane N. Le
- Department
of Chemistry, University of California, Irvine, California 92697, United States
| | - Jan Riedel
- Department
of Chemistry, University of California, Irvine, California 92697, United States
| | - Natalia Kozlyuk
- Department
of Chemistry, University of California, Irvine, California 92697, United States
| | - Rachel W. Martin
- Department
of Chemistry, University of California, Irvine, California 92697, United States
- Department
of Molecular Biology and Biochemistry, University of California, Irvine, California 92697, United States
| | - Vy M. Dong
- Department
of Chemistry, University of California, Irvine, California 92697, United States
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25
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Bartoccini F, Cannas DM, Fini F, Piersanti G. Palladium(II)-Catalyzed Cross-Dehydrogenative Coupling (CDC) of N-Phthaloyl Dehydroalanine Esters with Simple Arenes: Stereoselective Synthesis of Z-Dehydrophenylalanine Derivatives. Org Lett 2016; 18:2762-5. [PMID: 27206072 DOI: 10.1021/acs.orglett.6b01255] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Pd(II)-catalyzed cross-dehydrogenative coupling (CDC) of methyl N-phthaloyl dehydroalanine esters with simple aromatic hydrocarbons is reported. The reaction, which involves the cleavage of two sp(2) C-H bonds followed by C-C bond formation, stereoselectively generates highly valuable Z-dehydrophenylalanine skeletons in a practical, versatile, and atom economical manner. In addition, a perfluorinated product was expediently converted into important nonproteinogenic amino acid building blocks through copper-catalyzed conjugate additions of boron, silicon, and hydride moieties.
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Affiliation(s)
- Francesca Bartoccini
- Department of Biomolecular Sciences, University of Urbino "Carlo Bo" , P.zza Rinascimento 6, 61029 Urbino (PU), Italy
| | - Diego Maria Cannas
- Department of Biomolecular Sciences, University of Urbino "Carlo Bo" , P.zza Rinascimento 6, 61029 Urbino (PU), Italy
| | - Francesco Fini
- Department of Biomolecular Sciences, University of Urbino "Carlo Bo" , P.zza Rinascimento 6, 61029 Urbino (PU), Italy
| | - Giovanni Piersanti
- Department of Biomolecular Sciences, University of Urbino "Carlo Bo" , P.zza Rinascimento 6, 61029 Urbino (PU), Italy
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26
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Buczek A, Makowski M, Jewgiński M, Latajka R, Kupka T, Broda MA. Toward engineering efficient peptidomimetics. Screening conformational landscape of two modified dehydroaminoacids. Biopolymers 2016; 101:28-40. [PMID: 23606332 DOI: 10.1002/bip.22264] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2013] [Accepted: 04/12/2013] [Indexed: 11/11/2022]
Abstract
Effective peptidomimetics should posses structural rigidity and appropriate interaction pattern leading to potential spatial and electronic matching to the target receptor site. Rational design of such small bioactive molecules could push chemical synthesis and molecular modeling toward faster progress in medicinal chemistry. Conformational properties of N-t-butoxycarbonyl-glycine-(E/Z)-dehydrophenylalanine N',N'-dimethylamides (Boc-Gly-(E/Z)-ΔPhe-NMe2 ) in chloroform were studied by NMR and IR spectroscopy. The experimental findings were supported by extensive calculations at DFT(B3LYP, M06-2X) and MP2 levels of theory and the β-turn tendency for both isomers of the studied dipeptide were determined in vacuum and in solution. The theoretical data and experimental IR results were used as an additional information for the NMR-based determination of the detailed solution conformations of the peptides. The obtained results reveal that N-methylation of C-terminal amide group changes dramatically the conformational properties of studied dehydropeptides. Theoretical conformational analysis reveals that the tendency to adopt β-turn conformations is much weaker for the N-methylated Z isomer (Boc-Gly-(Z)-ΔPhe-NMe2 ), both in vacuum and in polar environment. On the contrary, N-methylated E isomer (Boc-Gly-(E)-ΔPhe-NMe2 ) can easily adopt β-turn conformation, but the backbone torsion angles (φ1, ψ1, φ2, ψ2) are off the limits for common β-turn types.
