1
|
Araszczuk AM, Pierri G, Schettini R, Costabile C, Della Sala G, Di Marino L, Tedesco C, De Riccardis F, Izzo I. 1,2,3-Triazole-Containing Azamacrocycles from Chiral Triazolopeptoids: Synthesis and Solid-State Studies. Chemistry 2024; 30:e202400904. [PMID: 38699895 DOI: 10.1002/chem.202400904] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Revised: 04/19/2024] [Accepted: 04/25/2024] [Indexed: 05/05/2024]
Abstract
Two new chiral 1,2,3-triazole-containing macrocyclic oligoamides (i. e.: triazolopeptoid 4 and 5) were obtained through solid-phase synthesis of linear precursors followed by high dilution macrocyclization reaction. Theoretical (DFT) and spectroscopic (NMR) studies revealed the intricate interplay between the Nα-chiral side chains and their conformational attitudes. BH3-mediated reduction of the tertiary amide groups of known 1-3 and newly synthesized 4 gave novel azamacrocycles 6-9. Detection of borane complexes of azamacrocycles 6 and 9 (i. e.: 10 and 11), corroborated by X-ray diffraction studies, demonstrated the peculiar properties of 1,2,3-triazole-containing macrorings.
Collapse
Affiliation(s)
- Alicja M Araszczuk
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| | - Giovanni Pierri
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| | - Rosaria Schettini
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| | - Chiara Costabile
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| | - Giorgio Della Sala
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| | - Luca Di Marino
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| | - Consiglia Tedesco
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| | - Francesco De Riccardis
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| | - Irene Izzo
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132
| |
Collapse
|
2
|
D'Amato A, Jiang L, Della Sala G, Kirshenbaum K, Costabile C, Furlan C, Gianolio E, Izzo I, De Riccardis F. Water-Soluble Chiral Cyclic Peptoids and Their Sodium and Gadolinium Complexes: Study of Conformational and Relaxometric Properties. J Org Chem 2023. [PMID: 37155983 DOI: 10.1021/acs.joc.2c02713] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Cyclic peptoids are macrocyclic oligomers of N-substituted glycines with specific folding abilities and excellent metal binding properties. In this work, we show how strategic positioning of chiral (S)- and (R)-(1-carboxyethyl)glycine units influences the conformational stability of water-soluble macrocyclic peptoids as sodium complexes. The reported results are based on nuclear magnetic resonance spectroscopy, extensive computational studies, and X-ray diffraction analysis using single crystals grown from aqueous solutions. The studies include 1H relaxometric investigations of hexameric cyclic peptoids in the presence of the Gd3+ ion to assess their thermodynamic stabilities and relaxivities.
Collapse
Affiliation(s)
- Assunta D'Amato
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Linhai Jiang
- Department of Chemistry, New York University, 100 Washington Square East, New York, New York 10003-6688, United States
| | - Giorgio Della Sala
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Kent Kirshenbaum
- Department of Chemistry, New York University, 100 Washington Square East, New York, New York 10003-6688, United States
| | - Chiara Costabile
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Chiara Furlan
- Department of Molecular Biotechnology and Health Sciences and Molecular Imaging Center, University of Turin, Via Nizza, 52, 10126 Turin, Italy
| | - Eliana Gianolio
- Department of Molecular Biotechnology and Health Sciences and Molecular Imaging Center, University of Turin, Via Nizza, 52, 10126 Turin, Italy
| | - Irene Izzo
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Francesco De Riccardis
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| |
Collapse
|
3
|
Araszczuk AM, D'Amato A, Schettini R, Costabile C, Della Sala G, Pierri G, Tedesco C, De Riccardis F, Izzo I. Macrocyclic Triazolopeptoids: A Promising Class of Extended Cyclic Peptoids. Org Lett 2022; 24:7752-7756. [PMID: 36223077 DOI: 10.1021/acs.orglett.2c03062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Head-to-tail cyclization of linear oligoamides containing 4-benzylaminomethyl-1H-1,2,3-triazol-1-yl acetic acid monomers afforded a novel class of "extended macrocyclic peptoids". The identification of the conformation in solution for a cyclodimer and the X-ray crystal structure of a cyclic tetraamide are reported.
