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Download or read book Probing Protein-protein Interactions with Peptide Libraries and Arrays written by and published by . This book was released on 2008 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Joachim Koch
Publisher : Springer Science & Business Media
ISBN 13 : 3662092298
Total Pages : 192 pages
Book Rating : 4.6/5 (62 download)
Download or read book Peptide Arrays on Membrane Supports written by Joachim Koch and published by Springer Science & Business Media. This book was released on 2013-03-09 with total page 192 pages. Available in PDF, EPUB and Kindle. Book excerpt: Proteins interacting with diverse ligands - proteins, peptides or DNA - are the basic principles underlying many biological processes, such as antigen-antibody binding, signal transduction or receptor binding. The technique of oligopeptide synthesis on a cellulose membrane and the subsequent binding assays allow the investigation of protein interactions. A particular advantage of these peptide arrays (SPOT - technology) is the high number of oligopeptide probes that can be tested in parallel. Detailed protocols for peptide synthesis, and the analysis of protein-protein, protein-DNA interactions as well as epitope mapping are presented in this manual. It is ideally suited not only for basic research laboratories but also for diagnostic and therapeutic applications since many diseases are related to dysfunctions in protein recognition and binding.
Author : Christopher Schirwitz
Publisher : Springer Science & Business Media
ISBN 13 : 3319008072
Total Pages : 138 pages
Book Rating : 4.3/5 (19 download)
Download or read book Purification of Peptides in High-Complexity Arrays written by Christopher Schirwitz and published by Springer Science & Business Media. This book was released on 2013-08-13 with total page 138 pages. Available in PDF, EPUB and Kindle. Book excerpt: Christopher Schirwitz's thesis focuses on improving the quality of in situ synthesized high-complexity peptide micro arrays. Micro arrays containing proteins or small protein fragments in the form of peptides have become of great interest in proteomic research. With the help of these microarrays a large number of potential target molecules can be screened for interaction with a probe in a short timeframe. However, protein and peptide micro arrays are still lagging behind oligonucleotide arrays in terms of density, quality and manufacturing costs. A new approach developed at the German Cancer Research Center (DKFZ) has improved the synthesis of high-density peptide arrays. The current technology is capable of producing arrays with up to 40,000 different peptides per square cm by means of micro particle-based solid phase peptide synthesis. However, in situ synthesis approaches bear a conceptual disadvantage: The quality of the peptides is dependent on the efficiency of the synthesis so that peptide fragments are present in the resulting array among the desired full-length peptides. In peptide-protein interaction studies such peptide fragments. The central achievement of this thesis is the development of a new method allowing for the fast one-step purification of entire arrays without loss of resolution or spatial information. Christopher Schirwitz's work has resulted in a number of publications in high ranking journals.
Author : Eric Fung
Publisher : Springer Science & Business Media
ISBN 13 : 1592597599
Total Pages : 279 pages
Book Rating : 4.5/5 (925 download)
Download or read book Protein Arrays written by Eric Fung and published by Springer Science & Business Media. This book was released on 2008-02-03 with total page 279 pages. Available in PDF, EPUB and Kindle. Book excerpt: Protein Arrays: Methods and Protocols is an introduction to protein array technology and its application to the multiplexed detection of proteins. Although protein array technology has some roots in gene array technology, it can only be described as a distant relative. Unlike DNA, with its established rules of base pairing, and therefore predictable biochemical behavior, proteins are rich with diversity. Proteins can be large or small, compact or extended, basic or acidic, hydrophobic or hydrophilic, and so on. Just as importantly, their behavior is determined by the environment in which they reside, and so the composition of the buffer in which experiments are performed has a dramatic impact on the outcome of the experiment. Thus, if the goal is to simultaneously measure the expression of a large number of proteins, these variables must be addressed. Not to be deterred, scientists have created a variety of solutions to successfully detect and ch- acterize multiple proteins simultaneously. It is the intent of this volume to introduce to the reader a set of technological solutions to the diversity problem as well as to provide the reader with some examples of practical applications of these technologies.
