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Proteolytic Events (CutDB)

CutDB contains information and annotation of individual proteolytic cut sites reported in the literature, experimentally observed, or predicted.

Substrates (SubstrateDB)

A database that contains information on proteolytic cut sites and substrate sequence and structure.

Example Substrates

Networks and Pathways (PathwayDB)

A database that provides information on proteolytic cascades, links between proteolysis and cellular signaling pathways, and pathway modeling tools.

Network Icon

Substrate Predictions (ProfileDB)

Profile DB contains data on substrate recognition specificity derived from substrate phage display. Tools for analyzing these data are also available.

Toolkit

  • Active Site Recognition Tool This tool finds active sites of serine, cysteine, aspartic, metallo, and glutamic proteases within the 3D structure.
  • Prediction of Disorder in Proteins This tool arrives at a consensus prediction of intrinsically disordered regions in proteins using results from five different algorithms. The tool requires the input of a FASTA file(s).
  • Substrate Recognition Profiling This is a tool that uses information from substrate profiling studies (e.g., phage display or peptide libraries) to arrive at a consensus substrate recognition motif. This motif can then be projected across individual proteins, or even the entire proteome, to predict cut sites.
  • Proteolytic Dissociation Tool This tool determines the likelihood that a protein will dissociate into two polypeptides following proteolytic cleavage at a specific site.

Citing PMAP: Igarashi Y, et al., PMAP: databases for analyzing proteolytic events and pathways. Nucleic Acids Res. 2008 Oct 8. [Epub ahead of print] PMID: 18842634