▪ Abstract Comparative modeling predicts the three-dimensional structure of a given protein
sequence (target) based primarily on its alignment to one or more proteins of known …

Methods predicting protein secondary structure improved substantially in the 1990s through
the use of evolutionary information taken from the divergence of proteins in the same …

The bestselling introduction to bioinformatics and genomics–now in its third edition Widely
received in its previous editions, Bioinformatics and Functional Genomics offers the most …

Background Knowledge about the abundance of molecular components is an important
prerequisite for building quantitative predictive models of cellular behavior. Proteins are …

For most proteins in the genome databases, function is predicted via sequence comparison.
In spite of the popularity of this approach, the extent to which it can be reliably applied is …

Mechanical unfolding and refolding may regulate the molecular elasticity of modular
proteins with mechanical functions. The development of the atomic force microscopy (AFM) …

Most methods annotating protein function utilise sequence homology to proteins of
experimentally known function. Such a homology-based annotation transfer is problematic …

More than 30 organisms have been sequenced entirely. Here, we applied a variety of simple
bioinformatics tools to analyze 29 proteomes for representatives from all three kingdoms …

The ASTRAL compendium provides several databases and tools to aid in the analysis of
protein structures, particularly through the use of their sequences. The SPACI scores …

We investigated protein motions using normal modes within a database framework,
determining on a large sample the degree to which normal modes anticipate the direction of …