Protein Modules And Protein Protein Interactions

Author : Anonim
Publisher : Elsevier
Page : 343 pages
File Size : 47,6 Mb
Release : 2002-11-24
Category : Science
ISBN : 9780080493756

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Protein Modules and Protein-Protein Interactions by Anonim Pdf

Protein modules engage in a multitude of interactions with one another and with other cellular components, notably with DNA. These interactions are a central aspect of protein function of great relevance in the post-genomic era. This volume describes a panel of approaches for analyzing protein modules and their interactions, ranging from bioinformatics to physical chemistry, to biochemistry, with an emphasis on the structure-function relationship in protein-protein complexes involved in cellular processes including signal transduction. Comprehensive overview of different facets of macromolecule interactions Computational and bioinformatics aspects of analyzing protein modules and their interactions Emphasis on structure-function relationship in protein-protein complexes involved in cellular processes

Author : Giovanni Cesareni,Mario Gimona,Marius Sudol,Michael Yaffe
Publisher : John Wiley & Sons
Page : 524 pages
File Size : 47,5 Mb
Release : 2006-03-06
Category : Science
ISBN : 9783527605897

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Modular Protein Domains by Giovanni Cesareni,Mario Gimona,Marius Sudol,Michael Yaffe Pdf

Since the full functionality of any given protein can only be understood in terms of its interaction with other, often regulatory proteins, this unique reference source covers all relevant protein domains, including SH2, SH3, PDZ, WW, PTB, EH, PH and PX. Its user-oriented concept combines broad coverage with easy retrieval of essential information, and includes a special section on Web-based tools and databases covering protein modules and functional peptide motifs. Essential for the study of protein-protein interactions in vivo or in silico, and a prerequisite for successful functional proteomics studies. With a prologue by Sir Tom Blundell.

Author : Stefan Canzar,Francisca Rojas Ringeling
Publisher : Humana
Page : 0 pages
File Size : 53,5 Mb
Release : 2019-10-04
Category : Science
ISBN : 1493998722

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Protein-Protein Interaction Networks by Stefan Canzar,Francisca Rojas Ringeling Pdf

This volume explores techniques that study interactions between proteins in different species, and combines them with context-specific data, analysis of omics datasets, and assembles individual interactions into higher-order semantic units, i.e., protein complexes and functional modules. The chapters in this book cover computational methods that solve diverse tasks such as the prediction of functional protein-protein interactions; the alignment-based comparison of interaction networks by SANA; using the RaptorX-ComplexContact webserver to predict inter-protein residue-residue contacts; the docking of alternative confirmations of proteins participating in binary interactions and the visually-guided selection of a docking model using COZOID; the detection of novel functional units by KeyPathwayMiner and how PathClass can use such de novo pathways to classify breast cancer subtypes. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary hardware- and software, step-by-step, readily reproducible computational protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and comprehensive, Protein-Protein Interaction Networks: Methods and Protocols is a valuable resource for both novice and expert researchers who are interested in learning more about this evolving field.

Author : Weibo Cai,Hao Hong
Publisher : BoD – Books on Demand
Page : 488 pages
File Size : 42,7 Mb
Release : 2012-03-30
Category : Science
ISBN : 9789535103974

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Protein-Protein Interactions by Weibo Cai,Hao Hong Pdf

Proteins are indispensable players in virtually all biological events. The functions of proteins are coordinated through intricate regulatory networks of transient protein-protein interactions (PPIs). To predict and/or study PPIs, a wide variety of techniques have been developed over the last several decades. Many in vitro and in vivo assays have been implemented to explore the mechanism of these ubiquitous interactions. However, despite significant advances in these experimental approaches, many limitations exist such as false-positives/false-negatives, difficulty in obtaining crystal structures of proteins, challenges in the detection of transient PPI, among others. To overcome these limitations, many computational approaches have been developed which are becoming increasingly widely used to facilitate the investigation of PPIs. This book has gathered an ensemble of experts in the field, in 22 chapters, which have been broadly categorized into Computational Approaches, Experimental Approaches, and Others.