Collapse
Affiliation(s)
- Alicja M Araszczuk
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Assunta D'Amato
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Rosaria Schettini
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Chiara Costabile
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Giorgio Della Sala
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Giovanni Pierri
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Consiglia Tedesco
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Francesco De Riccardis
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| | - Irene Izzo
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy
| |
Collapse
|
4
|
Eastwood JRB, Jiang L, Bonneau R, Kirshenbaum K, Renfrew PD. Evaluating the Conformations and Dynamics of Peptoid Macrocycles. J Phys Chem B 2022; 126:5161-5174. [PMID: 35820178 DOI: 10.1021/acs.jpcb.2c01669] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Peptoid macrocycles are versatile and chemically diverse peptidomimetic oligomers. However, the conformations and dynamics of these macrocycles have not been evaluated comprehensively and require extensive further investigation. Recent studies indicate that two degrees of freedom, and four distinct conformations, adequately describe the behavior of each monomer backbone unit in most peptoid oligomers. On the basis of this insight, we conducted molecular dynamics simulations of model macrocycles using an exhaustive set of idealized possible starting conformations. Simulations of various sizes of peptoid macrocycles yielded a limited set of populated conformations. In addition to reproducing all relevant experimentally determined conformations, the simulations accurately predicted a cyclo-octamer conformation for which we now present the first experimental observation. Sets of three adjacent dihedral angles (ϕi, ψi, ωi+1) exhibited correlated crankshaft motions over the course of simulation for peptoid macrocycles of six residues and larger. These correlated motions may occur in the form of an inversion of one amide bond and the concerted rotation of the preceding ϕ and ψ angles to their mirror-image conformation, a variation on "crankshaft flip" motions studied in polymers and peptides. The energy landscape of these peptoid macrocycles can be described as a network of conformations interconnected by transformations of individual crankshaft flips. For macrocycles of up to eight residues, our mapping of the landscape is essentially complete.
Collapse
Affiliation(s)
- James R B Eastwood
- Department of Chemistry, New York University, New York, New York 10003, United States
| | - Linhai Jiang
- Department of Chemistry, New York University, New York, New York 10003, United States
| | - Richard Bonneau
- Center for Data Science, New York University, New York, New York 10011, United States.,Center for Computational Biology, Flatiron Institute, New York, New York 10010 United States
| | - Kent Kirshenbaum
- Department of Chemistry, New York University, New York, New York 10003, United States
| | - P Douglas Renfrew
- Center for Computational Biology, Flatiron Institute, New York, New York 10010 United States
| |
Collapse
|
5
|
Wang H, Liu Y, Yu J, Luo Y, Wang L, Yang T, Raktani B, Lee H. Selectively Regulating the Chiral Morphology of Amino Acid-Assisted Chiral Gold Nanoparticles with Circularly Polarized Light. ACS APPLIED MATERIALS & INTERFACES 2022; 14:3559-3567. [PMID: 34982532 DOI: 10.1021/acsami.1c22191] [Citation(s) in RCA: 21] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Chiral nanomaterials have attracted increasing attention due to their versatile optical properties. Although circularly polarized (CP) light can serve as an inducer, it has negligible effects because of the short lifetime of the plasmonic states. Here, we propose that the site-selective chirality regulation on the morphology of cysteine (cys) amino acid-assisted chiral gold nanoparticles (cys-chiral AuNPs) can be realized through CP light irradiation. This can result in the increased or decreased circular dichroism (CD) signal intensity. The site-selective growth mechanism of the cys-chiral AuNPs is elucidated with light-matter interactions through the opposite rotation of right(R)/left(L) CP light. The site-selective chirality growth of the cys-chiral AuNPs is ascribed to the morphology evolution induced by the synergy of cys and R/L-CP light, which is clearly analyzed and elucidated with high CD intensities. This work provides a promising alternative strategy to produce high-chirality nanomaterials that can be applied in biomedicine and enantiomer photocatalytic reaction.
