MMDB: annotating protein sequences with Entrez's 3D-structure database

Wang, Yanli; Addess, Kenneth J.; Chen, Jie; Geer, Lewis Y.; He, Jane; He, Siqian; Lu, Shennan; Madej, Thomas; Marchler-Bauer, Aron; Thiessen, Paul A.; Zhang, Naigong; Bryant, Stephen H.

The MMDB web server generates structure summary pages, which provide a concise description of an MMDB entry's content and the available annotation (4). Sequences derived from MMDB are entered into Entrez's protein or nucleic acid sequence database, preserving links to the corresponding 3D structures. Links to PubMed are generated by matching citations. Links to Entrez's organism taxonomy database are generated by semi-automatic processing of 'source records' and other descriptive text provided by PDB. Ligands and other small molecules are identified and added to the PubChem resource, accessible at http://pubchem.ncbi.nlm. nih.gov, also preserving reciprocal links to 3D structure. VAST (7) . The 3D structure viewer supported by Entrez, Cn3D (8), provides molecular-graphics visualization.