1
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Muramatsu W, Hattori T, Yamamoto H. Amide bond formation: beyond the dilemma between activation and racemisation. Chem Commun (Camb) 2021; 57:6346-6359. [PMID: 34121110 DOI: 10.1039/d1cc01795k] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The development of methods for amide bond formation without recourse to typical condensation reagents has become an emerging research area and has been actively explored in the past quarter century. Inspired by the structure of vitamin B12, we have developed a metal-templated macrolactamisation that generates a new wave towards classical macrolactam synthesis. Further, distinct from the extensively used methods with condensation reagents or catalysts based on catalyst/reagent control our metal-catalysed methods based on substrate control can effectively address long-standing challenges such as racemisation in the field of peptide chemistry. In addition, the substrate-controlled strategy demonstrates the feasibility of "remote" peptide bond-forming reaction catalysed by a metal-ligand complex. Moreover, an originally designed hydrosilane/aminosilane system can avoid not only racemisation but also unnecessary waste production. This feature article documents our discovery and application of our original approaches in amide bond formation.
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Affiliation(s)
- Wataru Muramatsu
- Molecular Catalyst Research Center, Chubu University, 1200 Matsumoto-cho, Kasugai, Aichi 487-8501, Japan.
| | - Tomohiro Hattori
- Molecular Catalyst Research Center, Chubu University, 1200 Matsumoto-cho, Kasugai, Aichi 487-8501, Japan.
| | - Hisashi Yamamoto
- Molecular Catalyst Research Center, Chubu University, 1200 Matsumoto-cho, Kasugai, Aichi 487-8501, Japan.
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2
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Deng X, Zhou G, Tian J, Srinivasan R. Chemoselective Amide-Forming Ligation Between Acylsilanes and Hydroxylamines Under Aqueous Conditions. Angew Chem Int Ed Engl 2021; 60:7024-7029. [PMID: 33135292 DOI: 10.1002/anie.202012459] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2020] [Revised: 10/19/2020] [Indexed: 12/20/2022]
Abstract
We report the facile amide-forming ligation of acylsilanes with hydroxylamines (ASHA ligation) under aqueous conditions. The ligation is fast, chemoselective, mild, high-yielding and displays excellent functional-group tolerance. Late-stage modifications of an array of marketed drugs, peptides, natural products, and biologically active compounds showcase the robustness and functional-group tolerance of the reaction. The key to the success of the reaction could be the possible formation of the strong Si-O bond via a Brook-type rearrangement. Given its simplicity and efficiency, this ligation has the potential to unfold new applications in the areas of medicinal chemistry and chemical biology.
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Affiliation(s)
- Xingwang Deng
- School of Pharmaceutical Science and Technology (SPST), Tianjin University, 92 Weijin Road, Building 24, Nankai District, Tianjin, 300072, P. R. China
| | - Guan Zhou
- School of Pharmaceutical Science and Technology (SPST), Tianjin University, 92 Weijin Road, Building 24, Nankai District, Tianjin, 300072, P. R. China
| | - Jing Tian
- School of Pharmaceutical Science and Technology (SPST), Tianjin University, 92 Weijin Road, Building 24, Nankai District, Tianjin, 300072, P. R. China
| | - Rajavel Srinivasan
- School of Pharmaceutical Science and Technology (SPST), Tianjin University, 92 Weijin Road, Building 24, Nankai District, Tianjin, 300072, P. R. China
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3
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Deng X, Zhou G, Tian J, Srinivasan R. Chemoselective Amide‐Forming Ligation Between Acylsilanes and Hydroxylamines Under Aqueous Conditions. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202012459] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Xingwang Deng
- School of Pharmaceutical Science and Technology (SPST) Tianjin University 92 Weijin Road, Building 24, Nankai District Tianjin 300072 P. R. China
| | - Guan Zhou
- School of Pharmaceutical Science and Technology (SPST) Tianjin University 92 Weijin Road, Building 24, Nankai District Tianjin 300072 P. R. China
| | - Jing Tian
- School of Pharmaceutical Science and Technology (SPST) Tianjin University 92 Weijin Road, Building 24, Nankai District Tianjin 300072 P. R. China
| | - Rajavel Srinivasan
- School of Pharmaceutical Science and Technology (SPST) Tianjin University 92 Weijin Road, Building 24, Nankai District Tianjin 300072 P. R. China
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4
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Capturing Peptide-GPCR Interactions and Their Dynamics. Molecules 2020; 25:molecules25204724. [PMID: 33076289 PMCID: PMC7587574 DOI: 10.3390/molecules25204724] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2020] [Revised: 10/08/2020] [Accepted: 10/09/2020] [Indexed: 12/16/2022] Open
Abstract
Many biological functions of peptides are mediated through G protein-coupled receptors (GPCRs). Upon ligand binding, GPCRs undergo conformational changes that facilitate the binding and activation of multiple effectors. GPCRs regulate nearly all physiological processes and are a favorite pharmacological target. In particular, drugs are sought after that elicit the recruitment of selected effectors only (biased ligands). Understanding how ligands bind to GPCRs and which conformational changes they induce is a fundamental step toward the development of more efficient and specific drugs. Moreover, it is emerging that the dynamic of the ligand–receptor interaction contributes to the specificity of both ligand recognition and effector recruitment, an aspect that is missing in structural snapshots from crystallography. We describe here biochemical and biophysical techniques to address ligand–receptor interactions in their structural and dynamic aspects, which include mutagenesis, crosslinking, spectroscopic techniques, and mass-spectrometry profiling. With a main focus on peptide receptors, we present methods to unveil the ligand–receptor contact interface and methods that address conformational changes both in the ligand and the GPCR. The presented studies highlight a wide structural heterogeneity among peptide receptors, reveal distinct structural changes occurring during ligand binding and a surprisingly high dynamics of the ligand–GPCR complexes.
