The detection of specific proteins as biomarkers of disease, health status, environmental
monitoring, food quality, control of fermenters and civil defence purposes means that …

Homology modeling plays a central role in determining protein structure in the structural
genomics project. The importance of homology modeling has been steadily increasing …

Background Predicting protein function and structure from sequence is one important
challenge for computational biology. For 26 years, most state-of-the-art approaches …

Abstract TOPCONS (http://topcons. net/) is a widely used web server for consensus
prediction of membrane protein topology. We hereby present a major update to the server …

We describe and validate a new membrane protein topology prediction method, TMHMM,
based on a hidden Markov model. We present a detailed analysis of TMHMM's performance …

A novel method to model and predict the location and orientation of alpha helices in
membrane-spanning proteins is presented. It is based on a hidden Markov model (HMM) …

We show that amino acid covariation in proteins, extracted from the evolutionary sequence
record, can be used to fold transmembrane proteins. We use this technique to predict …

The HMMTOP transmembrane topology prediction server predicts both the localization of
helical transmembrane segments and the topology of transmembrane proteins. Recently …

We have carried out detailed statistical analyses of integral membrane proteins of the helix‐
bundle class from eubacterial, archaean, and eukaryotic organisms for which genome‐wide …

Using a combination of computer methods for iterative database searches and multiple
sequence alignment, we show that protein sequences related to the AAA family of ATPases …