Swiss-Prot
From MetaBase
- Galperin MY. The Molecular Biology Database Collection: 2007 update. Nucl. Acids Res. 2007. 35: D3-D4; doi:10.1093/nar/gkl1008. http://nar.oxfordjournals.org/cgi/content/abstract/35/suppl_1/D3
Swiss-Prot is NAR Database No. 197.
Contents |
Database Description
The UniProt/Swiss-Prot Protein Knowledgebase is a curated protein sequence database established in 1986. It provides a high level of annotation (such as the description of protein function, domains structure, post-translational modifications, variants, etc.), a minimal level of redundancy and high level of integration with other databases. It is part of the Universal Protein Knowledgebase (UniProt), a 'one-stop shop' that allows easy access to all publicly available information of protein sequence annotation.
Acknowledgements
UniProt is mainly supported by the National Institutes of Health (NIH) grant 1 U01 HG02712-01. Minor support for the EBI's involvement in UniProt comes from the two European Union contracts BioBabel (QLRT-2000-00981) and TEMBLOR (QLRI-2001-00015) and from the NIH grant 1R01HGO2273-01. Swiss-Prot activities at the SIB are supported by the Swiss Federal Government through the Federal Office of Education and Science.
References
- Apweiler, R., Bairoch, A., Wu, C.H., Barker, W.C., Boeckmann, B., Ferro, S., Gasteiger, E., Huang, H., Lopez, R., Magrane, M., Martin, M.J., Natale, D.A., O’Donovan, C., Redaschi, N. Yeh, L.L. (2004) UniProt: the Universal Protein knowledgebase. Nucleic Acids Res. 32, D115-D119.
- Boeckmann, B., Bairoch, A., Apweiler, R., Blatter, M., Estreicher, A., Gasteiger, E., Martin, M.J., Michoud, K., O'Donovan, C., Phan, I., Pilbout, S., Schneider, M. (2003) The Swiss-Prot protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res. 31, 365-370.
Authors
Apweiler R.1, Bairoch A.2 and Wu C.H.3,4
- 1 EMBL Outstation - The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
2Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel Servet, 1211 Geneva 4, Switzerland
3Department of Biochemistry and Molecular Biology, and 4National Biomedical Research Foundation, Georgetown University Medical Center, 3900 Reservoir Road, NW, Box 571414, Washington, DC 20057-1414, USA
External Links
- Swiss-Prot homepage
- Swiss-Prot abstract in the NAR 2003 Database Issue
Contact Email
Text adapted from Nucleic Acids Res. 1991
Sequence data in Swiss-Prot originates from three different sources, from the PIR protein sequence database, from translation entries from the EMBL Nucleotide Sequence Database and from the literature. For standardization purposes the format of Swiss-Prot follows as closely as possible that of the EMBL database. Swiss-Prot differs from other protein databases by three fundamental criteria: A) It contains a wealth of annotations that consist, for a given protein, in the description of its function, its post-translational modifications(s), the extent of specific domains and sites of biological interest, its secondary and quaternary structures, its similarities to other proteins, the disease(s) associated with deficiencies in the protein, as well as various other topics. B) Minimal redundancy. Swiss-Prot provides a single entry for each individual sequence. Data derived from different literature reports are merged thus providing a synthetic view of the current knowledge with respect to a given protein. C) it is integrated with other database. Cross-references are provided to many other databases including nucleotide sequence databases, the protein 3D structure database (PDB), as well as other specialized data collections.
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