SWISS-PROT protein sequence database TrEMBL supplement

Bairoch A, Apweiler R (2000) The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. Nucleic Acids Res 28 45-48... 

Swiss-Prot, TrEMBL Annotated non-redundant protein sequence database, TrEMBL is a computer-annotated supplement to Swiss-Prot. TrEMBL contains the translations of all coding sequences present in the EMBL Nucleotide Sequence Database which are no yet integrated into Swiss-Prot... 

The protein sequence databases are the most comprehensive source of information on proteins. The goal of this chapter is to describe the different protein sequence databases available to researchers. It is necessary to distinguish between universal databases that cover proteins from all species and specialized data collections that store information about specific families or groups of proteins, or about the proteins of a specific organism. Two categories of universal protein sequence databases can be discerned simple archives of sequence data and annotated databases in which additional information has been added to the sequence record. The next section describes the Protein Information Resource (PIR), the oldest protein sequence database SWISS-PROT, an annotated universal sequence database and TrEMBL, the supplement of... 

SWISS-PROT (Bairoch and Apweiler, 2000) is a protein sequence database that, from its inception in 1986, was produced collaboratively by the Department of Medical Biochemistry at the University of Geneva and the EMBL. The database is now maintained collaboratively by Swiss Institute of Bioinformatics (SIB) and EBI/EMBL. SWISS-PROT provides high-level annotations, including descriptions of the function of the protein and of the structure of its domains, its post-translational modifications, its variants, and so on. The database can be accessed from http //expasy.hcuge.ch/sprot/sprot-top.html or numerous mirror sites. In 1966, Translated EMBL (TrEMBL) was created as a computer-annotated supplement to SWISS-PROT (Bleasby et al, 1994). 

Immunoglobulins and T-cell receptors (hie name Immuno.dat) Most REM-TrEMBL entries are immunoglobulins and T-cell receptors. The integration of additional immunoglobulins and T-cell receptors into SWISS-PROT has been stopped, because SWISS-PROT does not want to add all known somatic recombined variations of these proteins to the database. Currently there are more than 18,000 immunoglobulins and T-cell receptors in REM-TrEMBL. SWISS-PROT plans to create a specialized database dealing with these sequences as another supplement to SWISS-PROT but will keep only a representative cross section of these proteins in SWISS-PROT. 

Nucleotide Sequence Database [26]) steps in. TrEMBL was created in 1996 and consists of computer-annotated entries in SWISS-PROT-like format. It is populated by protein sequences translated from the coding sequences (CDS) in EMBL and is a supplement to SWISS-PROT. In a way, it can be considered as a preliminary section of SWISS-PROT indeed, once the manual annotation is performed, the entries move on to SWISS-PROT. 

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