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Affiliation(s)
- Aneta Buczek
- Department of Physical Chemistry and Molecular Modeling, Faculty of Chemistry, University of Opole, Oleska 48, 45-052, Opole, Poland
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27
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Espinosa M, García-Ortiz A, Blay G, Cardona L, Muñoz MC, Pedro JR. E,Z-Stereodivergent synthesis of N-tosyl α,β-dehydroamino esters via a Mukaiyama–Michael addition. RSC Adv 2016. [DOI: 10.1039/c5ra27354d] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
E or Z dehydroamino esters are stereoselectively obtained from a same set of reactants depending on the reaction conditions.
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Affiliation(s)
- Miguel Espinosa
- Departament de Química Orgànica
- Facultat de Química
- Universitat de València
- E-46100 Burjassot
- Spain
| | - Andrea García-Ortiz
- Departament de Química Orgànica
- Facultat de Química
- Universitat de València
- E-46100 Burjassot
- Spain
| | - Gonzalo Blay
- Departament de Química Orgànica
- Facultat de Química
- Universitat de València
- E-46100 Burjassot
- Spain
| | - Luz Cardona
- Departament de Química Orgànica
- Facultat de Química
- Universitat de València
- E-46100 Burjassot
- Spain
| | - M. Carmen Muñoz
- Departament de Física Aplicada
- Universitat Politècnica de València
- 46022 València
- Spain
| | - José R. Pedro
- Departament de Química Orgànica
- Facultat de Química
- Universitat de València
- E-46100 Burjassot
- Spain
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28
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Vilaça H, Hortelão ACL, Castanheira EMS, Queiroz MJRP, Hilliou L, Hamley IW, Martins JA, Ferreira PMT. Dehydrodipeptide Hydrogelators Containing Naproxen N-Capped Tryptophan: Self-Assembly, Hydrogel Characterization, and Evaluation as Potential Drug Nanocarriers. Biomacromolecules 2015; 16:3562-73. [PMID: 26443892 DOI: 10.1021/acs.biomac.5b01006] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
In this work, we introduce dipeptides containing tryptophan N-capped with the nonsteroidal anti-inflammatory drug naproxen and C-terminal dehydroamino acids, dehydrophenylalanine (ΔPhe), dehydroaminobutyric acid (ΔAbu), and dehydroalanine (ΔAla) as efficacious protease resistant hydrogelators. Optimized conditions for gel formation are reported. Transmission electron microscopy experiments revealed that the hydrogels consist of networks of micro/nanosized fibers formed by peptide self-assembly. Fluorescence and circular dichroism spectroscopy indicate that the self-assembly process is driven by stacking interactions of the aromatic groups. The naphthalene groups of the naproxen moieties are highly organized in the fibers through chiral stacking. Rheological experiments demonstrated that the most hydrophobic peptide (containing C-terminal ΔPhe) formed more elastic gels at lower critical gelation concentrations. This gel revealed irreversible breakup, while the C-terminal ΔAbu and ΔAla gels, although less elastic, exhibited structural recovery and partial healing of the elastic properties. A potential antitumor thieno[3,2-b]pyridine derivative was incorporated (noncovalently) into the gel formed by the hydrogelator containing C-terminal ΔPhe residue. Fluorescence and Förster resonance energy transfer measurements indicate that the drug is located in a hydrophobic environment, near/associated with the peptide fibers, establishing this type of hydrogel as a good drug-nanocarrier candidate.
