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The UniProtKB/Swiss-Prot knowledgebase and its Plant Proteome Annotation Program

Published in Journal of proteomics. 2009, vol. 72, no. 3, p. 567-573
Abstract The UniProt knowledgebase, UniProtKB, is the main product of the UniProt consortium. It consists of two sections, UniProtKB/Swiss-Prot, the manually curated section, and UniProtKB/TrEMBL, the computer translation of the EMBL/GenBank/DDBJ nucleotide sequence database. Taken together, these two sections cover all the proteins characterized or inferred from all publicly available nucleotide sequences. The Plant Proteome Annotation Program (PPAP) of UniProtKB/Swiss-Prot focuses on the manual annotation of plant-specific proteins and protein families. Our major effort is currently directed towards the two model plants Arabidopsis thaliana and Oryza sativa. In UniProtKB/Swiss-Prot, redundancy is minimized by merging all data from different sources in a single entry. The proposed protein sequence is frequently modified after comparison with ESTs, full length transcripts or homologous proteins from other species. The information present in manually curated entries allows the reconstruction of all described isoforms. The annotation also includes proteomics data such as PTM and protein identification MS experimental results. UniProtKB and the other products of the UniProt consortium are accessible online at www.uniprot.org.
Keywords *Abstracting and Indexing as TopicArabidopsis/chemistry*Databases, ProteinInternet*Knowledge BasesMass SpectrometryOryza sativa/chemistryPlant Proteins/*analysis/chemistry/*classificationProteome/*analysis/chemistry/*classification
PMID: 19084081
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Research group Calipho (80)
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SCHNEIDER, Michel et al. The UniProtKB/Swiss-Prot knowledgebase and its Plant Proteome Annotation Program. In: Journal of proteomics, 2009, vol. 72, n° 3, p. 567-573. doi: 10.1016/j.jprot.2008.11.010 https://archive-ouverte.unige.ch/unige:20086

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Deposited on : 2012-04-23

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