SeSAW: Balancing sequence and structural information in protein functional mapping

Abstract

Motivation: Functional similarity between proteins is evident at both the sequence and structure levels. SeSAW is a web-based program for identifying functionally or evolutionarily conserved motifs in protein structures by locating sequence and structural similarities, and quantifying these at the level of individual residues. Results can be visualized in 2D, as annotated alignments, or in 3D, as structural superpositions. An example is given for both an experimentally determined query structure and a homology model. Availability and Implementation: The web server is located at http://www.pdbj.org/SeSAW/. Contact: standley@ifrec.osaka-u.ac.jp. © The Author(s) 2010. Published by Oxford University Press.