Homology Modeling

Methods and Protocols

  • Andrew J. W. Orry
  • Ruben Abagyan

Part of the Methods in Molecular Biology book series (MIMB, volume 857)

Table of contents

  1. Front Matter
    Pages i-xi
  2. Stefan J. Suhrer, Markus Gruber, Markus Wiederstein, Manfred J. Sippl
    Pages 33-54
  3. Česlovas Venclovas
    Pages 55-82
  4. Andrew J. Bordner
    Pages 83-106
  5. Alessandra Nurisso, Antoine Daina, Ross C. Walker
    Pages 137-173
  6. Keehyoung Joo, Jinwoo Lee, Jooyoung Lee
    Pages 175-188
  7. Vsevolod Katritch, Manuel Rueda, Ruben Abagyan
    Pages 189-205
  8. Maxim Totrov
    Pages 207-229
  9. Irina Kufareva, Ruben Abagyan
    Pages 231-257
  10. Aina Westrheim Ravna, Ingebrigt Sylte
    Pages 281-299
  11. Keren Lasker, Javier A. Velázquez-Muriel, Benjamin M. Webb, Zheng Yang, Thomas E. Ferrin, Andrej Sali
    Pages 331-350
  12. Andrew J. W. Orry, Ruben Abagyan
    Pages 351-373
  13. Nir London, Barak Raveh, Ora Schueler-Furman
    Pages 375-398
  14. Michael A. Dolan, James W. Noah, Darrell Hurt
    Pages 399-414
  15. Back Matter
    Pages 415-419

About this book


Knowledge about protein tertiary structure can guide experiments, assist in the understanding of structure-function relationships, and aid the design of new therapeutics for disease. Homology modeling is an in silico method that predicts the tertiary structure of an amino acid sequence based on a homologous experimentally determined structure.  In, Homology Modeling: Methods and Protocols experts in the field describe each homology modeling step from first principles, provide case studies for challenging modeling targets and describe methods for the prediction of how other molecules such as drugs can interact with the protein. Written in the highly successful Methods in Molecular Biology™ series format, the chapters include the kind of detailed description and implementation advice that is crucial for getting optimal results in the laboratory.


Thorough and intuitive, Homology Modeling: Methods and Protocols guides scientists in the available homology modeling methods.




Homology modeling NMR structure X-ray in silico method ligand-binding pocket macromolecular assemblies membrane proteins mutagenesis experiments protein tertiary structure protein-protein interactions

Editors and affiliations

  • Andrew J. W. Orry
    • 1
  • Ruben Abagyan
    • 2
  1. 1.Molsoft L.L.C.S209 San DiegoUSA
  2. 2.Skaggs School of Pharmacy &, Pharmaceutical SciencesUniversity of California, San DiegoLa JollaUSA

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media,LLC 2012
  • Publisher Name Humana Press
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-61779-587-9
  • Online ISBN 978-1-61779-588-6
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site