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5
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Unremitting progresses for phosphoprotein synthesis. Curr Opin Chem Biol 2020; 58:96-111. [PMID: 32889414 DOI: 10.1016/j.cbpa.2020.07.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2020] [Revised: 07/16/2020] [Accepted: 07/21/2020] [Indexed: 02/03/2023]
Abstract
Phosphorylation, one of the important protein post-translational modifications, is involved in many essential cellular processes. Site-specifical and homogeneous phosphoproteins can be used as probes for elucidating the protein phosphorylation network and as potential therapeutics for interfering their involved biological events. However, the generation of phosphoproteins has been challenging owing to the limitation of chemical synthesis and protein expression systems. Despite the pioneering discoveries in phosphoprotein synthesis, over the past decade, great progresses in this field have also been made to promote the biofunctional exploration of protein phosphorylation largely. Therefore, in this review, we mainly summarize recent advances in phosphoprotein synthesis, which includes five sections: 1) synthesis of the nonhydrolyzable phosphorylated amino acid mimetic building blocks, 2) chemical total and semisynthesis strategy, 3) in-cell and in vitro genetic code expansion strategy, 4) the late-stage modification strategy, 5) nonoxygen phosphoprotein synthesis.
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6
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Mechanism, origin of diastereoselectivity and factors affecting reaction efficiency of serine/threonine ligation: A computational study. Tetrahedron 2020. [DOI: 10.1016/j.tet.2020.131143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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7
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Miwa N, Tanaka C, Ishida S, Hirata G, Song J, Torigoe T, Kuninobu Y, Nishikata T. Copper-Catalyzed Tertiary Alkylative Cyanation for the Synthesis of Cyanated Peptide Building Blocks. J Am Chem Soc 2020; 142:1692-1697. [PMID: 31939289 DOI: 10.1021/jacs.9b11349] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
In this paper, we report efficient cyanation of various peptides containing the α-bromocarbonyl moiety using a Cu-catalyzed radical-based methodology employing zinc cyanide as the cyanide source. Mechanistic studies revealed that in situ formed CuCN was a key intermediate during the catalytic cycle. Our method could be useful for the synthesis of modified peptides containing quaternary carbons.
