1
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Bindl D, Heinemann E, Mandal PK, Huc I. Quantitative helix handedness bias through a single H vs. CH 3 stereochemical differentiation. Chem Commun (Camb) 2021; 57:5662-5665. [PMID: 33972976 DOI: 10.1039/d1cc01452h] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
A novel chiral aromatic δ-amino acid building block was shown to fully induce handedness in quinoline oligoamide foldamers with the possibility of further increasing the bias by combining multiples of these units in the same sequence. Through its incorporation within the helix, both N- and C-termini are still accessible for further functionalisation.
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Affiliation(s)
- Daniel Bindl
- Department of Pharmacy and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstraße 5-13, München 81377, Germany.
| | - Elisabeth Heinemann
- Department of Pharmacy and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstraße 5-13, München 81377, Germany.
| | - Pradeep K Mandal
- Department of Pharmacy and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstraße 5-13, München 81377, Germany.
| | - Ivan Huc
- Department of Pharmacy and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstraße 5-13, München 81377, Germany.
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2
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Urushima A, Ousaka N, Yashima E. Tug-of-War in a Dynamic Helical Peptide: Solvent-Induced Helix-Helix Transition of a Lactam-Bridged Peptide Composed of Point- and Axial Chiralities Remote from Each Other. Chem Asian J 2018; 13:3150-3154. [DOI: 10.1002/asia.201801111] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2018] [Indexed: 11/09/2022]
Affiliation(s)
- Akio Urushima
- Department of Molecular and Macromolecular Chemistry; Graduate School of Engineering; Nagoya University; Chikusa-ku Nagoya 464-8603 Japan
| | - Naoki Ousaka
- Department of Molecular and Macromolecular Chemistry; Graduate School of Engineering; Nagoya University; Chikusa-ku Nagoya 464-8603 Japan
| | - Eiji Yashima
- Department of Molecular and Macromolecular Chemistry; Graduate School of Engineering; Nagoya University; Chikusa-ku Nagoya 464-8603 Japan
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3
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Rudzińska-Szostak E, Berlicki Ł. Sequence Engineering to Control the Helix Handedness of Peptide Foldamers. Chemistry 2017; 23:14980-14986. [DOI: 10.1002/chem.201702730] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2017] [Indexed: 12/21/2022]
Affiliation(s)
- Ewa Rudzińska-Szostak
- Department of Bioorganic Chemistry; Faculty of Chemistry; Wrocław University of Science and Technology; Wyb. Wyspiańskiego 27 50-370 Wrocław Poland
| | - Łukasz Berlicki
- Department of Bioorganic Chemistry; Faculty of Chemistry; Wrocław University of Science and Technology; Wyb. Wyspiańskiego 27 50-370 Wrocław Poland
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4
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Tomsett M, Maffucci I, Le Bailly BAF, Byrne L, Bijvoets SM, Lizio MG, Raftery J, Butts CP, Webb SJ, Contini A, Clayden J. A tendril perversion in a helical oligomer: trapping and characterizing a mobile screw-sense reversal. Chem Sci 2017; 8:3007-3018. [PMID: 28451368 PMCID: PMC5380885 DOI: 10.1039/c6sc05474a] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2016] [Accepted: 01/24/2017] [Indexed: 11/21/2022] Open
Abstract
Helical oligomers of achiral monomers adopt domains of uniform screw sense, which are occasionally interrupted by screw-sense reversals. These rare, elusive, and fast-moving features have eluded detailed characterization. We now describe the structure and habits of a screw-sense reversal trapped within a fragment of a helical oligoamide foldamer of the achiral quaternary amino acid 2-aminoisobutyric acid (Aib). The reversal was enforced by compelling the amide oligomer to adopt a right-handed screw sense at one end and a left-handed screw sense at the other. The trapped reversal was characterized by X-ray crystallography, and its dynamic properties were monitored by NMR and circular dichroism, and modelled computationally. Raman spectroscopy indicated that a predominantly helical architecture was maintained despite the reversal. NMR and computational results indicated a stepwise shift from one screw sense to another on moving along the helical chain, indicating that in solution the reversal is not localised at a specific location, but is free to migrate across a number of residues. Analogous unconstrained screw-sense reversals that are free to move within a helical structure are likely to provide the mechanism by which comparable helical polymers and foldamers undergo screw-sense inversion.
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Affiliation(s)
- Michael Tomsett
- School of Chemistry , University of Bristol , Cantock's Close , Bristol BS8 1TS , UK .
| | - 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
| | - Bryden A F Le Bailly
- School of Chemistry , University of Bristol , Cantock's Close , Bristol BS8 1TS , UK .
| | - Liam Byrne
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK
| | - Stefan M Bijvoets
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK
| | - M Giovanna Lizio
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK
- Manchester Institute of Biotechnology , University of Manchester , 131 Princess St , Manchester M1 7DN , UK
| | - James Raftery
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK
| | - Craig P Butts
- School of Chemistry , University of Bristol , Cantock's Close , Bristol BS8 1TS , UK .
| | - Simon J Webb
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK
- Manchester Institute of Biotechnology , University of Manchester , 131 Princess St , Manchester M1 7DN , UK
| | - 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
| | - Jonathan Clayden
- School of Chemistry , University of Bristol , Cantock's Close , Bristol BS8 1TS , UK .
