| http://purl.uniprot.org/unirules/MF_00041#construct | http://www.w3.org/ns/shacl#construct | "CONSTRUCT {
_:16713 up:source unirule:MF_00041 .
_:16714 up:source unirule:MF_00041 .
_:16715 up:source unirule:MF_00041 .
_:16716 up:source unirule:MF_00041 .
_:16717 up:source unirule:MF_00041 .
_:16718 up:source unirule:MF_00041 .
_:16719 up:source unirule:MF_00041 .
_:16720 up:source unirule:MF_00041 .
_:16721 up:source unirule:MF_00041 .
_:16722 up:source unirule:MF_00041 .
_:16723 up:source unirule:MF_00041 .
_:16724 up:source unirule:MF_00041 .
_:16725 up:source unirule:MF_00041 .
_:16726 up:source unirule:MF_00041 .
_:16727 up:source unirule:MF_00041 .
_:16728 up:source unirule:MF_00041 .
_:16729 up:source unirule:MF_00041 .
_:16730 up:source unirule:MF_00041 .
_:16731 up:source unirule:MF_00041 .
_:16732 up:source unirule:MF_00041 .
_:16733 up:source unirule:MF_00041 .
_:16734 up:source unirule:MF_00041 .
_:16735 up:source unirule:MF_00041 .
_:16736 up:source unirule:MF_00041 .
_:16737 up:source unirule:MF_00041 .
_:16738 up:source unirule:MF_00041 .
_:16739 up:source unirule:MF_00041 .
_:16740 up:source unirule:MF_00041 .
?this up:alternativeName ?name1 ;
up:annotation ?annotation3 ,
?annotation5 ,
?annotation7 ;
up:classifiedWith GO:0004817 ,
GO:0005524 ,
GO:0005737 ,
GO:0006423 ,
keyword:30 ,
keyword:436 ,
keyword:547 ,
keyword:648 ,
keyword:67 ,
keyword:963 ;
up:recommendedName ?name0 .
?name0 up:ecName '6.1.1.16' ;
up:fullName 'Cysteine--tRNA ligase' ;
rdf:type up:Structured_Name .
?name1 up:fullName 'Cysteinyl-tRNA synthetase' ;
up:shortName 'CysRS' ;
rdf:type up:Structured_Name .
?gene2 skos:prefLabel 'cysS' .
?annotation3 up:activity ?activity4 ;
rdf:type up:Catalytic_Activity_Annotation .
?activity4 up:catalyticActivity ;
up:enzymeClass .
?annotation5 a up:Subcellular_Location_Annotation .
?annotation5li6 up:cellularComponent .
?annotation7 a up:Similarity_Annotation ;
rdfs:comment 'Belongs to the class-I aminoacyl-tRNA synthetase family.' .
?case8 up:classifiedWith GO:0008270 ,
keyword:479 ,
keyword:862 .
?case9 up:classifiedWith keyword:597 .
?pfs11 up:annotation ?annotation12 ,
?annotation18 ,
?annotation24 ,
?annotation30 .
?annotation12 faldo:begin ?pfsb13 ;
faldo:end ?pfse14 ;
up:ligand ?ligand15 ;
rdf:type up:Binding_Site_Annotation .
?pfsb13 faldo:position ?thisPositionOn16 ;
rdf:type faldo:ExactPosition .
?pfse14 faldo:position ?thisPositionOn17 ;
rdf:type faldo:ExactPosition .
?ligand15 rdfs:subClassOf chebi:29105 .
?annotation18 faldo:begin ?pfsb19 ;
faldo:end ?pfse20 ;
up:ligand ?ligand21 ;
rdf:type up:Binding_Site_Annotation .
?pfsb19 faldo:position ?thisPositionOn22 ;
rdf:type faldo:ExactPosition .
?pfse20 faldo:position ?thisPositionOn23 ;
rdf:type faldo:ExactPosition .
?ligand21 rdfs:subClassOf chebi:29105 .
