| http://purl.uniprot.org/unirules/MF_02213#construct | http://www.w3.org/ns/shacl#construct | "CONSTRUCT {
_:763743 up:source unirule:MF_02213 .
_:763744 up:source unirule:MF_02213 .
_:763745 up:source unirule:MF_02213 .
_:763746 up:source unirule:MF_02213 .
_:763747 up:source unirule:MF_02213 .
_:763748 up:source unirule:MF_02213 .
_:763749 up:source unirule:MF_02213 .
_:763750 up:source unirule:MF_02213 .
_:763751 up:source unirule:MF_02213 .
_:763752 up:source unirule:MF_02213 .
_:763753 up:source unirule:MF_02213 .
_:763754 up:source unirule:MF_02213 .
_:763755 up:source unirule:MF_02213 .
_:763756 up:source unirule:MF_02213 .
_:763757 up:source unirule:MF_02213 .
_:763758 up:source unirule:MF_02213 .
_:763759 up:source unirule:MF_02213 .
_:763760 up:source unirule:MF_02213 .
_:763761 up:source unirule:MF_02213 .
_:763762 up:source unirule:MF_02213 .
_:763763 up:source unirule:MF_02213 .
?this up:alternativeName ?name1 ;
up:annotation ?annotation3 ,
?annotation4 ,
?annotation6 ,
?annotation8 ,
?annotation9 ,
?annotation10 ;
up:classifiedWith GO:0004359 ,
GO:0009252 ,
GO:0140282 ,
keyword:133 ,
keyword:315 ,
keyword:378 ,
keyword:436 ,
keyword:573 ,
keyword:961 ;
up:recommendedName ?name0 .
?name0 up:ecName '6.3.5.13' ;
up:fullName 'Lipid II isoglutaminyl synthase (glutamine-hydrolyzing) subunit GatD' ;
rdf:type up:Structured_Name .
?name1 up:ecName '3.5.1.2' ;
up:fullName 'Lipid II isoglutaminyl synthase glutaminase subunit' ;
rdf:type up:Structured_Name .
?gene2 skos:prefLabel 'gatD' .
?annotation3 a up:Function_Annotation ;
rdfs:comment 'The lipid II isoglutaminyl synthase complex catalyzes the formation of alpha-D-isoglutamine in the cell wall lipid II stem peptide. The GatD subunit catalyzes the hydrolysis of glutamine to glutamate and ammonia. The resulting ammonia molecule is channeled to the active site of MurT.' .
?annotation4 up:activity ?activity5 ;
rdf:type up:Catalytic_Activity_Annotation .
?activity5 up:catalyticActivity ;
up:enzymeClass .
?annotation6 up:activity ?activity7 ;
rdf:type up:Catalytic_Activity_Annotation .
?activity7 up:catalyticActivity ;
up:enzymeClass .
?annotation8 a up:Pathway_Annotation ;
rdfs:comment 'Cell wall biogenesis; peptidoglycan biosynthesis.' .
?annotation9 a up:Subunit_Annotation ;
rdfs:comment 'Forms a heterodimer with MurT.' .
?annotation10 a up:Similarity_Annotation ;
rdfs:comment 'Belongs to the CobB/CobQ family. GatD subfamily.' .
?pfs11 up:annotation ?annotation12 .
?annotation12 faldo:begin ?pfsb13 ;
faldo:end ?pfse14 ;
rdf:type up:Active_Site_Annotation ;
rdfs:comment 'Nucleophile' .
?pfsb13 faldo:position ?thisPositionOn15 ;
rdf:type faldo:ExactPosition .
?pfse14 faldo:position ?thisPositionOn16 ;
rdf:type faldo:ExactPosition .
?pfs17 up:annotation ?annotation18 .
?annotation18 faldo:begin ?pfsb19 ;
faldo:end ?pfse20 ;
rdf:type up:Active_Site_Annotation .
?pfsb19 faldo:position ?thisPositionOn21 ;
rdf:type faldo:ExactPosition .
