BioLiP is a semi-manually curated database for high-quality, biologically
relevant ligand-protein binding interactions.
The structure data are collected primarily from the
Protein Data Bank,
with biological insights mined from literature and other specific databases.
BioLiP aims to construct the most comprehensive and accurate
database for serving the
needs of ligand-protein docking, virtual ligand screening and protein function annotation.
Questions about the BioLiP Database can be posted at the
Service System Discussion Board.
Since ligand molecules (e.g., Glycerol, Ethylene glycol) are often used as
additives (i.e., false positives) for solving the protein structures,
not all ligands present in the PDB database are biologically relevant.
BioLiP uses a composite automated and manual procedure for examining the
biological relevance of ligands in the PDB database.
Each entry in BioLiP contains a comprehensive list of annotations on:
To annotate the function of uncharacterized proteins using the BioLiP database,
we developed a new algorithm COACH to predict ligand-binding sites.
The COACH server is available at
BioLiP in numbers
BioLiP is updated weekly (every Friday) and the current version (Jul 18, 2014) contains:
Jianyi Yang, Ambrish Roy, and Yang Zhang.
BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).