?annotation24 faldo:begin ?pfsb25 ;
faldo:end ?pfse26 ;
up:ligand ?ligand27 ;
rdf:type up:Binding_Site_Annotation .
?pfsb25 faldo:position ?thisPositionOn28 ;
rdf:type faldo:ExactPosition .
?pfse26 faldo:position ?thisPositionOn29 ;
rdf:type faldo:ExactPosition .
?ligand27 rdfs:subClassOf chebi:29105 .
?annotation30 faldo:begin ?pfsb31 ;
faldo:end ?pfse32 ;
up:ligand ?ligand33 ;
rdf:type up:Binding_Site_Annotation .
?pfsb31 faldo:position ?thisPositionOn34 ;
rdf:type faldo:ExactPosition .
?pfse32 faldo:position ?thisPositionOn35 ;
rdf:type faldo:ExactPosition .
?ligand33 rdfs:subClassOf chebi:29105 .
?pfs36 up:annotation ?annotation37 .
?annotation37 faldo:begin ?pfsb38 ;
faldo:end ?pfse39 ;
rdf:type up:Modified_Residue_Annotation ;
rdfs:comment 'Phosphoserine' .
?pfsb38 faldo:position ?thisPositionOn40 ;
rdf:type faldo:ExactPosition .
?pfse39 faldo:position ?thisPositionOn41 ;
rdf:type faldo:ExactPosition .
?pfs42 up:annotation ?annotation43 .
?annotation43 faldo:begin ?pfsb44 ;
faldo:end ?pfse45 ;
rdf:type up:Motif_Annotation ;
rdfs:comment "'HIGH' region" .
?pfsb44 faldo:position ?thisPositionOn46 ;
rdf:type faldo:ExactPosition .
?pfse45 faldo:position ?thisPositionOn47 ;
rdf:type faldo:ExactPosition .
?pfs48 up:annotation ?annotation49 .
?annotation49 faldo:begin ?pfsb50 ;
faldo:end ?pfse51 ;
rdf:type up:Motif_Annotation ;
rdfs:comment "'KMSKS' region" .
?pfsb50 faldo:position ?thisPositionOn52 ;
rdf:type faldo:ExactPosition .
?pfse51 faldo:position ?thisPositionOn53 ;
rdf:type faldo:ExactPosition .
?pfs54 up:annotation ?annotation55 .
?annotation55 faldo:begin ?pfsb56 ;
faldo:end ?pfse57 ;
up:ligand ?ligand58 ;
rdf:type up:Binding_Site_Annotation .
?pfsb56 faldo:position ?thisPositionOn59 ;
rdf:type faldo:ExactPosition .
?pfse57 faldo:position ?thisPositionOn60 ;
rdf:type faldo:ExactPosition .
?ligand58 rdfs:subClassOf chebi:30616 .
_:16741 a rdf:Statement ;
up:attribution _:16713 ;
rdf:subject ?this ;
rdf:predicate up:recommendedName ;
rdf:object ?name0 .
_:16742 a rdf:Statement ;
up:attribution _:16714 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name1 .
_:16743 a rdf:Statement ;
up:attribution _:16715 ;
rdf:subject ?gene2 ;
rdf:predicate up:encodedBy ;
rdf:object ?gene2 .
_:16744 a rdf:Statement ;
up:attribution _:16716 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation3 .
_:16745 a rdf:Statement ;
up:attribution _:16717 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation5 .
_:16746 a rdf:Statement ;
up:attribution _:16718 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation7 .
_:16747 a rdf:Statement ;
up:attribution _:16719 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:963 .
_:16748 a rdf:Statement ;
up:attribution _:16720 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:30 .
_:16749 a rdf:Statement ;
up:attribution _:16721 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:648 .
_:16750 a rdf:Statement ;
up:attribution _:16722 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:436 .
_:16751 a rdf:Statement ;
up:attribution _:16723 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:67 .
