ABSTRACT
Proteins associate to create macromolecular machines of various complexities (e.g., dimers or large multiprotein complexes). The subunits creating these various complexes can be identical or heterogeneous and the interaction can be transient (nonobligate) or permanent (obligatory) (Keskin et al. 2008; Jubb et al. 2012; Metz et al. 2012a; Surade and Blundell 2012; Kastritis and Bonvin 2013). In basically all situations, the formation of permanent or transient complexes is critical to carry out biological functions necessary for life (e.g., illustration of such statements can be easily found just by looking at relatively well-studied biological system like blood coagulation [Villoutreix
CONTENTS
17.1 Introduction ................................................................................................ 441 17.2 Key Challenges Associated with the Modulation of PPIs by
Low Molecular Weight Molecules ...........................................................445 17.3 Selected Databases and In Silico Tools to Assist the Design ................ 451
17.3.1 Some Selected and/or Recently Reported PPI-Related Databases ........................................................................................ 452
17.3.2 Protein-Protein Interfaces, Hot Spots, and Ligand Binding Pockets ..............................................................................454
