Table 1.
Examples of protein-protein interaction databases
| Database Name | Description |
|---|---|
| ASEdb[43] | Experimental alanine scanning values; no longer maintained, though the raw data is still available |
| Relibase[44] | Protein-ligand interfaces, tools for binding site alignment and visual comparison |
| 2P2Idb[16] | PPIs with known orthosteric modulators where both the protein- protein and protein-ligand complex are known |
| TIMBAL[45] | PPIs, their small molecule inhibitors or stabilizers with experimental affinities and assay descriptions |
| PrePPI[46] | High-confidence predicted PPIs |
| ComSin[47] | Analysis of differences between proteins in bound and unbound states |
| PIFACE[48] | Cluster of PPIs by their interface structures |
| Dr. PIAS[49] | Predicts PPI druggability by similarity to known druggable PPIs |
| PINT[50, 51] | Experimental thermodynamic parameters (e.g. Kd, the corresponding ΔG, and the temperature and pH of the experiment) |
| SKEMPI[50, 51] | Binding kinetics; unification of PINT and ASEdb data |
| PepCyber:P~PEP[52] | Phosphoprotein binding domains (like SH2, WW) |
| 3D-interologs[53, 54] | Scores novel interactions via homology to Uniprot |
| PocketQuery[55] | Clusters of residues with favorable ΔSASA |
| HippDB. SippDB[56, 57] | Identification of PPIs by secondary structure elements, alanine scanning |