In an era that has been dominated by Structural Biology for the last 30-40 years, a dramatic
change of focus towards sequence analysis has spurred the advent of the genome projects …

AAindex is a database of numerical indices representing various physicochemical and
biochemical properties of amino acids and pairs of amino acids. We have added a collection …

Abstract The Fast Fourier Transform (FFT) correlation approach to protein–protein docking
can evaluate the energies of billions of docked conformations on a grid if the energy is …

We extend PRIME, an intermediate‐resolution protein model previously used in simulations
of the aggregation of polyalanine and polyglutamine, to the description of the geometry and …

Background Protein-protein docking, which aims to predict the structure of a protein-protein
complex from its unbound components, remains an unresolved challenge in structural …

Recent work with Saccharomyces cerevisiae shows a linear relationship between the
evolutionary rate of sites and the relative solvent accessibility (RSA) of the corresponding …

Motivation: Natively unstructured (also dubbed intrinsically disordered) regions in proteins
lack a defined 3D structure under physiological conditions and often adopt regular structures …

The atomic structures of protein–protein interactions are central to understanding their role
in biological systems, and a wide variety of biophysical functions and potentials have been …

To predict the tertiary structure of full‐length sequences of all targets in CASP6, regardless
of their potential category (from easy comparative modeling to fold recognition to apparent …

Background Scoring functions, such as molecular mechanic forcefields and statistical
potentials are fundamentally important tools in protein structure modeling and quality …