ConSeq: the identification of functionally and structurally important residues in protein sequences

Bioinformatics. 2004 May 22;20(8):1322-4. doi: 10.1093/bioinformatics/bth070. Epub 2004 Feb 10.


Motivation: ConSeq is a web server for the identification of biologically important residues in protein sequences. Functionally important residues that take part, e.g. in ligand binding and protein-protein interactions, are often evolutionarily conserved and are most likely to be solvent-accessible, whereas conserved residues within the protein core most probably have an important structural role in maintaining the protein's fold. Thus, estimated evolutionary rates, as well as relative solvent accessibility predictions, are assigned to each amino acid in the sequence; both are subsequently used to indicate residues that have potential structural or functional importance.

Availability: The ConSeq web server is available at

Supplementary information: The ConSeq methodology, a description of its performance in a set of five well-documented proteins, a comparison to other methods, and the outcome of its application to a set of 111 proteins of unknown function, are presented at under 'OVERVIEW', 'VALIDATION', 'COMPARISON' and 'PREDICTIONS', respectively.

Publication types

  • Evaluation Study
  • Research Support, Non-U.S. Gov't
  • Validation Study

MeSH terms

  • Algorithms*
  • Amino Acid Sequence
  • Amino Acid Substitution
  • Amino Acids / analysis
  • Amino Acids / chemistry*
  • Amino Acids / classification
  • Molecular Sequence Data
  • Proteins / analysis
  • Proteins / chemistry*
  • Proteins / classification
  • Sequence Alignment / methods*
  • Sequence Analysis, Protein / methods*
  • Sequence Homology, Amino Acid
  • Software*
  • Structure-Activity Relationship
  • User-Computer Interface*


  • Amino Acids
  • Proteins