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Affiliation(s)
- Naoki Miwa
- Graduate School of Science and Engineering , Yamaguchi University , 2-16-1 Tokiwadai , Ube , Yamaguchi 755-8611 , Japan
| | - Chihiro Tanaka
- Graduate School of Science and Engineering , Yamaguchi University , 2-16-1 Tokiwadai , Ube , Yamaguchi 755-8611 , Japan
| | - Syo Ishida
- Graduate School of Science and Engineering , Yamaguchi University , 2-16-1 Tokiwadai , Ube , Yamaguchi 755-8611 , Japan
| | - Goki Hirata
- Graduate School of Science and Engineering , Yamaguchi University , 2-16-1 Tokiwadai , Ube , Yamaguchi 755-8611 , Japan
| | - Jizhou Song
- Interdisciplinary Graduate School of Engineering Sciences , Kyushu University , 6-1 Kasugakoen , Kasuga , Fukuoka 816-8580 , Japan
| | - Takeru Torigoe
- Interdisciplinary Graduate School of Engineering Sciences , Kyushu University , 6-1 Kasugakoen , Kasuga , Fukuoka 816-8580 , Japan.,Institute for Materials Chemistry and Engineering , Kyushu University , 6-1 Kasugakoen , Kasuga , Fukuoka 816-8580 , Japan
| | - Yoichiro Kuninobu
- Interdisciplinary Graduate School of Engineering Sciences , Kyushu University , 6-1 Kasugakoen , Kasuga , Fukuoka 816-8580 , Japan.,Institute for Materials Chemistry and Engineering , Kyushu University , 6-1 Kasugakoen , Kasuga , Fukuoka 816-8580 , Japan
| | - Takashi Nishikata
- Graduate School of Science and Engineering , Yamaguchi University , 2-16-1 Tokiwadai , Ube , Yamaguchi 755-8611 , Japan
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8
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Abstract
Branched peptide as an attractive mimic of natural peptide is widely used in structural design of functional or therapeutic peptides, to improve their biological activity, stability, and pharmacokinetic properties. In this protocol, we employ a function group of side-chain benzyl ester as the precursor of hydrazide, which could be conveniently used to assemble a branch peptide by native chemical ligation or direct amidation. This method is convergent and efficient, and facilitates the synthesis and application of branched peptides.
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9
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Mailig M, Liu F. The Application of Isoacyl Structural Motifs in Prodrug Design and Peptide Chemistry. Chembiochem 2019; 20:2017-2031. [DOI: 10.1002/cbic.201900260] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2019] [Indexed: 12/15/2022]
Affiliation(s)
- Melrose Mailig
- Discovery ChemistryNovo Nordisk Research Center Seattle 530 Fairview Ave N Seattle WA 98109 USA
| | - Fa Liu
- Discovery ChemistryNovo Nordisk Research Center Seattle 530 Fairview Ave N Seattle WA 98109 USA
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10
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Lombardo CM, Kumar M. V. V, Douat C, Rosu F, Mergny JL, Salgado GF, Guichard G. Design and Structure Determination of a Composite Zinc Finger Containing a Nonpeptide Foldamer Helical Domain. J Am Chem Soc 2019; 141:2516-2525. [DOI: 10.1021/jacs.8b12240] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Caterina Maria Lombardo
- Univ. Bordeaux, CNRS, CBMN, UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Vasantha Kumar M. V.
- Univ. Bordeaux, Inserm, CNRS, ARNA Laboratory, U1212, UMR 5320, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33076 Pessac, France
| | - Céline Douat
- Univ. Bordeaux, CNRS, CBMN, UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Frédéric Rosu
- Institut Européen de Chimie et Biologie, UMS3033/US001, Univ. Bordeaux, INSERM, CNRS, 2 rue Robert Escarpit, 33076 Pessac, France
| | - Jean-Louis Mergny
- Univ. Bordeaux, Inserm, CNRS, ARNA Laboratory, U1212, UMR 5320, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33076 Pessac, France
| | - Gilmar F. Salgado
- Univ. Bordeaux, Inserm, CNRS, ARNA Laboratory, U1212, UMR 5320, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33076 Pessac, France
| | - Gilles Guichard
- Univ. Bordeaux, CNRS, CBMN, UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
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11
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Harmand TJ, Bousbaine D, Chan A, Zhang X, Liu DR, Tam JP, Ploegh HL. One-Pot Dual Labeling of IgG 1 and Preparation of C-to-C Fusion Proteins Through a Combination of Sortase A and Butelase 1. Bioconjug Chem 2018; 29:3245-3249. [PMID: 30231608 DOI: 10.1021/acs.bioconjchem.8b00563] [Citation(s) in RCA: 61] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Site-specific chemical modification of proteins can assist in the study of their function. Furthermore, these methods are essential to develop biologicals for diagnostic and therapeutic use. Standard protein engineering protocols and recombinant expression enable the production of proteins with short peptide tags recognized by enzymes capable of site-specific modification. We report here the application of two enzymes of orthogonal specificity, sortase A and butelase 1, to prepare non-natural C-to-C fusion proteins. Using these enzymes, we further demonstrate site-selective installation of different chemical moieties at two sites in a full-size antibody molecule.
