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UniProtKB/Swiss-Prot.

Emmanuel Boutet¹, Damien Lieberherr, Michael Tognolli

¹Swiss Institute of Bioinformatics, Centre Medical Universitaire, Geneva, Switzerland.

Methods in Molecular Biology (Clifton, N.J.)

|February 22, 2008

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The Universal Protein Resource (UniProt) consortium provides a central database for protein sequences and functional information. This guide focuses on UniProtKB/Swiss-Prot entries, detailing plant protein annotation and linked resources.

Area of Science:

Bioinformatics
Molecular Biology
Proteomics

Background:

The Universal Protein Resource (UniProt) consortium, comprising SIB, EBI, and PIR, offers a unified resource for protein data.
UniProt maintains key databases: UniProt KnowledgeBase (UniProtKB), UniProt Reference Clusters (UniRef), and UniProt Archive (UniParc).
UniProtKB integrates manually annotated Swiss-Prot and computer-annotated TrEMBL sections for comprehensive protein information.

Purpose of the Study:

To provide the scientific community with a centralized, high-quality resource for protein sequences and functional data.
To guide users through UniProtKB/Swiss-Prot entries, emphasizing plant protein annotation specifics.
To highlight the interconnectedness of UniProt databases and associated external resources.

Main Methods:

Related Experiment Videos

Description of the UniProtKB/Swiss-Prot database structure and content.
Explanation of UniProtKB/TrEMBL, UniRef, and UniParc databases.
Demonstration of accessing UniProt data via online portals and FTP downloads.

Main Results:

UniProtKB/Swiss-Prot entries offer curated protein information with extensive cross-links to ~100 external databases.
UniRef databases provide clustered protein sequences based on identity thresholds (100%, 90%, 50%).
UniParc archives all available protein sequence data, including historical entries.

Conclusions:

UniProt serves as an indispensable resource for protein research, offering diverse and integrated data.
The manual curation in Swiss-Prot ensures high-quality, reliable protein annotation.
Understanding UniProtKB/Swiss-Prot and its linked resources enhances biological data interpretation, particularly for plant proteins.