_:16752 a rdf:Statement ;
up:attribution _:16724 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:547 .
_:16753 a rdf:Statement ;
up:attribution _:16725 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0005524 .
_:16754 a rdf:Statement ;
up:attribution _:16726 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0004817 .
_:16755 a rdf:Statement ;
up:attribution _:16727 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0006423 .
_:16756 a rdf:Statement ;
up:attribution _:16728 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0005737 .
_:16757 a rdf:Statement ;
up:attribution _:16729 ;
rdf:subject ?case8 ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:479 .
_:16758 a rdf:Statement ;
up:attribution _:16730 ;
rdf:subject ?case8 ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:862 .
_:16759 a rdf:Statement ;
up:attribution _:16731 ;
rdf:subject ?case8 ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0008270 .
_:16760 a rdf:Statement ;
up:attribution _:16732 ;
rdf:subject ?case9 ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:597 .
_:16761 a rdf:Statement ;
up:source unirule:MF_00041 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation12 .
_:16762 a rdf:Statement ;
up:attribution _:16733 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation12 .
_:16763 a rdf:Statement ;
up:source unirule:MF_00041 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation18 .
_:16764 a rdf:Statement ;
up:attribution _:16734 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation18 .
_:16765 a rdf:Statement ;
up:source unirule:MF_00041 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation24 .
_:16766 a rdf:Statement ;
up:attribution _:16735 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation24 .
_:16767 a rdf:Statement ;
up:source unirule:MF_00041 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation30 .
_:16768 a rdf:Statement ;
up:attribution _:16736 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation30 .
_:16769 a rdf:Statement ;
up:source unirule:MF_00041 ;
rdf:subject ?pfs36 ;
rdf:predicate up:annotation ;
rdf:object ?annotation37 .
_:16770 a rdf:Statement ;
up:attribution _:16737 ;
rdf:subject ?pfs36 ;
rdf:predicate up:annotation ;
rdf:object ?annotation37 .
_:16771 a rdf:Statement ;
up:source unirule:MF_00041 ;
rdf:subject ?pfs42 ;
rdf:predicate up:annotation ;
rdf:object ?annotation43 .
_:16772 a rdf:Statement ;
up:attribution _:16738 ;
rdf:subject ?pfs42 ;
rdf:predicate up:annotation ;
rdf:object ?annotation43 .
_:16773 a rdf:Statement ;
up:source unirule:MF_00041 ;
rdf:subject ?pfs48 ;
rdf:predicate up:annotation ;
rdf:object ?annotation49 .
_:16774 a rdf:Statement ;
up:attribution _:16739 ;
rdf:subject ?pfs48 ;
rdf:predicate up:annotation ;
rdf:object ?annotation49 .
_:16775 a rdf:Statement ;
up:source unirule:MF_00041 ;
rdf:subject ?pfs54 ;
rdf:predicate up:annotation ;
rdf:object ?annotation55 .
_:16776 a rdf:Statement ;
up:attribution _:16740 ;
rdf:subject ?pfs54 ;
rdf:predicate up:annotation ;
rdf:object ?annotation55 .
}
WHERE {
#baseURI: http://purl.uniprot.org/unirule/MF_00041
#Rule MF_00041 Created by:? on:2005-02-28 Modified by:Edouard de Castro on:2024-09-03
VALUES ?supertaxon61 {taxon:2 taxon:2157}
?this up:organism ?thisOrganism ;
rdfs:seeAlso signature:MF_00041 .
?thisOrganism rdfs:subClassOf+ ?supertaxon61 .
BIND(URI(CONCAT(STR(?this), '#MF_00041a0')) AS ?name0) .
BIND(URI(CONCAT(STR(?this), '#MF_00041a1')) AS ?name1) .
BIND(URI(CONCAT(STR(?this), '#MF_00041a3')) AS ?annotation3) .
BIND(URI(CONCAT(STR(?this), '#MF_00041a5')) AS ?annotation5) .
