USF

Uppsala Software Factory - SPASM Package

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Manuals

Related freebies

Description

SPASM is a suite of programs related to DEJAVU. Whereas DEJAVU can be used to try and recognise entire domains or molecules (fold recognition), SPASM works at the level of smaller motifs of main chain and/or side chain arrangements. For example, if you solve a new structure you may want to know if there are other proteins which have a similar set of catalytic or substrate-binding residues. Alternatively, you may encounter an unusual loop and want to check if it occurs in other proteins.

The package consists of of the following programs:

Requirements

SPASM is available for SGI, DEC ALPHA, LINUX and OSX systems. O is handy for visual inspection of the "hits", which can only be carried for those protein structures in the PDB which you have available on disk locally, which may require a license from the Protein Data Bank.

References


USF Latest update at 1 July, 2004.