SIFTS: Structure Integration With Function, Taxonomy and Sequences Resource

Nucleic Acids Res. 2013 Jan;41(Database issue):D483-9. doi: 10.1093/nar/gks1258. Epub 2012 Nov 29.

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.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Databases, Protein*
  • Internet
  • Molecular Sequence Annotation
  • Protein Conformation
  • Proteins / chemistry*
  • Proteins / classification
  • Proteins / physiology
  • Sequence Analysis, Protein
  • Systems Integration

Substances

  • Proteins