UNIT 8.1 Analyzing Molecular Interactions

  1. Gregory A. Petsko1,
  2. John R. Yates III2

Published Online: 1 DEC 2011

DOI: 10.1002/0471250953.bi0801s36

Current Protocols in Bioinformatics

Current Protocols in Bioinformatics

How to Cite

Petsko, G. A. and Yates, J. R. 2011. Analyzing Molecular Interactions. Current Protocols in Bioinformatics. 36:8.1:8.1.1–8.1.4.

Author Information

  1. 1

    Brandeis University, Waltham, Massachusetts

  2. 2

    The Scripps Research Institute, La Jolla, California

Publication History

  1. Published Online: 1 DEC 2011
  2. Published Print: DEC 2011


Molecular interactions are key processes that drive the functions of molecules. Large data sets of protein interaction data are being assembled that will help analyze structural and functional aspects of interactions. This chapter introduces techniques for analyzing both the structural aspects of molecular interactions and methods to use this information to understand and define biological pathways. Curr. Protoc. Bioinform. 36:8.1.1-8.1.4. © 2011 by John Wiley & Sons, Inc.


  • protein-protein interactions;
  • protein-ligand interactions;
  • protein-water interactions;
  • complexes;
  • structural dynamics