SWISS-MODEL Workspace
An Automated Comparative Protein Modelling Environment



SIB - Biozentrum Basel site provided by:





SWISS-MODEL Version 8.05 released
We are pleased to announce a new release of Swiss-Model Workspace.

What's new?
  • New automated modeling pipeline with improved hierarchical approach for template selection.
  • New SWISS-MODEL template library (SMTL) HMM profiles
  • Increased sensitivity of template detection (sequence to profile search using an adapted HHSearch protocol)
  • New tools for model and structure quality assessment: Dfire and Qmean global scores; ProQres residue based assessment scores
  • Additional hardware: As the new pipeline requires significantly more computational resources, we have added additional compute nodes to the cluster.



SWISS-MODEL is a fully automated protein structure homology-modeling server, accessible via the ExPASy web server, or from the program DeepView (Swiss Pdb-Viewer). The purpose of this server is to make Protein Modelling accessible to all biochemists and molecular biologists WorldWide.

History
SWISS-MODEL was initiated in 1993 by Manuel Peitsch, and further developed at GWER - Glaxo Wellcome Experimental Research in Geneva and the SIB - Swiss Institute of Bioinformatics by Manuel Peitsch, Nicolas Guex and Torsten Schwede. Since 2001, SWISS-MODEL is being developed by Torsten Schwede's Structural Bioinformatics Group at the Biozentrum (University of Basel) and SIB - Swiss Institute of Bioinformatics. The SWISS-MODEL Repository , a relational database of annotated three-dimensional comparative protein structure models, was established in 2004. In 2005, SWISS-MODEL service was extended by SWISS-MODEL Workspace , a web-based work bench for protein structure modelling and assessment. Computational resources for the SWISS-MODEL server are provided in collaboration by the Biozentrum (University Basel) and the Advanced Biomedical Computing Center (NCI Frederick, USA).



The SWISS-MODEL team is working continously to update and improve the SWISS-MODEL pipeline and template library. If you find any errors, bugs or problems using SWISS-MODEL, please let us know about it by sending a detailled description of the problem to: help-swissmodel@unibas.ch.

The SWISS-MODEL Team @ Biozentrum Basel / SIB
Torsten Schwede   Project Leader
Florian Kiefer SWISS-MODEL Repository
Lorenza Bordoli Method Development and user support
Konstantin Arnold SWISS-MODEL Workspace

In collaboration with:
Manuel Peitsch Initiator of SWISS-MODEL
Nicolas Guex DeepView - Swiss-PdbViewer
Karol Miaskiewicz Advanced Biomedical Computing Center
Robert W. Lebherz Advanced Biomedical Computing Center




References:
When you publish or report results using SWISS-MODEL, please cite the relevant publications:
  1. Arnold K., Bordoli L., Kopp J., and Schwede T. (2006). The SWISS-MODEL Workspace: A web-based environment for protein structure homology modelling. Bioinformatics, 22,195-201.
  2. Kiefer F, Arnold K, Künzli M, Bordoli L, Schwede T (2009). The SWISS-MODEL Repository and associated resources. Nucleic Acids Research. 37, D387-D392.
  3. Schwede T, Kopp J, Guex N, and Peitsch MC (2003) SWISS-MODEL: an automated protein homology-modeling server. Nucleic Acids Research 31: 3381-3385.
  4. Guex, N. and Peitsch, M. C. (1997) SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modelling. Electrophoresis 18: 2714-2723.
  5. Peitsch, M. C. (1995) Protein modeling by E-mail Bio/Technology 13: 658-660.



Disclaimer

The result of any modelling procedure is NON-EXPERIMENTAL and MUST be considered with care. This is especially true since there is no human intervention during model building. Carefully read the header section of the files to know what templates and alignments were used during the model building process.

SWISS-MODEL is developed by the Protein Structure Bioinformatics group at the SIB - Swiss Institute of Bioinformatics & the Biozentrum University of Basel. © 2011.