1
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Birch-Price Z, Hardy FJ, Lister TM, Kohn AR, Green AP. Noncanonical Amino Acids in Biocatalysis. Chem Rev 2024; 124:8740-8786. [PMID: 38959423 PMCID: PMC11273360 DOI: 10.1021/acs.chemrev.4c00120] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2024] [Revised: 06/11/2024] [Accepted: 06/12/2024] [Indexed: 07/05/2024]
Abstract
In recent years, powerful genetic code reprogramming methods have emerged that allow new functional components to be embedded into proteins as noncanonical amino acid (ncAA) side chains. In this review, we will illustrate how the availability of an expanded set of amino acid building blocks has opened a wealth of new opportunities in enzymology and biocatalysis research. Genetic code reprogramming has provided new insights into enzyme mechanisms by allowing introduction of new spectroscopic probes and the targeted replacement of individual atoms or functional groups. NcAAs have also been used to develop engineered biocatalysts with improved activity, selectivity, and stability, as well as enzymes with artificial regulatory elements that are responsive to external stimuli. Perhaps most ambitiously, the combination of genetic code reprogramming and laboratory evolution has given rise to new classes of enzymes that use ncAAs as key catalytic elements. With the framework for developing ncAA-containing biocatalysts now firmly established, we are optimistic that genetic code reprogramming will become a progressively more powerful tool in the armory of enzyme designers and engineers in the coming years.
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Affiliation(s)
| | | | | | | | - Anthony P. Green
- Manchester Institute of Biotechnology,
School of Chemistry, University of Manchester, Manchester M1 7DN, U.K.
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2
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Hadar D, Strugach DS, Amiram M. Conjugates of Recombinant Protein‐Based Polymers: Combining Precision with Chemical Diversity. ADVANCED NANOBIOMED RESEARCH 2022. [DOI: 10.1002/anbr.202100142] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Affiliation(s)
- Dagan Hadar
- Avram and Stella Goldstein-Goren Department of Biotechnology Engineering Ben-Gurion University of the Negev P.O. Box 653 Beer-Sheva 8410501 Israel
| | - Daniela S. Strugach
- Avram and Stella Goldstein-Goren Department of Biotechnology Engineering Ben-Gurion University of the Negev P.O. Box 653 Beer-Sheva 8410501 Israel
| | - Miriam Amiram
- Avram and Stella Goldstein-Goren Department of Biotechnology Engineering Ben-Gurion University of the Negev P.O. Box 653 Beer-Sheva 8410501 Israel
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3
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Breunig SL, Tirrell DA. Incorporation of proline analogs into recombinant proteins expressed in Escherichia coli. Methods Enzymol 2021; 656:545-571. [PMID: 34325798 DOI: 10.1016/bs.mie.2021.05.008] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Abstract
Proline residues are unique in the extent to which they constrain the conformational space available to the protein backbone. Because the conformational preferences of proline cannot be recapitulated by any of the other proteinogenic amino acids, standard mutagenesis approaches that seek to introduce new chemical functionality at proline positions unavoidably perturb backbone flexibility. Here, we detail the incorporation of proline analogs into recombinant proteins in Escherichia coli via a residue-specific mutagenesis strategy. This approach results in global replacement of proline residues with high yields of the recombinant protein of interest, minimal genetic manipulation, and maintenance of backbone conformational constraints.
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Affiliation(s)
- Stephanie L Breunig
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA, United States
| | - David A Tirrell
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA, United States.
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4
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Wang B, Pan R, Zhu W, Xu Y, Tian Y, Endo M, Sugiyama H, Yang Y, Qian X. Short intrinsically disordered polypeptide-oligonucleotide conjugates for programmed self-assembly of nanospheres with temperature-dependent size controllability. SOFT MATTER 2021; 17:1184-1188. [PMID: 33527954 DOI: 10.1039/d0sm01817a] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
A series of short intrinsically disordered polypeptide conjugated oligonucleotides (IDPOCs) were rationally developed and assembled into well-defined nanospheres. The nanospheres exhibited excellent reversible thermoresponsive regulation of their contraction and expansion. Furthermore, the nanospheres showed biocompatibility, drug encapsulation and effective cellular uptake.
