Principles of protein− protein interactions: what are the preferred ways for proteins to interact?

O Keskin, A Gursoy, B Ma, R Nussinov - Chemical reviews, 2008 - ACS Publications
Proteins are the working horse of the cellular machinery. They are responsible for diverse
functions ranging from molecular motors to signaling. They catalyze reactions, transport …

Automatic prediction of protein function

B Rost, J Liu, R Nair, KO Wrzeszczynski… - Cellular and Molecular …, 2003 - Springer
Most methods annotating protein function utilise sequence homology to proteins of
experimentally known function. Such a homology-based annotation transfer is problematic …

Zinc through the three domains of life

C Andreini, L Banci, I Bertini… - Journal of proteome …, 2006 - ACS Publications
Zinc is one of the metal ions essential for life, as it is required for the proper functioning of a
large number of proteins. Despite its importance, the annotation of zinc-binding proteins in …

[PDF][PDF] Perspectives for mass spectrometry and functional proteomics

J Godovac‐Zimmermann, LR Brown - Mass spectrometry reviews, 2001 - Citeseer
One of the most intellectually challenging, scientifically productive, and socially applicable
endeavors of modern biological science is the current effort to understand the function of …

Recent advances in structure-based rational drug design

PJ Gane, PM Dean - Current opinion in structural biology, 2000 - Elsevier
Two approaches to structure-based drug design, that is, the docking of known compounds
into a target protein and molecular assembly in situ, are seen to be merging technologies …

A new, structurally nonredundant, diverse data set of protein–protein interfaces and its implications

O Keskin, CJ Tsai, H Wolfson, R Nussinov - Protein Science, 2004 - Wiley Online Library
Here, we present a diverse, structurally nonredundant data set of two‐chain protein–protein
interfaces derived from the PDB. Using a sequence order‐independent structural …

Loopy proteins appear conserved in evolution

J Liu, H Tan, B Rost - Journal of molecular biology, 2002 - Elsevier
Over the last decade, structural biologists have unravelled many proteins that appear
natively disordered. Common assumptions are that many of these proteins adopt structure …

Progress over the first decade of CASP experiments

A Kryshtafovych, Č Venclovas… - … structure, function, and …, 2005 - Wiley Online Library
CASP has now completed a decade of monitoring the state of the art in protein structure
prediction. The quality of structure models produced in the latest experiment, CASP6, has …

The UBX domain: a widespread ubiquitin-like module

A Buchberger, MJ Howard, M Proctor… - Journal of molecular …, 2001 - Elsevier
The UBX domain is an 80 amino acid residue module that is present typically at the carboxyl
terminus of a variety of eukaryotic proteins. In an effort to elucidate the function of UBX …

Computational approaches for protein function prediction: A survey

G Pandey, V Kumar, M Steinbach - 2006 - conservancy.umn.edu
Proteins are the most essential and versatile macromolecules of life, and the knowledge of
their functions is a crucial link in the development of new drugs, better crops, and even the …