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Computational Peptidology

  • Book
  • © 2015

Overview

Editors:
  1. Peng Zhou

    1. Center of Bioinformatics (COBI), School of Life Science and Technology, University of Electronic Science and Technology of China (UESTC), Chengdu, China

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  2. Jian Huang

    1. Center of Bioinformatics (COBI), School of Life Science and Technology, University of Electronic Science and Technology of China (UESTC), Chengdu, China

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    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge methods and protocols
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 1268)

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Table of contents (14 protocols)

  1. Front Matter

    Pages i-xi
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  2. De Novo Peptide Structure Prediction: An Overview

    • Pierre Thévenet, Julien Rey, Gautier Moroy, Pierre Tuffery
    Pages 1-13

  3. Molecular Modeling of Peptides

    • Krzysztof Kuczera
    Pages 15-41

  4. Improved Methods for Classification, Prediction, and Design of Antimicrobial Peptides

    • Guangshun Wang
    Pages 43-66

  5. Building MHC Class II Epitope Predictor Using Machine Learning Approaches

    • Loan Ping Eng, Tin Wee Tan, Joo Chuan Tong
    Pages 67-73

  6. Brownian Dynamics Simulation of Peptides with the University of Houston Brownian Dynamics (UHBD) Program

    • Tongye Shen, Chung F. Wong
    Pages 75-87

  7. Computational Prediction of Short Linear Motifs from Protein Sequences

    • Richard J. Edwards, Nicolas Palopoli
    Pages 89-141

  8. Peptide Toxicity Prediction

    • Sudheer Gupta, Pallavi Kapoor, Kumardeep Chaudhary, Ankur Gautam, Rahul Kumar, Gajendra P. S. Raghava
    Pages 143-157

  9. Synthetic and Structural Routes for the Rational Conversion of Peptides into Small Molecules

    • Pasqualina Liana Scognamiglio, Giancarlo Morelli, Daniela Marasco
    Pages 159-193

  10. In Silico Design of Antimicrobial Peptides

    • Giuseppe Maccari, Mariagrazia Di Luca, Riccardo Nifosì
    Pages 195-219

  11. Information-Driven Modeling of Protein-Peptide Complexes

    • Mikael Trellet, Adrien S. J. Melquiond, Alexandre M. J. J. Bonvin
    Pages 221-239

  12. Computational Approaches to Developing Short Cyclic Peptide Modulators of Protein–Protein Interactions

    • Fergal J. Duffy, Marc Devocelle, Denis C. Shields
    Pages 241-271

  13. A Use of Homology Modeling and Molecular Docking Methods: To Explore Binding Mechanisms of Nonylphenol and Bisphenol A with Antioxidant Enzymes

    • Mannu Jayakanthan, Rajamanickam Jubendradass, Shereen Cynthia D’Cruz, Premendu P. Mathur
    Pages 273-289

  14. Computational Peptide Vaccinology

    • Johannes Söllner
    Pages 291-312

  15. Computational Modeling of Peptide–Aptamer Binding

    • Kristen L. Rhinehardt, Ram V. Mohan, Goundla Srinivas
    Pages 313-333

  16. Back Matter

    Pages 335-338
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Keywords

About this book

In this volume expert researchers detail in silico methods widely used to study peptides. These include methods and techniques covering the database, molecular docking, dynamics simulation, data mining, de novo design and structure modeling of peptides and protein fragments. Chapters focus on integration and application of technologies to analyze, model, identify, predict, and design a wide variety of bioactive peptides, peptide analogues and peptide drugs, as well as peptide-based biomaterials. 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 key tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, Computational Peptidology seeks to aid scientists in the further study into this newly rising subfield.

Editors and Affiliations

  • Center of Bioinformatics (COBI), School of Life Science and Technology, University of Electronic Science and Technology of China (UESTC), Chengdu, China

    Peng Zhou, Jian Huang

Bibliographic Information

  • Book Title: Computational Peptidology

  • Editors: Peng Zhou, Jian Huang

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-2285-7

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media New York 2015

  • Hardcover ISBN: 978-1-4939-2284-0Published: 03 January 2015

  • Softcover ISBN: 978-1-4939-4809-3Published: 24 September 2016

  • eBook ISBN: 978-1-4939-2285-7Published: 02 January 2015

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XI, 338

  • Number of Illustrations: 26 b/w illustrations, 43 illustrations in colour

  • Topics: Protein Science, Computer Appl. in Life Sciences

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