BIND(URI(CONCAT(STR(?this), '#MF_00041a7')) AS ?annotation7) .
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch66 faldo:location ?templateMotifSequenceMatchRegionP2188867 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP2188869 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP21888MF_0004162 .
?templateMotifSequenceMatchRegionP2188867 faldo:begin ?templateMotifSequenceMatchBeginP2188868 .
?templateMotifSequenceMatchBeginP2188868 faldo:position ?templateMotifSequenceMatchBeginPositionP2188863 ;
faldo:reference isoform:P21888-1 .
?templateMotifSequenceProfileAlignmentOperationP2188869 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
?targetMotifMatch70 faldo:location ?targetMotifMatchRegionMatch71 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0004173 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP21888MF_0004164 .
?targetMotifMatchRegionMatch71 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0004172 .
?targetMotifMatchRegionMatchBeginMF_0004172 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0004165 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0004173 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
BIND(?this AS ?tagFTGRP_1) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_0004162, 1, (STRLEN(?templateMotifCigarP21888MF_0004162) - STRLEN(REPLACE(?templateMotifCigarP21888MF_0004162, CONCAT('^(?:-*[^-]){', STR(((28 - ?templateMotifSequenceMatchBeginPositionP2188863) + 1)), '}'), '')))), '[a-z]', '')) AS ?step174) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_0004164, 1, (STRLEN(?targetMotifMatchCigarP21888MF_0004164) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_0004164, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step174), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_0004164, 1, (STRLEN(?targetMotifMatchCigarP21888MF_0004164) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_0004164, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step174), '}'), '')))), '[^-]', ''))) AS ?step275) .
BIND(((?step275 + ?targetMotifMatchRegionMatchBeginPositionMF_0004165) - 1) AS ?thisPositionOn16) .
BIND(?thisPositionOn16 AS ?thisPositionOn17) .
BIND(?this AS ?pfs1t76) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn16))) AS ?pfsb13) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn17))) AS ?pfse14) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn16, 1) = 'C')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_0004162, 1, (STRLEN(?templateMotifCigarP21888MF_0004162) - STRLEN(REPLACE(?templateMotifCigarP21888MF_0004162, CONCAT('^(?:-*[^-]){', STR(((209 - ?templateMotifSequenceMatchBeginPositionP2188863) + 1)), '}'), '')))), '[a-z]', '')) AS ?step177) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_0004164, 1, (STRLEN(?targetMotifMatchCigarP21888MF_0004164) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_0004164, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step177), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_0004164, 1, (STRLEN(?targetMotifMatchCigarP21888MF_0004164) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_0004164, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step177), '}'), '')))), '[^-]', ''))) AS ?step278) .
BIND(((?step278 + ?targetMotifMatchRegionMatchBeginPositionMF_0004165) - 1) AS ?thisPositionOn22) .
BIND(?thisPositionOn22 AS ?thisPositionOn23) .
BIND(?this AS ?pfs1t79) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn22))) AS ?pfsb19) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn23))) AS ?pfse20) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn22, 1) = 'C')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_0004162, 1, (STRLEN(?templateMotifCigarP21888MF_0004162) - STRLEN(REPLACE(?templateMotifCigarP21888MF_0004162, CONCAT('^(?:-*[^-]){', STR(((234 - ?templateMotifSequenceMatchBeginPositionP2188863) + 1)), '}'), '')))), '[a-z]', '')) AS ?step180) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_0004164, 1, (STRLEN(?targetMotifMatchCigarP21888MF_0004164) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_0004164, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step180), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_0004164, 1, (STRLEN(?targetMotifMatchCigarP21888MF_0004164) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_0004164, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step180), '}'), '')))), '[^-]', ''))) AS ?step281) .
BIND(((?step281 + ?targetMotifMatchRegionMatchBeginPositionMF_0004165) - 1) AS ?thisPositionOn28) .
BIND(?thisPositionOn28 AS ?thisPositionOn29) .