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Affiliation(s)
- Bin Wang
- Shanghai Key Laboratory of Chemical Biology, School of Pharmacy, East China University of Science and Technology, Shanghai, 200237, China.
| | - Rizhao Pan
- Shanghai Key Laboratory of Chemical Biology, School of Pharmacy, East China University of Science and Technology, Shanghai, 200237, China.
| | - Weiping Zhu
- Shanghai Key Laboratory of Chemical Biology, School of Pharmacy, East China University of Science and Technology, Shanghai, 200237, China.
| | - Yufang Xu
- Shanghai Key Laboratory of Chemical Biology, School of Pharmacy, East China University of Science and Technology, Shanghai, 200237, China.
| | - Ye Tian
- College of Engineering and Applied Science, Nanjing University, Nanjing, 210093, China
| | - Masayuki Endo
- Department of Chemistry, Kyoto University, Kitashirakawa-Oiwakecho, 606-8502, Kyoto, Japan
| | - Hiroshi Sugiyama
- Department of Chemistry, Kyoto University, Kitashirakawa-Oiwakecho, 606-8502, Kyoto, Japan
| | - Yangyang Yang
- Shanghai Key Laboratory of Chemical Biology, School of Pharmacy, East China University of Science and Technology, Shanghai, 200237, China.
| | - Xuhong Qian
- Shanghai Key Laboratory of Chemical Biology, School of Pharmacy, East China University of Science and Technology, Shanghai, 200237, China. and State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai 200237, China
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5
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Hossain MS, Maller C, Dai Y, Nangia S, Mozhdehi D. Non-canonical lipoproteins with programmable assembly and architecture. Chem Commun (Camb) 2020; 56:10281-10284. [PMID: 32734969 DOI: 10.1039/d0cc03271a] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The substrate promiscuity of an acyltransferase is leveraged to synthesize artificial lipoproteins bearing a non-canonical PTM (ncPTM). The non-canonical functionality of these lipoproteins results in a distinctive hysteretic assembly-absent from the canonical lipoproteins-and is used to prepare hybrid multiblock materials with precise and programmable patterns of amphiphilicity. This study demonstrates the promise of expanding the repertoire of PTMs for the development of nanomaterials with a unique assembly and function.
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Affiliation(s)
- Md Shahadat Hossain
- Department of Chemistry, 1-014 Center for Science and Technology, Syracuse University, Syracuse, NY 13244, USA.
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6
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Saha S, Banskota S, Roberts S, Kirmani N, Chilkoti A. Engineering the Architecture of Elastin-Like Polypeptides: From Unimers to Hierarchical Self-Assembly. ADVANCED THERAPEUTICS 2020; 3:1900164. [PMID: 34307837 PMCID: PMC8297442 DOI: 10.1002/adtp.201900164] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2019] [Indexed: 12/12/2022]
Abstract
Well-defined tunable nanostructures formed through the hierarchical self-assembly of peptide building blocks have drawn significant attention due to their potential applications in biomedical science. Artificial protein polymers derived from elastin-like polypeptides (ELPs), which are based on the repeating sequence of tropoelastin (the water-soluble precursor to elastin), provide a promising platform for creating nanostructures due to their biocompatibility, ease of synthesis, and customizable architecture. By designing the sequence and composition of ELPs at the gene level, their physicochemical properties can be controlled to a degree that is unmatched by synthetic polymers. A variety of ELP-based nanostructures are designed, inspired by the self-assembly of elastin and other proteins in biological systems. The choice of building blocks determines not only the physical properties of the nanostructures, but also their self-assembly into architectures ranging from spherical micelles to elongated nanofibers. This review focuses on the molecular determinants of ELP and ELP-hybrid self-assembly and formation of spherical, rod-like, worm-like, fibrillar, and vesicle architectures. A brief discussion of the potential biomedical applications of these supramolecular assemblies is also included.
