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GANGSTA+

Consists in an algorithm serving for non-sequential structural alignment of proteins and similarity search in databases. GANGSTA+ is able to notice structural similarities between two proteins, although their sequences might be reshuffled during evolution. It can spot non-sequential structural analogs for proteins stated to possess novel folds. Its online interface provides several functions: (1) comparing structures of a pair and performing a score; (2) searching the database; and (3) browsing the database.

SymD

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A program that detects proteins with internal symmetry. SymD proved to be useful for analyzing protein structure, function and modeling. This web-based interactive tool was developed by implementing the SymD algorithm. It uses the Galaxy platform to take advantage of its extensibility and displays the symmetry properties, the symmetry axis and the sequence alignment of the structures before and after the symmetry transformation via an interactive graphical visualization environment in any modern web browser.

CE-symm

Detects pseudo-symmetry within the tertiary structure of protein chains. Using a large manually curated benchmark of 1007 protein domains, we show that CE-Symm performs significantly better than previous approaches. Besides detecting pseudo-symmetry in protein structures, CE-Symm allows also the detection of conserved sequence motifs in symmetry units. This can provide insight useful for further analysis of a protein. This is particularly important if the function or active sites of the protein are unknown.