Background Comparing related structures and viewing the structures in the context of
sequence alignments are important tasks in protein structure-function research. While many …

FUGUE, a program for recognizing distant homologues by sequence-structure comparison
(http://www-cryst. bioc. cam. ac. uk/fugue/), has three key features.(1) Improved environment …

Motivation: Protein structures are flexible and undergo structural rearrangements as part of
their function, and yet most existing protein structure comparison methods treat them as rigid …

A new protein fold recognition method is described which is both fast and reliable. The
method uses a traditional sequence alignment algorithm to generate alignments which are …

Here, we present MultiProt, a fully automated highly efficient technique to detect multiple
structural alignments of protein structures. MultiProt finds the common geometrical cores …

Comparative or homology protein structure modeling is severely limited by errors in the
alignment of a modeled sequence with related proteins of known three‐dimensional …

Distant homologies between proteins are often discovered only after three‐dimensional
structures of both proteins are solved. The sequence divergence for such proteins can be so …

This paper presents a novel linear programming approach to do protein 3-dimensional (3D)
structure prediction via threading. Based on the contact map graph of the protein 3D …

A heavy atom distance‐dependent knowledge‐based pairwise potential has been
developed. This statistical potential is first evaluated and optimized with the native structure …

In fold recognition by threading one takes the amino acid sequence of a protein and
evaluates how well it fits into one of the known three-dimensional (3D) protein structures …