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Affiliation(s)
- Soumen Saha
- Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
| | - Samagya Banskota
- Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
| | - Stefan Roberts
- Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
| | - Nadia Kirmani
- Department of Biology, Trinity College of Arts and Sciences, Duke University, Durham, NC 27708, USA
| | - Ashutosh Chilkoti
- Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
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7
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Werten MWT, Eggink G, Cohen Stuart MA, de Wolf FA. Production of protein-based polymers in Pichia pastoris. Biotechnol Adv 2019; 37:642-666. [PMID: 30902728 PMCID: PMC6624476 DOI: 10.1016/j.biotechadv.2019.03.012] [Citation(s) in RCA: 56] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2018] [Revised: 02/03/2019] [Accepted: 03/17/2019] [Indexed: 01/09/2023]
Abstract
Materials science and genetic engineering have joined forces over the last three decades in the development of so-called protein-based polymers. These are proteins, typically with repetitive amino acid sequences, that have such physical properties that they can be used as functional materials. Well-known natural examples are collagen, silk, and elastin, but also artificial sequences have been devised. These proteins can be produced in a suitable host via recombinant DNA technology, and it is this inherent control over monomer sequence and molecular size that renders this class of polymers of particular interest to the fields of nanomaterials and biomedical research. Traditionally, Escherichia coli has been the main workhorse for the production of these polymers, but the methylotrophic yeast Pichia pastoris is finding increased use in view of the often high yields and potential bioprocessing benefits. We here provide an overview of protein-based polymers produced in P. pastoris. We summarize their physicochemical properties, briefly note possible applications, and detail their biosynthesis. Some challenges that may be faced when using P. pastoris for polymer production are identified: (i) low yields and poor process control in shake flask cultures; i.e., the need for bioreactors, (ii) proteolytic degradation, and (iii) self-assembly in vivo. Strategies to overcome these challenges are discussed, which we anticipate will be of interest also to readers involved in protein expression in P. pastoris in general.
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Affiliation(s)
- Marc W T Werten
- Wageningen Food & Biobased Research, NL-6708 WG Wageningen, The Netherlands.
| | - Gerrit Eggink
- Wageningen Food & Biobased Research, NL-6708 WG Wageningen, The Netherlands; Bioprocess Engineering, Wageningen University & Research, NL-6708 PB Wageningen, The Netherlands
| | - Martien A Cohen Stuart
- Physical Chemistry and Soft Matter, Wageningen University & Research, NL-6708 WE Wageningen, The Netherlands
| | - Frits A de Wolf
- Wageningen Food & Biobased Research, NL-6708 WG Wageningen, The Netherlands
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8
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Ta DT, Vanella R, Nash MA. Bioorthogonal Elastin-like Polypeptide Scaffolds for Immunoassay Enhancement. ACS APPLIED MATERIALS & INTERFACES 2018; 10:30147-30154. [PMID: 30125079 DOI: 10.1021/acsami.8b10092] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Artificial multiprotein complexes are sought after reagents for biomolecular engineering. A current limiting factor is the paucity of molecular scaffolds which allow for site-specific multicomponent assembly. Here, we address this limitation by synthesizing bioorthogonal elastin-like polypeptide (ELP) scaffolds containing periodic noncanonical l-azidohomoalanine amino acids in the guest residue position. The nine azide ELP guest residues served as conjugation sites for site-specific modification with dibenzocyclooctyne (DBCO)-functionalized single-domain antibodies (SdAbs) through strain-promoted alkyne-azide cycloaddition (SPAAC). Sortase A and ybbR tags at the C- and N-termini of the ELP scaffold provided two additional sites for derivatization with small molecules and peptides by Sortase A and 4'-phosphopantetheinyl transferase (Sfp), respectively. These functional groups are chemically bioorthogonal, mutually compatible, and highly efficient, thereby enabling synthesis of multi-antibody ELP complexes in a one-pot reaction. We demonstrate application of this material for enhancing the performance of sandwich immunoassays of the recombinant protein mCherry. In undiluted human plasma, surfaces modified with multi-antibody ELP complexes showed between 2.3- and 14.3-fold improvement in sensitivity and ∼30-40% lower limits of detection as compared with nonspecifically adsorbed antibodies. Dual-labeled multi-antibody ELP complexes were further used for cytometric labeling and analysis of live eukaryotic cells. These results demonstrate how multiple antibodies complexed onto bioorthogonal protein-based polymers can be used to enhance immunospecific binding interactions through multivalency effects.
