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Wada SI, Shibaike A, Hayashi J, Urata H. Influence of Aib-Containing Amphipathic Helical Chain Length in MAP(Aib)-cRGD as Carrier for siRNA Delivery. Chem Biodivers 2021; 19:e202100728. [PMID: 34842340 DOI: 10.1002/cbdv.202100728] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2021] [Accepted: 11/29/2021] [Indexed: 11/09/2022]
Abstract
MAP(Aib)-cRGD, which is a conjugate of an α-aminoisobutyric acid (Aib)-containing amphipathic helical peptide [MAP(Aib)] with a αv β3 integrin binding ligand, cRGD, at the C-terminus of the helical peptide, has been developed for siRNA delivery into cells. In this work, we synthesized three peptides containing 19 (PI), 18 (PII), and 17 (PIII) amino acid residues in the helical peptide, which lack Aib, Leu-Aib, and Lys-Leu-Aib residues present in the C-terminus of the helical peptide of the parent MAP(Aib)-cRGD, respectively. MAP(Aib)-cRGD showed the siRNA delivery into cells and the RNAi effect both in the presence and in the absence of serum in reaction media. In contrast, PI delivered siRNA into cells, and this was followed by the RNAi effect in only serum-free reaction media. On the other hand, siRNA delivery was abolished by the further reduction of the number of residues (PII and PIII) in the C-terminus. Our data indicate that the Aib-containing helical part requires 20 residues in the conjugation of the helical peptide with cRGD for the construction of carrier for siRNA delivery into cells.
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Affiliation(s)
- Shun-Ichi Wada
- Department of Bioorganic Chemistry, Faculty of Pharmacy, Osaka Medical and Pharmaceutical University, 4-20-1 Nasahara, Takatsuki, Osaka, 569-1094, Japan
| | - Akira Shibaike
- Department of Bioorganic Chemistry, Faculty of Pharmacy, Osaka Medical and Pharmaceutical University, 4-20-1 Nasahara, Takatsuki, Osaka, 569-1094, Japan
| | - Junsuke Hayashi
- Department of Bioorganic Chemistry, Faculty of Pharmacy, Osaka Medical and Pharmaceutical University, 4-20-1 Nasahara, Takatsuki, Osaka, 569-1094, Japan
| | - Hidehito Urata
- Department of Bioorganic Chemistry, Faculty of Pharmacy, Osaka Medical and Pharmaceutical University, 4-20-1 Nasahara, Takatsuki, Osaka, 569-1094, Japan
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2
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Yoshimura A, Nishimura S, Suzuki T, Hattori A, Dohmae N, Kato T, Kakeya H. Isolation, Structure Elucidation, and Conformational Regulation of Myropeptins, Lipopeptides from the Fungus Myrothecium roridum. Org Lett 2019; 21:7524-7528. [PMID: 31497968 DOI: 10.1021/acs.orglett.9b02801] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Myropeptins, novel lipopeptides, were isolated from the culture broth of a fungus Myrothecium roridum F27113. Myropeptin A1 comprises a linear 20 amino acid-peptide chain and a lauric acid capping the N-terminus. Myropeptin A1 formed a helix structure and showed biological activities including antifungal and hemolysis. Myropeptin B, a shorter analogue by two amino acid residues, showed neither helicity nor biological activity. These two amino acids at the C-terminus regulate the molecular function of myropeptin A1.
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Affiliation(s)
- Aya Yoshimura
- Department of System Chemotherapy and Molecular Sciences, Division of Bioinformatics and Chemical Genomics, Graduate School of Pharmaceutical Sciences , Kyoto University , Kyoto 606-8501 , Japan
| | - Shinichi Nishimura
- Department of System Chemotherapy and Molecular Sciences, Division of Bioinformatics and Chemical Genomics, Graduate School of Pharmaceutical Sciences , Kyoto University , Kyoto 606-8501 , Japan
| | - Takehiro Suzuki
- Biomolecular Characterization Unit , RIKEN Center for Sustainable Resource Science , 2-1 Hirosawa , Wako , Saitama 351-0198 , Japan
| | - Akira Hattori
- Department of System Chemotherapy and Molecular Sciences, Division of Bioinformatics and Chemical Genomics, Graduate School of Pharmaceutical Sciences , Kyoto University , Kyoto 606-8501 , Japan
| | - Naoshi Dohmae
- Biomolecular Characterization Unit , RIKEN Center for Sustainable Resource Science , 2-1 Hirosawa , Wako , Saitama 351-0198 , Japan
| | - Taira Kato
- Research & Development Division , MicroBioPharm Japan Co., Ltd. , 156 Nakagawara , Kiyosu-shi , Aichi 452-0915 , Japan
| | - Hideaki Kakeya
- Department of System Chemotherapy and Molecular Sciences, Division of Bioinformatics and Chemical Genomics, Graduate School of Pharmaceutical Sciences , Kyoto University , Kyoto 606-8501 , Japan
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3
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Wada SI, Iwata M, Ozaki Y, Ozaki T, Hayashi J, Urata H. Design of cyclic RGD-conjugated Aib-containing amphipathic helical peptides for targeted delivery of small interfering RNA. Bioorg Med Chem 2016; 24:4478-4485. [DOI: 10.1016/j.bmc.2016.07.040] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2016] [Revised: 07/19/2016] [Accepted: 07/20/2016] [Indexed: 01/03/2023]
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4
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Maffucci I, Clayden J, Contini A. Origin of Helical Screw Sense Selectivity Induced by Chiral Constrained Cα-Tetrasubstituted α-Amino Acids in Aib-based Peptides. J Phys Chem B 2015; 119:14003-13. [PMID: 26457452 DOI: 10.1021/acs.jpcb.5b07050] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
The mechanisms behind the propensity of chiral constrained Cα-tetrasubstituted amino acids (cCTAAs) to induce one particular helical screw sense, when included in the Ac-Aib2-cCTAA-Aib2-NHMe peptide model, were studied through replica exchange molecular dynamics, potential of mean force, and quantum theory of atoms in molecules calculations. We observed that cCTAAs exert their effect on helical screw sense selectivity through the positioning of the side chain to generate steric hindrance in either the (-x, +y, +z) or (+x, +y, -z) sectors of a right-handed 3D Cartesian space, where the z axis corresponds to the axis of the helix and the Cα lies on the +y semiaxis (0, +y, 0). The different strengthening of the noncovalent interactions, also comprising C-H···O interactions, exerted by the cCTAA in the right-handed or left-handed helix was also found important to define the preference of a cCTAA for a particular helix screw sense.
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Affiliation(s)
- Irene Maffucci
- Dipartimento di Scienze Farmaceutiche - Sezione di Chimica Generale e Organica "Alessandro Marchesini", Università degli Studi di Milano , Via Venezian, 21, 20133 Milano, Italy
| | - Jonathan Clayden
- School of Chemistry, University of Manchester , Oxford Road, Manchester M13 9PL, U.K
| | - Alessandro Contini
- Dipartimento di Scienze Farmaceutiche - Sezione di Chimica Generale e Organica "Alessandro Marchesini", Università degli Studi di Milano , Via Venezian, 21, 20133 Milano, Italy
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5
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Wada SI, Urase T, Hasegawa Y, Ban K, Sudani A, Kawai Y, Hayashi J, Urata H. Aib-containing peptide analogs: cellular uptake and utilization in oligonucleotide delivery. Bioorg Med Chem 2015; 22:6776-80. [PMID: 25468041 DOI: 10.1016/j.bmc.2014.10.040] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2014] [Revised: 10/28/2014] [Accepted: 10/30/2014] [Indexed: 02/05/2023]
Abstract
α-Aminoisobutyric acid (Aib)-containing peptide analogs derived from TV-XIIa, a cell-penetrating peptide (CPP), were synthesized to explore structure-activity relationships. The replacement of Aib at position 1, 5, or 9 in the TV-XIIa amino acid sequence with alanine (Ala) suppressed the cellular uptake,whereas the simultaneous substitution of the two proline (Pro) residues at positions 6 and 10 with Aib(P-IV) considerably increased the cellular uptake. In order to explore the potential use of the Aib-containing peptide analogs for the cellular delivery of oligonucleotides (ODNs), we synthesized a covalent conjugate (P-IV-AON) of a 15-mer antisense ODN, which is complementary to luciferase gene, with P-IV, and the antisense effect of the P-IV-AON conjugate on luciferase expression in A549 cells was examined. Luciferase expression was decreased in the presence of the conjugate upon treatment with the reaction buffer at the concentrations of 5 and 10 μM.