Collapse
Affiliation(s)
- Hongdan Wang
- Center for Integrated Nanostructure Physics (CINAP), Institute for Basic Science (IBS), Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Department of Chemistry, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
| | - Yang Liu
- Center for Integrated Nanostructure Physics (CINAP), Institute for Basic Science (IBS), Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Department of Chemistry, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
| | - Jianmin Yu
- Center for Integrated Nanostructure Physics (CINAP), Institute for Basic Science (IBS), Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Department of Chemistry, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
| | - Yongguang Luo
- Center for Integrated Nanostructure Physics (CINAP), Institute for Basic Science (IBS), Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Department of Chemistry, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
| | - Lingling Wang
- Center for Integrated Nanostructure Physics (CINAP), Institute for Basic Science (IBS), Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Department of Chemistry, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
| | - Taehun Yang
- Center for Integrated Nanostructure Physics (CINAP), Institute for Basic Science (IBS), Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Department of Chemistry, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
| | - Bikshapathi Raktani
- Center for Integrated Nanostructure Physics (CINAP), Institute for Basic Science (IBS), Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
| | - Hyoyoung Lee
- Center for Integrated Nanostructure Physics (CINAP), Institute for Basic Science (IBS), Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Department of Chemistry, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Department of Biophysics, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
- Creative Research Institute, Sungkyunkwan University, 2066 Seoburo, Jangan-gu, Suwon 16419, Korea
| |
Collapse
|
6
|
Ono S, Naylor MR, Townsend CE, Okumura C, Okada O, Lee HW, Lokey RS. Cyclosporin A: Conformational Complexity and Chameleonicity. J Chem Inf Model 2021; 61:5601-5613. [PMID: 34672629 DOI: 10.1021/acs.jcim.1c00771] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The chameleonic behavior of cyclosporin A (CsA) was investigated through conformational ensembles employing multicanonical molecular dynamics simulations that could sample the cis and trans isomers of N-methylated amino acids; these assessments were conducted in explicit water, dimethyl sulfoxide, acetonitrile, methanol, chloroform, cyclohexane (CHX), and n-hexane (HEX) using AMBER ff03, AMBER10:EHT, AMBER12:EHT, and AMBER14:EHT force fields. The conformational details were discussed employing the free-energy landscapes (FELs) at T = 300 K; it was observed that the experimentally determined structures of CsA were only a part of the conformational space. Comparing the ROESY measurements in CHX-d12 and HEX-d14, the major conformations in those apolar solvents were essentially the same as that in CDCl3 except for the observation of some sidechain rotamers. The effects of the metal ions on the conformations, including the cis/trans isomerization, were also investigated. Based on the analysis of FELs, it was concluded that the AMBER ff03 force field best described the experimentally derived conformations, indicating that CsA intrinsically formed membrane-permeable conformations and that the metal ions might be the key to the cis/trans isomerization of N-methylated amino acids before binding a partner protein.
Collapse
Affiliation(s)
- Satoshi Ono
- Modality Laboratories, Innovative Research Division, Mitsubishi Tanabe Pharma Corporation, 1000 Kamoshida-cho, Aoba-ku, Yokohama, Kanagawa 227-0033, Japan
| | - Matthew R Naylor
- Department of Chemistry and Biochemistry, University of California Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - Chad E Townsend
- Department of Chemistry and Biochemistry, University of California Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - Chieko Okumura
- Modality Laboratories, Innovative Research Division, Mitsubishi Tanabe Pharma Corporation, 1000 Kamoshida-cho, Aoba-ku, Yokohama, Kanagawa 227-0033, Japan
| | - Okimasa Okada
- Modality Laboratories, Innovative Research Division, Mitsubishi Tanabe Pharma Corporation, 1000 Kamoshida-cho, Aoba-ku, Yokohama, Kanagawa 227-0033, Japan
| | - Hsiau-Wei Lee
- Department of Chemistry and Biochemistry, University of California Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - R Scott Lokey
- Department of Chemistry and Biochemistry, University of California Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| |
Collapse
|
7
|
Schettini R, D'Amato A, Araszczuk AM, Della Sala G, Costabile C, D'Ursi AM, Grimaldi M, Izzo I, De Riccardis F. Structural dynamism of chiral sodium peraza-macrocycle complexes derived from cyclic peptoids. Org Biomol Chem 2021; 19:7420-7431. [PMID: 34397051 DOI: 10.1039/d1ob00733e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A variety of cyclen and hexacyclen derivatives decorated with (S)-1-phenylethyl side chains or (S)-pyrrolidine units have been prepared via a reductive approach from the corresponding cyclic peptoids containing N-(S)-(1-phenylethyl)glycine and l-proline residues. Spectroscopic and DFT studies on their Na+ complexes show that point chirality and ring size play a crucial role in controlling the structural dynamism of 1,2-diaminoethylene units and pendant arms. The detection of highly symmetric C4- and C3-symmetric metalated species demonstrates that a full understanding of the relationship between the structure and conformational properties of peraza-macrocyclic metal complexes is possible.