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Affiliation(s)
- Duy Tien Ta
- Department of Chemistry , University of Basel , 4058 Basel , Switzerland
- Department of Biosystems Science and Engineering , ETH Zurich , 4058 Basel , Switzerland
| | - Rosario Vanella
- Department of Chemistry , University of Basel , 4058 Basel , Switzerland
- Department of Biosystems Science and Engineering , ETH Zurich , 4058 Basel , Switzerland
| | - Michael A Nash
- Department of Chemistry , University of Basel , 4058 Basel , Switzerland
- Department of Biosystems Science and Engineering , ETH Zurich , 4058 Basel , Switzerland
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9
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Fu R, Yang Y, Ma X, Sun Y, Li J, Gao H, Hu H, Zeng X, Yi J. An Efficient, Eco-friendly and Sustainable One-Pot Synthesis of 3,4-Dihydropyrimidin-2(1H)-ones Directly from Alcohols Catalyzed by Heteropolyanion-Based Ionic Liquids. Molecules 2017; 22:E1531. [PMID: 28891992 PMCID: PMC6151647 DOI: 10.3390/molecules22091531] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2017] [Accepted: 09/07/2017] [Indexed: 11/16/2022] Open
Abstract
Efficient, eco-friendly and sustainable access to 3,4-dihydropyrimidin-2(1H)-ones directly from alcohols under microwave and solvent-free conditions has been reported. The practical protocol involves heteropolyanion-based catalyzed oxidation of alcohols to aldehydes with NaNO₃ as the oxidant followed by cyclocondensation with dicarbonyl compounds and urea or thiourea in a two-step, one-pot manner. Compatibility with different functional groups, good to excellent yields and reusable catalysts are the main highlights. The utilization of alcohols instead of aldehydes is a valid and green alternative to the classical Biginelli reaction.
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Affiliation(s)
- Renzhong Fu
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
| | - Yang Yang
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
| | - Xudong Ma
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
| | - Yu Sun
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
| | - Jin Li
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
| | - Hang Gao
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
| | - Huaxing Hu
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
| | - Xiaojun Zeng
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
| | - Jun Yi
- Jiangsu Laboratory of Advanced Functional Material, School of Chemistry and Materials Engineering, Changshu Institute of Technology, Changshu 215500, China.
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10
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Agostini F, Völler J, Koksch B, Acevedo‐Rocha CG, Kubyshkin V, Budisa N. Biocatalysis with Unnatural Amino Acids: Enzymology Meets Xenobiology. Angew Chem Int Ed Engl 2017; 56:9680-9703. [DOI: 10.1002/anie.201610129] [Citation(s) in RCA: 131] [Impact Index Per Article: 18.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2016] [Revised: 12/13/2016] [Indexed: 01/18/2023]
Affiliation(s)
- Federica Agostini
- Institut für ChemieTechnische Universität Berlin Müller-Breslau-Strasse 10 10623 Berlin Germany
- Institute of Chemistry and Biochemistry—Organic ChemistryFreie Universität Berlin Takustrasse 3 14195 Berlin Germany
| | - Jan‐Stefan Völler
- Institut für ChemieTechnische Universität Berlin Müller-Breslau-Strasse 10 10623 Berlin Germany
| | - Beate Koksch
- Institute of Chemistry and Biochemistry—Organic ChemistryFreie Universität Berlin Takustrasse 3 14195 Berlin Germany
| | | | - Vladimir Kubyshkin
- Institut für ChemieTechnische Universität Berlin Müller-Breslau-Strasse 10 10623 Berlin Germany
| | - Nediljko Budisa
- Institut für ChemieTechnische Universität Berlin Müller-Breslau-Strasse 10 10623 Berlin Germany
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11
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Biokatalyse mit nicht‐natürlichen Aminosäuren: Enzymologie trifft Xenobiologie. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201610129] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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12
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Petitdemange R, Garanger E, Bataille L, Bathany K, Garbay B, Deming TJ, Lecommandoux S. Tuning Thermoresponsive Properties of Cationic Elastin-like Polypeptides by Varying Counterions and Side-Chains. Bioconjug Chem 2017; 28:1403-1412. [DOI: 10.1021/acs.bioconjchem.7b00082] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Rosine Petitdemange
- Université de Bordeaux/Bordeaux-INP, ENSCBP, CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), 16 avenue Pey-Berland, Pessac 33607, France
| | - Elisabeth Garanger
- Université de Bordeaux/Bordeaux-INP, ENSCBP, CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), 16 avenue Pey-Berland, Pessac 33607, France
| | - Laure Bataille
- Université de Bordeaux/Bordeaux-INP, ENSCBP, CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), 16 avenue Pey-Berland, Pessac 33607, France
