Abstract
Protein-protein interactions are a key component of life processes. The knowledge of the three-dimensional structure of these interactions is important for understanding protein function. Genome-Wide Docking Database (http://gwidd.bioinformatics.ku.edu) offers an extensive source of data for structural studies of protein-protein complexes on genome scale. The current release of the database combines the available experimental data on the structure and characteristics of protein interactions with structural modeling of protein complexes for 771 organisms spanned over the entire universe of life from viruses to humans. The interactions are stored in a relational database with user-friendly interface that includes various search options. The search results can be interactively previewed; the structures, downloaded, along with the interaction characteristics.
Highlights
Proteins function by interacting with other biologically relevant molecules
Experimental techniques are limited in their ability to produce the structures on the genome scale
Several groups assessed the quality of protein-protein interactions (PPI) modeling based on sequence alignment to complexes with known structure [4,5,6,7,8,9]
Summary
Proteins function by interacting with other biologically relevant molecules. Understanding the mechanisms of protein-protein interactions (PPI) is essential for studying life processes at the molecular level. Efforts focus on the function assignment of these proteins based on their three-dimensional (3D) structures and interactions. * Correspondence: vakser@ku.edu 1Center for Bioinformatics, The University of Kansas, 2030 Becker Dr, Lawrence, KS 66047, USA 2Department of Molecular Biosciences, The University of Kansas, 2030 Becker Dr, Lawrence, KS 66047, USA Full list of author information is available at the end of the article their accuracy in the high-throughput structure determination is limited.
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