Requesting help with Uniprot SPARQL Query to retrieve Synonyms, Protein names

[sasujadhav1]

Hi, I request you help with my SPARQL query troubleshooting.

Please find xml file for one of Uniprot ID.

https://www.uniprot.org/uniprot/A0A2I0B0T8.xml

I have uniprot IDs and want to retreive
Full name, EC NUMBER, Protein ID Organism Scientific name

https://sparql.uniprot.org/ https://www.uniprot.org/docs/uniprot.xsd https://ftp.uniprot.org/pub/databases/uniprot/current_release/rdf/

Thank you.

[petermr]

I am not quite clear what you are trying to do:

• https://sparql.uniprot.org/ This is the SPARQL endpoint. It expects queries to be based on an RDF model

• https://www.uniprot.org/docs/uniprot.xsd This is the Uniprot XML schema which describes the structure of a Uniprot XML file

• https://www.uniprot.org/uniprot/A0A2I0B0T8.xml This is an example of a Uniprot XML file

  We would need to know:

  • which fields of the XML file you want to extract.
  • how they are represented in RDF

  I suspect the best thing is to find a tutorial.

[sasujadhav1]

I solved above query by following protocol: I mapped uniprotkb/ac id to uniprot kb. Then changed the column settings by adding required fields. Then downloaded excel file.