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5
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Cho J, Ishida Y, Aida T. Helical Oligopeptides of a Quaternized Amino Acid with Tunable Chiral-Induction Ability and an Anomalous pH Response. Chemistry 2017; 23:4818-4826. [DOI: 10.1002/chem.201605460] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2016] [Indexed: 12/12/2022]
Affiliation(s)
- Joonil Cho
- Department of Chemistry and Biotechnology; School of Engineering; The University of Tokyo; 7-3-1 Hongo, Bunkyo-ku Tokyo 113-8656 Japan
- Emergent Bioinspired Soft Matter Research Team; Center for Emergent Matter Science; RIKEN; 2-1 Hirosawa, Wako Saitama 351-0198 Japan
| | - Yasuhiro Ishida
- Emergent Bioinspired Soft Matter Research Team; Center for Emergent Matter Science; RIKEN; 2-1 Hirosawa, Wako Saitama 351-0198 Japan
| | - Takuzo Aida
- Department of Chemistry and Biotechnology; School of Engineering; The University of Tokyo; 7-3-1 Hongo, Bunkyo-ku Tokyo 113-8656 Japan
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6
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Liu Z, Hu X, Abramyan AM, Mészáros Á, Csékei M, Kotschy A, Huc I, Pophristic V. Computational Prediction and Rationalization, and Experimental Validation of Handedness Induction in Helical Aromatic Oligoamide Foldamers. Chemistry 2017; 23:3605-3615. [DOI: 10.1002/chem.201605082] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Zhiwei Liu
- Department of Chemistry & Biochemistry University of the Sciences 600 South 43rd Street Philadelphia PA 19104 USA
| | - Xiaobo Hu
- University of Bordeaux, CBMN (UMR 5248) Institut Européen de Chimie et Biologie 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248) France
- Bordeaux Institut National Polytechnique CBMN (UMR 5248) France
| | - Ara M. Abramyan
- Department of Chemistry & Biochemistry University of the Sciences 600 South 43rd Street Philadelphia PA 19104 USA
| | - Ádám Mészáros
- Servier Research Institute of Medicinal Chemistry Záhony utca 7. 1031 Budapest Hungary
| | - Márton Csékei
- Servier Research Institute of Medicinal Chemistry Záhony utca 7. 1031 Budapest Hungary
| | - András Kotschy
- Servier Research Institute of Medicinal Chemistry Záhony utca 7. 1031 Budapest Hungary
| | - Ivan Huc
- University of Bordeaux, CBMN (UMR 5248) Institut Européen de Chimie et Biologie 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248) France
- Bordeaux Institut National Polytechnique CBMN (UMR 5248) France
| | - Vojislava Pophristic
- Department of Chemistry & Biochemistry University of the Sciences 600 South 43rd Street Philadelphia PA 19104 USA
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7
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Abstract
Foldamers can be made more than pieces of static, conformationally uniform molecular architecture by designing into their structure the conformational dynamism characteristic of functional molecular machines. We show that these dynamic foldamers display biomimetic properties reminiscent of allosteric proteins and receptor molecules. They can translate chemical signals into conformational changes, and hence into chemical outputs such as control of reactivity and selectivity. Future developments could see dynamic foldamers operating in the membrane phase providing artificial mechanisms for communication and control that integrate synthetic chemistry into synthetic biology.
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Affiliation(s)
- Bryden A F Le Bailly
- School of Chemistry, University of Bristol, Cantock's Close, Bristol BS8 1TS, UK.
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8
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Le Bailly BAF, Byrne L, Clayden J. Refoldable Foldamers: Global Conformational Switching by Deletion or Insertion of a Single Hydrogen Bond. Angew Chem Int Ed Engl 2016; 55:2132-6. [PMID: 26762559 PMCID: PMC4755161 DOI: 10.1002/anie.201510605] [Citation(s) in RCA: 68] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2015] [Indexed: 11/12/2022]
Abstract
Small changes in the structure of a foldamer may lead to gross changes in conformational preference. We show that the simple insertion or deletion of a single hydrogen bond by changes in pH or by photochemical deprotection is sufficient to refold a helical oligomer, interconverting M and P screw-sense preference. As a consequence of the switch, information may be transmitted to a remote catalytic site, selectively directing the formation of either of two enantiomeric products by a reaction involving 1,22-remote intermolecular asymmetric induction.
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Affiliation(s)
- Bryden A F Le Bailly
- School of Chemistry, University of Bristol, Cantock's Close, Bristol, BS8 1TS, UK.,School of Chemistry, University of Manchester, Oxford Road, Manchester, M13 9PL, UK
| | - Liam Byrne
- School of Chemistry, University of Manchester, Oxford Road, Manchester, M13 9PL, UK
| | - Jonathan Clayden
- School of Chemistry, University of Bristol, Cantock's Close, Bristol, BS8 1TS, UK.
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9
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Le Bailly BAF, Byrne L, Clayden J. Refoldable Foldamers: Global Conformational Switching by Deletion or Insertion of a Single Hydrogen Bond. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201510605] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Bryden A. F. Le Bailly
- School of Chemistry; University of Bristol; Cantock's Close Bristol BS8 1TS UK
- School of Chemistry; University of Manchester; Oxford Road Manchester M13 9PL UK
| | - Liam Byrne
- School of Chemistry; University of Manchester; Oxford Road Manchester M13 9PL UK
| | - Jonathan Clayden
- School of Chemistry; University of Bristol; Cantock's Close Bristol BS8 1TS UK
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10
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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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11
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Le Bailly BAF, Clayden J. Controlling the sign and magnitude of screw-sense preference from the C-terminus of an achiral helical foldamer. Chem Commun (Camb) 2015; 50:7949-52. [PMID: 24918692 DOI: 10.1039/c4cc03261f] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The global screw-sense preference of an achiral helical oligomer may be controlled by a single chiral monomer located at one terminus. Remarkably, maximal control is induced in oligomers of the achiral quaternary amino acid Aib by a single C-terminal alaninamide residue, probably because the Ala side chain, though small, is compatible with a 310 helical conformation. The presence or absence of a C-terminal hydrogen bond donor determines the screw sense of the entire oligomer.
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Affiliation(s)
- Bryden A F Le Bailly
- School of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, UK.
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12
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Le Bailly BAF, Byrne L, Diemer V, Foroozandeh M, Morris GA, Clayden J. Flaws in foldamers: conformational uniformity and signal decay in achiral helical peptide oligomers. Chem Sci 2015; 6:2313-2322. [PMID: 29308146 PMCID: PMC5645781 DOI: 10.1039/c4sc03944k] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2014] [Accepted: 01/19/2015] [Indexed: 11/21/2022] Open
Abstract
Although foldamers, by definition, are extended molecular structures with a well-defined conformation, minor conformers must be populated at least to some extent in solution. We present a quantitative analysis of these minor conformers for a series of helical oligomers built from achiral but helicogenic α-amino acids. By measuring the chain length dependence or chain position dependence of NMR or CD quantities that measure screw-sense preference in a helical oligomer, we quantify values for the decay constant of a conformational signal as it passes through the molecular structure. This conformational signal is a perturbation of the racemic mixture of M and P helices that such oligomers typically adopt by the inclusion of an N or C terminal chiral inducer. We show that decay constants may be very low (<1% signal loss per residue) in non-polar solvents, and we evaluate the increase in decay constant that results in polar solvents, at higher temperatures, and with more conformationally flexible residues such as Gly. Decay constants are independent of whether the signal originates from the N or the C terminus. By interpreting the decay constant in terms of the probability with which conformations containing a screw-sense reversal are populated, we quantify the populations of these alternative minor conformers within the overall ensemble of secondary structures adopted by the foldamer. We deduce helical persistence lengths for Aib polymers that allow us to show that in a non-polar solvent a peptide helix, even in the absence of chiral residues, may continue with the same screw sense for approximately 200 residues.
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Affiliation(s)
- Bryden A F Le Bailly
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK .
| | - Liam Byrne
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK .
| | - Vincent Diemer
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK .
| | | | - Gareth A Morris
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK .
| | - Jonathan Clayden
- School of Chemistry , University of Manchester , Oxford Road , Manchester M13 9PL , UK .
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13
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Adam A, Haberhauer G. Imidazole-peptide foldamers: parabolic dependence of the folding process on the water content of the solvent. Chemistry 2015; 21:4333-9. [PMID: 25656936 DOI: 10.1002/chem.201406277] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2014] [Indexed: 11/06/2022]
Abstract
Oligomers of azole peptides have been isolated from a multitude of marine organisms. Up to now, these azole-containing dipeptide-analogue oligomers have only been found as cyclic n-mers (mostly tri- and tetramers) in nature. Herein, we show that imidazole-containing pseudopeptides form helixlike secondary structures in different solvents. The screw sense of the helix can be determined by attaching a single chiral imidazole unit to the N terminus of the oligomer. Investigation by means of circular dichroism (CD) spectroscopy showed that the folding process of the helix depends on the water content of the solvent in a parabolic way. In a pure organic medium, the helix is stabilized by hydrogen bonds between the hydrogen atoms of the amide groups and the nitrogen atoms of the azole ring. In aqueous solution, the formation of the helix is driven by dispersion interactions. The formation of the helix is more pronounced in aqueous solution than in organic solvents.
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Affiliation(s)
- Abdulselam Adam
- Institut für Organische Chemie, Fakultät für Chemie, Universität Duisburg-Essen, Universitätsstrasse 7, 45117 Essen (Germany), Fax: (+49) 201-183-4252
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14
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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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15
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Maffucci I, Pellegrino S, Clayden J, Contini A. Mechanism of stabilization of helix secondary structure by constrained Cα-tetrasubstituted α-amino acids. J Phys Chem B 2015; 119:1350-61. [PMID: 25528885 DOI: 10.1021/jp510775e] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
The theoretical basis behind the ability of constrained Cα-tetrasubstituted amino acids (CTAAs) to induce stable helical conformations has been studied through Replica Exchange Molecular Dynamics Potential of Mean Force Quantum Theory of Atoms In Molecules calculations on Ac-l-Ala-CTAA-l-Ala-Aib-l-Ala-NHMe peptide models. We found that the origin of helix stabilization by CTAAs can be ascribed to at least two complementary mechanisms limiting the backbone conformational freedom: steric hindrance predominantly in the (+x,+y,-z) sector of a right-handed 3D Cartesian space, where the z axis coincides with the helical axis and the Cα of the CTAA lies on the +y axis (0,+y,0), and the establishment of additional and relatively strong C-H···O interactions involving the CTAA.
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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
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16
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Pike SJ, Boddaert T, Raftery J, Webb SJ, Clayden J. Participation of non-aminoisobutyric acid (Aib) residues in the 310 helical conformation of Aib-rich foldamers: a solid state study. NEW J CHEM 2015. [DOI: 10.1039/c4nj01547a] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
310 helical conformations that extend over 21 Å result when selected non-Aib terminal and central residues are incorporated into Aib-rich foldamers.
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Affiliation(s)
- Sarah J. Pike
- School of Chemistry
- University of Manchester
- Manchester
- UK
| | | | - James Raftery
- School of Chemistry
- University of Manchester
- Manchester
- UK
| | - Simon J. Webb
- School of Chemistry
- University of Manchester
- Manchester
- UK
- Manchester Institute of Biotechnology
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17
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Maury J, Le Bailly BAF, Raftery J, Clayden J. Conformational cooperativity between helical domains of differing geometry in oligoamide–oligourea foldamer chimeras. Chem Commun (Camb) 2015; 51:11802-5. [DOI: 10.1039/c5cc02995c] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Two foldamer domains of different classes (urea and amide) remain in conformational communication, and adopt a well-defined global structure in solution, provided the interdomain hydrogen-bonds are suitably orientated.
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Affiliation(s)
- Julien Maury
- School of Chemistry
- University of Manchester
- Manchester M13 9PL
- UK
| | | | - James Raftery
- School of Chemistry
- University of Manchester
- Manchester M13 9PL
- UK
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18
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Wechsel R, Maury J, Fremaux J, France SP, Guichard G, Clayden J. Inducing achiral aliphatic oligoureas to fold into helical conformations. Chem Commun (Camb) 2014; 50:15006-9. [DOI: 10.1039/c4cc06754a] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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19
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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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20
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Orcel U, De Poli M, De Zotti M, Clayden J. The N-Terminal Nonapeptide of Cephaibols A and C: A Naturally Occurring Example of Mismatched Helical Screw-Sense Control. Chemistry 2013; 19:16357-65. [DOI: 10.1002/chem.201302648] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2013] [Indexed: 12/14/2022]
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21
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Jewginski M, Latajka R, Krezel A, Haremza K, Makowski M, Kafarski P. Influence of solvents on conformation of dehydropeptides. J Mol Struct 2013. [DOI: 10.1016/j.molstruc.2012.08.042] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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22
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De Poli M, De Zotti M, Raftery J, Aguilar JA, Morris GA, Clayden J. Left-handed helical preference in an achiral peptide chain is induced by an L-amino acid in an N-terminal type II β-turn. J Org Chem 2013; 78:2248-55. [PMID: 23316729 DOI: 10.1021/jo302705k] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Oligomers of the achiral amino acid Aib adopt helical conformations in which the screw-sense may be controlled by a single N-terminal residue. Using crystallographic and NMR techniques, we show that the left- or right-handed sense of helical induction arises from the nature of the β-turn at the N terminus: the tertiary amino acid L-Val induces a left-handed type II β-turn in both the solid state and in solution, while the corresponding quaternary amino acid L-α-methylvaline induces a right-handed type III β-turn.
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Affiliation(s)
- Matteo De Poli
- School of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, UK
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Sharma GVM, Kodeti SR, Dutta SK, Velaparthi S, Narsimulu K, Anjaiah G, Basha SJ, Kunwar AC. Chirality and Template-Mediated Induction of Helical Preferences in Achiral β-Peptides. Chemistry 2012; 18:16046-60. [DOI: 10.1002/chem.201201892] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2012] [Revised: 08/20/2012] [Indexed: 11/06/2022]
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Brown RA, Marcelli T, De Poli M, Solà J, Clayden J. Induction of Unexpected Left-Handed Helicity by an N-Terminal L-Amino Acid in an Otherwise Achiral Peptide Chain. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201107583] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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25
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Brown RA, Marcelli T, De Poli M, Solà J, Clayden J. Induction of unexpected left-handed helicity by an N-terminal L-amino acid in an otherwise achiral peptide chain. Angew Chem Int Ed Engl 2012; 51:1395-9. [PMID: 22294355 DOI: 10.1002/anie.201107583] [Citation(s) in RCA: 73] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2011] [Indexed: 11/06/2022]
Affiliation(s)
- Robert A Brown
- School of Chemistry, University of Manchester, Oxford Road, Manchester M13 9PL, United Kingdom
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26
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Syntheses of organocatalysts with one-handed helix and their application to the kinetic resolution of second alcohol. RESEARCH ON CHEMICAL INTERMEDIATES 2009. [DOI: 10.1007/s11164-009-0075-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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27
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Clayden J, Castellanos A, Solà J, Morris G. Quantifying End-to-End Conformational Communication of Chirality through an Achiral Peptide Chain. Angew Chem Int Ed Engl 2009; 48:5962-5. [DOI: 10.1002/anie.200901892] [Citation(s) in RCA: 93] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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28
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Clayden J, Castellanos A, Solà J, Morris G. Quantifying End-to-End Conformational Communication of Chirality through an Achiral Peptide Chain. Angew Chem Int Ed Engl 2009. [DOI: 10.1002/ange.200901892] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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29
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Clayden J. Transmission of stereochemical information over nanometre distances in chemical reactions. Chem Soc Rev 2009; 38:817-29. [DOI: 10.1039/b801639a] [Citation(s) in RCA: 105] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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30
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Miyake H, Kamon H, Miyahara I, Sugimoto H, Tsukube H. Time-Programmed Peptide Helix Inversion of a Synthetic Metal Complex Triggered by an Achiral NO3- Anion. J Am Chem Soc 2007; 130:792-3. [DOI: 10.1021/ja0768385] [Citation(s) in RCA: 77] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Hiroyuki Miyake
- Department of Chemistry, Graduate School of Science, Osaka City University, Sugimoto, Sumiyoshi-ku, Osaka 558-8585, Japan
| | - Hiroshi Kamon
- Department of Chemistry, Graduate School of Science, Osaka City University, Sugimoto, Sumiyoshi-ku, Osaka 558-8585, Japan
| | - Ikuko Miyahara
- Department of Chemistry, Graduate School of Science, Osaka City University, Sugimoto, Sumiyoshi-ku, Osaka 558-8585, Japan
| | - Hideki Sugimoto
- Department of Chemistry, Graduate School of Science, Osaka City University, Sugimoto, Sumiyoshi-ku, Osaka 558-8585, Japan
| | - Hiroshi Tsukube
- Department of Chemistry, Graduate School of Science, Osaka City University, Sugimoto, Sumiyoshi-ku, Osaka 558-8585, Japan
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31
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Komori H, Inai Y. Electronic CD Study of a Helical Peptide Incorporating Z-Dehydrophenylalanine Residues: Conformation Dependence of the Simulated CD Spectra. J Phys Chem A 2006; 110:9099-107. [PMID: 16854021 DOI: 10.1021/jp056501u] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Electronic circular dichroism (CD) spectra as well as transitions from ground to excited states were predicted for a helical nonapeptide based on alternative sequence--[Z-alpha,beta-dehydrophenylalanine (Delta(Z)Phe)-X]--through semiempirical molecular orbital computation combined with time-dependent (TD) method. The simulation was performed for its various conformers that differ in helix type, helix sense, and Delta(Z)Phe side-chain orientation. These conformational variations have been shown to depend largely on its CD spectra. Comparison between simulated and observed CD profiles reveals that peptide 1 in solution favors a right-handed 3(10)-helix that adopts phenyl (Delta(Z)Phe) planes basically in a vertical orientation with respect to the helix axis. These predictions were essentially supported from CD simulation of a shorter helical analogue at ab inito or density functional TD levels. The theoretical CD-conformation relationship should provide us useful guideline for determination of helix sense in the dehydropeptide, and for estimation of its conformations statistically averaged in solution.
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Affiliation(s)
- Hisatoshi Komori
- Department of Environmental Technology and Urban Planning, Shikumi College, Graduate School of Engineering, Nagoya Institute of Technology, Nagoya 466-8555, Japan
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32
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Ousaka N, Inai Y, Okabe T. Chiral interaction in Gly-capped N-terminal motif of 310-helix and domino-type induction in helix sense. Biopolymers 2006; 83:337-51. [PMID: 16767770 DOI: 10.1002/bip.20557] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Chiral interaction of helical peptide with chiral molecule, and concomitant induction in its helix sense have been demonstrated in optically inactive nonapeptide (1) possessing Gly at its N-terminus: H-Gly-(Delta(Z)Phe-Aib)(4)-OCH(3) (1: Delta(Z)Phe = Z-dehydrophenylalanine; Aib = alpha-aminoisobutyric acid). Spectroscopic measurements [mainly nuclear magnetic resonance (NMR) and circular diochroism (CD)] as well as theoretical simulation have been carried out for that purpose. Peptide 1 in the 3(10)-helix tends to adopt preferentially a right-handed screw sense by chiral Boc-L-amino acid (Boc: t-butoxycarbonyl). Induction in the helix sense through the noncovalent chiral domino effect should be derived primarily from the complex supported by the three-point coordination on the N-terminal sequence. Thus the 3(10)-helical terminus consisting of only alpha-amino acid residues enables chiral recognition of the Boc-amino acid molecule, leading to modulation of the original chain asymmetry. Dynamics in the helix-sense induction also have been discussed on the basis of a low-temperature NMR study. Furthermore, the inversion of induced helix sense has been achieved through solvent effects.
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Affiliation(s)
- Naoki Ousaka
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Nagoya 466-8555, Japan
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Takasu A, Horikoshi S, Hirabayashi T. Three-Dimensional Arrangement of Sugar Residues along Helical Polypeptide Backbone. 2. Synthesis of Periodic N-Glycosylated Peptides by Polymerization of Tripeptide Active Esters Containing α,α-Disubstituted Amino Acid. Biomacromolecules 2005; 6:2334-42. [PMID: 16004480 DOI: 10.1021/bm0502563] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
New type of N-glycosylated peptides having periodic sequence of -[X-Gln(beta-D-GlcNAc)-Aib]- [X = L-Glu(OMe), L-Lys(Ac), L-Ala; Aib = alpha-aminoisobutyric acid] were synthesized by polymerization of glycosylated tripeptides with an active ester methods using Cl(-+)H(3)N-L-Glu(OMe)-Gln[beta-D-GlcNAc(Ac)(3)]-Aib-ONp (Np=p-nitrophenyl) (13a), Cl(-+)H(3)N-L-Lys(Ac)-Gln[beta-D-GlcNAc(Ac)(3)]-Aib-ONp (13b), and Cl(-+)H(3)N-L-Ala-Gln[beta-D-GlcNAc(Ac)(3)]-Aib-ONp (13c) as the monomers. Polymerizable glycosylated tripeptides were prepared by stepwise N,N-dicyclohexylcarbodiimide (DCC)/1-hydroxybenzotriazole (HOBt) method. Polymerizations of 13a-c were initiated by triethylamine and proceeded in DMSO at 50 degrees C for 5 days in the presence of 1-hydroxy-7-azabenzotriazole (HOAt) as the activator (conversions were 25-75%). The glycopeptides were deacetylated by hydrazine monohydrate in methanol to afford periodic glycopeptides 14 (12-27 residues) without racemization (yield, 35-89%). CD spectra in methanol, trifluoroethanol, and water of deacetylated glycopolymers 14a, 14b, and 14c showed double minima (206 and 222 nm) of negative Cotton effect indicating that N-glycoside (N-acetyl-d-glucosamine) was arranged three-dimensionally along the alpha-helical peptides in water as well as in organic protic solvents. The helix content depends on the solvent, peptide sequence, and spacer between peptide backbone and sugar. Interaction of the glycopeptides with wheat germ agglutinin (WGA) lectin was investigated by fluorescence measurement.
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Affiliation(s)
- Akinori Takasu
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan.
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Mazaleyrat JP, Wright K, Gaucher A, Toulemonde N, Wakselman M, Oancea S, Peggion C, Formaggio F, Setnicka V, Keiderling TA, Toniolo C. Induced Axial Chirality in the Biphenyl Core of the Cα-Tetrasubstituted α-Amino Acid Residue Bip and Subsequent Propagation of Chirality in (Bip)n/Val Oligopeptides. J Am Chem Soc 2004; 126:12874-9. [PMID: 15469284 DOI: 10.1021/ja040100v] [Citation(s) in RCA: 81] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
In the dipeptides Boc-Bip-L-Val-OMe and Boc-Bip-D-Val-OMe, an induced axial chirality in the biphenyl core of the Bip residue, a conformationally labile, proatropoisomeric C(alpha,alpha)-disubstituted glycine, was observed by electronic CD and (1)H NMR. Chiral induction is significantly higher when the Val residue is located at the C-terminal position of Bip. An outstanding phenomenon of propagation of chirality was demonstrated to occur in the related 3(10)-helical -(Bip)n-L-Val (n = 2-6) oligopeptides by CD and vibrational CD techniques.
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Affiliation(s)
- Jean-Paul Mazaleyrat
- Contribution from SIRCOB, UMR CNRS 8086, Bâtiment Lavoisier, University of Versailles, F-78035 Versailles, France
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Nandel FS, Khare B. Conformation of peptides constructed from achiral amino acid residues Aib and ?ZPhe: Computational study of the effect ofL/D- Leu at terminal positions. Biopolymers 2004; 77:63-73. [PMID: 15593284 DOI: 10.1002/bip.20128] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Conformational studies of the peptides constructed from achiral amino acid residues Aib and Delta(Z)Phe (I) Ac-Aib-Delta(Z)Phe-NHMe (II), and Ac-(Aib-Delta(Z)Phe)(3)-NHMe; peptides III-VI having L-Leu or D-Leu at either the N- or the C-terminal position and of peptides VII-X having Leu residues in different enantiomeric combinations at both the N- and the C-terminal positions in peptide II have been studied to design the peptide with the required helical sense. Peptide II, as expected, adopts degenerate left- and right-handed helical structures. It has been shown that the peptides IV and VI having D-Leu at either the N or the C terminus can be realized in the right-handed helical structure with the phi,psi values of -20 degrees and -60 degrees for the Aib/Delta(Z)Phe residues. L-Leu and D- Leu at both the terminals in peptides VII and VIII, respectively, have hardly any effect as both the left- and the right-handed structures are found to be degenerate. Peptides III and IX can be realized in right- and left-handed helical structures, respectively, in solvents of low polarity whereas peptides V and X are predicted to be in the right-handed helical structures stabilized by carbonyl-carbonyl interactions without the formation of hydrogen bonds. The conformational states with the phi,psi values of 0 degrees and -85 degrees in peptide V are characterized by rise per residue of 2.03 A, rotation per residue of 117.5 degrees , and 3.06 residues per turn. In all peptides having Leu residue at the N terminus, the methyl moiety of the acetyl group is involved in the CH/pi interactions with the Cepsilon--Cdelta edge of the aromatic ring of Delta(Z)Phe (3) and the amino group NH of Delta(Z)Phe is involved in the NH/pi interactions with its own aromatic ring. The CH(3) groups of the Aib residues are also involved in CH/pi interactions with the i + 1th and i + 3th Delta(Z)Phe's aromatic side chains.
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36
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Inai Y, Oshikawa T, Yamashita M, Tagawa K, Hirabayashi T. Crystal structure of achiral nonapeptide Boc-(Aib-?zPhe)4-Aib-OMe at atomic resolution: Evidence for a 310-helix. Biopolymers 2003; 70:310-22. [PMID: 14579304 DOI: 10.1002/bip.10390] [Citation(s) in RCA: 19] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
An x-ray crystallographic analysis was carried out for Boc-(Aib-DeltaZPhe)4-Aib-OMe (1: Boc = t-butoxycarbonyl; Aib = alpha-aminoisobutyric acid; DeltaZPhe = Z-alpha,beta-didehydrophenylalanine) to provide the precise conformational parameters of the octapeptide segment -(Aib-DeltaZPhe)4-. Peptide 1 adopted a typical 3(10)-helical conformation characterized by <phi> = +/-55.8 degrees (50 degrees -65 degrees), <psi> = +/-26.7 degrees (15 degrees -45 degrees), and <omega> = +/-179.5 degrees (168 degrees -188 degrees) for the average values of the -(Aib-DeltaZPhe)4- segment (the range of the eight values). The 3(10)-helix contains 3.1 residues per turn, being close to the "perfect 3(10)-helix" characterized by 3.0 residues per turn. NMR and Fourier transform infrared (FTIR) spectroscopy revealed that the 3(10)-helical conformation at the atomic resolution is essentially maintained in solution. Energy minimization of peptide 1 by semiempirical molecular orbital calculation converged to a 3(10)-helical conformation similar to the x-ray crystallographic 3(10)-helix. The preference for a 3(10)-helix in the -(Aib-DeltaZPhe)4- segment is ascribed to strong inducers of the 3(10)-helix inherent in Aib and DeltaZPhe residues-in particular, the Aib residues tend to stabilize a 3(10)-helix more effectively. Therefore, the -(Aib-DeltaZPhe)4- segment is useful to rationally design an optically inactive 3(10)-helical backbone, which will be of great importance to provide novel insights into noncovalent and covalent chiral interactions of a helical peptide with a chiral molecule.
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Affiliation(s)
- Yoshihito Inai
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan.
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Inai Y, Ousaka N, Okabe T. Mechanism for the noncovalent chiral domino effect: new paradigm for the chiral role of the N-terminal segment in a 3(10)-helix. J Am Chem Soc 2003; 125:8151-62. [PMID: 12837085 DOI: 10.1021/ja035040s] [Citation(s) in RCA: 71] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Recently, novel chiral interactions on 3(10)-helical peptides, of which the helicity is controlled by external chiral stimulus operating on the N-terminus, were proposed as a "noncovalent chiral domino effect (NCDE)" (Inai, Y.; et al. J. Am. Chem. Soc. 2000, 122, 11731. Inai, Y.; et al. J. Am. Chem. Soc. 2002, 124, 2466). The present study clarifies the mechanism for generating the NCDE. For this purpose, achiral nonapeptide (1), H-beta-Ala-(Delta(Z)Phe-Aib)(4)-OMe [Delta(Z)Phe = (Z)-didehydrophenylalanine, Aib = alpha-aminoisobutyric acid], was synthesized. Peptide 1 alone adopts a 3(10)-helical conformation in chloroform. On the basis of the induced CD signals of peptide 1 with chiral additives, chiral acid enabling the predominant formation of a one-handed helix was shown to need at least both carboxyl and urethane groups; that is, Boc-l-amino acid (Boc = tert-butoxycarbonyl) strongly induces a right-handed helix. NMR studies (NH resonance variations, low-temperature measurement, and NOESY) were performed for a CDCl(3) solution of peptide 1 and chiral additive, supporting the view that the N-terminal H-beta-Ala-Delta(Z)Phe-Aib, including the two free amide NH's, captures effectively a Boc-amino acid molecule through three-point interactions. The H-beta-Ala's amino group binds to the carboxyl group to form a salt bridge, while the Aib(3) NH is hydrogen-bonded to either oxygen of the carboxylate group. Subsequently, the free Delta(Z)Phe(2) NH forms a hydrogen bond to the urethane carbonyl oxygen. A semiempirical molecular orbital computation explicitly demonstrated that the dynamic looping complexation is energetically permitted and that the N-terminal segment of a right-handed 3(10)-helix binds more favorably to a Boc-l-amino acid than to the corresponding d-species. In conclusion, the N-terminal segment of a 3(10)-helix, ubiquitous in natural proteins and peptides, possesses the potency of chiral recognition in the backbone itself, furthermore enabling the conversion of the terminally acquired chiral sign and power into a dynamic control of the original helicity and helical stability.
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Affiliation(s)
- Yoshihito Inai
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan.
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Inai Y, Komori H, Takasu A, Hirabayashi T. Noncovalent chiral domino effect on one-handed helix of nonapeptide containing a midpoint L-residue. Biomacromolecules 2003; 4:122-8. [PMID: 12523856 DOI: 10.1021/bm0256303] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We here clarify whether noncovalent chiral domino effect characterized by the terminal interaction of a helical peptide with a chiral small molecule can alter the helical stability of N-deprotected peptides containing an L-residue covalently incorporated into the inner position. Two nonapeptides consisting of the midpoint L-leucine (1) or L-phenylalanine (2) and the achiral helix-forming residues were employed. NMR and IR spectroscopy and energy calculation indicated that both peptides adopt a 3(10)-helical conformation in chloroform. They strongly preferred a right-handed screw sense because of the presence of the midpoint L-residue. These original right-handed screw senses were retained on addition of chiral Boc-amino acid, but their helical stabilities clearly depended on its added chirality. Here, Boc-L-amino acid stabilizes the original right-handed helix, whereas the corresponding Boc-D-amino acid tends to less stabilize or destabilize it. This tendency was not observed for the corresponding N-Boc-protected peptides 1 and 2, strongly suggesting that the N-terminal amino group is required for controlling the stabilization of the original right-handed helix. Therefore, noncovalent chiral domino effect in peptides 1 and 2 can contribute even to the helical stability of a chiral peptide prevailing one-handed helix strongly through the midpoint L-residue. In addition, the N-terminal moiety of a 3(10)-helical peptide was found to generate chiral discrimination in complexation process with racemic additives.
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Affiliation(s)
- Yoshihito Inai
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan.
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Takasu A, Houjyou T, Inai Y, Hirabayashi T. Three-dimensional arrangement of sugar residues along a helical polypeptide backbone: synthesis of a new type of periodic glycopeptide by polymerization of a beta-O-glycosylated tripeptide containing alpha-aminoisobutyric acid. Biomacromolecules 2002; 3:775-82. [PMID: 12099822 DOI: 10.1021/bm020014s] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A new type of glycopeptide having a periodic sequence of -[L-Glu(OMe)-Ser(beta-D-GlcNAc)-Aib]- was synthesized by polymerization of a glycosylated tripeptide with diphenylphosphoryl azide (DPPA) and active ester methods using H-L-Glu(OMe)-Ser[beta-D-GlcNAc(Ac)(3)]-Aib-OH (13) and H-L-Glu(OMe)-Ser[beta-D-GlcNAc(Ac)(3)]-Aib-ONp (15, Np = p-nitrophenyl) as the monomers, respectively. Number-average molecular weights were determined by size exclusion chromatography (SEC) and matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry, those in the latter method were higher than those in the former one. CD and FT IR spectra of poly(13) and poly(15) indicated that they form right-handed helical conformations. Deacetylation of the acetylated glycopeptide was established without racemization using hydrazine/methanol. CD spectra of the deacetylated glycopeptides 16 (21 and 24 residues) in water showed negative Cotton effect at wavelength of 208 and 222 nm indicating an alpha-helical conformation, i.e., N-acetyl-D-glucosamine (GlcNAc) moieties were arranged spatially along the alpha-helical peptide keeping a specific distance and orientation in water. Addition of ethanol to aqueous solutions of the periodic glycopolymer 16 resulted in an increase in the alpha-helix content. Semiempirical molecular orbital calculation also supported the alpha-helical conformation of 16.
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Affiliation(s)
- Akinori Takasu
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan.
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Inai Y, Ishida Y, Tagawa K, Takasu A, Hirabayashi T. Noncovalent domino effect on helical screw sense of chiral peptides possessing C-terminal chiral residue. J Am Chem Soc 2002; 124:2466-73. [PMID: 11890795 DOI: 10.1021/ja017126w] [Citation(s) in RCA: 89] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Recently, a novel chiral intermolecular interaction was found in an N-deprotected achiral nonapeptide that undergoes the predominance of one-handed screw sense through the addition of chiral small carboxylic acid (Inai, Y.; Tagawa, K.; Takasu, A.; Hirabayashi, T.; Oshikawa, T.; Yamashita, M. J. Am. Chem. Soc. 2000, 122, 11731). We here clarify to what extent such noncovalent chiral domino effect affects the helical screw sense of an N-deprotected chiral peptide. Two chiral peptides consisting of C-terminal L-Leu (1) or L-Leu(2) (2) and the preceding achiral helical octapeptide segment were employed. NMR and IR spectroscopy, and energy calculation indicated that both peptides adopt a helical conformation in chloroform. Peptide 1 showed a small excess of a left-handed screw sense for the achiral helical octapeptide, but peptide 2 strongly preferred a right-handed screw sense. The addition of chiral Boc amino acid to a chloroform solution of peptide 1, depending on its chirality, underwent a unique helix-to-helix transition or led to remarkable stabilization of the original left-handed screw sense. Peptide 2 retained the original right-handed screw sense on addition of chiral Boc-amino acid, but its helical stability changed to some extent depending on its added chirality. Therefore, the importance of noncovalent domino effect for controlling the helical screw sense or helical stability of a chiral peptide has been demonstrated here for the first time. In addition, we here have presented a unique system that both N-terminal noncovalent and C-terminal covalent domino effects operate simultaneously on the helical screw sense of a single achiral segment and have compared both powers for inducing the screw sense bias.
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Affiliation(s)
- Yoshihito Inai
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan.
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41
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Inai Y, Kurokawa Y, Kojima N. Screw sense preference of non-polarL-amino acid residues second from the N-terminal position. ACTA ACUST UNITED AC 2002. [DOI: 10.1039/b206664e] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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42
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Inai Y, Hirabayashi T. A helical arrangement of beta-substituents of dehydropeptides: synthesis and conformational study of sequential nona- and dodecapeptides possessing (Z)-beta-(1-naphthyl)dehydroalanine residues. Biopolymers 2001; 59:356-69. [PMID: 11514939 DOI: 10.1002/1097-0282(20011015)59:5<356::aid-bip1033>3.0.co;2-1] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Sequential nona- and dodecapeptides possessing three and four (Z)-beta -(1-naphthyl)dehydroalanine (Delta(Z)Nap) residues, Boc-(L-Ala-Delta(Z)Nap-L-Leu)(n)-OCH(3) (n = 3 and 4; Boc = t-butoxycarbonyl), were synthesized to design a rigid 3(10)-helical backbone for a regular arrangement of functional groups using dehydropeptides. Their solution conformations were investigated by NMR and CD analyses, and theoretical energy calculations. Both peptides were found to adopt a 3(10)-helical conformation in CDCl(3) from their nuclear Overhauser effect spectroscopy (NOESY) spectra, which showed intense cross peaks for N(i)H-N(i+1)H proton pairs, but no cross peaks for C(alpha)(i)H-N(i+4)H pairs. The predominance of a 3(10)-helix was also supported by solvent accessibility of NH resonances. CD spectra of both peptides in tetrahydrofuran showed strong exciton couplets at around 228 nm assignable to naphthyl side chains, which are regularly arranged along a right-handed helical backbone. Chain-length effects on conformational preference in sequential peptide -(Ala-Delta(Z)Nap-Leu)(n)- were discussed based on spectroscopic analysis, energy minimization, and molecular dynamics simulations. Consequently, the repeating number n > or = 3 forms predominantly a right-handed 3(10)-helical conformation. The energy calculation also revealed that the midpoint naphthyl groups of peptide n = 4 are highly restricted to one stable orientation. In conclusion, beta-substituted alpha,beta-dehydroalanine is expected to be a unique tool for designing a rigid molecular frame of 3(10)-helix along which beta-functional groups are regularly arranged in a specific manner.