Collapse
Affiliation(s)
- Rosaria Schettini
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy. iizzo@unisa
| | | | | | | | | | | | | | | | | |
Collapse
|
8
|
Pierri G, Corno M, Macedi E, Voccia M, Tedesco C. Solid-State Conformational Flexibility at Work: Energetic Landscape of a Single Crystal-to-Single Crystal Transformation in a Cyclic Hexapeptoid. CRYSTAL GROWTH & DESIGN 2021; 21:897-907. [PMID: 33584152 PMCID: PMC7877721 DOI: 10.1021/acs.cgd.0c01244] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Revised: 01/05/2021] [Indexed: 05/10/2023]
Abstract
We describe the energetic landscape beyond the solid-state dynamic behavior of a cyclic hexapeptoid decorated with four propargyl and two methoxyethyl side chains, namely, cyclo-(Nme-Npa2)2, Nme = N-(methoxyethyl)glycine, Npa = N-(propargyl)glycine. By increasing the temperature above 40 °C, the acetonitrile solvate form 1A starts to release acetonitrile molecules and undergoes a reversible single crystal-to-single crystal transformation into crystal form 1B with a remarkable conformational change in the macrocycle: two propargyl side chains move by 113° to form an unprecedented "CH-π zipper". Then, upon acetonitrile adsorption, the "CH-π zipper" opens and the crystal form 1B transforms back to 1A. By conformational energy and lattice energy calculations, we demonstrate that the dramatic side-chain movement is a peculiar feature of the solid-state assembly and is determined by a backbone conformational change that leads to stabilizing CH···OC backbone-to-backbone interactions tightening the framework upon acetonitrile release. Weak interactions as CH···OC and CH-π bonds with the guest molecules are able to reverse the transformation, providing the energy contribution to unzip the framework. We believe that the underlined mechanism could be used as a model system to understand how external stimuli (as temperature, humidity, or volatile compounds) could determine conformational changes in the solid state.
Collapse
Affiliation(s)
- Giovanni Pierri
- Department
of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 84084 Fisciano, SA, Italy
| | - Marta Corno
- Department
of Chemistry and NIS (Nanostructured Interfaces and Surfaces) Center, University of Turin, Via P. Giuria 7, 10125 Turin, Italy
| | - Eleonora Macedi
- Department
of Pure and Applied Science, University
of Urbino “Carlo Bo”, Via della Stazione 4, 61029 Urbino, Italy
| | - Maria Voccia
- Department
of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 84084 Fisciano, SA, Italy
| | - Consiglia Tedesco
- Department
of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 84084 Fisciano, SA, Italy
| |
Collapse
|
9
|
D'Amato A, Schettini R, Pierri G, Izzo I, Grisi F, Tedesco C, De Riccardis F, Costabile C. Synthesis and characterization of new Na + complexes of N-benzyl cyclic peptoids and their role in the ring opening polymerization of l-lactide. NEW J CHEM 2021. [DOI: 10.1039/d0nj05931e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Na+ complexes of cyclic peptoid were employed for the first time as catalyst for the l-lactide polymerization.
Collapse
Affiliation(s)
- Assunta D'Amato
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA)
- Italy
| | - Rosaria Schettini
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA)
- Italy
| | - Giovanni Pierri
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA)
- Italy
| | - Irene Izzo
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA)
- Italy
| | - Fabia Grisi
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA)
- Italy
| | - Consiglia Tedesco
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA)
- Italy
| | - Francesco De Riccardis
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA)
- Italy
| | - Chiara Costabile
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA)
- Italy
| |
Collapse
|
10
|
Schettini R, Tosolini M, ur Rehman J, Shah MR, Pierri G, Tedesco C, Della Sala G, De Riccardis F, Tecilla P, Izzo I. Role of Lipophilicity in the Activity of Hexameric Cyclic Peptoid Ion Carriers. European J Org Chem 2020. [DOI: 10.1002/ejoc.202001401] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Rosaria Schettini
- Dipartimento di Chimica e Biologia “A. Zambelli” Università degli Studi di Salerno Via Giovanni Paolo II, 132 84084 Fisciano Salerno Italy
| | - Massimo Tosolini
- Dipartimento di Scienze Chimiche e Farmaceutiche Università degli Studi di Trieste Via Giorgieri 1 34127 Trieste Italy
| | - Jawad ur Rehman
- Dipartimento di Scienze Chimiche e Farmaceutiche Università degli Studi di Trieste Via Giorgieri 1 34127 Trieste Italy
- H.E. J. Research Institute of Chemistry International Center for Chemical and Biological Sciences University of Karachi Karachi 75270 Pakistan
| | - Muhammed Raza Shah
- H.E. J. Research Institute of Chemistry International Center for Chemical and Biological Sciences University of Karachi Karachi 75270 Pakistan
| | - Giovanni Pierri
- Dipartimento di Chimica e Biologia “A. Zambelli” Università degli Studi di Salerno Via Giovanni Paolo II, 132 84084 Fisciano Salerno Italy
| | - Consiglia Tedesco
- Dipartimento di Chimica e Biologia “A. Zambelli” Università degli Studi di Salerno Via Giovanni Paolo II, 132 84084 Fisciano Salerno Italy
| | - Giorgio Della Sala
- Dipartimento di Chimica e Biologia “A. Zambelli” Università degli Studi di Salerno Via Giovanni Paolo II, 132 84084 Fisciano Salerno Italy
| | - Francesco De Riccardis
- Dipartimento di Chimica e Biologia “A. Zambelli” Università degli Studi di Salerno Via Giovanni Paolo II, 132 84084 Fisciano Salerno Italy
| | - Paolo Tecilla
