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Plant protein annotation in the UniProt Knowledgebase
Michel Schneider1, Amos Bairoch, Cathy H Wu
1Swiss Institute of Bioinformatics, Centre Medical Universitaire, University of Geneva, 1211 Geneva 4, Switzerland. michel.schneider@isb-sib.ch
Plant Physiology
|May 13, 2005
Summary
The Universal Protein Resource (UniProt) consolidates major protein databases into a unified, centralized resource. This initiative provides comprehensive protein sequence and functional data, benefiting plant science research.
Area of Science:
- Bioinformatics
- Proteomics
- Genomics
Background:
- Major protein databases (Swiss-Prot, TrEMBL, PIR, DDBJ) have unified.
- This consolidation forms the Universal Protein Resource (UniProt) Consortium.
- Increasing plant genome sequencing necessitates a unified data resource.
Purpose of the Study:
- To establish a single, authoritative resource for protein sequence and functional information.
- To facilitate the exploration and utilization of plant and non-plant model organism proteomic data.
- To support the plant science community with comprehensive and accessible data.
Main Methods:
- Integration of Swiss-Prot, TrEMBL, PIR, and DDBJ databases.
- Development of three database layers: UniProt Archive, UniProt Knowledgebase (UniProtKB), and UniProt Reference Clusters.
- Establishment of UniProtKB/Swiss-Prot (manual curation) and UniProtKB/TrEMBL (automated annotation).
Main Results:
- The Universal Protein Resource (UniProt) is now operational.
- UniProtKB offers manually curated and automatically annotated protein entries.
- Fortnightly releases ensure up-to-date information.
- A dedicated Plant Proteome Annotation Program addresses plant-specific data needs.
Conclusions:
- UniProt provides a centralized, authoritative platform for protein data.
- The resource enhances accessibility to vast amounts of proteomic information.
- UniProt empowers researchers to fully leverage genomic and proteomic data for plant science and beyond.