PATTERNS AND PROFILES.
PROTEIN MOTIFS  AND DOMAINS

Practical lessons

1. Patterns and Profiles. Protein Motifs and Domains

A selection of links

• Blocks . Multiple alignments of the most highly conserved regions of groups of proteins documented in InterPro.
• InterPro . Integrated view of commonly used motif databases.
• MetaFam Protein Family Database . Comprehensive database of protein family information.
• Motif. Scans sequences to find motifs, databases to find sequences that match profiles or patterns and generates profiles from sequences provised by the user.
• Pfam, at Sanger . Multiple sequence alignments and HMMs of protein domains and families, at Sanger Institute.
• Pfam, at Saint Louis
• Pfam, at Karolinska
• Pfam, at INRA
• PRINTS . Database of groups of conserved motifs, or protein fingerprints.
• ProDom . Protein domain families automatically generated from SWISS-PROT and TrEMBL.
• PROSITE . Database of protein families and domains, defined by patterns and profiles, at ExPASy.
• SMART . Simple Modular Architecture Research Tool, at EMBL.