BIND(?this AS ?pfs1t82) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn28))) AS ?pfsb25) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn29))) AS ?pfse26) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn28, 1) = 'H')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_0004162, 1, (STRLEN(?templateMotifCigarP21888MF_0004162) - STRLEN(REPLACE(?templateMotifCigarP21888MF_0004162, CONCAT('^(?:-*[^-]){', STR(((238 - ?templateMotifSequenceMatchBeginPositionP2188863) + 1)), '}'), '')))), '[a-z]', '')) AS ?step183) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_0004164, 1, (STRLEN(?targetMotifMatchCigarP21888MF_0004164) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_0004164, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step183), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_0004164, 1, (STRLEN(?targetMotifMatchCigarP21888MF_0004164) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_0004164, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step183), '}'), '')))), '[^-]', ''))) AS ?step284) .
BIND(((?step284 + ?targetMotifMatchRegionMatchBeginPositionMF_0004165) - 1) AS ?thisPositionOn34) .
BIND(?thisPositionOn34 AS ?thisPositionOn35) .
BIND(?this AS ?pfs1t85) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn34))) AS ?pfsb31) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn35))) AS ?pfse32) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn34, 1) = 'E')) .
BIND(?this AS ?pfs11) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch90 faldo:location ?templateMotifSequenceMatchRegionQ0675291 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationQ0675293 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarQ06752MF_0004186 .
?templateMotifSequenceMatchRegionQ0675291 faldo:begin ?templateMotifSequenceMatchBeginQ0675292 .
?templateMotifSequenceMatchBeginQ0675292 faldo:position ?templateMotifSequenceMatchBeginPositionQ0675287 ;
faldo:reference isoform:Q06752-1 .
?templateMotifSequenceProfileAlignmentOperationQ0675293 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
?targetMotifMatch94 faldo:location ?targetMotifMatchRegionMatch95 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0004197 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarQ06752MF_0004188 .
?targetMotifMatchRegionMatch95 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0004196 .
?targetMotifMatchRegionMatchBeginMF_0004196 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0004189 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0004197 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
BIND(?this AS ?tagFT_8) .
?this up:organism ?thisOrganism .
?thisOrganism rdfs:subClassOf+ taxon:186817 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarQ06752MF_0004186, 1, (STRLEN(?templateMotifCigarQ06752MF_0004186) - STRLEN(REPLACE(?templateMotifCigarQ06752MF_0004186, CONCAT('^(?:-*[^-]){', STR(((270 - ?templateMotifSequenceMatchBeginPositionQ0675287) + 1)), '}'), '')))), '[a-z]', '')) AS ?step198) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarQ06752MF_0004188, 1, (STRLEN(?targetMotifMatchCigarQ06752MF_0004188) - STRLEN(REPLACE(?targetMotifMatchCigarQ06752MF_0004188, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step198), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarQ06752MF_0004188, 1, (STRLEN(?targetMotifMatchCigarQ06752MF_0004188) - STRLEN(REPLACE(?targetMotifMatchCigarQ06752MF_0004188, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step198), '}'), '')))), '[^-]', ''))) AS ?step299) .
BIND(((?step299 + ?targetMotifMatchRegionMatchBeginPositionMF_0004189) - 1) AS ?thisPositionOn40) .
BIND(?thisPositionOn40 AS ?thisPositionOn41) .
BIND(?this AS ?pfs2t100) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn40))) AS ?pfsb38) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn41))) AS ?pfse39) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn40, 1) = 'S')) .
BIND(URI(CONCAT(STR(?this), '#MF_00041a37')) AS ?annotation37) .
BIND(?this AS ?pfs36) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch105 faldo:location ?templateMotifSequenceMatchRegionP21888106 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP21888108 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP21888MF_00041101 .
?templateMotifSequenceMatchRegionP21888106 faldo:begin ?templateMotifSequenceMatchBeginP21888107 .
