title: firestar--advances in the prediction of functionally important residues.
abstract: firestar is a server for predicting catalytic and ligand-binding residues in protein sequences. Here, we present the important developments since the first release of firestar. Previous versions of the server required human interpretation of the results; the server is now fully automatized. firestar has been implemented as a web service and can now be run in high-throughput mode. Prediction coverage has been greatly improved with the extension of the FireDB database and the addition of alignments generated by HHsearch. Ligands in FireDB are now classified for biological relevance. Many of the changes have been motivated by the critical assessment of techniques for protein structure prediction (CASP) ligand-binding prediction experiment, which provided us with a framework to test the performance of firestar. URL: http://firedb.bioinfo.cnio.es/Php/FireStar.php.
authors.affiliation: Structural Computational Biology Group, Spanish National Cancer Research Centre (CNIO), c. Melchor Fernandez Almagro, 3, 28029 Madrid, Spain.
authors.forename: Gonzalo
authors.initials: G
authors.lastname: Lopez
authors.forename: Paolo
authors.initials: P
authors.lastname: Maietta
authors.forename: Jose Manuel
authors.initials: JM
authors.lastname: Rodriguez
authors.forename: Alfonso
authors.initials: A
authors.lastname: Valencia
authors.forename: Michael L
authors.initials: ML
authors.lastname: Tress
mesh_terms: D000596:Amino Acids / Q000737:chemistry; D020134:Catalytic Domain; D020407:Internet; D008024:Ligands; D008958:Models, Molecular; D011506:Proteins / Q000737:chemistry*; D016415:Sequence Alignment; D020539:Sequence Analysis, Protein; D012984:Software
chemical_list: D000596:Amino Acids; D008024:Ligands; D011506:Proteins