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Affiliation(s)
| | | | | | | | - Loic Hilliou
- Institute for Polymers and Composites/I3N, Department of Polymer Engineering, University of Minho, Campus de Azurém , 4800-058 Guimarães, Portugal
| | - Ian W Hamley
- Department of Chemistry, University of Reading, Whiteknights , P.O. Box 224, Reading RG6 6AD, U.K
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29
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Jiang J, Ma Z, Castle SL. Bulky α,β-dehydroamino acids: their occurrence in nature, synthesis, and applications. Tetrahedron 2015. [DOI: 10.1016/j.tet.2015.06.001] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
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30
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Jiang J, Luo S, Castle SL. Solid-phase synthesis of peptides containing bulky dehydroamino acids. Tetrahedron Lett 2015. [DOI: 10.1016/j.tetlet.2014.12.097] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
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31
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Jaremko Ł, Jaremko M, Buczek A, Broda MA, Kupka T, Jackowski K. 1H and 13C shielding measurements in comparison with DFT calculations performed for two 2-(acetyloamino)-N,N-dimethyl-3-phenylacrylamide isomers. Chem Phys Lett 2015. [DOI: 10.1016/j.cplett.2015.03.021] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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32
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Crisma M, De Zotti M, Formaggio F, Peggion C, Moretto A, Toniolo C. Handedness preference and switching of peptide helices. Part II: Helices based on noncodedα-amino acids. J Pept Sci 2015; 21:148-77. [DOI: 10.1002/psc.2743] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2014] [Revised: 12/19/2014] [Accepted: 12/19/2014] [Indexed: 12/27/2022]
Affiliation(s)
| | - Marta De Zotti
- Department of Chemistry; University of Padova; Padova Italy
| | - Fernando Formaggio
- ICB; Padova Unit; CNR Padova Italy
- Department of Chemistry; University of Padova; Padova Italy
| | | | - Alessandro Moretto
- ICB; Padova Unit; CNR Padova Italy
- Department of Chemistry; University of Padova; Padova Italy
| | - Claudio Toniolo
- ICB; Padova Unit; CNR Padova Italy
- Department of Chemistry; University of Padova; Padova Italy
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33
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Abstract
α,β-Dehydroamino acids are naturally occurring non-coded amino acids, found primarily in peptides. The review focuses on the type of α,β-dehydroamino acids, the structure of dehydropeptides, the source of their origin and bioactivity. Dehydropeptides are isolated primarily from bacteria and less often from fungi, marine invertebrates or even higher plants. They reveal mainly antibiotic, antifungal, antitumour, and phytotoxic activity. More than 60 different structures were classified, which often cover broad families of peptides. 37 different structural units containing the α,β-dehydroamino acid residues were shown including various side chains, Z and E isomers, and main modifications: methylation of peptide bond as well as the introduction of ester group and heterocycle ring. The collected data show the relation between the structure and bioactivity. This allows the activity of compounds, which were not studied in this field, but which belong to a larger peptide family to be predicted. A few examples show that the type of the geometrical isomer of the α,β-dehydroamino acid residue can be important or even crucial for biological activity.
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Affiliation(s)
- Dawid Siodłak
- Faculty of Chemistry, University of Opole, Oleska, 48 45-052, Opole, Poland,
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34
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Abstract
Insulin provides a classical model of a globular protein, yet how the hormone changes conformation to engage its receptor has long been enigmatic. Interest has focused on the C-terminal B-chain segment, critical for protective self-assembly in β cells and receptor binding at target tissues. Insight may be obtained from truncated "microreceptors" that reconstitute the primary hormone-binding site (α-subunit domains L1 and αCT). We demonstrate that, on microreceptor binding, this segment undergoes concerted hinge-like rotation at its B20-B23 β-turn, coupling reorientation of Phe(B24) to a 60° rotation of the B25-B28 β-strand away from the hormone core to lie antiparallel to the receptor's L1-β2 sheet. Opening of this hinge enables conserved nonpolar side chains (Ile(A2), Val(A3), Val(B12), Phe(B24), and Phe(B25)) to engage the receptor. Restraining the hinge by nonstandard mutagenesis preserves native folding but blocks receptor binding, whereas its engineered opening maintains activity at the price of protein instability and nonnative aggregation. Our findings rationalize properties of clinical mutations in the insulin family and provide a previously unidentified foundation for designing therapeutic analogs. We envisage that a switch between free and receptor-bound conformations of insulin evolved as a solution to conflicting structural determinants of biosynthesis and function.
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Jewgiński M, Krzciuk-Gula J, Makowski M, Latajka R, Kafarski P. Conformation of dehydropentapeptides containing four achiral amino acid residues - controlling the role of L-valine. Beilstein J Org Chem 2014; 10:660-6. [PMID: 24778717 PMCID: PMC3999861 DOI: 10.3762/bjoc.10.58] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2013] [Accepted: 02/05/2014] [Indexed: 12/01/2022] Open
Abstract
Structural studies of pentapeptides containing an achiral block, built from two dehydroamino acid residues (ΔZPhe and ΔAla) and two glycines, as well as one chiral L-Val residue were performed using NMR spectroscopy. The key role of the L-Val residue in the generation of the secondary structure of peptides is discussed. The obtained results suggest that the strongest influence on the conformation of peptides arises from a valine residue inserted at the C-terminal position. The most ordered conformation was found for peptide Boc-Gly-ΔAla-Gly-ΔZPhe-Val-OMe (3), which adopts a right-handed helical conformation.