- Dipartimento di Matematica Geoscienze Università degli Studi di Trieste Via Weiss 8 34127 Trieste Italy
| | - Irene Izzo
- Dipartimento di Chimica e Biologia “A. Zambelli” Università degli Studi di Salerno Via Giovanni Paolo II, 132 84084 Fisciano Salerno Italy
| |
Collapse
|
11
|
D'Amato A, Ghosh P, Costabile C, Della Sala G, Izzo I, Maayan G, De Riccardis F. Peptoid-based siderophore mimics as dinuclear Fe 3+ chelators. Dalton Trans 2020; 49:6020-6029. [PMID: 32319496 DOI: 10.1039/d0dt00689k] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
A practical synthesis of preorganized tripodal enterobactin/corynebactin-type ligands (consisting of a C3-symmetric macrocyclic peptoid core, three catecholamide coordinating units, and C2, C4, and C6 spacers) is reported. The formation of complexes with Fe3+ was investigated by spectrophotometric (UV-Vis) and spectrometric (ESI, negative ionization mode) methods and corroborated by theoretical (DFT) calculations. Preliminary studies revealed the intricate interplay between the conformational chirality of cyclic trimeric peptoids and metal coordination geometry of mononuclear species similar to that of natural catechol-based siderophores. Experimental results demonstrated the unexpected formation of unique dinuclear Fe3+ complexes.
Collapse
Affiliation(s)
- Assunta D'Amato
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, Fisciano, SA 84084, Italy.
| | | | | | | | | | | | | |
Collapse
|
12
|
Affiliation(s)
- Francesco De Riccardis
- Department of Chemistry and Biology “A. Zambelli”; University of Salerno; Via Giovani Paolo II, 132 84084 Fisciano SA Italy
| |
Collapse
|
13
|
Schettini R, D'Amato A, Pierri G, Tedesco C, Della Sala G, Motta O, Izzo I, De Riccardis F. From Cyclic Peptoids to Peraza-macrocycles: A General Reductive Approach. Org Lett 2019; 21:7365-7369. [PMID: 31469569 DOI: 10.1021/acs.orglett.9b02668] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Peraza-macrocycles form chelates of high thermodynamic and kinetic stability useful in diagnostic imaging (MRI, SPECT, PET), in coordination chemistry, and as catalysts. In this letter, we report an advantageous method to prepare these compounds via BH3-induced reduction of cyclic peptoids. Using this procedure, 10 homo- and heterosubstituted aza-coronands, with different sizes and side chains, have been synthesized from the corresponding cyclic oligoamides. Solid structures of free, protonated, and Na+ coordinated polyaza-derivatives have been disclosed by single-crystal X-ray diffraction analysis.
Collapse
Affiliation(s)
- Rosaria Schettini
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , via Giovanni Paolo II, 132 , Fisciano ( SA ), 84084 , Italy
| | - Assunta D'Amato
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , via Giovanni Paolo II, 132 , Fisciano ( SA ), 84084 , Italy
| | - Giovanni Pierri
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , via Giovanni Paolo II, 132 , Fisciano ( SA ), 84084 , Italy
| | - Consiglia Tedesco
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , via Giovanni Paolo II, 132 , Fisciano ( SA ), 84084 , Italy
| | - Giorgio Della Sala
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , via Giovanni Paolo II, 132 , Fisciano ( SA ), 84084 , Italy
| | - Oriana Motta
- Department of Medicine, Surgery and Dentistry "Scuola Medica Salernitana" , University of Salerno , via S. Allende, Baronissi , Salerno ( SA ), 84081 , Italy
| | - Irene Izzo
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , via Giovanni Paolo II, 132 , Fisciano ( SA ), 84084 , Italy
| | - Francesco De Riccardis
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , via Giovanni Paolo II, 132 , Fisciano ( SA ), 84084 , Italy
| |
Collapse
|
14
|
D'Amato A, Pierri G, Tedesco C, Della Sala G, Izzo I, Costabile C, De Riccardis F. Reverse Turn and Loop Secondary Structures in Stereodefined Cyclic Peptoid Scaffolds. J Org Chem 2019; 84:10911-10928. [PMID: 31339718 DOI: 10.1021/acs.joc.9b01509] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Controlling the network of intramolecular interactions encoded by Nα-chiral side chains and the equilibria between cis- and trans-amide junctions in cyclic peptoid architectures constitutes a significant challenge for the construction of stable reverse turn and loop structures. In this contribution, we reveal, with the support of NMR spectroscopy, single-crystal X-ray crystallography and density functional theory calculations, the relevant noncovalent interactions stabilizing tri-, tetra-, hexa-, and octameric cyclic peptoids (as free hosts and host-guest complexes) with strategically positioned N-(S)-(1-phenylethyl)/N-benzyl side chains, and how these interactions influence the backbone topological order. With the help of theoretical models and spectroscopic/diffractometric studies, we disclose new γ-/β-turn and loop structures present in α-peptoid-based macrocycles and classify them according ϕ, ψ, and ω torsion angles. In our endeavor to characterize emergent secondary structures, we solved the solid-state structure of the largest metallated cyclic peptoid ever reported, characterized by an unprecedented alternated cis/trans amide bond linkage. Overall, our results indicate that molecules endowed with different elements of asymmetry (central and conformational) provide new architectural elements of facile atroposelective construction and broad conformational stability as the minimalist scaffold for novel stereodefined peptidomimetic foldamers and topologically biased libraries necessary for future application of peptoids in all fields of science.
