firestar [1,2] predicts functionally important residues. Predictions are made by evaluating internally generated alignments using SQUARE.
The reliability of the predictions is sensitive to alignment quality and automatically generated alignments may not be the optimal alignments. This tool allows users to paste their own pairwise query-template alignments.
Note that template sequence may be corrected if the sequence does not match with the one stored in the FireDB database.
More information about this tool in the online help page.
 firestar -- prediction of functionally important residues using structural templates and alignment reliability Lopez G, Valencia A, Tress ML.
Nucleic Acids Research, Volume 35, Issue suppl_2, 1 July 2007, Pages W573-W577;
 firestar -- advances in the prediction of functionally important residues Lopez G, Maietta P, Rodriguez JM, Valencia A, Tress ML.
Nucleic Acids Research, Volume 39, Issue suppl_2, 1 July 2011, Pages W235-W241;
 Protein homology detection by HMM–HMM comparison Söding J.
Bioinformatics, Volume 21, Issue 7, 1 April 2005, Pages 951-960; DOI:10.1093/bioinformatics/bti125
 Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ.
Nucleic Acids Research, Volume 25, Issue 17, 1 September 1997, Pages 3389-3402;
 FireDB: a compendium of biological and pharmacologically relevant ligands Maietta P, Lopez G, Carro A, Pingilley BJ, Leon LG, Valencia A, Tress ML.
Nucleic Acids Research, Volume 42, Issue D1, 1 January 2014, Pages D267-D272
 FireDB -- a database of functionally important residues from proteins of known structure Lopez G, Valencia A and Tress ML.
Nucleic Acids Research, Volume 35, Issue suppl_1, 1 January 2007, Pages D219-D223;
FireDB and firestar tools are licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)