The Development, Use, and Optimization of Sortase-tag Expressed Protein Ligation

The Development, Use, and Optimization of Sortase-tag Expressed Protein Ligation

Author: Robert L. Warden-Rothman

Publisher:

Published: 2015

Total Pages: 348

ISBN-13:

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Molecular imaging is an emerging field that seeks to combine the mechanistic detail of biochemical assays with the the broad phenotypic data obtained from non-invasive medical imaging. A cornerstone of molecular imaging is the ability to chemically attach a contrast-inducing payload to a targeting ligand, a protein that binds tightly and specifically to the targeted cell population. There are currently many approaches to bioconjugation. Chemical approaches have broad applicability, but lack the site-specificity and efficiency desired for contrast agent generation. Enzymatic techniques are quantitative, efficient, and site-specific, but often have limited scope and can add significant bulk to the targeting ligand or require additional downstream purification steps. In this work, we create a novel bioconjugation and protein purification technique, Sortase-Tag Expressed Protein Ligation (STEPL). By fusing the active domain of S. aureus Sortase A to the targeting ligand as part of a greater chimeric protein, we are able to combine protein purification and the C-terminal bioconjugation of that protein into a single step. Using a mass-action kinetics model, we prove that this results in a modular, efficient system capable of producing high-purity conjugated protein. We then use the system to generate contrast agents for fluorescent and magnetic imaging studies. The modularity of the STEPL system allows us to create an array of monospecific and bispecific targeting ligand dimers, linked by two different spacer regions. The dimers' binding properties are probed and they are used to successfully bind and label cells, with the bispecific proteins enhancing contrast of a cell line that is positive for both targets. Finally the STEPL system is subjected to a number of directed evolution approaches and screened for a clone that could further improve STEPL's efficiency and yield.


Expressed Protein Ligation

Expressed Protein Ligation

Author: Miquel Vila-Perelló

Publisher:

Published: 2020

Total Pages: 362

ISBN-13: 9781071604342

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This book provides a comprehensive overview of Expressed Protein Ligation (EPL), detailing methods and protocols to generate site-specifically modified proteins. Chapters include an overview of the protein semi-synthesis field, as well as related areas that have contributed to the development of EPL such as protein splicing and peptide synthesis. Following the introductory chapters, the rest of the book guides readers through protocols to perform EPL reactions, methods to synthesize peptide thioesters and to perform peptide and protein ligations, label proteins inside living cells, protocols for the semi-synthesis of phorphorylated, glycosylated and ubiquitylated proteins, synthesis and assembly of assymetrically modified nucleosomes, use of ligation auxiliaries and synthesis of cyclic proteins, as well as novel desulfurization strategies and use of selective Cys side chain protection to obtain precisely modified proteins.Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Expressed Protein Ligation: Methods and Protocols will ensure successful implementation of protein semi-synthesis methods to further study the structure and function of proteins.


Chemical Ligation

Chemical Ligation

Author: Luca D. D'Andrea

Publisher: John Wiley & Sons

Published: 2017-03-27

Total Pages: 558

ISBN-13: 1119044138

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Presenting a wide array of information on chemical ligation – one of the more powerful tools for protein and peptide synthesis – this book helps readers understand key methodologies and applications that protein therapeutic synthesis, drug discovery, and molecular imaging. • Moves from fundamental to applied aspects, so that novice readers can follow the entire book and apply these reactions in the lab • Presents a wide array of information on chemical ligation reactions, otherwise scattered across the literature, into one source • Features comprehensive and multidisciplinary coverage that goes from basics to advanced topics • Helps researchers choose the right chemical ligation technique for their needs


Protein Ligation and Total Synthesis I

Protein Ligation and Total Synthesis I

Author: Lei Liu

Publisher: Springer

Published: 2015-05-15

Total Pages: 275

ISBN-13: 3319191861

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Each review within the volume critically surveys one aspect of that topic and places it within the context of the volume as a whole. The most significant developments of the last 5 to 10 years are presented using selected examples to illustrate the principles discussed. The coverage is not intended to be an exhaustive summary of the field or include large quantities of data, but should rather be conceptual, concentrating on the methodological thinking that will allow the non-specialist reader to understand the information presented. Contributions also offer an outlook on potential future developments in the field.


