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NCI: Pfam is a large collection of multiple sequence alignments and hidden Markov models covering many common protein domains and families. For each family in Pfam you can 1) look at multiple alignments; 2) view protein domain architectures; 3) examine species distribution; 4) follow links to other databases; and 5) view known protein structures. (http://www.sanger.ac.uk/Software/Pfam/)
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