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Tominaga M, Kawanishi Y, Hyodo T, Kawahata M, Yamaguchi K. One-dimensional architectures built from adamantane-bearing macrocycles with multiple propargyl groups. Tetrahedron 2022. [DOI: 10.1016/j.tet.2022.133122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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2
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Pierri G, Schettini R, Summa FF, De Riccardis F, Monaco G, Izzo I, Tedesco C. Right- and left-handed PPI helices in cyclic dodecapeptoids. Chem Commun (Camb) 2022; 58:5253-5256. [PMID: 35388839 DOI: 10.1039/d2cc00682k] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Enantiomorphic right- and left-handed polyproline type I helices in four cyclic dodecapeptoids with methoxyethyl and propargyl side chains are observed for the first time by single crystal X-ray diffraction. The peculiar absence of NH⋯OC hydrogen bonds in peptoids unveils the role of intramolecular backbone-to-backbone CO⋯CO interactions and CH⋯OC hydrogen bonds in the stabilization of the macrocycle conformation. Moreover, intramolecular backbone-side chain C5 CH⋯OC hydrogen bonds emerge as a stabilizing factor.
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Affiliation(s)
- Giovanni Pierri
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, I-84084 Fisciano, Italy.
| | - Rosaria Schettini
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, I-84084 Fisciano, Italy.
| | - Francesco F Summa
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, I-84084 Fisciano, Italy.
| | - Francesco De Riccardis
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, I-84084 Fisciano, Italy.
| | - Guglielmo Monaco
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, I-84084 Fisciano, Italy.
| | - Irene Izzo
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, I-84084 Fisciano, Italy.
| | - Consiglia Tedesco
- Department of Chemistry and Biology "A. Zambelli", University of Salerno, via Giovanni Paolo II, 132, I-84084 Fisciano, Italy.
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3
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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.
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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
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4
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Affiliation(s)
- Francesco De Riccardis
- Department of Chemistry and Biology “A. Zambelli”; University of Salerno; Via Giovani Paolo II, 132 84084 Fisciano SA Italy
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5
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Pierri G, Schettini R, Nuss J, Dinnebier RE, De Riccardis F, Izzo I, Tedesco C. Cyclic hexapeptoids with N-alkyl side chains: solid-state assembly and thermal behaviour. CrystEngComm 2020. [DOI: 10.1039/d0ce01136c] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
The solid state assembly of two cyclic hexapeptoids decorated respectively with five and six carbon N-alkyl side chains is analyzed by X-ray diffraction, intermolecular energies and lattice energy calculations.
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Affiliation(s)
- Giovanni Pierri
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
| | - Rosaria Schettini
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
| | - Jürgen Nuss
- Max Planck Institute for Solid State Research
- Stuttgart
- Germany
| | | | - Francesco De Riccardis
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
| | - Irene Izzo
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
| | - Consiglia Tedesco
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
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6
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Zeng G, Qiu L, Wen T. Recent advances in crystallization and self‐assembly of polypeptoid polymers. POLYMER CRYSTALLIZATION 2019. [DOI: 10.1002/pcr2.10065] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Guangjian Zeng
- South China Advanced Institute for Soft Matter Science and TechnologySouth China University of Technology Guangzhou China
| | - Lu Qiu
- South China Advanced Institute for Soft Matter Science and TechnologySouth China University of Technology Guangzhou China
| | - Tao Wen
- South China Advanced Institute for Soft Matter Science and TechnologySouth China University of Technology Guangzhou China
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7
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Spencer RK, Butterfoss GL, Edison JR, Eastwood JR, Whitelam S, Kirshenbaum K, Zuckermann RN. Stereochemistry of polypeptoid chain configurations. Biopolymers 2019; 110:e23266. [DOI: 10.1002/bip.23266] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2018] [Revised: 01/31/2019] [Accepted: 02/05/2019] [Indexed: 12/13/2022]
Affiliation(s)
- Ryan K. Spencer
- Department of Chemistry University of California Irvine California
- Department of Chemical Engineering & Materials Science University of California Irvine California
| | - Glenn L. Butterfoss
- Center for Genomics and Systems Biology New York University Abu Dhabi Abu Dhabi United Arab Emirates
| | - John R. Edison
- Martin A Fisher School of Physics Brandeis University Waltham Massachusetts
- Molecular Foundry Lawrence Berkeley National Laboratory Berkeley California
| | | | - Stephen Whitelam
- Molecular Foundry Lawrence Berkeley National Laboratory Berkeley California
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8
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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
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9
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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.
