Abstract

The Structure Integration with Function, Taxonomy and Sequences resource (SIFTS; http://pdbe.org/sifts) is a close collaboration between the Protein Data Bank in Europe (PDBe) and UniProt. The two teams have developed a semi-automated process for maintaining up-to-date cross-reference information to UniProt entries, for all protein chains in the PDB entries present in the UniProt database. This process is carried out for every weekly PDB release and the information is stored in the SIFTS database. The SIFTS process includes cross-references to other biological resources such as Pfam, SCOP, CATH, GO, InterPro and the NCBI taxonomy database. The information is exported in XML format, one file for each PDB entry, and is made available by FTP. Many bioinformatics resources use SIFTS data to obtain cross-references between the PDB and other biological databases so as to provide their users with up-to-date information.

Keywords

UniProtProtein Data Bank (RCSB PDB)XMLDatabaseProtein Data BankBiological databaseComputer scienceMetadataBiologyInformation retrievalBioinformaticsWorld Wide WebProtein structure

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Publication Info

Year
2012
Type
article
Volume
41
Issue
D1
Pages
D483-D489
Citations
307
Access
Closed

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Cite This

Sameer Velankar, Jose M Dana, Julius O.B. Jacobsen et al. (2012). SIFTS: Structure Integration with Function, Taxonomy and Sequences resource. Nucleic Acids Research , 41 (D1) , D483-D489. https://doi.org/10.1093/nar/gks1258

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DOI
10.1093/nar/gks1258