| | - Katell Bathany
- Université de Bordeaux/Bordeaux-INP, CNRS, Chimie et Biologie des Membranes et des Nano-objets (UMR5248), Allée Geoffroy Saint Hilaire, Pessac 33600, France
| | - Bertrand Garbay
- Université de Bordeaux/Bordeaux-INP, ENSCBP, CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), 16 avenue Pey-Berland, Pessac 33607, France
| | - Timothy J. Deming
- Department
of Chemistry and Biochemistry, and Department of Bioengineering, University of California, Los Angeles, California 90095, United States
| | - Sébastien Lecommandoux
- Université de Bordeaux/Bordeaux-INP, ENSCBP, CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), 16 avenue Pey-Berland, Pessac 33607, France
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13
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Liang Y, Li L, Scott RA, Kiick KL. Polymeric Biomaterials: Diverse Functions Enabled by Advances in Macromolecular Chemistry. Macromolecules 2017; 50:483-502. [PMID: 29151616 PMCID: PMC5687278 DOI: 10.1021/acs.macromol.6b02389] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Biomaterials have been extensively used to leverage beneficial outcomes in various therapeutic applications, such as providing spatial and temporal control over the release of therapeutic agents in drug delivery as well as engineering functional tissues and promoting the healing process in tissue engineering and regenerative medicine. This perspective presents important milestones in the development of polymeric biomaterials with defined structures and properties. Contemporary studies of biomaterial design have been reviewed with focus on constructing materials with controlled structure, dynamic functionality, and biological complexity. Examples of these polymeric biomaterials enabled by advanced synthetic methodologies, dynamic chemistry/assembly strategies, and modulated cell-material interactions have been highlighted. As the field of polymeric biomaterials continues to evolve with increased sophistication, current challenges and future directions for the design and translation of these materials are also summarized.
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Affiliation(s)
- Yingkai Liang
- Department of Materials Science and Engineering, University of Delaware, Newark, DE, 19716, USA
| | - Linqing Li
- Department of Materials Science and Engineering, University of Delaware, Newark, DE, 19716, USA
| | - Rebecca A. Scott
- Department of Materials Science and Engineering, University of Delaware, Newark, DE, 19716, USA
- Nemours-Alfred I. duPont Hospital for Children, Department of Biomedical Research, 1600 Rockland Road, Wilmington, DE 19803, USA
| | - Kristi L. Kiick
- Department of Materials Science and Engineering, University of Delaware, Newark, DE, 19716, USA
- Department of Biomedical Engineering, University of Delaware, Newark, DE 19716, USA
- Delaware Biotechnology Institute, 15 Innovation Way, Newark, DE, 19711, USA
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14
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Teramoto H, Nakajima KI, Kojima K. Azide-Incorporated Clickable Silk Fibroin Materials with the Ability to Photopattern. ACS Biomater Sci Eng 2016; 2:251-258. [DOI: 10.1021/acsbiomaterials.5b00469] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Hidetoshi Teramoto
- Genetically Modified Organism
Research Center, National Institute of Agrobiological Sciences (NIAS), 1-2
Ohwashi, Tsukuba, Ibaraki 305-8634, Japan
| | - Ken-ichi Nakajima
- Genetically Modified Organism
Research Center, National Institute of Agrobiological Sciences (NIAS), 1-2
Ohwashi, Tsukuba, Ibaraki 305-8634, Japan
| | - Katsura Kojima
- Genetically Modified Organism
Research Center, National Institute of Agrobiological Sciences (NIAS), 1-2
Ohwashi, Tsukuba, Ibaraki 305-8634, Japan
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15
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Design of Self-Assembling Protein-Polymer Conjugates. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2016; 940:179-214. [PMID: 27677514 DOI: 10.1007/978-3-319-39196-0_9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Protein-polymer conjugates are of particular interest for nanobiotechnology applications because of the various and complementary roles that each component may play in composite hybrid-materials. This chapter focuses on the design principles and applications of self-assembling protein-polymer conjugate materials. We address the general design methodology, from both synthetic and genetic perspective, conjugation strategies, protein vs. polymer driven self-assembly and finally, emerging applications for conjugate materials. By marrying proteins and polymers into conjugated bio-hybrid materials, materials scientists, chemists, and biologists alike, have at their fingertips a vast toolkit for material design. These inherently hierarchical structures give rise to useful patterning, mechanical and transport properties that may help realize new, more efficient materials for energy generation, catalysis, nanorobots, etc.
