The large number of experimentally determined protein 3D structures is a rich resource for
studying protein function and evolution, and protein structure comparison (PSC) is a key …

Motivation: Protein structure comparison (PSC) has been used widely in studies of structural
and functional genomics. However, PSC is computationally expensive and as a result …

Abstract POSA (Partial Order Structure Alignment), available at http://posa. godziklab. org, is
a server for multiple protein structure alignment introduced in 2005 (Ye, Y. and Godzik …

Abstract TOPOFIT-DB (T-DB) is a public web-based database of protein structural
alignments based on the TOPOFIT method, providing a comprehensive resource for …

Protein structural annotation and classification is an important and challenging problem in
bioinformatics. Research towards analysis of sequence–structure correspondences is …

Motivation Comparative analysis of homologous proteins in a functionally diverse
superfamily is a valuable tool at studying structure-function relationship, but represents a …

Comparing and classifying the three-dimensional (3D) structures of proteins is of crucial
importance to molecular biology, from helping to determine the function of a protein to …

Since protein structure is well conserved over evolutionary time, it therefore provides the
opportunity to recognize homology that is undetectable by sequence comparison, and it …

Although multiple sequence alignments (MSAs) are essential for a wide range of
applications from structure modeling to prediction of functional sites, construction of accurate …

The recent accumulation of large amounts of 3D structural data warrants a sensitive and
automatic method to compare and classify these structures. We developed a web server for …