Author : Bruce Alberts
Publisher : Unknown
Page : 0 pages
File Size : 46,8 Mb
Release : 2002
Category : Cytology
ISBN : 0815332181

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Molecular Biology of The Cell by Bruce Alberts Pdf

Author : Krishna Mohan Poluri,Khushboo Gulati,Sharanya Sarkar
Publisher : Springer Nature
Page : 346 pages
File Size : 53,7 Mb
Release : 2021-05-19
Category : Science
ISBN : 9789811615948

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Protein-Protein Interactions by Krishna Mohan Poluri,Khushboo Gulati,Sharanya Sarkar Pdf

This book provides a comprehensive overview of the fundamental aspects of protein-protein interactions (PPI), including a detailed account of the energetics and thermodynamics involved in these interactions. It also discusses a number of computational and experimental approaches for the prediction of PPI interactions and reviews their principles, advantages, drawbacks, and the recent developments. Further, it offers structural and mechanistic insights into the formation of protein-protein complexes and maps different PPIs into networks to delineate various pathways that operate at the cellular level. Lastly, it describes computational protein-protein docking techniques and discusses their implications for further experimental research. Given its scope, this book is a valuable resource for students, researchers, scientists, entrepreneurs, and medical/healthcare professionals.

Author : Anna Panchenko,Teresa M. Przytycka
Publisher : Springer Science & Business Media
Page : 198 pages
File Size : 47,5 Mb
Release : 2010-04-06
Category : Science
ISBN : 9781848001251

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Protein-protein Interactions and Networks by Anna Panchenko,Teresa M. Przytycka Pdf

The biological interactions of living organisms, and protein-protein interactions in particular, are astonishingly diverse. This comprehensive book provides a broad, thorough and multidisciplinary coverage of its field. It integrates different approaches from bioinformatics, biochemistry, computational analysis and systems biology to offer the reader a comprehensive global view of the diverse data on protein-protein interactions and protein interaction networks.

Author : Haian Fu
Publisher : Springer Science & Business Media
Page : 525 pages
File Size : 54,9 Mb
Release : 2008-02-03
Category : Science
ISBN : 9781592597628

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Protein'Protein Interactions by Haian Fu Pdf

As the mysteries stored in our DNA have been more completely revealed, scientists have begun to face the extraordinary challenge of unraveling the int- cate network of protein–protein interactions established by that DNA fra- work. It is increasingly clear that proteins continuously interact with one another in a highly regulated fashion to determine cell fate, such as proliferation, diff- entiation, or death. These protein–protein interactions enable and exert str- gent control over DNA replication, RNA transcription, protein translation, macromolecular assembly and degradation, and signal transduction; essentially all cellular functions involve protein–protein interactions. Thus, protein–p- tein interactions are fundamental for normal physiology in all organisms. Alt- ation of critical protein–protein interactions is thought to be involved in the development of many diseases, such as neurodegenerative disorders, cancers, and infectious diseases. Therefore, examination of when and how protein–p- tein interactions occur and how they are controlled is essential for understa- ing diverse biological processes as well as for elucidating the molecular basis of diseases and identifying potential targets for therapeutic interventions. Over the years, many innovative biochemical, biophysical, genetic, and computational approaches have been developed to detect and analyze p- tein–protein interactions. This multitude of techniques is mandated by the diversity of physical and chemical properties of proteins and the sensitivity of protein–protein interactions to cellular conditions.

Author : Li, Xiao-Li,Ng, See-Kiong
Publisher : IGI Global
Page : 450 pages
File Size : 54,9 Mb
Release : 2009-05-31
Category : Technology & Engineering
ISBN : 9781605663999

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Biological Data Mining in Protein Interaction Networks by Li, Xiao-Li,Ng, See-Kiong Pdf

"The goal of this book is to disseminate research results and best practices from cross-disciplinary researchers and practitioners interested in, and working on bioinformatics, data mining, and proteomics"--Provided by publisher.

Author : Ruth Nussinov,Gideon Schreiber
Publisher : CRC Press
Page : 346 pages
File Size : 42,6 Mb
Release : 2009-06-26
Category : Science
ISBN : 9781420070071

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Computational Protein-Protein Interactions by Ruth Nussinov,Gideon Schreiber Pdf

Often considered the workhorse of the cellular machinery, proteins are responsible for functions ranging from molecular motors to signaling. The broad recognition of their involvement in all cellular processes has led to focused efforts to predict their functions from sequences, and if available, from their structures. An overview of current resear

Author : Spyros Petrakis,Miguel A. Andrade-Navarro
Publisher : Frontiers Media SA
Page : 91 pages
File Size : 45,5 Mb
Release : 2016-10-19
Category : Genetics
ISBN : 9782889199822

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Protein Interaction Networks in Health and Disease by Spyros Petrakis,Miguel A. Andrade-Navarro Pdf