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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.
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Tedesco C, Macedi E, Meli A, Pierri G, Della Sala G, Drathen C, Fitch AN, Vaughan GBM, Izzo I, De Riccardis F. Synthesis, crystallization, X-ray structural characterization and solid-state assembly of a cyclic hexapeptoid with propargyl and methoxyethyl side chains. ACTA CRYSTALLOGRAPHICA SECTION B-STRUCTURAL SCIENCE CRYSTAL ENGINEERING AND MATERIALS 2017; 73:399-412. [DOI: 10.1107/s2052520617002505] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2016] [Accepted: 02/13/2017] [Indexed: 05/29/2023]
Abstract
The synthesis and the structural characterization of a cyclic hexapeptoid with four methoxyethyl and two propargyl side chains have disclosed the presence of a hydrate crystal form [form (I)] and an anhydrous crystal form [form (II)]. The relative amounts of form (I) and form (II) in the as-purified product were determined by Rietveld refinement and depend on the purification procedures. In crystal form (I), peptoid molecules assemble in a columnar arrangement by means of side-chain-to-backbone C=CH...OC hydrogen bonds. In the anhydrous crystal form (II), cyclopeptoid molecules form ribbons by means of backbone-to-backbone CH2...OC hydrogen bonds, thus mimicking β-sheet secondary structures in proteins. In both crystal forms side chains act as joints among the columns or the ribbons and contribute to the stability of the whole solid-state assembly. Water molecules in the hydrate crystal form (I) bridge columns of cyclic peptoid molecules, providing a more efficient packing.
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D'Amato A, Schettini R, Della Sala G, Costabile C, Tedesco C, Izzo I, De Riccardis F. Conformational isomerism in cyclic peptoids and its specification. Org Biomol Chem 2017; 15:9932-9942. [DOI: 10.1039/c7ob02643a] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Conformational chirality is an emerging and neglected property of rigid cyclic peptoids determining structural, catalytic, and biological properties. The present contribution analyzes its impact and sets the configurational rules to define it.
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Affiliation(s)
- A. D'Amato
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - R. Schettini
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - G. Della Sala
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - C. Costabile
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - C. Tedesco
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - I. Izzo
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - F. De Riccardis
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
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12
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Macedi E, Meli A, De Riccardis F, Rossi P, Smith VJ, Barbour LJ, Izzo I, Tedesco C. Molecular recognition and solvatomorphism of a cyclic peptoid: formation of a stable 1D porous framework. CrystEngComm 2017. [DOI: 10.1039/c7ce01077j] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Molecular aggregation and the hydrophobic effect explain the solvatomorphism and sorption behavior of a cyclic hexapeptoid.
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Affiliation(s)
- Eleonora Macedi
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
| | - Alessandra Meli
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
| | - Francesco De Riccardis
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
| | - Patrizia Rossi
- Department of Industrial Engineering
- University of Florence
- I-50139 Florence
- Italy
| | - Vincent J. Smith
- Department of Chemistry and Polymer Science
- University of Stellenbosch
- Stellenbosch
- South Africa
| | - Leonard J. Barbour
- Department of Chemistry and Polymer Science
- University of Stellenbosch
- Stellenbosch
- South Africa
| | - Irene Izzo
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
| | - Consiglia Tedesco
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- 84084 Fisciano (SA)
- Italy
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