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Affiliation(s)
- Thibault J Harmand
- Program in Cellular and Molecular Medicine , Boston Children's Hospital, Harvard Medical School , Boston , Massachussets 02115 , United States
| | - Djenet Bousbaine
- Program in Cellular and Molecular Medicine , Boston Children's Hospital, Harvard Medical School , Boston , Massachussets 02115 , United States.,Department of Microbiology , Massachusetts Institute of Technology , Cambridge , Massachussets 02139 , United States
| | - Alix Chan
- The Broad Institute of Harvard and MIT, Howard Hughes Medical Institute, and the Department of Chemistry and Chemical Biology , Harvard University , Cambridge , Massachussets 02142 , United States
| | - Xiaohong Zhang
- School of Biological Sciences , Nanyang Technological University , 637551 , Singapore
| | - David R Liu
- The Broad Institute of Harvard and MIT, Howard Hughes Medical Institute, and the Department of Chemistry and Chemical Biology , Harvard University , Cambridge , Massachussets 02142 , United States
| | - James P Tam
- School of Biological Sciences , Nanyang Technological University , 637551 , Singapore
| | - Hidde L Ploegh
- Program in Cellular and Molecular Medicine , Boston Children's Hospital, Harvard Medical School , Boston , Massachussets 02115 , United States
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12
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Accessing Structure, Dynamics and Function of Biological Macromolecules by NMR Through Advances in Isotope Labeling. J Indian Inst Sci 2018. [DOI: 10.1007/s41745-018-0085-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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13
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Hayashi T, Hilvert D, Green AP. Engineered Metalloenzymes with Non-Canonical Coordination Environments. Chemistry 2018; 24:11821-11830. [PMID: 29786902 DOI: 10.1002/chem.201800975] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Indexed: 11/09/2022]
Abstract
Nature employs a limited number of genetically encoded, metal-coordinating residues to create metalloenzymes with diverse structures and functions. Engineered components of the cellular translation machinery can now be exploited to encode non-canonical ligands with user-defined electronic and structural properties. This ability to install "chemically programmed" ligands into proteins can provide powerful chemical probes of metalloenzyme mechanism and presents excellent opportunities to create metalloprotein catalysts with augmented properties and novel activities. In this Concept article, we provide an overview of several recent studies describing the creation of engineered metalloenzymes with interesting catalytic properties, and reveal how characterization of these systems has advanced our understanding of nature's bioinorganic mechanisms. We also highlight how powerful laboratory evolution protocols can be readily adapted to allow optimization of metalloenzymes with non-canonical ligands. This approach combines beneficial features of small molecule and protein catalysis by allowing the installation of a greater variety of local metal coordination environments into evolvable protein scaffolds, and holds great promise for the future creation of powerful metalloprotein catalysts for a host of synthetically valuable transformations.
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Affiliation(s)
- Takahiro Hayashi
- Laboratory of Organic Chemistry, ETH Zurich, 8093, Zurich, Switzerland
| | - Donald Hilvert
- Laboratory of Organic Chemistry, ETH Zurich, 8093, Zurich, Switzerland
| | - Anthony P Green
- School of Chemistry & Manchester Institute of Biotechnology, The University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
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14
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Bédard F, Biron E. Recent Progress in the Chemical Synthesis of Class II and S-Glycosylated Bacteriocins. Front Microbiol 2018; 9:1048. [PMID: 29875754 PMCID: PMC5974097 DOI: 10.3389/fmicb.2018.01048] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2017] [Accepted: 05/02/2018] [Indexed: 12/11/2022] Open
Abstract
A wide variety of antimicrobial peptides produced by lactic acid bacteria (LAB) have been identified and studied in the last decades. Known as bacteriocins, these ribosomally synthesized peptides inhibit the growth of a wide range of bacterial species through numerous mechanisms and show a great variety of spectrum of activity. With their great potential as antimicrobial additives and alternatives to traditional antibiotics in food preservation and handling, animal production and in veterinary and medical medicine, the demand for bacteriocins is rapidly increasing. Bacteriocins are most often produced by fermentation but, in several cases, the low isolated yields and difficulties associated with their purification seriously limit their use on a large scale. Chemical synthesis has been proposed for their production and recent advances in peptide synthesis methodologies have allowed the preparation of several bacteriocins. Moreover, the significant cost reduction for peptide synthesis reagents and building blocks has made chemical synthesis of bacteriocins more attractive and competitive. From a protein engineering point of view, the chemical approach offers many advantages such as the possibility to rapidly perform amino acid substitution, use unnatural or modified residues, and make backbone and side chain modifications to improve potency, modify the activity spectrum or increase the stability of the targeted bacteriocin. This review summarized synthetic approaches that have been developed and used in recent years to allow the preparation of class IIa bacteriocins and S-linked glycopeptides from LAB. Synthetic strategies such as the use of pseudoprolines, backbone protecting groups, microwave irradiations, selective disulfide bridge formation and chemical ligations to prepare class II and S-glycosylsated bacteriocins are discussed.