?templateMotifSequenceMatchBeginP21888107 faldo:position ?templateMotifSequenceMatchBeginPositionP21888102 ;
faldo:reference isoform:P21888-1 .
?templateMotifSequenceProfileAlignmentOperationP21888108 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
?targetMotifMatch109 faldo:location ?targetMotifMatchRegionMatch110 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_00041112 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP21888MF_00041103 .
?targetMotifMatchRegionMatch110 faldo:begin ?targetMotifMatchRegionMatchBeginMF_00041111 .
?targetMotifMatchRegionMatchBeginMF_00041111 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_00041104 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_00041112 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_00041101, 1, (STRLEN(?templateMotifCigarP21888MF_00041101) - STRLEN(REPLACE(?templateMotifCigarP21888MF_00041101, CONCAT('^(?:-*[^-]){', STR(((30 - ?templateMotifSequenceMatchBeginPositionP21888102) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1113) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_00041103, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041103) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041103, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1113), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_00041103, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041103) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041103, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1113), '}'), '')))), '[^-]', ''))) AS ?step2114) .
BIND(((?step2114 + ?targetMotifMatchRegionMatchBeginPositionMF_00041104) - 1) AS ?thisPositionOn46) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_00041101, 1, (STRLEN(?templateMotifCigarP21888MF_00041101) - STRLEN(REPLACE(?templateMotifCigarP21888MF_00041101, CONCAT('^(?:-*[^-]){', STR(((40 - ?templateMotifSequenceMatchBeginPositionP21888102) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1115) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_00041103, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041103) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041103, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1115), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_00041103, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041103) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041103, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1115), '}'), '')))), '[^-]', ''))) AS ?step2116) .
BIND(((?step2116 + ?targetMotifMatchRegionMatchBeginPositionMF_00041104) - 1) AS ?thisPositionOn47) .
BIND(?this AS ?pfs3t117) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn46))) AS ?pfsb44) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn47))) AS ?pfse45) .
FILTER (REGEX('[ARNDCQEGHILKMFPSTWYVBZJUOX]T[ARNDCQEGHILKMFPSTWYVBZJUOX]{5)H[LIVFA]G[HN]', SUBSTR(?thisSequenceValue, ?thisPositionOn46, (?thisPositionOn47 - ?thisPositionOn46)))) .
BIND(URI(CONCAT(STR(?this), '#MF_00041a43')) AS ?annotation43) .
BIND(?this AS ?pfs42) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch122 faldo:location ?templateMotifSequenceMatchRegionP21888123 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP21888125 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP21888MF_00041118 .
?templateMotifSequenceMatchRegionP21888123 faldo:begin ?templateMotifSequenceMatchBeginP21888124 .
?templateMotifSequenceMatchBeginP21888124 faldo:position ?templateMotifSequenceMatchBeginPositionP21888119 ;
faldo:reference isoform:P21888-1 .
?templateMotifSequenceProfileAlignmentOperationP21888125 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
?targetMotifMatch126 faldo:location ?targetMotifMatchRegionMatch127 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_00041129 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP21888MF_00041120 .
?targetMotifMatchRegionMatch127 faldo:begin ?targetMotifMatchRegionMatchBeginMF_00041128 .
?targetMotifMatchRegionMatchBeginMF_00041128 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_00041121 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_00041129 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_00041118, 1, (STRLEN(?templateMotifCigarP21888MF_00041118) - STRLEN(REPLACE(?templateMotifCigarP21888MF_00041118, CONCAT('^(?:-*[^-]){', STR(((266 - ?templateMotifSequenceMatchBeginPositionP21888119) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1130) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_00041120, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041120) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041120, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1130), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_00041120, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041120) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041120, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1130), '}'), '')))), '[^-]', ''))) AS ?step2131) .