The identification and mapping of protein-protein interactions (PPIs) is a major goal in systems biology. Experimental data are currently produced in large scale using a variety of high-throughput assays in yeast or mammalian systems. Analysis of these data using computational tools leads to the construction of large protein interaction networks, which help researchers identify novel protein functions. However, our current view of protein interaction networks is still limited and there is an active field of research trying to further develop this concept to include important processes: the topology of interactions and their changes in real time, the effects of competition for binding to the same protein region, PPI variation due to alternative splicing or post-translational modifications, etc. In particular, a clinically relevant topic for development of the concept of protein interactions networks is the consideration of mutant isoforms, which may be responsible for a pathological condition. Mutations in proteins may result in loss of normal interactions and appearance of novel abnormal interactions that may affect a protein’s function and biological cycle. This Research Topic presents novel findings and recent achievements in the field of protein interaction networks with a focus on disease. Authors describe methods for the identification and quantification of PPIs, the annotation and analysis of networks, considering PPIs and protein complexes formed by mutant proteins associated with pathological conditions or genetic diseases.

Author : Jean-Paul Renaud
Publisher : John Wiley & Sons
Page : 1367 pages
File Size : 50,5 Mb
Release : 2020-01-09
Category : Medical
ISBN : 9781118900505

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Structural Biology in Drug Discovery by Jean-Paul Renaud Pdf

With the most comprehensive and up-to-date overview of structure-based drug discovery covering both experimental and computational approaches, Structural Biology in Drug Discovery: Methods, Techniques, and Practices describes principles, methods, applications, and emerging paradigms of structural biology as a tool for more efficient drug development. Coverage includes successful examples, academic and industry insights, novel concepts, and advances in a rapidly evolving field. The combined chapters, by authors writing from the frontlines of structural biology and drug discovery, give readers a valuable reference and resource that: Presents the benefits, limitations, and potentiality of major techniques in the field such as X-ray crystallography, NMR, neutron crystallography, cryo-EM, mass spectrometry and other biophysical techniques, and computational structural biology Includes detailed chapters on druggability, allostery, complementary use of thermodynamic and kinetic information, and powerful approaches such as structural chemogenomics and fragment-based drug design Emphasizes the need for the in-depth biophysical characterization of protein targets as well as of therapeutic proteins, and for a thorough quality assessment of experimental structures Illustrates advances in the field of established therapeutic targets like kinases, serine proteinases, GPCRs, and epigenetic proteins, and of more challenging ones like protein-protein interactions and intrinsically disordered proteins

Author : Dev Bukhsh Singh,Timir Tripathi
Publisher : Springer Nature
Page : 458 pages
File Size : 45,9 Mb
Release : 2020-07-02
Category : Science
ISBN : 9789811555305

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Frontiers in Protein Structure, Function, and Dynamics by Dev Bukhsh Singh,Timir Tripathi Pdf

This book discusses a broad range of basic and advanced topics in the field of protein structure, function, folding, flexibility, and dynamics. Starting with a basic introduction to protein purification, estimation, storage, and its effect on the protein structure, function, and dynamics, it also discusses various experimental and computational structure determination approaches; the importance of molecular interactions and water in protein stability, folding and dynamics; kinetic and thermodynamic parameters associated with protein-ligand binding; single molecule techniques and their applications in studying protein folding and aggregation; protein quality control; the role of amino acid sequence in protein aggregation; muscarinic acetylcholine receptors, antimuscarinic drugs, and their clinical significances. Further, the book explains the current understanding on the therapeutic importance of the enzyme dopamine beta hydroxylase; structural dynamics and motions in molecular motors; role of cathepsins in controlling degradation of extracellular matrix during disease states; and the important structure-function relationship of iron-binding proteins, ferritins. Overall, the book is an important guide and a comprehensive resource for understanding protein structure, function, dynamics, and interaction.

Author : Anthony J. Pawson
Publisher : Springer Science & Business Media
Page : 375 pages
File Size : 54,5 Mb
Release : 2012-12-06
Category : Science
ISBN : 9783642804816

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Protein Modules in Signal Transduction by Anthony J. Pawson Pdf

This volume in the series Current Topics in Microbiology and Immunology focuses on protein modules in signal transduction. Topics covered include: functions of SH2 and SH3 domains; structure and function of LIM domains; and the IRS-signalling system.

Author : Martin Zacharias
Publisher : World Scientific
Page : 401 pages
File Size : 46,5 Mb
Release : 2010
Category : Science
ISBN : 9781848163386

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Protein-protein Complexes by Martin Zacharias Pdf

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.