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16
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17
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Kramer JR, Petitdemange R, Bataille L, Bathany K, Wirotius AL, Garbay B, Deming TJ, Garanger E, Lecommandoux S. Quantitative Side-Chain Modifications of Methionine-Containing Elastin-Like Polypeptides as a Versatile Tool to Tune Their Properties. ACS Macro Lett 2015; 4:1283-1286. [PMID: 35614829 DOI: 10.1021/acsmacrolett.5b00651] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
Tuning the lower critical solution temperature (LCST) of temperature-responsive recombinant elastin-like polypeptides has usually been achieved by designing different protein sequences, in terms of amino acid composition and length, implying tedious molecular cloning steps. In the present work, we have explored the chemoselective alkylation of methionine as an easy means to modify elastin repeat side chains and easily modulate the LCST of the polypeptides. Such a versatile synthetic method shall practically be exploited to modulate any properties of recombinant polymers.
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Affiliation(s)
- Jessica R. Kramer
- Department
of Chemistry and Biochemistry and Department of Bioengineering, University of California, Los Angeles, California 90095, United States
| | - Rosine Petitdemange
- Université de Bordeaux/Bordeaux INP, ENSCBP, 16 avenue Pey-Berland, Pessac 33607, France
- CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), Pessac, France
- Institut Européen de Chimie et Biologie (IECB), Pessac 33607, France
| | - Laure Bataille
- Université de Bordeaux/Bordeaux INP, ENSCBP, 16 avenue Pey-Berland, Pessac 33607, France
- CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), Pessac, France
- Institut Européen de Chimie et Biologie (IECB), Pessac 33607, France
| | - Katell Bathany
- Université de Bordeaux/Bordeaux INP, Allée Geoffroy
Saint Hilaire, Bât B14, Pessac 33600, France
- CNRS, Chimie et Biologie des Membranes et Nano-objets (UMR5248), Pessac, France
| | - Anne-Laure Wirotius
- Université de Bordeaux/Bordeaux INP, ENSCBP, 16 avenue Pey-Berland, Pessac 33607, France
- CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), Pessac, France
| | - Bertrand Garbay
- Université de Bordeaux/Bordeaux INP, Biologie des Protéines
Recombinantes à Visée Santé, EA4135, Bordeaux 33000, France
| | - Timothy J. Deming
- Department
of Chemistry and Biochemistry and Department of Bioengineering, University of California, Los Angeles, California 90095, United States
| | - Elisabeth Garanger
- Université de Bordeaux/Bordeaux INP, ENSCBP, 16 avenue Pey-Berland, Pessac 33607, France
- CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), Pessac, France
- Institut Européen de Chimie et Biologie (IECB), Pessac 33607, France
| | - Sebastien Lecommandoux
- Université de Bordeaux/Bordeaux INP, ENSCBP, 16 avenue Pey-Berland, Pessac 33607, France
- CNRS, Laboratoire de Chimie des Polymères Organiques (UMR5629), Pessac, France
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18
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Shin DG, Kim MY, Yi W, Han JW. Noble Synthesis of Xanthene-based Dyes by Copper-catalyzed Azide-Alkyne Cycloaddition Reaction#. B KOREAN CHEM SOC 2015. [DOI: 10.1002/bkcs.10134] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Dong Geun Shin
- Department of Chemistry, College of Natural Sciences; Institute of Nanoscience and Technology, Hanyang University; Seoul 133-791 Korea
| | - Min Young Kim
- Department of Chemistry, College of Natural Sciences; Institute of Nanoscience and Technology, Hanyang University; Seoul 133-791 Korea
| | - Whikun Yi
- Department of Chemistry, College of Natural Sciences; Institute of Nanoscience and Technology, Hanyang University; Seoul 133-791 Korea
| | - Jin Wook Han
- Department of Chemistry, College of Natural Sciences; Institute of Nanoscience and Technology, Hanyang University; Seoul 133-791 Korea
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Desai MS, Lee SW. Protein-based functional nanomaterial design for bioengineering applications. WILEY INTERDISCIPLINARY REVIEWS-NANOMEDICINE AND NANOBIOTECHNOLOGY 2014; 7:69-97. [DOI: 10.1002/wnan.1303] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2014] [Revised: 08/12/2014] [Accepted: 09/02/2014] [Indexed: 01/01/2023]
Affiliation(s)
- Malav S. Desai
- Department of Bioengineering; University of California, Berkeley; Berkeley CA USA
- Physical Biosciences Division; Lawrence Berkeley National Laboratory; Berkeley CA USA
| | - Seung-Wuk Lee
- Department of Bioengineering; University of California, Berkeley; Berkeley CA USA
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Thermodynamic investigation of Z33-antibody interaction leads to selective purification of human antibodies. J Biotechnol 2014; 179:32-41. [DOI: 10.1016/j.jbiotec.2014.03.023] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2013] [Revised: 02/25/2014] [Accepted: 03/11/2014] [Indexed: 12/19/2022]