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De Poli M, Byrne L, Brown RA, Solà J, Castellanos A, Boddaert T, Wechsel R, Beadle JD, Clayden J. Engineering the Structure of an N-Terminal β-Turn To Maximize Screw-Sense Preference in Achiral Helical Peptide Chains. J Org Chem 2014; 79:4659-75. [DOI: 10.1021/jo500714b] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Matteo De Poli
- School
of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, U.K
| | - Liam Byrne
- School
of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, U.K
| | - Robert A. Brown
- School
of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, U.K
| | - Jordi Solà
- School
of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, U.K
| | | | - Thomas Boddaert
- School
of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, U.K
| | - Romina Wechsel
- School
of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, U.K
| | - Jonathan D. Beadle
- School
of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, U.K
| | - Jonathan Clayden
- School
of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, U.K
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Zotti MD, Formaggio F, Crisma M, Peggion C, Moretto A, Toniolo C. Handedness preference and switching of peptide helices. Part I: Helices based on protein amino acids. J Pept Sci 2014; 20:307-22. [DOI: 10.1002/psc.2638] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2014] [Revised: 03/17/2014] [Accepted: 03/18/2014] [Indexed: 12/20/2022]
Affiliation(s)
- Marta De Zotti
- Department of Chemistry; University of Padua; Padua Italy
| | | | | | | | | | - Claudio Toniolo
- Department of Chemistry; University of Padua; Padua Italy
- ICB, Padua Unit; CNR; Italy
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8
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Huang Y, Pan L, Zhao L, Mant CT, Hodges RS, Chen Y. Structure-guided RP-HPLC chromatography of diastereomeric α-helical peptide analogs substituted with single amino acid stereoisomers. Biomed Chromatogr 2013; 28:511-7. [PMID: 24127254 DOI: 10.1002/bmc.3061] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2013] [Revised: 09/04/2013] [Accepted: 09/06/2013] [Indexed: 11/06/2022]
Abstract
An α-helical model peptide (Ac-EAEKAAKE-X-EKAAKEAEK-amide) was used as a template to examine the efficacy of conventional reversed-phase high-performance liquid chromatography (RP-HPLC) in separating peptide analogs with single substitutions (at position X) of diasteromeric amino acids Ile, allo-Ile, d-Ile and d-allo-Ile. We compared differences in peptide retention behavior on a C8 column and a C18 column at different temperatures. We demonstrated how subtle differences in peptide secondary structure affected by the different substitutions of amino acids with identical overall hydrophobicity enabled effective resolution of these peptide analogs. We also demonstrated the ability of RP-HPLC to separate Ile- and allo-Ile-substituted analogs of a 26-residue α-helical antimicrobial peptide (AMP), with the substitution site towards the C-terminus of the α-helix. These peptides show different values of antibacterial activity and hemolytic activity, and different selectivity against bacteria and human cells. Our results underline the ability of RP-HPLC to resolve even difficult diasteromeric peptide mixtures as well as its value in monitoring very subtle hydrophobicity changes in de novo-designed AMP.
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Affiliation(s)
- Yibing Huang
- Key Laboratory for Molecular Enzymology and Engineering of the Ministry of Education, Jilin University, 2699 QianJin Street, Changchun, 130012, China; National Engineering Laboratory for AIDS Vaccine, Jilin University, 2699 QianJin Street, Changchun, 130012, China; School of Life Sciences, Jilin University, 2699 QianJin Street, Changchun, 130012, China
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Demizu Y, Doi M, Kurihara M, Maruyama T, Suemune H, Tanaka M. One-Handed Helical Screw Direction of Homopeptide Foldamer Exclusively Induced by Cyclic α-Amino Acid Side-Chain Chiral Centers. Chemistry 2012; 18:2430-9. [DOI: 10.1002/chem.201102902] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2011] [Indexed: 11/11/2022]
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10
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Konar AD. mABA inserted supramolecular triple helix formation in the solid state in synthetic tripeptides containing β-cyanoalanine and Aib as corner residues. CrystEngComm 2012. [DOI: 10.1039/c2ce25527h] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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11
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Nagano M, Tanaka M, Doi M, Demizu Y, Kurihara M, Suemune H. Helical-screw directions of diastereoisomeric cyclic alpha-amino acid oligomers. Org Lett 2010; 11:1135-7. [PMID: 19191578 DOI: 10.1021/ol802963a] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Two series of homooligomers composed of diastereoisomeric cyclic alpha-amino acids having two chiral centers at the alpha-carbon and the side chain were synthesized, and their preferred secondary structures were studied in solution and in the crystal state. The oligomers are a new class of helical-foldamers possessing two kinds of chiral centers on the helical backbone and at the lateral surface of the helix.
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Affiliation(s)
- Masanobu Nagano
- Graduate School of Pharmaceutical Sciences, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan
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12
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Castiglioni E, Biscarini P, Abbate S. Experimental aspects of solid state circular dichroism. Chirality 2010; 21 Suppl 1:E28-36. [PMID: 19722271 DOI: 10.1002/chir.20770] [Citation(s) in RCA: 54] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
The interest of circular dichroism in the solid state is stimulated by several needs, such as the desire to get solvent free spectra, the insolubility of the sample or the intrinsic process in which the sample itself is prepared or manipulated. We approach the argument on the basis of the sampling technique, since each different case calls for specific care in getting proper results.
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13
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Dutta A, Drew MG, Pramanik A. Design of a turn-linker-turn foldamer by incorporating meta-amino benzoic acid in the middle of a helix forming hexapeptide sequence: A helix breaking approach. J Mol Struct 2009. [DOI: 10.1016/j.molstruc.2009.04.037] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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14
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Wada SI, Hitora Y, Tanaka R, Urata H. Translocation of an Aib-containing peptide through cell membranes. Bioorg Med Chem Lett 2008; 18:3999-4001. [DOI: 10.1016/j.bmcl.2008.06.005] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2008] [Revised: 05/07/2008] [Accepted: 06/03/2008] [Indexed: 10/22/2022]
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15
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Zhang Z, Deng J, Li J, Yang W. Influence of Solvent on the Secondary Structure of Helical Poly(N-propargyl-(1R)-camphor-10-sulfamide). Polym J 2008. [DOI: 10.1295/polymj.pj2007208] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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16
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Dutt A, Drew MG, Pramanik A. Conformational and self-assembly studies of helix forming hexapeptides containing two α-amino isobutyric acids. Tetrahedron 2008. [DOI: 10.1016/j.tet.2007.11.016] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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