Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2009 Jan;37(Database issue):D387-92.
doi: 10.1093/nar/gkn750. Epub 2008 Oct 18.

The SWISS-MODEL Repository and associated resources

Florian Kiefer  1 , Konstantin Arnold, Michael Künzli, Lorenza Bordoli, Torsten Schwede
Affiliations

The SWISS-MODEL Repository and associated resources

Florian Kiefer et al. Nucleic Acids Res. 2009 Jan.

Abstract

SWISS-MODEL Repository (http://swissmodel.expasy.org/repository/) is a database of 3D protein structure models generated by the SWISS-MODEL homology-modelling pipeline. The aim of the SWISS-MODEL Repository is to provide access to an up-to-date collection of annotated 3D protein models generated by automated homology modelling for all sequences in Swiss-Prot and for relevant models organisms. Regular updates ensure that target coverage is complete, that models are built using the most recent sequence and template structure databases, and that improvements in the underlying modelling pipeline are fully utilised. As of September 2008, the database contains 3.4 million entries for 2.7 million different protein sequences from the UniProt database. SWISS-MODEL Repository allows the users to assess the quality of the models in the database, search for alternative template structures, and to build models interactively via SWISS-MODEL Workspace (http://swissmodel.expasy.org/workspace/). Annotation of models with functional information and cross-linking with other databases such as the Protein Model Portal (http://www.proteinmodelportal.org) of the PSI Structural Genomics Knowledge Base facilitates the navigation between protein sequence and structure resources.

PubMed Disclaimer

Figures

Figure 1.
Figure 1.
Typical view of a SWISS-MODEL Repository entry. For the UniProt entry P53354, the α-amylase I (EC 3.2.1.1; 1,4-α-d-glucan glucanohydrolase) from Aedes aegypti (Yellowfever mosquito), a model covering the active amylase domain is shown, including information on the template structure used for model building, the target–template sequence alignment, and quality assessment of the model. Functional annotation such as PFAM domain structure and UniProt annotation of the protein sequence is retrieved dynamically. Links to SWISS-MODEL Workspace enable the user to run additional model quality assessment tools on the model, or search the template library for alternative template structures.
See this image and copyright information in PMC

Similar articles

See all similar articles

Cited by

See all "Cited by" articles

References

    1. Levitt M. Growth of novel protein structural data. Proc. Natl Acad. Sci. USA. 2007;104:3183–3188. - PMC - PubMed
    1. Slabinski L, Jaroszewski L, Rodrigues AP, Rychlewski L, Wilson IA, Lesley SA, Godzik A. The challenge of protein structure determination—lessons from structural genomics. Protein Sci. 2007;16:2472–2482. - PMC - PubMed
    1. Manjasetty BA, Turnbull AP, Panjikar S, Bussow K, Chance MR. Automated technologies and novel techniques to accelerate protein crystallography for structural genomics. Proteomics. 2008;8:612–625. - PubMed
    1. Yooseph S, Sutton G, Rusch DB, Halpern AL, Williamson SJ, Remington K, Eisen JA, Heidelberg KB, Manning G, Li W, et al. The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families. PLoS Biol. 2007;5:e16. - PMC - PubMed
    1. Bairoch A, Apweiler R, Wu CH, Barker WC, Boeckmann B, Ferro S, Gasteiger E, Huang H, Lopez R, Magrane M, et al. The Universal Protein Resource (UniProt) Nucleic Acids Res. 2005;33:D154–D159. - PMC - PubMed

Publication types