| http://purl.uniprot.org/unirules/MF_00171#construct | http://www.w3.org/ns/shacl#construct | "CONSTRUCT {
_:68271 up:source unirule:MF_00171 .
_:68272 up:source unirule:MF_00171 .
_:68273 up:source unirule:MF_00171 .
_:68274 up:source unirule:MF_00171 .
_:68275 up:source unirule:MF_00171 .
_:68276 up:source unirule:MF_00171 .
_:68277 up:source unirule:MF_00171 .
_:68278 up:source unirule:MF_00171 .
_:68279 up:source unirule:MF_00171 .
_:68280 up:source unirule:MF_00171 .
_:68281 up:source unirule:MF_00171 .
_:68282 up:source unirule:MF_00171 .
_:68283 up:source unirule:MF_00171 .
_:68284 up:source unirule:MF_00171 .
_:68285 up:source unirule:MF_00171 .
_:68286 up:source unirule:MF_00171 .
_:68287 up:source unirule:MF_00171 .
_:68288 up:source unirule:MF_00171 .
_:68289 up:source unirule:MF_00171 .
_:68290 up:source unirule:MF_00171 .
_:68291 up:source unirule:MF_00171 .
?this up:alternativeName ?name1 ,
?name2 ,
?name3 ;
up:annotation ?annotation5 ,
?annotation6 ,
?annotation8 ;
up:classifiedWith GO:0009982 ,
GO:0031119 ,
keyword:413 ,
keyword:819 ;
up:recommendedName ?name0 .
?name0 up:ecName '5.4.99.12' ;
up:fullName 'tRNA pseudouridine synthase A' ;
rdf:type up:Structured_Name .
?name1 up:fullName 'tRNA pseudouridine(38-40) synthase' ;
rdf:type up:Structured_Name .
?name2 up:fullName 'tRNA pseudouridylate synthase I' ;
rdf:type up:Structured_Name .
?name3 up:fullName 'tRNA-uridine isomerase I' ;
rdf:type up:Structured_Name .
?gene4 skos:prefLabel 'truA' .
?annotation5 a up:Function_Annotation ;
rdfs:comment 'Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs.' .
?annotation6 up:activity ?activity7 ;
rdf:type up:Catalytic_Activity_Annotation .
?activity7 up:catalyticActivity ;
up:enzymeClass .
?annotation8 a up:Similarity_Annotation ;
rdfs:comment 'Belongs to the tRNA pseudouridine synthase TruA family.' .
?pfs10 up:annotation ?annotation11 .
?annotation11 faldo:begin ?pfsb12 ;
faldo:end ?pfse13 ;
rdf:type up:Active_Site_Annotation ;
rdfs:comment 'Nucleophile' .
?pfsb12 faldo:position ?thisPositionOn14 ;
rdf:type faldo:ExactPosition .
?pfse13 faldo:position ?thisPositionOn15 ;
rdf:type faldo:ExactPosition .
?pfs16 up:annotation ?annotation17 .
?annotation17 faldo:begin ?pfsb18 ;
faldo:end ?pfse19 ;
up:ligand ?ligand20 ;
rdf:type up:Binding_Site_Annotation .
?pfsb18 faldo:position ?thisPositionOn22 ;
rdf:type faldo:ExactPosition .
?pfse19 faldo:position ?thisPositionOn23 ;
rdf:type faldo:ExactPosition .
?ligand20 rdfs:subClassOf ?molecule21 .
?molecule21 rdfs:label 'substrate' .
?pfs24 up:annotation ?annotation25 ,
?annotation30 ,
?annotation35 ,
?annotation40 ,
?annotation45 ,
?annotation50 ,
?annotation55 .
?annotation25 faldo:begin ?pfsb26 ;
faldo:end ?pfse27 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'RNA binding' .
?pfsb26 faldo:position ?thisPositionOn28 ;
rdf:type faldo:ExactPosition .
?pfse27 faldo:position ?thisPositionOn29 ;
rdf:type faldo:ExactPosition .
?annotation30 faldo:begin ?pfsb31 ;
faldo:end ?pfse32 ;
rdf:type up:Region_Annotation ;
rdfs:comment 'Interaction with tRNA' .
?pfsb31 faldo:position ?thisPositionOn33 ;
rdf:type faldo:ExactPosition .
?pfse32 faldo:position ?thisPositionOn34 ;
rdf:type faldo:ExactPosition .
?annotation35 faldo:begin ?pfsb36 ;
faldo:end ?pfse37 ;
rdf:type up:Site_Annotation ;
rdfs:comment 'Interaction with tRNA. Important for base-flipping' .
?pfsb36 faldo:position ?thisPositionOn38 ;
rdf:type faldo:ExactPosition .
?pfse37 faldo:position ?thisPositionOn39 ;
rdf:type faldo:ExactPosition .
?annotation40 faldo:begin ?pfsb41 ;
faldo:end ?pfse42 ;
rdf:type up:Site_Annotation ;
rdfs:comment 'Interaction with tRNA' .