Author : Marina Cretich
Publisher : Springer Nature
ISBN 13 : 1071627325
Total Pages : 261 pages
Book Rating : 4.0/5 (716 download)
Download or read book Peptide Microarrays written by Marina Cretich and published by Springer Nature. This book was released on 2022-09-24 with total page 261 pages. Available in PDF, EPUB and Kindle. Book excerpt: This detailed volume provides an updated overview of current uses of peptide microarray technology, showcasing consolidated applications while highlighting some of the most intriguing novelties and emerging fields of use. The methodologies within this collection are of considerable value for both advanced users and new-comers in the peptide microarray arena, as the renowned contributors describe full coverage of the aspects related to their workflows, from microchip manufacturing to advanced analytical applications. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and up-to-date, Peptide Microarrays: Methods and Protocols, Third Edition aims to make the use of peptide microarrays more and more accessible while stimulating further developments to sustain exciting discoveries in the biochemistry and medicine realms.
Author : Tatiana Pimenova
Publisher :
ISBN 13 :
Total Pages : 147 pages
Book Rating : 4.:/5 (73 download)
Download or read book Probing Protein-protein Interactions by Mass Spectrometry written by Tatiana Pimenova and published by . This book was released on 2009 with total page 147 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Ora Schueler-Furman
Publisher : Humana
ISBN 13 : 9781493967964
Total Pages : 0 pages
Book Rating : 4.9/5 (679 download)
Download or read book Modeling Peptide-Protein Interactions written by Ora Schueler-Furman and published by Humana. This book was released on 2017-02-27 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume covers an array of techniques available for studying peptide-protein docking and design. The book is divided into four sections: peptide binding site prediction; peptide-protein docking; prediction and design of peptide binding specificity; and the design of inhibitory peptides. The chapters in Modeling Peptide-Protein Interactions: Methods and Protocols cover topics such as the usage of ACCLUSTER and PeptiMap for peptide binding site prediction; AnchorDock and ATTRACT for blind, flexible docking of peptides to proteins; flexible peptide docking using HADDOCK and FlexPepDock; identifying loop-mediated protein-protein interactions using LoopFinder; and protein-peptide interaction design using PinaColada. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary details for successful application of the different approaches and step-by-step, readily reproducible protocols, as well as tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Modeling Peptide-Protein Interactions: Methods and Protocols provides a diverse and unified overview of this rapidly advancing field of major interest and applicability.
Author : Meike Werther
Publisher : Springer
ISBN 13 : 354068820X
Total Pages : 282 pages
Book Rating : 4.5/5 (46 download)
Download or read book Protein - Protein Interaction written by Meike Werther and published by Springer. This book was released on 2008-08-28 with total page 282 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book covers trends in modern biotechnology. It treats all aspects of this interdisciplinary technology, where knowledge, methods and expertise are required from chemistry, biochemistry, microbiology, genetics, chemical engineering and computer science.
Author : Monika Fuxreiter
Publisher : Springer Science & Business Media
ISBN 13 : 1461406595
Total Pages : 210 pages
Book Rating : 4.4/5 (614 download)
Download or read book Fuzziness written by Monika Fuxreiter and published by Springer Science & Business Media. This book was released on 2012-03-07 with total page 210 pages. Available in PDF, EPUB and Kindle. Book excerpt: Detailed characterization of fuzzy interactions will be of central importance for understanding the diverse biological functions of intrinsically disordered proteins in complex eukaryotic signaling networks. In this volume, Peter Tompa and Monika Fuxreiter have assembled a series of papers that address the issue of fuzziness in molecular interactions. These papers provide a broad overview of the phenomenon of fuzziness and provide compelling examples of the central role played by fuzzy interactions in regulation of cellular signaling processes and in viral infectivity. These contributions summarize the current state of knowledge in this new field and will undoubtedly stimulate future research that will further advance our understanding of fuzziness and its role in biomolecular interactions.
