PROSITE, a protein domain database for functional characterization and annotation

Sigrist, 2002, PROSITE: a documented database using patterns and profiles as motif descriptors, Brief Bioinformatics, 3, 265, 10.1093/bib/3.3.265

Sigrist, 2005, ProRule: a new database containing functional and structural information on PROSITE profiles, Bioinformatics, 21, 4060, 10.1093/bioinformatics/bti614

de Castro, 2006, ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins, Nucleic Acids Res., 34, W362, 10.1093/nar/gkl124

Hulo, 2008, The 20 years of PROSITE, Nucleic Acids Res., 36, D245, 10.1093/nar/gkm977

Finn, 2008, The Pfam protein families database, Nucleic Acids Res., 36, D281, 10.1093/nar/gkm960

Koua, 2009, PeroxiBase: a database with new tools for peroxidase family classification, Nucleic Acids Res., 37, D261, 10.1093/nar/gkn680

Vital-IT

Altschul, 1997, Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Res., 25, 3389, 10.1093/nar/25.17.3389

HMMER

Stockholm format

Clamp, 2004, The Jalview Java alignment editor, Bioinformatics, 20, 426, 10.1093/bioinformatics/btg430

Waterhouse, 2009, Jalview Version 2—a multiple sequence alignment editor and analysis workbench, Bioinformatics, 25, 1189, 10.1093/bioinformatics/btp033

Hunter, 2009, InterPro: the integrative protein signature database, Nucleic Acids Res., 37, D211, 10.1093/nar/gkn785

Dowell, 2001, The distributed annotation system, BMC Bioinformatics, 2, 7, 10.1186/1471-2105-2-7

Finn, 2007, ProServer: a simple, extensible Perl DAS server, Bioinformatics, 23, 1568, 10.1093/bioinformatics/btl650

Prlić, 2007, Integrating sequence and structural biology with DAS, BMC Bioinformatics, 8, 333, 10.1186/1471-2105-8-333

Jimenez, 2008, Dasty2, an Ajax protein DAS client, Bioinformatics, 24, 2119, 10.1093/bioinformatics/btn387