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URL: http://prodata.swmed.edu/malisam
Proper Citation: MALISAM: Manual ALIgnments of Structurally Analogous Motifs (RRID:SCR_013380)
Description: MALISAM is a database of pairwise, structure-based alignments for structurally analogous motifs in proteins. Homology and analogy are two alternative scenarios to explain structural similarities among proteins. Homologs inherit similar features from their common ancestor, while analogs converge to similar structures due to a limited number of energetically favorable ways to pack secondary structural elements. Analogous pairs in this database are in three categories: a hybrid motif and a core motif, an interface motif and a core motif, an artificial protein and a natural protein. During evolution, a protein family usually preserves a common core while accumulating insertions and deletions in the periphery. A core motif is composed entirely of secondary structure elements belonging to the evolutionary core. A hybrid motif consists of both core elements and peripheral insertions that are not present in the majority of the family members. An interface motif uses secondary structural elements from two or more domains or subunits contacting along that interface.
Synonyms: MALISAM
Resource Type: data or information resource, database
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