BIND(((?step2131 + ?targetMotifMatchRegionMatchBeginPositionMF_00041121) - 1) AS ?thisPositionOn52) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_00041118, 1, (STRLEN(?templateMotifCigarP21888MF_00041118) - STRLEN(REPLACE(?templateMotifCigarP21888MF_00041118, CONCAT('^(?:-*[^-]){', STR(((270 - ?templateMotifSequenceMatchBeginPositionP21888119) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1132) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_00041120, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041120) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041120, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1132), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_00041120, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041120) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041120, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1132), '}'), '')))), '[^-]', ''))) AS ?step2133) .
BIND(((?step2133 + ?targetMotifMatchRegionMatchBeginPositionMF_00041121) - 1) AS ?thisPositionOn53) .
BIND(?this AS ?pfs3t134) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn52))) AS ?pfsb50) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn53))) AS ?pfse51) .
FILTER (REGEX('[KR]M[GSA][KS]S', SUBSTR(?thisSequenceValue, ?thisPositionOn52, (?thisPositionOn53 - ?thisPositionOn52)))) .
BIND(URI(CONCAT(STR(?this), '#MF_00041a49')) AS ?annotation49) .
BIND(?this AS ?pfs48) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch139 faldo:location ?templateMotifSequenceMatchRegionP21888140 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP21888142 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP21888MF_00041135 .
?templateMotifSequenceMatchRegionP21888140 faldo:begin ?templateMotifSequenceMatchBeginP21888141 .
?templateMotifSequenceMatchBeginP21888141 faldo:position ?templateMotifSequenceMatchBeginPositionP21888136 ;
faldo:reference isoform:P21888-1 .
?templateMotifSequenceProfileAlignmentOperationP21888142 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
?targetMotifMatch143 faldo:location ?targetMotifMatchRegionMatch144 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_00041146 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP21888MF_00041137 .
?targetMotifMatchRegionMatch144 faldo:begin ?targetMotifMatchRegionMatchBeginMF_00041145 .
?targetMotifMatchRegionMatchBeginMF_00041145 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_00041138 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_00041146 edam:has_input signature:MF_00041 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP21888MF_00041135, 1, (STRLEN(?templateMotifCigarP21888MF_00041135) - STRLEN(REPLACE(?templateMotifCigarP21888MF_00041135, CONCAT('^(?:-*[^-]){', STR(((269 - ?templateMotifSequenceMatchBeginPositionP21888136) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1147) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP21888MF_00041137, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041137) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041137, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1147), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP21888MF_00041137, 1, (STRLEN(?targetMotifMatchCigarP21888MF_00041137) - STRLEN(REPLACE(?targetMotifMatchCigarP21888MF_00041137, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1147), '}'), '')))), '[^-]', ''))) AS ?step2148) .
BIND(((?step2148 + ?targetMotifMatchRegionMatchBeginPositionMF_00041138) - 1) AS ?thisPositionOn59) .
BIND(?thisPositionOn59 AS ?thisPositionOn60) .
BIND(?this AS ?pfs3t149) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn59))) AS ?pfsb56) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn60))) AS ?pfse57) .
FILTER (REGEX('[KS]', SUBSTR(?thisSequenceValue, ?thisPositionOn59, 1))) .
BIND(URI(CONCAT(STR(?this), '#MF_00041a55')) AS ?annotation55) .
BIND(?this AS ?pfs54) .
}
OPTIONAL {
?this a up:Protein .
BIND(?this AS ?caseWithTag150) .
}
BIND(IF(BOUND(?tagFTGRP_1), ?caseWithTag150, ?UNBOUND_VARIABLE) AS ?case8) .
OPTIONAL {
?this a up:Protein .
BIND(?this AS ?caseWithTag151) .
}
BIND(IF(BOUND(?tagFT_8), ?caseWithTag151, ?UNBOUND_VARIABLE) AS ?case9) .
OPTIONAL {
?this a up:Protein .
?this up:organism ?thisOrganism .
?thisOrganism rdfs:subClassOf+ taxon:2 .
BIND(?this AS ?case10) .
}
}
"xsd:string |
