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. 2015 Jun 19;50:1.27.1-10.
doi: 10.1002/0471250953.bi0127s50.

Searching and Navigating UniProt Databases

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Free PMC article

Searching and Navigating UniProt Databases

Sangya Pundir et al. Curr Protoc Bioinformatics. .
Free PMC article

Abstract

The Universal Protein Resource (UniProt) is a comprehensive resource for protein sequence and annotation data. The UniProt Web site receives ∼400,000 unique visitors per month and is the primary means to access UniProt. It provides ten searchable datasets and three main tools. The key UniProt datasets are the UniProt Knowledgebase (UniProtKB), the UniProt Reference Clusters (UniRef), the UniProt Archive (UniParc), and protein sets for completely sequenced genomes (Proteomes). Other supporting datasets include information about proteins that is present in UniProtKB protein entries such as literature citations, taxonomy, and subcellular locations, among others. This paper focuses on how to use UniProt datasets. The basic protocol describes navigation and searching mechanisms for the UniProt datasets, while two alternative protocols build on the basic protocol to describe advanced search and query building.

Keywords: UniProt; navigation; search; tutorial.

Figures

Figure 1
Figure 1
UniProt datasets dropdown
Figure 2
Figure 2
UniProtKB search results page
Figure 3
Figure 3
UniProtKB search results with filter applied
Figure 4
Figure 4
UniProtKB proteoin entry INS_HUMAN for human insulin
Figure 5
Figure 5
UniProtKB advanced search field types available
Figure 6
Figure 6
Advanced search example
Figure 7
Figure 7
UniProtKB search results through advanced search
Figure 8
Figure 8
Adding parameters to UniProtKB advanced search
Figure 9
Figure 9
UniProtKB search result for additional advanced search parameters
Figure 10
Figure 10
Evidence tag in INS_HUMAN protein entry
Figure 11
Figure 11
Highlighted alignment for INS_HUMAN sequences

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