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Affiliation(s)
- Michał Jewgiński
- Department of Bioorganic Chemistry, Faculty of Chemistry, Wrocław University of Technology, Wybrzeze Wyspianskiego 27, 50-370 Wroclaw, Poland
| | - Joanna Krzciuk-Gula
- Department of Bioorganic Chemistry, Faculty of Chemistry, Wrocław University of Technology, Wybrzeze Wyspianskiego 27, 50-370 Wroclaw, Poland
| | - Maciej Makowski
- Faculty of Chemistry, University of Opole, Oleska 48, 45-052 Opole, Poland
| | - Rafał Latajka
- Department of Bioorganic Chemistry, Faculty of Chemistry, Wrocław University of Technology, Wybrzeze Wyspianskiego 27, 50-370 Wroclaw, Poland
| | - Paweł Kafarski
- Department of Bioorganic Chemistry, Faculty of Chemistry, Wrocław University of Technology, Wybrzeze Wyspianskiego 27, 50-370 Wroclaw, Poland
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36
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Šenica L, Grošelj U, Kasunič M, Kočar D, Stanovnik B, Svete J. Synthesis of Enaminone-Based Vinylogous Peptides. European J Org Chem 2014. [DOI: 10.1002/ejoc.201402033] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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Siodłak D, Staś M, Broda MA, Bujak M, Lis T. Conformational properties of oxazole-amino acids: effect of the intramolecular N-H···N hydrogen bond. J Phys Chem B 2014; 118:2340-50. [PMID: 24528177 DOI: 10.1021/jp4121673] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Oxazole ring occurs in numerous natural peptides, but conformational properties of the amino acid residue containing the oxazole ring in place of the C-terminal amide bond are poorly recognized. A series of model compounds constituted by the oxazole-amino acids occurring in nature, that is, oxazole-alanine (L-Ala-Ozl), oxazole-dehydroalanine (ΔAla-Ozl), and oxazole-dehydrobutyrine ((Z)-ΔAbu-Ozl), was investigated using theoretical calculations supported by FTIR and NMR spectra and single-crystal X-ray diffraction. It was found that the main feature of the studied oxazole-amino acids is the stable conformation β2 with the torsion angles φ and ψ of -150°, -10° for L-Ala-Ozl, -180°, 0° for ΔAla-Ozl, and -120°, 0° for (Z)-ΔAbu-Ozl, respectively. The conformation β2 is stabilized by the intramolecular N-H···N hydrogen bond and predominates in the low polar environment. In the case of the oxazole-dehydroamino acids, the π-electron conjugation that is spread on the oxazole ring and C(α)═C(β) double bond is an additional stabilizing interaction. The tendency to adopt the conformation β2 clearly decreases with increasing the polarity of environment, but still the oxazole-dehydroamino acids are considered to be more rigid and resistant to conformational changes.
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Affiliation(s)
- Dawid Siodłak
- Faculty of Chemistry, University of Opole , Oleska 48, 45-052 Opole, Poland
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Yadav S, Mahato M, Pathak R, Jha D, Kumar B, Deka SR, Gautam HK, Sharma AK. Multifunctional self-assembled cationic peptide nanostructures efficiently carry plasmid DNA in vitro and exhibit antimicrobial activity with minimal toxicity. J Mater Chem B 2014; 2:4848-4861. [DOI: 10.1039/c4tb00657g] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
An amphiphilic peptide–aminoglycoside (Pep–Neo) conjugate has been synthesized, self-assembled into nanostructures and evaluated for its multifunctional properties.
