3

rq turtle/ttl

• taxonomy
• isoform

Select all UniProtKB entries, and their organism and amino acid sequences (including isoforms), for E. coli K12 and all its strains

Use at

• https://sparql.uniprot.org/sparql/

PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX up: <http://purl.uniprot.org/core/>

SELECT ?protein ?organism ?isoform ?sequence
WHERE
{
    ?protein a up:Protein .
    ?protein up:organism ?organism .
    # Taxon subclasses are materialized, do not use rdfs:subClassOf+
    ?organism rdfs:subClassOf taxon:83333 .
    ?protein up:sequence ?isoform .
    ?isoform rdf:value ?sequence .
}

graph TD
classDef projected fill:lightgreen;
classDef literal fill:orange;
classDef iri fill:yellow;
  v3("?isoform"):::projected 
  v2("?organism"):::projected 
  v1("?protein"):::projected 
  v4("?sequence"):::projected 
  c5(["taxon:83333"]):::iri 
  c2(["up:Protein"]):::iri 
  v1 --"a"-->  c2
  v1 --"up:organism"-->  v2
  v2 --"rdfs:subClassOf"-->  c5
  v1 --"up:sequence"-->  v3
  v3 --"rdf:value"-->  v4