• Publications
  • Influence
The HHpred interactive server for protein homology detection and structure prediction
HHpred is a fast server for remote protein homology detection and structure prediction and is the first to implement pairwise comparison of profile hidden Markov models (HMMs). It allows to search aExpand
CLANS: a Java application for visualizing protein families based on pairwise similarity
A Java application, CLANS (CLuster ANalysis of Sequences), which uses a version of the Fruchterman-Reingold graph layout algorithm to visualize pairwise sequence similarities in either two-dimensional or three-dimensional space. Expand
A Completely Reimplemented MPI Bioinformatics Toolkit with a New HHpred Server at its Core.
The new version of the MPI Bioinformatics Toolkit is introduced, focusing on improved features for the comprehensive analysis of proteins, as well as on promoting teaching. Expand
Prediction and analysis of coiled-coil structures.
  • A. Lupas
  • Physics, Medicine
  • Methods in enzymology
  • 1996
A scan of coiled-coil proteins whose structures are known to atomic resolution shows that COILS is accurate in the analysis of parallel and antiparallel two-Stranded structures and of parallel three-stranded structures but generally does not detect all helices in antipar parallel structures containing three or more helices (helical bundles). Expand
The HAMP Domain Structure Implies Helix Rotation in Transmembrane Signaling
The solution structure of an archaeal HAMP domain shows a homodimeric, four-helical, parallel coiled coil with unusual interhelical packing, related to the canonical packing by rotation of the helices, which suggests a model for the mechanism of signal transduction. Expand
Coiled coils: new structures and new functions.
  • A. Lupas
  • Biology, Medicine
  • Trends in biochemical sciences
  • 1 October 1996
The structures of more than 20 proteins containing coiled-coil domains have been solved to high resolution and provided many new insights into the structure of coiled coils, their discontinuities, their relationship with other helical bundles and the problems connected with their prediction from protein sequences. Expand
TPRpred: a tool for prediction of TPR-, PPR- and SEL1-like repeats from protein sequences
This work has developed TPRpred, a profile-based method which uses a P-value-dependent score offset to include divergent repeat units and which exploits the tendency of repeats to occur in tandem in TPR-containing proteins. Expand
Bartonella Adhesin A Mediates a Proangiogenic Host Cell Response
The results suggest that BadA, the largest characterized bacterial protein thus far, is a major pathogenicity factor of B. henselae with a potential role in the induction of vasculoproliferative disorders. Expand
The MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis
This article reports on the evolution of the Toolkit over the last ten years, focusing on the expansion of the tool repertoire (e.g. CS-BLAST, HHblits) and on infrastructural work needed to remain operative in a changing web environment. Expand
The structure of alpha-helical coiled coils.
The principles of coiled-coil structure, the determinants of their folding and stability, and the diversity of structural forms they assume are reviewed. Expand