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Martínez-Peragón Á, Miguel D, Jurado R, Justicia J, Álvarez-Pez JM, Cuerva JM, Crovetto L. Synthesis and Photophysics of a New Family of Fluorescent 9-Alkyl-Substituted Xanthenones. Chemistry 2013; 20:447-55. [DOI: 10.1002/chem.201303113] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2013] [Indexed: 11/10/2022]
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Nischan N, Chakrabarti A, Serwa RA, Bovee-Geurts PHM, Brock R, Hackenberger CPR. Stabilization of Peptides for Intracellular Applications by Phosphoramidate-Linked Polyethylene Glycol Chains. Angew Chem Int Ed Engl 2013; 52:11920-4. [DOI: 10.1002/anie.201303467] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2013] [Indexed: 11/11/2022]
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Nischan N, Chakrabarti A, Serwa RA, Bovee-Geurts PHM, Brock R, Hackenberger CPR. Stabilisierung von Peptiden für intrazelluläre Anwendungen mit Phosphoramidat-verzweigten Polyethylenglycol-Ketten. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201303467] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Wu IL, Patterson MA, Carpenter Desai HE, Mehl RA, Giorgi G, Conticello VP. Multiple Site-Selective Insertions of Noncanonical Amino Acids into Sequence-Repetitive Polypeptides. Chembiochem 2013; 14:968-78. [DOI: 10.1002/cbic.201300069] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2013] [Indexed: 11/11/2022]
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Abstract
Elastomeric polypeptides are very interesting biopolymers and are characterized by rubber-like elasticity, large extensibility before rupture, reversible deformation without loss of energy, and high resilience upon stretching. Their useful properties have motivated their use in a wide variety of materials and biological applications. This chapter focuses on elastin and resilin - two elastomeric biopolymers - and the recombinant polypeptides derived from them (elastin-like polypeptides and resilin-like polypeptides). This chapter also discusses the applications of these recombinant polypeptides in the fields of purification, drug delivery, and tissue engineering.
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Affiliation(s)
- Mark B. van Eldijk
- Institute for Molecules and Materials, Radboud University Nijmegen, 6525 AJ Nijmegen, The Netherlands
| | - Christopher L. McGann
- Department of Materials Science and Engineering, University of Delaware, Newark, DE 19716, USA
| | - Kristi L. Kiick
- Department of Materials Science and Engineering, University of Delaware, Newark, DE 19716, USA
| | - Jan C.M. van Hest
- Institute for Molecules and Materials, Radboud University Nijmegen, 6525 AJ Nijmegen, The Netherlands
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Vong T, Schoffelen S, van Dongen SFM, van Beek TA, Zuilhof H, van Hest JCM. A DNA-based strategy for dynamic positional enzyme immobilization inside fused silica microchannels. Chem Sci 2011. [DOI: 10.1039/c1sc00146a] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023] Open
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Meeuwissen SA, Rioz-Martínez A, de Gonzalo G, Fraaije MW, Gotor V, van Hest JCM. Cofactor regeneration in polymersome nanoreactors: enzymatically catalysed Baeyer–Villiger reactions. ACTA ACUST UNITED AC 2011. [DOI: 10.1039/c1jm12407b] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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Top A, Kiick KL. Multivalent protein polymers with controlled chemical and physical properties. Adv Drug Deliv Rev 2010; 62:1530-40. [PMID: 20562016 PMCID: PMC3025749 DOI: 10.1016/j.addr.2010.05.002] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2009] [Revised: 05/04/2010] [Accepted: 05/07/2010] [Indexed: 10/19/2022]
Abstract
In this review, we describe our work on the design, characterization, and modification of a series of alanine-rich helical polypeptides with novel functions. Glycosylation of the polypeptides has permitted investigation of polymer architecture effects on multivalent interactions. One of the members of this polypeptide family exhibits polymorphological behavior that is easily manipulated via simple changes in solution pH and temperature. Polypeptide-based fibrils formed at acidic pH and high temperature were shown to direct the one-dimensional organization of gold nanoparticles via electrostatic interactions. As a precursor to fibrils, aggregates likely comprising alanine-rich cores form at low temperatures and acidic pH and reversibly dissociate into monomers upon deprotonation. PEGylation of these polypeptides does not alter the self-association or conformational behavior of the polypeptide, suggesting potential applications in the development of assembled delivery vehicles, as modification of the polypeptides should be a useful strategy for controlling assembly.
