Universal Protein Resource

UniProt (http //www.expasy.uniprot.org), Universal Protein Resource. Created by joining the Swiss-Prot information, TrEMBL and PIR contains protein sequence and function. 

Bairoch A, Apweiler R, Wu G, et al. (2005) The universal protein resource (UniProt). Nucl. Acids Res. 33 D154—D159. 

More members of the dysbindin protein family are known in humans than in any other species at present. In articular, there are eight human proteins with dysbindin domains listed by the National Center for Biotechnology Information (NCBI http //www.ncbi.nlm.nih.gov/) and/or by the Universal Protein Resource (UniProt http //www.pir.uniprot.org/index.shtml). They are schematically shown in Figure 2.2-1, which... 

Lopez, R., Magrane, M., etal. (2005). The Universal Protein Resource (UniProt). Nucleic Acids Res. 33,154-159. 

Field/value-based flat files have been very commonly used in bioinformatics. Examples are the flat file libraries from GenBank, European Molecular Biology Laboratory Nucleotide Sequence Database (EMBL), DNA Data Bank of Japan, or Universal Protein Resource (UniProt). These file types are a very limited solution because they lack referencing, vocabulary control, and constraints. In addition, on the file level, there is no inherent locking mechanism that detects when a file is being used or modified. However, these file types are primarily used for reading purposes. 

Huang, R. Lopez, M. Magrane, M. J. Martin, D. A. Natale, C. O Donovan, N. Redaschi, and L.-S. L. Yeh, Nucleic Acids Res., 33, D154 (2005). The Universal Protein Resource (UniProt). The UniProt website http //www.uniprot.org. 

Irwin JJ, Shoichet BK, Mysinger MM, Huang N, Colizzi F, Wassam P, Cao Y (2009) Automated docking screens a feasibility study. J Med Chem 52 5712-5720 Consortium TU (2014) Activities at the universal protein resource (UniProt). Nucleic Acids... 

The Universal Protein Resource (UniProt) provides the scientific community with a centralized, authoritative resource for protein sequences and functional information with three database components. (1) The UniProt Knowledgebase (UniProtKB), produced by a combination of automation and over 25 years of human curation, is the central protein sequence database with accurate, consistent, functional annotation and extensive cross-references. (2) The UniProt Reference Clusters (UniRef) provide clustered sets of sequences from UniProtKB (including splice variants and isoforms) in order to obtain complete coverage of sequence space at several resolutions. The UniRef 100 database is particularly useful for Mass Spec identifications as it exposes known sequence variation and splice-form annotation contained in UniProtKB records. (3) The UniProt Archive (UniParc) provides a stable comprehensive sequence collection by storing the complete body of all publicly available protein sequence data. 

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