?pfse20 faldo:position ?thisPositionOn22 ;
rdf:type faldo:ExactPosition .
?pfs23 up:annotation ?annotation24 .
?annotation24 faldo:begin ?pfsb25 ;
faldo:end ?pfse26 ;
up:ligand ?ligand27 ;
rdf:type up:Binding_Site_Annotation .
?pfsb25 faldo:position ?thisPositionOn29 ;
rdf:type faldo:ExactPosition .
?pfse26 faldo:position ?thisPositionOn30 ;
rdf:type faldo:ExactPosition .
?ligand27 rdfs:subClassOf ?molecule28 .
?molecule28 rdfs:label 'substrate' .
_:763764 a rdf:Statement ;
up:attribution _:763743 ;
rdf:subject ?this ;
rdf:predicate up:recommendedName ;
rdf:object ?name0 .
_:763765 a rdf:Statement ;
up:attribution _:763744 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name1 .
_:763766 a rdf:Statement ;
up:attribution _:763745 ;
rdf:subject ?gene2 ;
rdf:predicate up:encodedBy ;
rdf:object ?gene2 .
_:763767 a rdf:Statement ;
up:attribution _:763746 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation3 .
_:763768 a rdf:Statement ;
up:attribution _:763747 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation4 .
_:763769 a rdf:Statement ;
up:attribution _:763748 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation6 .
_:763770 a rdf:Statement ;
up:attribution _:763749 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation8 .
_:763771 a rdf:Statement ;
up:attribution _:763750 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation9 .
_:763772 a rdf:Statement ;
up:attribution _:763751 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation10 .
_:763773 a rdf:Statement ;
up:attribution _:763752 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:133 .
_:763774 a rdf:Statement ;
up:attribution _:763753 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:961 .
_:763775 a rdf:Statement ;
up:attribution _:763754 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:315 .
_:763776 a rdf:Statement ;
up:attribution _:763755 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:378 .
_:763777 a rdf:Statement ;
up:attribution _:763756 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:436 .
_:763778 a rdf:Statement ;
up:attribution _:763757 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:573 .
_:763779 a rdf:Statement ;
up:attribution _:763758 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0140282 .
_:763780 a rdf:Statement ;
up:attribution _:763759 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0004359 .
_:763781 a rdf:Statement ;
up:attribution _:763760 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0009252 .
_:763782 a rdf:Statement ;
up:source unirule:MF_02213 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation12 .
_:763783 a rdf:Statement ;
up:attribution _:763761 ;
rdf:subject ?pfs11 ;
rdf:predicate up:annotation ;
rdf:object ?annotation12 .
_:763784 a rdf:Statement ;
up:source unirule:MF_02213 ;
rdf:subject ?pfs17 ;
rdf:predicate up:annotation ;
rdf:object ?annotation18 .
_:763785 a rdf:Statement ;
up:attribution _:763762 ;
rdf:subject ?pfs17 ;
rdf:predicate up:annotation ;
rdf:object ?annotation18 .
_:763786 a rdf:Statement ;
up:source unirule:MF_02213 ;
rdf:subject ?pfs23 ;
rdf:predicate up:annotation ;
rdf:object ?annotation24 .
_:763787 a rdf:Statement ;
up:attribution _:763763 ;
rdf:subject ?pfs23 ;
rdf:predicate up:annotation ;
rdf:object ?annotation24 .
}
WHERE {
#baseURI: http://purl.uniprot.org/unirule/MF_02213
#Rule MF_02213 Created by:? on:2019-03-07 Modified by:Edouard de Castro on:2024-09-02
VALUES ?supertaxon31 {taxon:2 taxon:2157}
?this up:organism ?thisOrganism ;
rdfs:seeAlso signature:MF_02213 .
?thisOrganism rdfs:subClassOf+ ?supertaxon31 .
BIND(URI(CONCAT(STR(?this), '#MF_02213a0')) AS ?name0) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a1')) AS ?name1) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a3')) AS ?annotation3) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a4')) AS ?annotation4) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a6')) AS ?annotation6) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a8')) AS ?annotation8) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a9')) AS ?annotation9) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a10')) AS ?annotation10) .
