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Do I still need to use the Sequence Retrieval System (SRS)?

Last modified November 17, 2014

The UniProt search tool allows users to perform Google and SRS-like queries, on UniProtKB, UniRef and UniParc*. Note that it is also possible to upload a list of accession numbers and then perform a search in that subset.

Example: Search for Saccharomyces cerevisiae membrane glycoproteins in UniProtKB

Google-like queries

  • Click the Search tab of the toolbar
  • Select UniProtKB from the main search menu
  • Type Saccharomyces cerevisiae membrane glycoprotein in the Query box
  • Click on the search button
  • Follow the suggestions proposed by the search tool, and use the filter options:
    • Quote terms "saccharomyces cerevisiae"
    • Use the S.cerevisiae filter under "Popular organisms"
    • Filter "membrane" as keyword
    • Filter "glycoprotein" as keyword
  • Results
  • Click Columns to choose the columns to show in the results table
  • This URL can be bookmarked.

SRS-like queries

  • Select UniProtKB from the search menu
  • Click Advanced to open the query builder
    • Select Taxonomy -> Organism [OS] and type saccharomyces cerevisiae (use autocompletion)
    • Select Ontology -> Keyword [KW] and type Membrane (use autocompletion)
    • Select Ontology -> Keyword [KW] and type Glycoprotein (use autocompletion)
    • Click on the search button
  • Results
  • Click Columns to choose the columns to show in the results table
  • This URL can be bookmarked.

Queries on your personal UniProt dataset

  • Click on "Retrieve/ID mapping" in the toolbar
  • Copy/paste your list of accession numbers (i.e. P38903 P47096 P40433 P31787 P28240 P32465 P28319)
  • Click Retrieve
  • Click the UniProtKB link
  • Click Advanced to open the query builder

    You can now add search criteria to get a specific subset of entries (i.e. Glycoprotein, Membrane, 3D-structure...).

  • Click Columns to choose the columns to show in the results table

* Note that UniParc can be searched only with database names, taxonomy, checksum (CRC64) and accession numbers (ACs) or UniProtKB, UniRef and UniParc IDs.

Examples: