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STRING imports protein association knowledge from databases of physical interaction and databases of curated biological pathway knowledge (MINT, HPRD, BIND, DIP, BioGRID, KEGG, Reactome, IntAct, EcoCyc, NCI-Nature Pathway Interaction Database, GO). Links are supplied to the originating data of the respective experimental repositories and ...
In molecular biology, an interactome is the whole set of molecular interactions in a particular cell.The term specifically refers to physical interactions among molecules (such as those among proteins, also known as protein–protein interactions, PPIs; or between small molecules and proteins [1]) but can also describe sets of indirect interactions among genes (genetic interactions).
Protein–protein interactions (PPIs) are physical contacts of high specificity established between two or more protein molecules as a result of biochemical events steered by interactions that include electrostatic forces, hydrogen bonding and the hydrophobic effect. Many are physical contacts with molecular associations between chains that ...
The data in SMID is derived from the Protein Data Bank (PDB), a database of known protein crystal structures. SMID can be queried by entering a protein GI, domain identifier, PDB ID or SMID ID. The results of a search provide small molecule, protein, and domain information for each interaction identified in the database.
The Biological General Repository for Interaction Datasets (BioGRID) is a curated biological database of protein-protein interactions, genetic interactions, chemical interactions, and post-translational modifications created in 2003 (originally referred to as simply the General Repository for Interaction Datasets (GRID) [2] by Mike Tyers, Bobby-Joe Breitkreutz, and Chris Stark at the Lunenfeld ...
BioPlex (biophysical interactions of ORFeome-based complexes) is an open access resource for studying protein-protein interactions. [1] [2] [3] It is the result of collaborations between Harvard Medical School and Biogen. BioPlex 1.0 reported 23,744 interactions among 7,668 proteins. [4]
The Database of Interacting Proteins (DIP) is a biological database which catalogs experimentally determined interactions between proteins. [ 2 ] [ 3 ] It combines information from a variety of sources to create a single, consistent set of protein–protein interactions.
It provides annotations of binding sites for protein-protein, protein- small molecule, protein - nucleic acid, protein - peptide and protein - ion interactions. IBIS also allows the mapping of a biomolecular interaction network for any given organism, human interactome derived from structural complexes is available at ftp://ftp.ncbi.nih.gov/pub ...