UniParc at the EBI
UniProt Archive (UniParc) is part of UniProt
project. It is a non-redundant archive of protein sequences extracted from public
databases UniProtKB/Swiss-Prot ,
UniProtKB/TrEMBL, PIR-PSD, EMBL, EMBL WGS, Ensembl, IPI, PDB, PIR-PSD, RefSeq, FlyBase, WormBase, H-Invitational Database, TROME
database, European Patent Office proteins, United States Patent and Trademark Office proteins (USPTO)
and Japan Patent Office proteins.
UniParc contains only protein sequences. All other information about the protein must be
retrieved from the source databases using the database cross-references. Each unique sequence
is stored only once with a stable identifier. The format of the identifier is UPI followed by
ten hexadecimal numbers, e.g. UPI000000000A.
UniParc proteins are linked to their source databases by database cross-references. Each
cross-reference links one protein in UniParc to an accession number in a source database. The
database cross-reference is active as long as the sequence identified by the source accession
number remains unchanged. When the sequence is modified or removed in the source database, the
cross-reference from UniParc becomes inactive. Active cross-reference can be used to directly
access the source databases but inactive cross-references can only be used to access sequences
archives, such as the Sequence Version
Archive .
UniParc is available for text- and sequence-based searches. Sequences, which are no longer part
of any source database, are excluded from sequence-based searches, but they are available for
text-based searches. Performing a similarity search against UniParc is equivalent to
performing the same search against all databases cross-referenced in UniParc, as UniParc
contains all proteins from its source databases. Sequence similarity searches can be done
using FASTA
or BLAST .
Accessing the database
Query the database
| Link | Explanation |
|---|---|
| UniParc Search | Database queries |
| dbfetch | Entry and sequence retrieval |
| Wu-BLAST2 | Sequence similarity searches |
| NCBI-BLAST2 | Sequence similarity searches |
| FASTA | Sequence similarity searches |
| SSEARCH | Sequence similarity searches |