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch36 faldo:location ?templateMotifSequenceMatchRegionA0A0H2WZ3837 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationA0A0H2WZ3839 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarA0A0H2WZ38MF_0221332 .
?templateMotifSequenceMatchRegionA0A0H2WZ3837 faldo:begin ?templateMotifSequenceMatchBeginA0A0H2WZ3838 .
?templateMotifSequenceMatchBeginA0A0H2WZ3838 faldo:position ?templateMotifSequenceMatchBeginPositionA0A0H2WZ3833 ;
faldo:reference isoform:A0A0H2WZ38-1 .
?templateMotifSequenceProfileAlignmentOperationA0A0H2WZ3839 edam:has_input signature:MF_02213 ;
rdf:type edam:operation_0300 .
?targetMotifMatch40 faldo:location ?targetMotifMatchRegionMatch41 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0221343 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarA0A0H2WZ38MF_0221334 .
?targetMotifMatchRegionMatch41 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0221342 .
?targetMotifMatchRegionMatchBeginMF_0221342 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0221335 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0221343 edam:has_input signature:MF_02213 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarA0A0H2WZ38MF_0221332, 1, (STRLEN(?templateMotifCigarA0A0H2WZ38MF_0221332) - STRLEN(REPLACE(?templateMotifCigarA0A0H2WZ38MF_0221332, CONCAT('^(?:-*[^-]){', STR(((94 - ?templateMotifSequenceMatchBeginPositionA0A0H2WZ3833) + 1)), '}'), '')))), '[a-z]', '')) AS ?step144) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarA0A0H2WZ38MF_0221334, 1, (STRLEN(?targetMotifMatchCigarA0A0H2WZ38MF_0221334) - STRLEN(REPLACE(?targetMotifMatchCigarA0A0H2WZ38MF_0221334, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step144), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarA0A0H2WZ38MF_0221334, 1, (STRLEN(?targetMotifMatchCigarA0A0H2WZ38MF_0221334) - STRLEN(REPLACE(?targetMotifMatchCigarA0A0H2WZ38MF_0221334, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step144), '}'), '')))), '[^-]', ''))) AS ?step245) .
BIND(((?step245 + ?targetMotifMatchRegionMatchBeginPositionMF_0221335) - 1) AS ?thisPositionOn15) .
BIND(?thisPositionOn15 AS ?thisPositionOn16) .
BIND(?this AS ?pfs1t46) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn15))) AS ?pfsb13) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn16))) AS ?pfse14) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn15, 1) = 'C')) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a12')) AS ?annotation12) .
BIND(?this AS ?pfs11) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch51 faldo:location ?templateMotifSequenceMatchRegionA0A0H2WZ3852 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationA0A0H2WZ3854 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarA0A0H2WZ38MF_0221347 .
?templateMotifSequenceMatchRegionA0A0H2WZ3852 faldo:begin ?templateMotifSequenceMatchBeginA0A0H2WZ3853 .
?templateMotifSequenceMatchBeginA0A0H2WZ3853 faldo:position ?templateMotifSequenceMatchBeginPositionA0A0H2WZ3848 ;
faldo:reference isoform:A0A0H2WZ38-1 .
?templateMotifSequenceProfileAlignmentOperationA0A0H2WZ3854 edam:has_input signature:MF_02213 ;
rdf:type edam:operation_0300 .
?targetMotifMatch55 faldo:location ?targetMotifMatchRegionMatch56 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0221358 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarA0A0H2WZ38MF_0221349 .
?targetMotifMatchRegionMatch56 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0221357 .