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Affiliation(s)
- François Bédard
- Faculty of Pharmacy and Institute of Nutrition and Functional Foods, Université Laval, Québec, QC, Canada
- Laboratory of Medicinal Chemistry, CHU de Québec Research Centre, Québec, QC, Canada
| | - Eric Biron
- Faculty of Pharmacy and Institute of Nutrition and Functional Foods, Université Laval, Québec, QC, Canada
- Laboratory of Medicinal Chemistry, CHU de Québec Research Centre, Québec, QC, Canada
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15
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Abstract
Exciting new technological developments have pushed the boundaries of structural biology, and have enabled studies of biological macromolecules and assemblies that would have been unthinkable not long ago. Yet, the enhanced capabilities of structural biologists to pry into the complex molecular world have also placed new demands on the abilities of protein engineers to reproduce this complexity into the test tube. With this challenge in mind, we review the contents of the modern molecular engineering toolbox that allow the manipulation of proteins in a site-specific and chemically well-defined fashion. Thus, we cover concepts related to the modification of cysteines and other natural amino acids, native chemical ligation, intein and sortase-based approaches, amber suppression, as well as chemical and enzymatic bio-conjugation strategies. We also describe how these tools can be used to aid methodology development in X-ray crystallography, nuclear magnetic resonance, cryo-electron microscopy and in the studies of dynamic interactions. It is our hope that this monograph will inspire structural biologists and protein engineers alike to apply these tools to novel systems, and to enhance and broaden their scope to meet the outstanding challenges in understanding the molecular basis of cellular processes and disease.
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16
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Jobin S, Méjean A, Galindo SM, Liang X, Vézina-Dawod S, Biron E. Toward solid-phase peptide fragment ligation by a traceless-Ugi multicomponent reaction approach. Org Biomol Chem 2018; 14:11230-11237. [PMID: 27841889 DOI: 10.1039/c6ob02342h] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
A new methodology to couple peptide fragments on solid support using a traceless isocyanide-based multicomponent reaction is described. The approach uses a microwave-assisted on-resin Ugi four-component reaction to attach a carboxyl free peptide to a supported peptide bearing a free N-terminal amine via the formation of an N-protected amide bond at the ligation site. Afterward, the generated backbone amide protecting group can be efficiently removed by microwave-assisted acidolysis with trifluoroacetic acid to afford a fully deprotected peptide. This straightforward Ugi reaction/deprotection approach was applied to condense various fragment lengths and provided a variety of oligopeptides.
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Affiliation(s)
- Steve Jobin
- Faculty of Pharmacy, Université Laval and Laboratory of Medicinal Chemistry, Centre de recherche du Centre Hospitalier Universitaire de Québec, Québec (QC) G1V 4G2, Canada.
| | - Alexia Méjean
- Faculty of Pharmacy, Université Laval and Laboratory of Medicinal Chemistry, Centre de recherche du Centre Hospitalier Universitaire de Québec, Québec (QC) G1V 4G2, Canada.
| | - Sindy-Marcela Galindo
- Faculty of Pharmacy, Université Laval and Laboratory of Medicinal Chemistry, Centre de recherche du Centre Hospitalier Universitaire de Québec, Québec (QC) G1V 4G2, Canada.
| | - Xinxia Liang
- Faculty of Pharmacy, Université Laval and Laboratory of Medicinal Chemistry, Centre de recherche du Centre Hospitalier Universitaire de Québec, Québec (QC) G1V 4G2, Canada.
| | - Simon Vézina-Dawod
- Faculty of Pharmacy, Université Laval and Laboratory of Medicinal Chemistry, Centre de recherche du Centre Hospitalier Universitaire de Québec, Québec (QC) G1V 4G2, Canada.
| | - Eric Biron
- Faculty of Pharmacy, Université Laval and Laboratory of Medicinal Chemistry, Centre de recherche du Centre Hospitalier Universitaire de Québec, Québec (QC) G1V 4G2, Canada.
