Section: New Results

Annotating 3D Protein Domains

Many protein chains in the Protein Data Bank (PDB) are cross-referenced with EC numbers and Pfam domains. However, these annotations do not explicitly indicate any relation between EC numbers and Pfam domains. In order to address this limitation, we developed EC-DomainMiner, a recommender-based approach for associating EC (Enzyme Commission) numbers with Pfam domains [29]. EC-DomainMiner is able to infer automatically 20,179 associations between EC numbers and Pfam domains from existing EC-chain/Pfam-chain associations from the SIFTS database as well as EC-sequence/Pfam-sequence associations from UniProt databases. A manuscript describing this work has been provisionally accepted by the journal BMC-Bioinformatics.