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Affiliation(s)
- Santosh Yadav
- Nucleic Acids Research Laboratory
- CSIR-Institute of Genomics and Integrative Biology
- Delhi – 110007, India
| | - Manohar Mahato
- Nucleic Acids Research Laboratory
- CSIR-Institute of Genomics and Integrative Biology
- Delhi – 110007, India
| | - Rajiv Pathak
- Microbial Biotechnology Laboratory
- CSIR-Institute of Genomics and Integrative Biology
- Delhi – 110020, India
| | - Diksha Jha
- Microbial Biotechnology Laboratory
- CSIR-Institute of Genomics and Integrative Biology
- Delhi – 110020, India
| | - Bipul Kumar
- Microbial Biotechnology Laboratory
- CSIR-Institute of Genomics and Integrative Biology
- Delhi – 110020, India
| | - Smriti Rekha Deka
- Nucleic Acids Research Laboratory
- CSIR-Institute of Genomics and Integrative Biology
- Delhi – 110007, India
| | - Hemant Kumar Gautam
- Microbial Biotechnology Laboratory
- CSIR-Institute of Genomics and Integrative Biology
- Delhi – 110020, India
| | - Ashwani Kumar Sharma
- Nucleic Acids Research Laboratory
- CSIR-Institute of Genomics and Integrative Biology
- Delhi – 110007, India
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39
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Antimicrobial peptides. Pharmaceuticals (Basel) 2013; 6:1543-75. [PMID: 24287494 PMCID: PMC3873676 DOI: 10.3390/ph6121543] [Citation(s) in RCA: 818] [Impact Index Per Article: 74.4] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2013] [Revised: 11/21/2013] [Accepted: 11/25/2013] [Indexed: 12/20/2022] Open
Abstract
The rapid increase in drug-resistant infections has presented a serious challenge to antimicrobial therapies. The failure of the most potent antibiotics to kill “superbugs” emphasizes the urgent need to develop other control agents. Here we review the history and new development of antimicrobial peptides (AMPs), a growing class of natural and synthetic peptides with a wide spectrum of targets including viruses, bacteria, fungi, and parasites. We summarize the major types of AMPs, their modes of action, and the common mechanisms of AMP resistance. In addition, we discuss the principles for designing effective AMPs and the potential of using AMPs to control biofilms (multicellular structures of bacteria embedded in extracellular matrixes) and persister cells (dormant phenotypic variants of bacterial cells that are highly tolerant to antibiotics).
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40
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Hayward S, Leader DP, Al-Shubailly F, Milner-White EJ. Rings and ribbons in protein structures: Characterization using helical parameters and Ramachandran plots for repeating dipeptides. Proteins 2013; 82:230-9. [DOI: 10.1002/prot.24357] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2013] [Revised: 06/10/2013] [Accepted: 06/10/2013] [Indexed: 12/30/2022]
Affiliation(s)
- Steven Hayward
- School of Computing Sciences; University of East Anglia; Norwich NR4 7TJ United Kingdom
| | - David P. Leader
- College of Medical, Veterinary and Life Sciences; University of Glasgow; Glasgow G12 8QQ United Kingdom
| | - Fawzia Al-Shubailly
- College of Medical, Veterinary and Life Sciences; University of Glasgow; Glasgow G12 8QQ United Kingdom
| | - E. James Milner-White
- College of Medical, Veterinary and Life Sciences; University of Glasgow; Glasgow G12 8QQ United Kingdom
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41
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Siodłak D, Bujak M, Staś M. Intra- and intermolecular forces dependent main chain conformations of esters of α,β-dehydroamino acids. J Mol Struct 2013. [DOI: 10.1016/j.molstruc.2013.04.078] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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42
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Parween S, Ali A, Chauhan VS. Non-natural amino acids containing peptide-capped gold nanoparticles for drug delivery application. ACS APPLIED MATERIALS & INTERFACES 2013; 5:6484-6493. [PMID: 23767970 DOI: 10.1021/am4017973] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Peptide-based capping agents for gold nanoparticles (GNPs) are possible alternatives for capping and derivatizing GNPs, but suffer from a major disadvantage of sensitivity toward non specific proteases, which may limit their in vivo utility. Using non-natural analogs of natural α-amino acids offer an attractive alternate strategy to circumvent this potential bottleneck in realizing full potential of peptide based capping gents for GNPs for biological applications. Here, we have designed and developed pentapeptides containing non-natural amino acid (α,β-dehydrophenylalanine and α-aminoisobutyric acid) as capping agents for GNPs. All these peptides were able to efficiently cap GNPs and peptide induced aggregation was not observed. Peptide capped GNPs showed minimal cytotoxicity to mammalian cell lines (HeLa and L929) as well as mice spleenocytes. They encapsulated small drug like molecules and peptide capped GNPs entrapping drugs were more efficient in killing HeLa cells compared to the free drug. Therefore, these non-natural amino acid containing peptide-capped GNPs may be further developed as alternate drug delivery vehicles.
