neXtProt/NXQ_09459

Check there are no entries with crosslink annotations that do not have the keyword Isopeptide bond (KW-1017)

Use at

• https://sparql.nextprot.org/sparql

PREFIX : <http://nextprot.org/rdf/>
PREFIX cv: <http://nextprot.org/rdf/terminology/>

select distinct ?entry where {  # Include ?xlink if result is not 0 to identify problem site
  ?xlink a :UniprotPtmCv.
  cv:KW-1017 :related  ?xlink.
  ?entry :isoform ?iso.
  ?iso :crossLink ?mod.
  ?mod :term ?xlink.
  filter not exists {?mod :negativeEvidence ?negev} # No negative evidence
  filter not exists {?entry :isoform /:keyword /:term cv:KW-1017.}
}

graph TD
classDef projected fill:lightgreen;
classDef literal fill:orange;
classDef iri fill:yellow;
  v1("?entry"):::projected 
  v5("?iso")
  v2("?mod")
  v3("?negev")
  v4("?xlink")
  a1((" "))
  a2((" "))
  c7([":UniprotPtmCv"]):::iri 
  c4([":terminology/KW-1017"]):::iri 
  f0[["not  "]]
  subgraph f0e0["Exists Clause"]
    e0v1 --":isoform"-->  e0a1
    e0a1 --":keyword"-->  e0a2
    e0a2 --":term"-->  e0c4
    e0v1("?entry"):::projected 
    e0a1((" ")):::projected 
    e0a2((" ")):::projected 
    e0c4([":terminology/KW-1017"]):::iri 
  end
  f0--EXISTS--> f0e0
  f0 --> v1
  f0 --> c1
  f0 --> a1
  f0 --> c2
  f0 --> a2
  f0 --> c3
  f0 --> c4
  v1 --":isoform"-->  a1
  a1 --":keyword"-->  a2
  a2 --":term"-->  c4
  f1[["not  "]]
  subgraph f1e1["Exists Clause"]
    e1v1 --":negativeEvidence"-->  e1v2
    e1v1("?mod"):::projected 
    e1v2("?negev"):::projected 
  end
  f1--EXISTS--> f1e1
  f1 --> v2
  f1 --> c5
  f1 --> v3
  v2 --":negativeEvidence"-->  v3
  v4 --"a"-->  c7
  c4 --":related"-->  v4
  v1 --":isoform"-->  v5
  v5 --":crossLink"-->  v2
  v2 --":term"-->  v4