The main documentation is available via
|License||Public Domain | Free for academic users|
|Citation||Publications on Uniprot/Swissprot|
|Links||Nucleic Acids Research | N.A.R.-Oxford Journals|
|Update||Daily at midnight|
SWISS-PROT is a curated protein sequence database which strives to provide a high level of annotation (such as the description of the function of a protein, its domains structure, post-translational modifications, variants, etc.), a minimal level of redundancy and high level of integration with other databases. Recent developments of the database include format and content enhancements, cross-references to additional databases, new documentation files and improvements to TrEMBL, a computer-annotated supplement to SWISS-PROT. TrEMBL consists of entries in SWISS-PROT-like format derived from the translation of all coding sequences (CDSs) in the EMBL Nucleotide Sequence Database, except the CDSs already included in SWISS-PROT. We also describe the Human Proteomics Initiative (HPI), a major project to annotate all known human sequences according to the quality standards of SWISS-PROT.
More detailed information about the SWISS-PROT Database
On the bwUniCluster, SWISS-PROT is updated daily at midnight.
You can check the date of the latest update by using
'module whatis dbdata/swissprot/current' or 'module help dbdata/swissprot/current'.
- $ module whatis dbdata/swissprot/current
dbdata/swissprot/current: This packages contains the Nucleic Acids Protein Sequence
Database Swiss-Prot. Last update: 24.11.2015
- $ module help dbdata/swissprot/current
Module Specific Help for 'dbdata/swissprot/current'
SWISS-PROT is a curated protein sequence database which strives
Last update: 24.11.2015
Updates will be avoided if:
- the current database version is in use by a module. E.g. module load dbdata/swissprot/current was called by another module and has still not finished its job,
- there is no newer version available at the source system.
3.3 Update-Source and Logs
Logs: in $SWISSPROT_HOME you'll find some logfiles.
$ ls -x $SWISSPROT_HOME bwhpc-examples cron.out lastupdate.txt ...
lastupdate.txt : Informations about the last successful or not successful updates including date and time.
4.1 Program Binaries
There will be no binary packages supplied with the database.
It's a link to DB-files using environment-variables you can include in your submit-scripts for other modules.
After loading the SWISS-PROT module (module load dbdata/swissprot/current) this path is also set to the local $PATH- and other environments.
|Protein database formatted without "-o T"|
|Protein database formatted with "-o T" add these ISAM files:|
Please report missing entries and errors to Rainer Rutka.