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Affiliation(s)
- Shaheena Parween
- International Centre for Genetic Engineering and Biotechnology, New Delhi, India
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43
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Jaremko M, Jaremko L, Mazur A, Makowski M, Lisowski M. Enhanced β-turn conformational stability of tripeptides containing ΔPhe in cis over trans configuration. Amino Acids 2013; 45:865-75. [PMID: 23812673 DOI: 10.1007/s00726-013-1534-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2013] [Accepted: 06/07/2013] [Indexed: 11/28/2022]
Abstract
Conformations of three pairs of dehydropeptides with the opposite configuration of the ΔPhe residue, Boc-Gly-Δ(Z/E)Phe-Phe-p-NA (Z- p -NA and E- p -NA), Boc-Gly-Δ(Z/E)Phe-Phe-OMe (Z-OMe and E-OMe), and Boc-Gly-Δ(Z/E)Phe-Phe-OH (Z-OH and E-OH) were compared on the basis of CD and NMR studies in MeOH, TFE, and DMSO. The CD results were used as the additional input data for the NMR-based calculations of the detailed solution conformations of the peptides. It was found that Z- p -NA, E- p -NA, Z-OMe, and Z-OH adopt the β-turn conformations and E-OMe and E-OH are unordered. There are two overlapping type III β-turns in Z- p -NA, type II' β-turn in E- p -NA, and type II β-turn in Z-OMe and Z-OH. The results obtained indicate that in the case of methyl esters and peptides with a free carboxyl group, Δ(Z)Phe is a much stronger inducer of ordered conformations than Δ(E)Phe. It was also found that temperature coefficients of the amide protons are not reliable indicators of intramolecular hydrogen bonds donors in small peptides.
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Affiliation(s)
- Mariusz Jaremko
- Department of NMR-based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Am Fassberg 11, 37077, Göttingen, Germany,
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44
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Saavedra CJ, Boto A, Hernández R. “Customizable” Units in Di- and Tripeptides: Selective Conversion into Substituted Dehydroamino Acids. Org Lett 2012; 14:3788-91. [DOI: 10.1021/ol301676z] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Carlos J. Saavedra
- Instituto de Productos Naturales y Agrobiología CSIC, Avda. Astrofísico Fco. Sánchez 3, 38206 La Laguna, Tenerife, Spain
| | - Alicia Boto
- Instituto de Productos Naturales y Agrobiología CSIC, Avda. Astrofísico Fco. Sánchez 3, 38206 La Laguna, Tenerife, Spain
| | - Rosendo Hernández
- Instituto de Productos Naturales y Agrobiología CSIC, Avda. Astrofísico Fco. Sánchez 3, 38206 La Laguna, Tenerife, Spain
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45
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Mahato M, Arora V, Pathak R, Gautam HK, Sharma AK. Fabrication of nanostructures through molecular self-assembly of small amphiphilic glyco-dehydropeptides. MOLECULAR BIOSYSTEMS 2012; 8:1742-9. [PMID: 22491801 DOI: 10.1039/c2mb25023c] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
Self-assembled peptide-based nanostructures have been the focus of research in the past decade because of their potential applications in various biological systems. Normally, small self-assembled peptide nanostructures contain hydrophobic moieties, therefore, their solubility in aqueous systems poses the important challenge in the field of molecular self-assembly in order to make effective use of these in a wide variety of applications. To improve their aqueous solubility, the self-assembled amphiphilic α,β-dehydrophenylalanine containing small glyco-dehydropeptides, Boc-Phe-ΔPhe-εAhx-GA (I) and H-Phe-ΔPhe-εAhx-GA (II) with glucosamine (GA) attached at the C-terminal through a 6-aminocaproic acid linker, were synthesized, demonstrating the formation of nanostructures in aqueous media, which were characterized by DLS, AFM and TEM. Further, nanostructure II reduced auric chloride to gold nanoparticles and formed a peptide-gold conjugate (VII). The feasibility of using the nanostructures I and II as nanovectors for drug delivery was demonstrated by loading hydrophobic molecules, eosin and N-fluoresceinyl-2-aminoethanol (FAE) dyes. Besides, these peptides displayed antimicrobial activity against Micrococcus flavus, Bacillus subtilis and Pseudomonas aeruginosa. All these results advocate the potential of these nanostructures as efficient vectors for drug delivery applications.