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17
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Jolley KE, Nye W, González Niño C, Kapur N, Rabion A, Rossen K, Blacker AJ. Highly Productive Continuous Flow Synthesis of Di- and Tripeptides in Water. Org Process Res Dev 2017. [DOI: 10.1021/acs.oprd.7b00214] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Katherine E. Jolley
- Institute
of Process Research and Development, School of Chemistry and School
of Chemical and Process Engineering and School of Mechanical Engineering, University of Leeds, Woodhouse Lane, LS2 9JT, West Yorkshire, U.K
| | - William Nye
- Institute
of Process Research and Development, School of Chemistry and School
of Chemical and Process Engineering and School of Mechanical Engineering, University of Leeds, Woodhouse Lane, LS2 9JT, West Yorkshire, U.K
| | - Carlos González Niño
- Institute
of Process Research and Development, School of Chemistry and School
of Chemical and Process Engineering and School of Mechanical Engineering, University of Leeds, Woodhouse Lane, LS2 9JT, West Yorkshire, U.K
| | - Nikil Kapur
- Institute
of Process Research and Development, School of Chemistry and School
of Chemical and Process Engineering and School of Mechanical Engineering, University of Leeds, Woodhouse Lane, LS2 9JT, West Yorkshire, U.K
| | - Alain Rabion
- Sanofi-Aventis France, LGCR-CBD Chemical Development, Toulouse, France
| | - Kai Rossen
- Sanofi-Aventis Deutschland GmbH, R&D LGCR/Chemical Development FF Industriepark Hoechst, Bldg. G838, Room 010, D-65926 Frankfurt am Main, Germany
| | - A. John Blacker
- Institute
of Process Research and Development, School of Chemistry and School
of Chemical and Process Engineering and School of Mechanical Engineering, University of Leeds, Woodhouse Lane, LS2 9JT, West Yorkshire, U.K
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18
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Taskova M, Mantsiou A, Astakhova K. Synthetic Nucleic Acid Analogues in Gene Therapy: An Update for Peptide-Oligonucleotide Conjugates. Chembiochem 2017; 18:1671-1682. [PMID: 28614621 DOI: 10.1002/cbic.201700229] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2017] [Indexed: 12/29/2022]
Abstract
The main objective of this work is to provide an update on synthetic nucleic acid analogues and nanoassemblies as tools in gene therapy. In particular, the synthesis and properties of peptide-oligonucleotide conjugates (POCs), which have high potential in research and as therapeutics, are described in detail. The exploration of POCs has already led to fruitful results in the treatment of neurological diseases, lung disorders, cancer, leukemia, viral, and bacterial infections. However, delivery and in vivo stability are the major barriers to the clinical application of POCs and other analogues that still have to be overcome. This review summarizes recent achievements in the delivery and in vivo administration of synthetic nucleic acid analogues, focusing on POCs, and compares their efficiency.
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Affiliation(s)
- Maria Taskova
- Nucleic Acid Center, Department of Physics, Chemistry and Pharmacy, University of Southern Denmark, Campusvej 55, 5230, Odense M, Denmark
| | - Anna Mantsiou
- Nucleic Acid Center, Department of Physics, Chemistry and Pharmacy, University of Southern Denmark, Campusvej 55, 5230, Odense M, Denmark
| | - Kira Astakhova
- Nucleic Acid Center, Department of Physics, Chemistry and Pharmacy, University of Southern Denmark, Campusvej 55, 5230, Odense M, Denmark.,Technical University of Denmark, Department of Chemistry, Kemitorvet, 2800, Kongens Lyngby, Denmark
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19
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Wang X, Sanchez J, Stone MJ, Payne RJ. Sulfation of the Human Cytomegalovirus Protein UL22A Enhances Binding to the Chemokine RANTES. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201703059] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Xiaoyi Wang
- School of Chemistry The University of Sydney Sydney NSW 2006 Australia
| | - Julie Sanchez
- Department of Biochemistry and Molecular Biology Monash University Melbourne VIC 3800 Australia
| | - Martin J. Stone
- Department of Biochemistry and Molecular Biology Monash University Melbourne VIC 3800 Australia
| | - Richard J. Payne
- School of Chemistry The University of Sydney Sydney NSW 2006 Australia
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20
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Wang X, Sanchez J, Stone MJ, Payne RJ. Sulfation of the Human Cytomegalovirus Protein UL22A Enhances Binding to the Chemokine RANTES. Angew Chem Int Ed Engl 2017; 56:8490-8494. [DOI: 10.1002/anie.201703059] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2017] [Revised: 05/06/2017] [Indexed: 12/11/2022]
Affiliation(s)
- Xiaoyi Wang
- School of Chemistry The University of Sydney Sydney NSW 2006 Australia
| | - Julie Sanchez
- Department of Biochemistry and Molecular Biology Monash University Melbourne VIC 3800 Australia
| | - Martin J. Stone
- Department of Biochemistry and Molecular Biology Monash University Melbourne VIC 3800 Australia
| | - Richard J. Payne
- School of Chemistry The University of Sydney Sydney NSW 2006 Australia
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21
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Rohrbacher F, Zwicky A, Bode JW. Chemical synthesis of a homoserine-mutant of the antibacterial, head-to-tail cyclized protein AS-48 by α-ketoacid-hydroxylamine (KAHA) ligation. Chem Sci 2017; 8:4051-4055. [PMID: 28580120 PMCID: PMC5434751 DOI: 10.1039/c7sc00789b] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2017] [Accepted: 03/23/2017] [Indexed: 12/15/2022] Open
Abstract
An antibacterial cyclic AS-48 protein was chemically synthesized by α-ketoacid-hydroxylamine (KAHA) ligation. Initial challenges associated with the exceptionally hydrophobic segments arising from the amphiphilic nature of the protein were resolved by the development of bespoke reaction conditions for hydrophobic segments, using hexafluoroisopropanol (HFIP) as a co-solvent. The synthetic protein displays similar biological activity and properties to those of the native protein. To support the current understanding of its antibacterial mode of action, we demonstrate the ability of AS-48 to be incorporated into synthetic multilamellar vesicles (MLVs).
