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Annotated databases

These are examples of custom annotated databases that we have built.

dbZenPatches

Zenpatches is a database of putative protein interacting sites for the current relase of the Protein Data Bank. It is generated by applying ZenDock to every proteic chain and supramolecular aggregate for which an experimental structure is available in the PDB.

 

dbBioDec Proteome Atlases
  • Prokaryote atlases. These are whole (or partial) organism proteomes whose sequences are annotated into nine different classes, including among the others, the all-beta membrane proteins and the soluble secreted proteins.
  • Eukaryote atlases. These are whole (or partial) organism proteomes whose sequences are annotated depending on their subcellular location, and structural information.

These results are published in multiple presentation formats, such as hyper-linked PDF ebooks for reading and printing, HTML pages for web publishing, and XML for data interchange.

dbSeptimus Human GPCR classification

The Cribrum Biodecoder is applied to the Human proteome to look for G-Protein Coupled Receptors (GPCR). The detected sequences are then annotated using Septimus-99HMMers and classified according to a BioDec procedure.