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Affiliation(s)
- Manohar Mahato
- CSIR-Institute of Genomics and Integrative Biology, Delhi University Campus, Delhi, India
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46
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Buczek A, Wałęsa R, Broda MA. β-turn tendency in N-methylated peptides with dehydrophenylalanine residue: DFT study. Biopolymers 2012; 97:518-28. [DOI: 10.1002/bip.22034] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2010] [Revised: 02/02/2011] [Accepted: 02/04/2011] [Indexed: 01/10/2023]
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47
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Dutta MG, Mathur P, Chauhan VS. De novo design, synthesis and solution conformational study of two didehydroundecapeptides: effect of nature and number of amino acids interspersed between Phe residues. J Pept Sci 2011; 17:783-90. [DOI: 10.1002/psc.1402] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2011] [Revised: 07/04/2011] [Accepted: 07/07/2011] [Indexed: 11/07/2022]
Affiliation(s)
- Madhvi Gupta Dutta
- Malaria Lab; International Centre for Genetic Engineering and Biotechnology; Aruna Asaf Ali Marg; New Delhi; 110067; India
| | - Puniti Mathur
- Amity Institute of Biotechnology; Amity University; Sector 125; Noida; Uttar Pradesh; India
| | - Virander S Chauhan
- Malaria Lab; International Centre for Genetic Engineering and Biotechnology; Aruna Asaf Ali Marg; New Delhi; 110067; India
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48
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Milner-White EJ, Russell MJ. Functional capabilities of the earliest peptides and the emergence of life. Genes (Basel) 2011; 2:671-88. [PMID: 24710286 PMCID: PMC3927598 DOI: 10.3390/genes2040671] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2011] [Revised: 09/14/2011] [Accepted: 09/14/2011] [Indexed: 02/01/2023] Open
Abstract
Considering how biological macromolecules first evolved, probably within a marine environment, it seems likely the very earliest peptides were not encoded by nucleic acids, or at least not via the genetic code as we know it. An objective of the present work is to demonstrate that sequence-independent peptides, or peptides with variable and unreliable lengths and sequences, have the potential to perform a variety of chemically useful functions such as anion and cation binding and membrane and channel formation as well as simple types of catalysis. These functions tend to be performed with the assistance of the main chain CONH atoms rather than the more variable or limited side chain atoms of the peptides presumed to exist then.
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Affiliation(s)
- E James Milner-White
- College of Medical, Veterinary and Life Sciences, Glasgow University, Glasgow G128QQ, UK.
| | - Michael J Russell
- Jet Propulsion Laboratory, California Institute of Technology, Pasadena, CA 91109, USA.
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49
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Buczek AM, Ptak T, Kupka T, Broda MA. Experimental and theoretical NMR and IR studies of the side-chain orientation effects on the backbone conformation of dehydrophenylalanine residue. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2011; 49:343-349. [PMID: 21506144 DOI: 10.1002/mrc.2753] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2011] [Revised: 02/09/2011] [Accepted: 02/16/2011] [Indexed: 05/30/2023]
Abstract
Conformation of N-acetyl-(E)-dehydrophenylalanine N', N'-dimethylamide (Ac-(E)-ΔPhe-NMe(2)) in solution, a member of (E)-α, β-dehydroamino acids, was studied by NMR and infrared spectroscopy and the results were compared with those obtained for (Z) isomer. To support the spectroscopic interpretation, the Φ, Ψ potential energy surfaces were calculated at the MP2/6-31 + G(d,p) level of theory in chloroform solution modeled by the self-consistent reaction field-polarizable continuum model method. All minima were fully optimized by the MP2 method and their relative stabilities were analyzed in terms of π-conjugation, internal H-bonds and dipole interactions between carbonyl groups. The obtained NMR spectral features were compared with theoretical nuclear magnetic shieldings, calculated using Gauge Independent Atomic Orbitals (GIAO) approach and rescaled to theoretical chemical shifts using benzene as reference. The calculated indirect nuclear spin-spin coupling constants were compared with available experimental parameters.
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Affiliation(s)
- Aneta M Buczek
- Faculty of Chemistry, University of Opole, 48, Oleska Street, 45-052 Opole, Poland
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