Collapse
Affiliation(s)
- Assunta D'Amato
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , Via Giovanni Paolo II, 132 , Fisciano , Salerno 84084 Italy
| | - Giovanni Pierri
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , Via Giovanni Paolo II, 132 , Fisciano , Salerno 84084 Italy
| | - Consiglia Tedesco
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , Via Giovanni Paolo II, 132 , Fisciano , Salerno 84084 Italy
| | - Giorgio Della Sala
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , Via Giovanni Paolo II, 132 , Fisciano , Salerno 84084 Italy
| | - Irene Izzo
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , Via Giovanni Paolo II, 132 , Fisciano , Salerno 84084 Italy
| | - Chiara Costabile
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , Via Giovanni Paolo II, 132 , Fisciano , Salerno 84084 Italy
| | - Francesco De Riccardis
- Department of Chemistry and Biology "A. Zambelli" , University of Salerno , Via Giovanni Paolo II, 132 , Fisciano , Salerno 84084 Italy
| |
Collapse
|
15
|
Agnew HD, Coppock MB, Idso MN, Lai BT, Liang J, McCarthy-Torrens AM, Warren CM, Heath JR. Protein-Catalyzed Capture Agents. Chem Rev 2019; 119:9950-9970. [PMID: 30838853 DOI: 10.1021/acs.chemrev.8b00660] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Protein-catalyzed capture agents (PCCs) are synthetic and modular peptide-based affinity agents that are developed through the use of single-generation in situ click chemistry screens against large peptide libraries. In such screens, the target protein, or a synthetic epitope fragment of that protein, provides a template for selectively promoting the noncopper catalyzed azide-alkyne dipolar cycloaddition click reaction between either a library peptide and a known ligand or a library peptide and the synthetic epitope. The development of epitope-targeted PCCs was motivated by the desire to fully generalize pioneering work from the Sharpless and Finn groups in which in situ click screens were used to develop potent, divalent enzymatic inhibitors. In fact, a large degree of generality has now been achieved. Various PCCs have demonstrated utility for selective protein detection, as allosteric or direct inhibitors, as modulators of protein folding, and as tools for in vivo tumor imaging. We provide a historical context for PCCs and place them within the broader scope of biological and synthetic aptamers. The development of PCCs is presented as (i) Generation I PCCs, which are branched ligands engineered through an iterative, nonepitope-targeted process, and (ii) Generation II PCCs, which are typically developed from macrocyclic peptide libraries and are precisely epitope-targeted. We provide statistical comparisons of Generation II PCCs relative to monoclonal antibodies in which the protein target is the same. Finally, we discuss current challenges and future opportunities of PCCs.