Author :
Publisher :
ISBN 13 :
Total Pages : 640 pages
Book Rating : 4.:/5 (659 download)
Download or read book PROBING GAS-PHASE PEPTIDE STRUCTURE AND PROTEIN-PROTEIN INTERACTIONS USING MASS SPECTROMETRIC TECHNIQUES. written by and published by . This book was released on 2009 with total page 640 pages. Available in PDF, EPUB and Kindle. Book excerpt: Presented in this dissertation are studies on the gas-phase structural features of peptides and peptide fragment ions using mass spectrometry (MS), hydrogen/deuterium (H/D) exchange, infrared multiphoton dissociation (IRMPD) spectroscopy, and computational modeling. Additional studies are presented on the mechanism of hydrogen/deuterium exchange using a model amino acid system. The application of chemical cross-linking to investigate the interaction between two proteins, LexA and RecA, is also presented. Gas-phase structural features can be probed using a number of techniques, and several of the studies presented in this dissertation involve the use of gas-phase H/D exchange. Although the basic mechanism for exchange has been determined, the factors that affect the rate and extent of exchange are not well understood. A computational modeling study of the exchange behavior of asparagine and its methyl ester demonstrated that exchange will occur preferentially at sites of more similar basicity. The distinctive exchange behavior of a model histidine-containing pentapeptide, HAAAA, prompted further studies into the structural features that result in five fast exchanging hydrogens and one slower exchange. Peptide analogues were used to identify the sites of exchange, and IRMPD spectroscopy combined with computational modeling indicated that exchange may occur because interaction with water at those sites results in lower energy structures compared to the other sites. Structural studies were also performed to determine whether the b2+ion from HAAAA is an oxazolone or diketopiperazine. The IRMPD spectrum showed bands that matched both a diketopiperazine and an oxazolone structure. H/D exchange and fragmentation studies further supported the presence of a mixture of species. Protein-protein interactions perform a vital role in regulating cellular processes. Despite extensive mutational analysis, the binding interaction between LexA and RecA, two proteins involved in the SOS response, is unclear. Chemical cross-linking experiments were undertaken to help target future mutational studies, and these studies identified two possible interactions. The first potential binding interaction is located in the cleft of RecA, and the second interaction may be caused by a LexA dimer binding across the RecA helical groove. The presence of two different binding interactions suggests that LexA may have redundant binding modes for RecA interaction.
Author : Rebecca Yue Liang
Publisher :
ISBN 13 :
Total Pages : pages
Book Rating : 4.:/5 (87 download)
Download or read book Probing Protein Interactions with Stapled Peptides: Myc Family and Insulin Receptor written by Rebecca Yue Liang and published by . This book was released on 2013 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: One of the most exciting frontiers of expanding pharmacopeia to combat currently untreatable diseases is achieving specifically and potently disruption of unwanted protein-protein interactions where traditional small molecule drugs tend to fall short. Our laboratory has developed the methodology of peptide stapling and pioneered successful applications in multiple disease models since its induction over a decade ago. One common feature of past applications is the use of a single stapled peptide in helical form, derived from the natural binding interface of target proteins. This dissertation ventures into protein interactions that involve multiple components and sites and explores the extended use of stapled peptides in these volatile settings.
Author : Stephen E. Miller
Publisher :
ISBN 13 :
Total Pages : 0 pages
Book Rating : 4.:/5 (14 download)
Download or read book Using α-helices with dynamic constraints to probe peptide folding and protein-protein interactions written by Stephen E. Miller and published by . This book was released on 2014 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Ali Tavassoli
Publisher : Royal Society of Chemistry
ISBN 13 : 1839160705
Total Pages : 357 pages
Book Rating : 4.8/5 (391 download)
Download or read book Inhibitors of Protein–Protein Interactions written by Ali Tavassoli and published by Royal Society of Chemistry. This book was released on 2020-11-25 with total page 357 pages. Available in PDF, EPUB and Kindle. Book excerpt: Protein–protein interactions (PPI) are at the heart of the majority of cellular processes, and are frequently dysregulated or usurped in disease. Given this central role, the inhibition of PPIs has been of significant interest as a means of treating a wide variety of diseases. However, there are inherent challenges in developing molecules capable of disrupting the relatively featureless and large interfacial areas involved. Despite this, there have been a number of successes in this field in recent years using both traditional drug discovery approaches and innovative, interdisciplinary strategies using novel chemical scaffolds. This book comprehensively covers the various aspects of PPI inhibition, encompassing small molecules, peptidomimetics, cyclic peptides, stapled peptides and macrocycles. Illustrated throughout with successful case studies, this book provides a holistic, cutting-edge view of the subject area and is ideal for chemical biologists and medicinal chemists interested in developing PPI inhibitors.