Expressed Protein Ligation

Expressed Protein Ligation

Author: Miquel Vila-Perelló

Publisher: Humana

Published: 2020-03-07

Total Pages: 0

ISBN-13: 9781071604335

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This book provides a comprehensive overview of Expressed Protein Ligation (EPL), detailing methods and protocols to generate site-specifically modified proteins. Chapters include an overview of the protein semi-synthesis field, as well as related areas that have contributed to the development of EPL such as protein splicing and peptide synthesis. Following the introductory chapters, the rest of the book guides readers through protocols to perform EPL reactions, methods to synthesize peptide thioesters and to perform peptide and protein ligations, label proteins inside living cells, protocols for the semi-synthesis of phorphorylated, glycosylated and ubiquitylated proteins, synthesis and assembly of assymetrically modified nucleosomes, use of ligation auxiliaries and synthesis of cyclic proteins, as well as novel desulfurization strategies and use of selective Cys side chain protection to obtain precisely modified proteins.Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Expressed Protein Ligation: Methods and Protocols will ensure successful implementation of protein semi-synthesis methods to further study the structure and function of proteins.


Non-Natural Amino Acids

Non-Natural Amino Acids

Author:

Publisher: Academic Press

Published: 2009-07-24

Total Pages: 334

ISBN-13: 0080921639

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By combining the tools of organic chemistry with those of physical biochemistry and cell biology, Non-Natural Amino Acids aims to provide fundamental insights into how proteins work within the context of complex biological systems of biomedical interest. The critically acclaimed laboratory standard for 40 years, Methods in Enzymology is one of the most highly respected publications in the field of biochemistry. Since 1955, each volume has been eagerly awaited, frequently consulted, and praised by researchers and reviewers alike. With more than 400 volumes published, each Methods in Enzymology volume presents material that is relevant in today's labs -- truly an essential publication for researchers in all fields of life sciences. Demonstrates how the tools and principles of chemistry combined with the molecules and processes of living cells can be combined to create molecules with new properties and functions found neither in nature nor in the test tube Presents new insights into the molecular mechanisms of complex biological and chemical systems that can be gained by studying the structure and function of non-natural molecules Provides a "one-stop shop" for tried and tested essential techniques, eliminating the need to wade through untested or unreliable methods


Split Inteins

Split Inteins

Author: Henning D. Mootz

Publisher: Humana

Published: 2016-10-07

Total Pages: 0

ISBN-13: 9781493964499

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This volume focuses on applications of split inteins, and the progress that has been made in the past 5 years on discovery and engineering of fast and more efficient split inteins. The first few chapters in Split Inteins: Methods and Protocols explore new techniques on how to use split inteins for affinity purification of overproduced proteins, and split-intein based technologies to prepare cyclic peptides and proteins. The next few chapters discuss semisynthetic protein trans-splicing using one synthetic intein piece, synthetic intein-extein pieces used to deliver other cargos for chemical modification both of purified proteins and of proteins in living cells, as well as isotopic labeling of proteins for NMR studies, and a discussion on how protein block copolymers can be generated by protein trans-splicing to form protein hydrogels. The last few chapters deal with intein applications in transgenic plants and conditional inteins that can be regulated in artificial ways by small molecules or light, a cassette-based approach to quickly test many intein insertion positions, and a computational approach to predict new intein split sites (the approach also works for other proteins). Written in the highly successful Methods in Molecular Biology series format, chapters include introduction to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Split Inteins: Methods and Protocols is a valuable resource that will provide guidance toward possibilities of split intein applications, explore proven and detailed protocols adaptable to various research projects, and inspire new method developments.


EXPRESSED PROTEIN LIGATION. A NEW TOOL FOR THE BIOSYNTHESIS OF CYCLIC POLYPEPTIDES.

EXPRESSED PROTEIN LIGATION. A NEW TOOL FOR THE BIOSYNTHESIS OF CYCLIC POLYPEPTIDES.

Author:

Publisher:

Published: 2004

Total Pages: 12

ISBN-13:

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The present paper reviews the use of expressed protein ligation for the biosynthesis of backbone cyclic polypeptides. This general method allows the in vivo and in vitro biosynthesis of cyclic polypeptides using recombinant DNA expression techniques. Biosynthetic access to backbone cyclic peptides opens the possibility to generate cell-based combinatorial libraries that can be screened inside living cells for their ability to attenuate or inhibit cellular processes.