Superpose3D: a local structural comparison program that allows for user-defined structure representations.

ABSTRACT: Local structural comparison methods can be used to find structural similarities involving functional protein patches such as enzyme active sites and ligand binding sites. The outcome of such analyses is critically dependent on the representation used to describe the structure. Indeed different categories of functional sites may require the comparison program to focus on different characteristics of the protein residues. We have therefore developed superpose3D, a novel structural comparison software that lets users specify, with a powerful and flexible syntax, the structure description most suited to the requirements of their analysis. Input proteins are processed according to the user's directives and the program identifies sets of residues (or groups of atoms) that have a similar 3D posit

SUBMITTER: Gherardini PF 

PROVIDER: S-EPMC2916828 | biostudies-literature | 2010 Aug

REPOSITORIES: biostudies-literature