Author : Varsha Gupta
Publisher : Springer
ISBN 13 : 9811008752
Total Pages : 543 pages
Book Rating : 4.8/5 (11 download)
Download or read book Basic and Applied Aspects of Biotechnology written by Varsha Gupta and published by Springer. This book was released on 2016-10-22 with total page 543 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book explores the journey of biotechnology, searching for new avenues and noting the impressive accomplishments to date. It has harmonious blend of facts, applications and new ideas. Fast-paced biotechnologies are broadly applied and are being continuously explored in areas like the environmental, industrial, agricultural and medical sciences. The sequencing of the human genome has opened new therapeutic opportunities and enriched the field of medical biotechnology while analysis of biomolecules using proteomics and microarray technologies along with the simultaneous discovery and development of new modes of detection are paving the way for ever-faster and more reliable diagnostic methods. Life-saving bio-pharmaceuticals are being churned out at an amazing rate, and the unraveling of biological processes has facilitated drug designing and discovery processes. Advances in regenerative medical technologies (stem cell therapy, tissue engineering, and gene therapy) look extremely promising, transcending the limitations of all existing fields and opening new dimensions for characterizing and combating diseases.
Author :
Publisher :
ISBN 13 :
Total Pages : 106 pages
Book Rating : 4.:/5 (231 download)
Download or read book Synthetic Peptides as Probes of Protein-protein Interaction written by and published by . This book was released on 1993 with total page 106 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Author : Jesko Koehnke
Publisher : Royal Society of Chemistry
ISBN 13 : 1782625283
Total Pages : 392 pages
Book Rating : 4.7/5 (826 download)
Download or read book Cyclic Peptides written by Jesko Koehnke and published by Royal Society of Chemistry. This book was released on 2017-12-15 with total page 392 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides the reader with a comprehensive view of the state-of-the-art of cyclic peptides, from construction to utility in biology and drug discovery.
Author : Martin Zacharias
Publisher : World Scientific
ISBN 13 : 1848163398
Total Pages : 401 pages
Book Rating : 4.8/5 (481 download)
Download or read book Protein-protein Complexes written by Martin Zacharias and published by World Scientific. This book was released on 2010 with total page 401 pages. Available in PDF, EPUB and Kindle. Book excerpt: Given the immense progress achieved in elucidating protein-protein complex structures and in the field of protein interaction modeling, there is great demand for a book that gives interested researchers/students a comprehensive overview of the field. This book does just that. It focuses on what can be learned about protein-protein interactions from the analysis of protein-protein complex structures and interfaces. What are the driving forces for protein-protein association? How can we extract the mechanism of specific recognition from studying protein-protein interfaces? How can this knowledge be used to predict and design protein-protein interactions (interaction regions and complex structures)? What methods are currently employed to design protein-protein interactions, and how can we influence protein-protein interactions by mutagenesis and small-molecule drugs or peptide mimetics?The book consists of about 15 review chapters, written by experts, on the characterization of protein-protein interfaces, structure determination of protein complexes (by NMR and X-ray), theory of protein-protein binding, dynamics of protein interfaces, bioinformatics methods to predict interaction regions, and prediction of protein-protein complex structures (docking and homology modeling of complexes, etc.) and design of protein-protein interactions. It serves as a bridge between studying/analyzing protein-protein complex structures (interfaces), predicting interactions, and influencing/designing interactions.