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Affiliation(s)
- Florian Rohrbacher
- Laboratorium für Organische Chemie , Department of Chemistry and Applied Biosciences , ETH Zürich , 8093 Zürich , Switzerland .
| | - André Zwicky
- Laboratorium für Organische Chemie , Department of Chemistry and Applied Biosciences , ETH Zürich , 8093 Zürich , Switzerland .
| | - Jeffrey W Bode
- Laboratorium für Organische Chemie , Department of Chemistry and Applied Biosciences , ETH Zürich , 8093 Zürich , Switzerland . .,Institute of Transformative bio-Molecules (WPI-ITbM) , Nagoya University , Chikusa , Nagoya 464-8602 , Japan
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22
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Abstract
The present review offers an overview of nonclassical (e.g., with no pre- or in situ activation of a carboxylic acid partner) approaches for the construction of amide bonds. The review aims to comprehensively discuss relevant work, which was mainly done in the field in the last 20 years. Organization of the data follows a subdivision according to substrate classes: catalytic direct formation of amides from carboxylic and amines ( section 2 ); the use of carboxylic acid surrogates ( section 3 ); and the use of amine surrogates ( section 4 ). The ligation strategies (NCL, Staudinger, KAHA, KATs, etc.) that could involve both carboxylic acid and amine surrogates are treated separately in section 5 .
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Affiliation(s)
- Renata Marcia de Figueiredo
- Institut Charles Gerhardt de Montpellier (ICGM), UMR 5253-CNRS-UM-ENSCM, Ecole Nationale Supérieure de Chimie , 8 rue de l'Ecole Normale, 34296 Montpellier Cedex 5, France
| | - Jean-Simon Suppo
- Institut Charles Gerhardt de Montpellier (ICGM), UMR 5253-CNRS-UM-ENSCM, Ecole Nationale Supérieure de Chimie , 8 rue de l'Ecole Normale, 34296 Montpellier Cedex 5, France
| | - Jean-Marc Campagne
- Institut Charles Gerhardt de Montpellier (ICGM), UMR 5253-CNRS-UM-ENSCM, Ecole Nationale Supérieure de Chimie , 8 rue de l'Ecole Normale, 34296 Montpellier Cedex 5, France
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23
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Jacobsen MT, Petersen ME, Ye X, Galibert M, Lorimer GH, Aucagne V, Kay MS. A Helping Hand to Overcome Solubility Challenges in Chemical Protein Synthesis. J Am Chem Soc 2016; 138:11775-82. [PMID: 27532670 DOI: 10.1021/jacs.6b05719] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
Although native chemical ligation (NCL) and related chemoselective ligation approaches provide an elegant method to stitch together unprotected peptides, the handling and purification of insoluble and aggregation-prone peptides and assembly intermediates create a bottleneck to routinely preparing large proteins by completely synthetic means. In this work, we introduce a new general tool, Fmoc-Ddae-OH, N-Fmoc-1-(4,4-dimethyl-2,6-dioxocyclo-hexylidene)-3-[2-(2-aminoethoxy)ethoxy]-propan-1-ol, a heterobifunctional traceless linker for temporarily attaching highly solubilizing peptide sequences ("helping hands") onto insoluble peptides. This tool is implemented in three simple and nearly quantitative steps: (i) on-resin incorporation of the linker at a Lys residue ε-amine, (ii) Fmoc-SPPS elongation of a desired solubilizing sequence, and (iii) in-solution removal of the solubilizing sequence using mild aqueous hydrazine to cleave the Ddae linker after NCL-based assembly. Successful introduction and removal of a Lys6 helping hand is first demonstrated in two model systems (Ebola virus C20 peptide and the 70-residue ribosomal protein L31). It is then applied to the challenging chemical synthesis of the 97-residue co-chaperonin GroES, which contains a highly insoluble C-terminal segment that is rescued by a helping hand. Importantly, the Ddae linker can be cleaved in one pot following NCL or desulfurization. The purity, structure, and chaperone activity of synthetic l-GroES were validated with respect to a recombinant control. Additionally, the helping hand enabled synthesis of d-GroES, which was inactive in a heterochiral mixture with recombinant GroEL, providing additional insight into chaperone specificity. Ultimately, this simple, robust, and easy-to-use tool is expected to be broadly applicable for the synthesis of challenging peptides and proteins.