Collapse
Affiliation(s)
- Heather D Agnew
- Indi Molecular, Inc. , 6162 Bristol Parkway , Culver City , California 90230 , United States
| | - Matthew B Coppock
- Sensors and Electron Devices Directorate , U.S. Army Research Laboratory , Adelphi , Maryland 20783 , United States
| | - Matthew N Idso
- Institute for Systems Biology , 401 Terry Avenue North , Seattle , Washington 98109-5234 , United States
| | - Bert T Lai
- Indi Molecular, Inc. , 6162 Bristol Parkway , Culver City , California 90230 , United States
| | - JingXin Liang
- Institute for Systems Biology , 401 Terry Avenue North , Seattle , Washington 98109-5234 , United States
| | - Amy M McCarthy-Torrens
- Institute for Systems Biology , 401 Terry Avenue North , Seattle , Washington 98109-5234 , United States
| | - Carmen M Warren
- Indi Molecular, Inc. , 6162 Bristol Parkway , Culver City , California 90230 , United States
| | - James R Heath
- Institute for Systems Biology , 401 Terry Avenue North , Seattle , Washington 98109-5234 , United States
| |
Collapse
|
16
|
Brahm K, Wack JS, Eckes S, Engemann V, Schmitz K. Macrocyclization enhances affinity of chemokine‐binding peptoids. Biopolymers 2018; 110:e23244. [DOI: 10.1002/bip.23244] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2018] [Revised: 10/25/2018] [Accepted: 11/07/2018] [Indexed: 01/27/2023]
Affiliation(s)
- Kevin Brahm
- Clemens‐Schöpf‐Institute of Organic Chemistry and BiochemistryTU Darmstadt Darmstadt Germany
| | - Julia S. Wack
- Clemens‐Schöpf‐Institute of Organic Chemistry and BiochemistryTU Darmstadt Darmstadt Germany
| | - Stefanie Eckes
- Clemens‐Schöpf‐Institute of Organic Chemistry and BiochemistryTU Darmstadt Darmstadt Germany
| | - Victoria Engemann
- Clemens‐Schöpf‐Institute of Organic Chemistry and BiochemistryTU Darmstadt Darmstadt Germany
| | - Katja Schmitz
- Clemens‐Schöpf‐Institute of Organic Chemistry and BiochemistryTU Darmstadt Darmstadt Germany
| |
Collapse
|
17
|
Schettini R, Costabile C, Della Sala G, Iuliano V, Tedesco C, Izzo I, De Riccardis F. Cation-Induced Molecular Switching Based on Reversible Modulation of Peptoid Conformational States. J Org Chem 2018; 83:12648-12663. [DOI: 10.1021/acs.joc.8b01990] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Rosaria Schettini
- Department of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 132, Fisciano, Salerno 84084, Italy
| | - Chiara Costabile
- Department of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 132, Fisciano, Salerno 84084, Italy
| | - Giorgio Della Sala
- Department of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 132, Fisciano, Salerno 84084, Italy
| | - Veronica Iuliano
- Department of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 132, Fisciano, Salerno 84084, Italy
| | - Consiglia Tedesco
- Department of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 132, Fisciano, Salerno 84084, Italy
| | - Irene Izzo
- Department of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 132, Fisciano, Salerno 84084, Italy
| | - Francesco De Riccardis
- Department of Chemistry and Biology “A. Zambelli”, University of Salerno, Via Giovanni Paolo II, 132, Fisciano, Salerno 84084, Italy
| |
Collapse
|
18
|
D'Amato A, Della Sala G, Izzo I, Costabile C, Masuda Y, De Riccardis F. Cyclic Octamer Peptoids: Simplified Isosters of Bioactive Fungal Cyclodepsipeptides. Molecules 2018; 23:molecules23071779. [PMID: 30029532 PMCID: PMC6100324 DOI: 10.3390/molecules23071779] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2018] [Revised: 07/13/2018] [Accepted: 07/14/2018] [Indexed: 12/17/2022] Open
Abstract
Cyclic peptoids have recently emerged as an important class of bioactive scaffolds with unique conformational properties and excellent metabolic stabilities. In this paper, we describe the design and synthesis of novel cyclic octamer peptoids as simplified isosters of mycotoxin depsipeptides bassianolide, verticilide A1, PF1022A and PF1022B. We also examine their complexing abilities in the presence of sodium tetrakis[3,5-bis(trifluoromethyl)phenyl]borate (TFPB) salt and explore their general insecticidal activity. Finally, we discuss the possible relationship between structural features of free and Na⁺-complexed cyclic octamer peptoids and bioactivities in light of conformational isomerism, a crucial factor affecting cyclic peptoids' biomimetic potentials.
Collapse
Affiliation(s)
- Assunta D'Amato
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, 84084 Fisciano, Italy.
| | - Giorgio Della Sala
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, 84084 Fisciano, Italy.
| | - Irene Izzo
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, 84084 Fisciano, Italy.
| | - Chiara Costabile
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, 84084 Fisciano, Italy.
| | - Yuichi Masuda
- Graduate School of Bioresources, Mie University, 1577 Kurimamachiya-cho, Tsu 514-8507, Japan.
| | - Francesco De Riccardis
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, Via Giovanni Paolo II, 132, 84084 Fisciano, Italy.
