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ECDomainMiner: discovering hidden associations between enzyme commission numbers and Pfam domains

Seyed Ziaeddin Alborzi 1 Marie-Dominique Devignes 1 David W. Ritchie 1, *
* Corresponding author
1 CAPSID - Computational Algorithms for Protein Structures and Interactions
Inria Nancy - Grand Est, LORIA - AIS - Department of Complex Systems, Artificial Intelligence & Robotics
Abstract : BackgroundMany entries in the protein data bank (PDB) are annotated to show their component protein domains according to the Pfam classification, as well as their biological function through the enzyme commission (EC) numbering scheme. However, despite the fact that the biological activity of many proteins often arises from specific domain-domain and domain-ligand interactions, current on-line resources rarely provide a direct mapping from structure to function at the domain level. Since the PDB now contains many tens of thousands of protein chains, and since protein sequence databases can dwarf such numbers by orders of magnitude, there is a pressing need to develop automatic structure-function annotation tools which can operate at the domain level.
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Seyed Ziaeddin Alborzi, Marie-Dominique Devignes, David W. Ritchie. ECDomainMiner: discovering hidden associations between enzyme commission numbers and Pfam domains. BMC Bioinformatics, BioMed Central, 2017, 18 (1), pp.107. ⟨10.1186/s12859-017-1519-x⟩. ⟨hal-01466842⟩

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