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Affiliation(s)
- Michael T Jacobsen
- Department of Biochemistry, University of Utah School of Medicine , 15 North Medical Drive East, Room 4100, Salt Lake City, Utah 84112-5650, United States
| | - Mark E Petersen
- Department of Biochemistry, University of Utah School of Medicine , 15 North Medical Drive East, Room 4100, Salt Lake City, Utah 84112-5650, United States
| | - Xiang Ye
- Department of Chemistry & Biochemistry, 8051 Regents Drive, University of Maryland , College Park, Maryland 20742-4454, United States
| | - Mathieu Galibert
- Centre de Biophysique Moléculaire, CNRS UPR4301 , Rue Charles Sadron, Orléans CEDEX 2 45071, France
| | - George H Lorimer
- Department of Chemistry & Biochemistry, 8051 Regents Drive, University of Maryland , College Park, Maryland 20742-4454, United States
| | - Vincent Aucagne
- Centre de Biophysique Moléculaire, CNRS UPR4301 , Rue Charles Sadron, Orléans CEDEX 2 45071, France
| | - Michael S Kay
- Department of Biochemistry, University of Utah School of Medicine , 15 North Medical Drive East, Room 4100, Salt Lake City, Utah 84112-5650, United States
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24
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Lee CL, Liu H, Wong CTT, Chow HY, Li X. Enabling N-to-C Ser/Thr Ligation for Convergent Protein Synthesis via Combining Chemical Ligation Approaches. J Am Chem Soc 2016; 138:10477-84. [DOI: 10.1021/jacs.6b04238] [Citation(s) in RCA: 62] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Chi Lung Lee
- Department of Chemistry,
The State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Pokfulam, Hong Kong SAR, China
| | - Han Liu
- Department of Chemistry,
The State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Pokfulam, Hong Kong SAR, China
| | - Clarence T. T. Wong
- Department of Chemistry,
The State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Pokfulam, Hong Kong SAR, China
| | - Hoi Yee Chow
- Department of Chemistry,
The State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Pokfulam, Hong Kong SAR, China
| | - Xuechen Li
- Department of Chemistry,
The State Key Laboratory of Synthetic Chemistry, The University of Hong Kong, Pokfulam, Hong Kong SAR, China
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25
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Harmand TJ, Murar CE, Bode JW. Protein chemical synthesis by α-ketoacid–hydroxylamine ligation. Nat Protoc 2016; 11:1130-47. [DOI: 10.1038/nprot.2016.052] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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26
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Abstract
Reversible protein phosphorylation is critically important in biology and medicine. Hundreds of thousands of sites of protein phosphorylation have been discovered but our understanding of the functions of the vast majority of these post-translational modifications is lacking. This review describes several chemical and biochemical methods that are under development and in current use to install phospho-amino acids and their mimics site-specifically into proteins. The relative merits of total chemical synthesis, semisynthesis, and nonsense suppression strategies for studying protein phosphorylation are discussed in terms of technical simplicity, scope, and versatility.
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Affiliation(s)
- Zan Chen
- Department of Pharmacology and Molecular Sciences, Johns Hopkins School of Medicine, Baltimore, MD 21205, United States
| | - Philip A Cole
- Department of Pharmacology and Molecular Sciences, Johns Hopkins School of Medicine, Baltimore, MD 21205, United States.
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27
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Chow HY, Li X. Development of thiol-independent peptide ligations for protein chemical synthesis. Tetrahedron Lett 2015. [DOI: 10.1016/j.tetlet.2015.04.086] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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