SDPpred: a tool for prediction of amino acid residues that determine differences in functional specificity of homologous proteins

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Many protein families contain homologous proteins that have a common biological function but different specificity. Given a multiple sequence alignment of a family divided into specificity groups, SDPpred predicts a set of alignment positions (SDP, Specificity-Determining Positions) that determine differences in the functional specificity. If analysing transmembrane proteins, there is a possibility to predict TM segments first, and then use special matrices for TM segments in the analysis. Additional feature is SDP-profile based prediction of specificity.


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The server implements the algorithm described in (when results are used, please site):

  • Kalinina OV, Mironov AA, Gelfand MS, Rakhmaninova AB. (2004) Automated selection of positions determining functional specificity of proteins by comparative analysis of orthologous groups in protein families. Protein Sci 13(2): 443-56. (PubMed)
This is SDPpred v.2. The first version can be found at http://monkey.belozersky.msu.ru/~psn/ and is described in
  • Kalinina OV, Novichkov PS, Mironov AA, Gelfand MS, Rakhmaninova AB. (2004) SDPpred: a tool for prediction of amino acid residues that determine differences in functional specificity of homologous proteins. Nucleic Acids Res 32(Web Server issue): W424-8. (PubMed)