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Affiliation(s)
- Ayben Top
- Department of Materials Science and Engineering, 201 DuPont Hall, University of Delaware, Newark, Delaware 19716
| | - Kristi L. Kiick
- Department of Materials Science and Engineering, 201 DuPont Hall, University of Delaware, Newark, Delaware 19716
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Johnson JA, Lu YY, Van Deventer JA, Tirrell DA. Residue-specific incorporation of non-canonical amino acids into proteins: recent developments and applications. Curr Opin Chem Biol 2010; 14:774-80. [PMID: 21071259 DOI: 10.1016/j.cbpa.2010.09.013] [Citation(s) in RCA: 244] [Impact Index Per Article: 17.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2010] [Accepted: 09/20/2010] [Indexed: 12/30/2022]
Abstract
Residue-specific incorporation of non-canonical amino acids into proteins allows facile alteration and enhancement of protein properties. In this review, we describe recent technical developments and applications of residue-specific incorporation to problems ranging from elucidation of biochemical mechanisms to engineering of protein-based biomaterials. We hope to inform the reader of the ease and broad utility of residue-specific non-canonical amino acid incorporation with the goal of inspiring investigators outside the field to consider applying this tool to their own research.
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Affiliation(s)
- Jeremiah A Johnson
- Division of Chemistry and Chemical Engineering, Joseph J. Jacobs Institute for Molecular Engineering for Medicine, California Institute of Technology, Pasadena, CA 91125, USA
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Abstract
Elastomeric proteins are characterized by their large extensibility before rupture, reversible deformation without loss of energy, and high resilience upon stretching. Motivated by their unique mechanical properties, there has been tremendous research in understanding and manipulating elastomeric polypeptides, with most work conducted on the elastins but more recent work on an expanded set of polypeptide elastomers. Facilitated by biosynthetic strategies, it has been possible to manipulate the physical properties, conformation, and mechanical properties of these materials. Detailed understanding of the roles and organization of the natural structural proteins has permitted the design of elastomeric materials with engineered properties, and has thus expanded the scope of applications from elucidation of the mechanisms of elasticity to the development of advanced drug delivery systems and tissue engineering substrates.
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Affiliation(s)
| | | | - Kristi L. Kiick
- Department of Materials Science and Engineering, University of Delaware, Newark, DE, 19716, USA
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Affiliation(s)
- Zoya Zarafshani
- Research Group Nanotechnology for Life Science, Fraunhofer Institute for Applied Polymer Research, Geiselbergstrasse 69, Potsdam-Golm 14476, Germany, and Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm 14476, Germany
| | - Toshihiro Obata
- Research Group Nanotechnology for Life Science, Fraunhofer Institute for Applied Polymer Research, Geiselbergstrasse 69, Potsdam-Golm 14476, Germany, and Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm 14476, Germany
| | - Jean-François Lutz
- Research Group Nanotechnology for Life Science, Fraunhofer Institute for Applied Polymer Research, Geiselbergstrasse 69, Potsdam-Golm 14476, Germany, and Max-Planck Institute of Molecular Plant Physiology, Potsdam-Golm 14476, Germany
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