Dokholyan Laboratory
Protein Substructure Search
Erebus searches the entire Protein Data Bank (PDB) for protein structures containing a user-defined three-dimensional structural motif (substructure). Given a set of atoms and their 3D coordinates, it finds all proteins with a similar atomic arrangement using a rigid substructure search algorithm based on pairwise atom distances. Useful for identifying metal ion coordination scaffolds, small molecule binding pockets, and conserved structural motifs.
Rigid Search
Rotation/translation-invariant algorithm based on pairwise atom distances.
Full PDB Coverage
Scans all ~105,000 PDB entries (~200,000 models) for your query.