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SCOPPI: Structural Classification of Protein-Protein Interfaces (RRID:SCR_007916)Copy Citation Copied
Proper Citation: SCOPPI: Structural Classification of Protein-Protein Interfaces (RRID:SCR_007916)
Description: SCOPPI is a database of all domain-domain interactions and their interfaces derived from PDB structure files and SCOP domain definitions. Interfaces are classified according to the geometry of the domain associations and are annotated with various interaction characteristics. Screenshots of all interfaces are available. More than 4,000 distinct types of domain interfaces are collected from Protein Quaternary Structure Server and Protein Data Bank. Given a pair of interacting domains, we define face as the set of interacting residues in each single domain and the pair of interacting faces as an interface. We investigate how the geometry of interfaces relates to a network of interacting protein families, such as how many different binding orientations are possible between two families or whether a family uses distinct surfaces or the same surface when the family has diverse interaction partners from various families. We show there are, on average, 1.2-1.9 different types of interfaces between interacting domains and a significant number of family pairs associate in multiple orientations. In general, a family tends to use distinct faces for each partner when the family has diverse interaction partners. Each face is highly specific to its interaction partner and the binding orientation. The relative positions of interface residues are generally well conserved within the same type of interface even between remote homologs.
Synonyms: SCOPPI
Resource Type: data or information resource, database
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