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Affiliation(s)
- Y Inai
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan
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Inai Y, Oshikawa T, Yamashita M, Hirabayashi T, Kurokawa Y. Conformational Preference ofβ-Aryldehydroalanine. Solid-State Conformation of Tripeptide Possessing a (Z)-β-(1-Pyrenyl)dehydroalanine Residue in the Second Position. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2001. [DOI: 10.1246/bcsj.74.959] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Inai Y, Oshikawa T, Yamashita M, Kato I, Hirabayashi T. A Novel Looping Structure of Linear Hexapeptide Boc-[D-Ala-(Z)-β-phenyldehydroalanine-L-Ala]2-OMe. CHEM LETT 2001. [DOI: 10.1246/cl.2001.472] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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Inai Y, Oshikawa T, Yamashita M, Hirabayashi T, Hirako T. Structural and conformational properties of (Z)-beta-(1-naphthyl)- dehydroalanine residue. Biopolymers 2001; 58:9-19. [PMID: 11072225 DOI: 10.1002/1097-0282(200101)58:1<9::aid-bip20>3.0.co;2-9] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
To understand how chemical structure of beta-substituted alpha, beta-dehydroalanine (particularly size and pi conjugation of beta substituent) affects conformational property, x-ray crystallographic analysis was performed on Boc-Ala-Delta(Z) Nap-Val-OMe [Boc: t-butoxycarbonyl; Delta(Z) Nap: (Z)-beta-(1-naphthyl)dehydroalanine; OMe: methoxy] having the naphthyl group as a bulky beta substituent. Single crystals were grown by slow evaporation from an ethanol solution in the triclinic space group P1 with a = 9.528 (3) A, b = 12.410(4) A, c = 5.975(2) A, alpha = 96.77(3) degrees, beta = 102. 81(2) degrees, gamma = 88.74(3) degrees, V = 684.1(4) A3, and Z = 1. Phase determination was carried out by a direct method (SHELEXS), and the final structure was refined to R = 8.1% and R(w) = 9.0% for 1964 observed reflections. The bond lengths and bond angles of the Delta(Z)Nap residue, characterized by a sp(2) hybridized C(alpha) atom, did not differ from those of other dehydroresidues such as Delta(Z) Phe, Delta(Z) Leu, and DeltaVal essentially. The peptide backbone took a type II beta-turn conformation involving an intramolecular hydrogen bond between CO(Boc) and NH(Val), similar to di- or tripeptides containing a Delta(Z) Phe or Delta(Z) Leu residue in the second positions. Here the naphthyl group was found to be nonplanar [chi(2) = 55(1) degrees ] relative to the C(alpha)==C(beta)==C(gamma) plane. The nonplanarity was supported by conformational energy calculation. The molecular packing was stabilized by two kinds of intermolecular hydrogen bonds and van der Waals interactions. Naphthyl groups were arranged in a partially overlapped face-to-face orientation with a center-to-center distance of 5.97 A. For additional information, peptide Boc-(Ala-Delta(Z) Nap-Leu)(2)-OMe was synthesized and its solution conformation was investigated by (1)H-NMR spectroscopy. The hexapeptide showed the tendency to form a 3(10)-helical conformation in solution essentially. Conformational properties of Delta(Z) Nap residue, characterized by a type II beta-turn and 3(10)-helix, were supported by a conformational energy contour map of the Delta(Z)Nap residue.
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Affiliation(s)
- Y Inai
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan
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Inai Y, Tagawa K, Takasu A, Hirabayashi T, Oshikawa T, Yamashita M. Induction of One-Handed Helical Screw Sense in Achiral Peptide through the Domino Effect Based on Interacting Its N-Terminal Amino Group with Chiral Carboxylic Acid. J Am Chem Soc 2000. [DOI: 10.1021/ja0026096] [Citation(s) in RCA: 123] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yoshihito Inai
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering Nagoya Institute of Technology, Gokiso-cho Showa-ku, Nagoya 466-8555, Japan Department of Materials Chemistry, Faculty of Engineering Shizuoka University, Hamamatsu 432-8561, Japan
| | - Kenichi Tagawa
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering Nagoya Institute of Technology, Gokiso-cho Showa-ku, Nagoya 466-8555, Japan Department of Materials Chemistry, Faculty of Engineering Shizuoka University, Hamamatsu 432-8561, Japan
| | - Akinori Takasu
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering Nagoya Institute of Technology, Gokiso-cho Showa-ku, Nagoya 466-8555, Japan Department of Materials Chemistry, Faculty of Engineering Shizuoka University, Hamamatsu 432-8561, Japan
| | - Tadamichi Hirabayashi
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering Nagoya Institute of Technology, Gokiso-cho Showa-ku, Nagoya 466-8555, Japan Department of Materials Chemistry, Faculty of Engineering Shizuoka University, Hamamatsu 432-8561, Japan
| | - Tatsuo Oshikawa
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering Nagoya Institute of Technology, Gokiso-cho Showa-ku, Nagoya 466-8555, Japan Department of Materials Chemistry, Faculty of Engineering Shizuoka University, Hamamatsu 432-8561, Japan
| | - Mitsuji Yamashita
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering Nagoya Institute of Technology, Gokiso-cho Showa-ku, Nagoya 466-8555, Japan Department of Materials Chemistry, Faculty of Engineering Shizuoka University, Hamamatsu 432-8561, Japan
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Inai Y, Kurokawa Y, Hirabayashi T. Solvent Dependence on the Preference of Helical Screw Sense: Effect of l-Leu Residue Second from N-Terminal on Screw Sense in Achiral Peptide. Macromolecules 1999. [DOI: 10.1021/ma9901442] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Yoshihito Inai
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan
| | - Yuji Kurokawa
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan
| | - Tadamichi Hirabayashi
- Department of Environmental Technology and Urban Planning, Graduate School of Engineering, Nagoya Institute of Technology, Gokiso-cho, Showa-ku, Nagoya 466-8555, Japan
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