?targetMotifMatchRegionMatchBeginMF_0221357 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0221350 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0221358 edam:has_input signature:MF_02213 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarA0A0H2WZ38MF_0221347, 1, (STRLEN(?templateMotifCigarA0A0H2WZ38MF_0221347) - STRLEN(REPLACE(?templateMotifCigarA0A0H2WZ38MF_0221347, CONCAT('^(?:-*[^-]){', STR(((189 - ?templateMotifSequenceMatchBeginPositionA0A0H2WZ3848) + 1)), '}'), '')))), '[a-z]', '')) AS ?step159) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarA0A0H2WZ38MF_0221349, 1, (STRLEN(?targetMotifMatchCigarA0A0H2WZ38MF_0221349) - STRLEN(REPLACE(?targetMotifMatchCigarA0A0H2WZ38MF_0221349, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step159), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarA0A0H2WZ38MF_0221349, 1, (STRLEN(?targetMotifMatchCigarA0A0H2WZ38MF_0221349) - STRLEN(REPLACE(?targetMotifMatchCigarA0A0H2WZ38MF_0221349, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step159), '}'), '')))), '[^-]', ''))) AS ?step260) .
BIND(((?step260 + ?targetMotifMatchRegionMatchBeginPositionMF_0221350) - 1) AS ?thisPositionOn21) .
BIND(?thisPositionOn21 AS ?thisPositionOn22) .
BIND(?this AS ?pfs1t61) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn21))) AS ?pfsb19) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn22))) AS ?pfse20) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn21, 1) = 'H')) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a18')) AS ?annotation18) .
BIND(?this AS ?pfs17) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch66 faldo:location ?templateMotifSequenceMatchRegionA0A0H2WZ3867 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationA0A0H2WZ3869 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarA0A0H2WZ38MF_0221362 .
?templateMotifSequenceMatchRegionA0A0H2WZ3867 faldo:begin ?templateMotifSequenceMatchBeginA0A0H2WZ3868 .
?templateMotifSequenceMatchBeginA0A0H2WZ3868 faldo:position ?templateMotifSequenceMatchBeginPositionA0A0H2WZ3863 ;
faldo:reference isoform:A0A0H2WZ38-1 .
?templateMotifSequenceProfileAlignmentOperationA0A0H2WZ3869 edam:has_input signature:MF_02213 ;
rdf:type edam:operation_0300 .
?targetMotifMatch70 faldo:location ?targetMotifMatchRegionMatch71 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0221373 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarA0A0H2WZ38MF_0221364 .
?targetMotifMatchRegionMatch71 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0221372 .
?targetMotifMatchRegionMatchBeginMF_0221372 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0221365 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0221373 edam:has_input signature:MF_02213 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarA0A0H2WZ38MF_0221362, 1, (STRLEN(?templateMotifCigarA0A0H2WZ38MF_0221362) - STRLEN(REPLACE(?templateMotifCigarA0A0H2WZ38MF_0221362, CONCAT('^(?:-*[^-]){', STR(((128 - ?templateMotifSequenceMatchBeginPositionA0A0H2WZ3863) + 1)), '}'), '')))), '[a-z]', '')) AS ?step174) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarA0A0H2WZ38MF_0221364, 1, (STRLEN(?targetMotifMatchCigarA0A0H2WZ38MF_0221364) - STRLEN(REPLACE(?targetMotifMatchCigarA0A0H2WZ38MF_0221364, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step174), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarA0A0H2WZ38MF_0221364, 1, (STRLEN(?targetMotifMatchCigarA0A0H2WZ38MF_0221364) - STRLEN(REPLACE(?targetMotifMatchCigarA0A0H2WZ38MF_0221364, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step174), '}'), '')))), '[^-]', ''))) AS ?step275) .
BIND(((?step275 + ?targetMotifMatchRegionMatchBeginPositionMF_0221365) - 1) AS ?thisPositionOn29) .
BIND(?thisPositionOn29 AS ?thisPositionOn30) .
BIND(?this AS ?pfs1t76) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn29))) AS ?pfsb25) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn30))) AS ?pfse26) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn29, 1) = 'R')) .
BIND(URI(CONCAT(STR(?this), '#MF_02213a24')) AS ?annotation24) .
BIND(?this AS ?pfs23) .
}
}
"xsd:string |