| |
Collapse
|
19
|
Abstract
Over the past two decades, developing medical applications for peptides has, and continues to be a highly active area of research. At present there are over 60 peptide-based drugs on the market and more than 140 in various stages of clinical trials. The interest in peptide-based therapeutics arises from their biocompatibility and their ability to form defined secondary and tertiary structures, resulting in a high selectivity for complex targets. However, there are significant challenges associated with the development of peptide-based therapeutics, namely peptides are readily metabolised in vivo. Peptoids are an emerging class of peptidomimetic and they offer an alternative to peptides. Peptoids are comprised of N-substituted glycines where side-chains are located on the nitrogen atom of the amide backbone rather than the α-carbon as is the case in peptides. This change in structure confers a high degree of resistance to proteolytic degradation but the absence of any backbone hydrogen bonding means that peptoids exhibit a high degree of conformational flexibility. Cyclisation has been explored as one possible route to rigidify peptoid structures, making them more selective, and, therefore more desirable as potential therapeutics. This review outlines the various strategies that have been developed over the last decade to access new types of macrocyclic peptoids.
Collapse
Affiliation(s)
| | - Steven L. Cobb
- Department of ChemistryDurham UniversitySouth RoadDurhamDH1 3LEUK
| |
Collapse
|
20
|
D'Amato A, Pierri G, Costabile C, Della Sala G, Tedesco C, Izzo I, De Riccardis F. Cyclic Peptoids as Topological Templates: Synthesis via Central to Conformational Chirality Induction. Org Lett 2018; 20:640-643. [PMID: 29341622 DOI: 10.1021/acs.orglett.7b03786] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Chiral induction was utilized for the synthesis of diastereopure cyclic peptoids containing an N-benzyl alanine residue. Molecular modeling, NMR spectroscopy, single-crystal X-ray diffraction studies, and HPLC with chiral stationary phase demonstrated easy formation of free and sodium/benzylammonium complexed cyclic oligomers through strategic incorporation of a single stereogenic center in the oligomeric backbone. The synthesis of cyclic peptoids with defined conformational chirality and appropriate side chain topology is now possible.
Collapse
Affiliation(s)
- Assunta D'Amato
- Department of Chemistry and Biology "A. Zambelli", University of Salerno , Via Giovanni Paolo II, 132, Fisciano (SA), 84084, Italy
| | - Giovanni Pierri
- Department of Chemistry and Biology "A. Zambelli", University of Salerno , Via Giovanni Paolo II, 132, Fisciano (SA), 84084, Italy
| | - Chiara Costabile
- Department of Chemistry and Biology "A. Zambelli", University of Salerno , Via Giovanni Paolo II, 132, Fisciano (SA), 84084, Italy
| | - Giorgio Della Sala
- Department of Chemistry and Biology "A. Zambelli", University of Salerno , Via Giovanni Paolo II, 132, Fisciano (SA), 84084, Italy
| | - Consiglia Tedesco
- Department of Chemistry and Biology "A. Zambelli", University of Salerno , Via Giovanni Paolo II, 132, Fisciano (SA), 84084, Italy
| | - Irene Izzo
- Department of Chemistry and Biology "A. Zambelli", University of Salerno , Via Giovanni Paolo II, 132, Fisciano (SA), 84084, Italy
| | - Francesco De Riccardis
- Department of Chemistry and Biology "A. Zambelli", University of Salerno , Via Giovanni Paolo II, 132, Fisciano (SA), 84084, Italy
| |
Collapse
|
21
|
Schettini R, Costabile C, Della Sala G, Buirey J, Tosolini M, Tecilla P, Vaccaro MC, Bruno I, De Riccardis F, Izzo I. Tuning the biomimetic performances of 4-hydroxyproline-containing cyclic peptoids. Org Biomol Chem 2018; 16:6708-6717. [DOI: 10.1039/c8ob01522h] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Five new cyclic peptoids containing (2S,4R)-4-hydroxyproline (Hyp) residues have been designed and synthesized using a mixed “submonomer/monomer” approach.
Collapse
Affiliation(s)
- R. Schettini
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA) 84084
- Italy
| | - C. Costabile
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA) 84084
- Italy
| | - G. Della Sala
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA) 84084
- Italy
| | - J. Buirey
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA) 84084
- Italy
| | - M. Tosolini
- Department of Chemical and Pharmaceutical Sciences
- University of Trieste
- Trieste 34127
- Italy
| | - P. Tecilla
- Department of Chemical and Pharmaceutical Sciences
- University of Trieste
- Trieste 34127
- Italy
| | - M. C. Vaccaro
- Department of Pharmacy
- University of Salerno
- Fisciano (SA) 84084
- Italy
| | - I. Bruno
- Department of Pharmacy
- University of Salerno
- Fisciano (SA) 84084
- Italy
| | - F. De Riccardis
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA) 84084
- Italy
| | - I. Izzo
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano (SA) 84084
- Italy
| |
Collapse
|