?pfsb41 faldo:position ?thisPositionOn43 ;
rdf:type faldo:ExactPosition .
?pfse42 faldo:position ?thisPositionOn44 ;
rdf:type faldo:ExactPosition .
?annotation45 faldo:begin ?pfsb46 ;
faldo:end ?pfse47 ;
rdf:type up:Site_Annotation ;
rdfs:comment 'Interaction with tRNA' .
?pfsb46 faldo:position ?thisPositionOn48 ;
rdf:type faldo:ExactPosition .
?pfse47 faldo:position ?thisPositionOn49 ;
rdf:type faldo:ExactPosition .
?annotation50 faldo:begin ?pfsb51 ;
faldo:end ?pfse52 ;
rdf:type up:Site_Annotation ;
rdfs:comment 'Interaction with tRNA' .
?pfsb51 faldo:position ?thisPositionOn53 ;
rdf:type faldo:ExactPosition .
?pfse52 faldo:position ?thisPositionOn54 ;
rdf:type faldo:ExactPosition .
?annotation55 faldo:begin ?pfsb56 ;
faldo:end ?pfse57 ;
rdf:type up:Site_Annotation ;
rdfs:comment 'Interaction with tRNA' .
?pfsb56 faldo:position ?thisPositionOn58 ;
rdf:type faldo:ExactPosition .
?pfse57 faldo:position ?thisPositionOn59 ;
rdf:type faldo:ExactPosition .
_:68292 a rdf:Statement ;
up:attribution _:68271 ;
rdf:subject ?this ;
rdf:predicate up:recommendedName ;
rdf:object ?name0 .
_:68293 a rdf:Statement ;
up:attribution _:68272 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name1 .
_:68294 a rdf:Statement ;
up:attribution _:68273 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name2 .
_:68295 a rdf:Statement ;
up:attribution _:68274 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name3 .
_:68296 a rdf:Statement ;
up:attribution _:68275 ;
rdf:subject ?gene4 ;
rdf:predicate up:encodedBy ;
rdf:object ?gene4 .
_:68297 a rdf:Statement ;
up:attribution _:68276 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation5 .
_:68298 a rdf:Statement ;
up:attribution _:68277 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation6 .
_:68299 a rdf:Statement ;
up:attribution _:68278 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation8 .
_:68300 a rdf:Statement ;
up:attribution _:68279 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:413 .
_:68301 a rdf:Statement ;
up:attribution _:68280 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:819 .
_:68302 a rdf:Statement ;
up:attribution _:68281 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0009982 .
_:68303 a rdf:Statement ;
up:attribution _:68282 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0031119 .
_:68304 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs10 ;
rdf:predicate up:annotation ;
rdf:object ?annotation11 .
_:68305 a rdf:Statement ;
up:attribution _:68283 ;
rdf:subject ?pfs10 ;
rdf:predicate up:annotation ;
rdf:object ?annotation11 .
_:68306 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs16 ;
rdf:predicate up:annotation ;
rdf:object ?annotation17 .
_:68307 a rdf:Statement ;
up:attribution _:68284 ;
rdf:subject ?pfs16 ;
rdf:predicate up:annotation ;
rdf:object ?annotation17 .
_:68308 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation25 .
_:68309 a rdf:Statement ;
up:attribution _:68285 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation25 .
_:68310 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation30 .
_:68311 a rdf:Statement ;
up:attribution _:68286 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation30 .
_:68312 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation35 .
_:68313 a rdf:Statement ;
up:attribution _:68287 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation35 .
_:68314 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation40 .
_:68315 a rdf:Statement ;
up:attribution _:68288 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation40 .
_:68316 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation45 .
_:68317 a rdf:Statement ;
up:attribution _:68289 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation45 .
_:68318 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation50 .
_:68319 a rdf:Statement ;
up:attribution _:68290 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation50 .
_:68320 a rdf:Statement ;
up:source unirule:MF_00171 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation55 .
_:68321 a rdf:Statement ;
up:attribution _:68291 ;
rdf:subject ?pfs24 ;
rdf:predicate up:annotation ;
rdf:object ?annotation55 .
}
WHERE {
#baseURI: http://purl.uniprot.org/unirule/MF_00171
#Rule MF_00171 Created by:? on:2005-02-28 Modified by:Edouard de Castro on:2023-06-01
VALUES ?supertaxon60 {taxon:2 taxon:2157}
?this up:organism ?thisOrganism ;
rdfs:seeAlso signature:MF_00171 .
?thisOrganism rdfs:subClassOf+ ?supertaxon60 .
BIND(URI(CONCAT(STR(?this), '#MF_00171a0')) AS ?name0) .
BIND(URI(CONCAT(STR(?this), '#MF_00171a1')) AS ?name1) .
BIND(URI(CONCAT(STR(?this), '#MF_00171a2')) AS ?name2) .
BIND(URI(CONCAT(STR(?this), '#MF_00171a3')) AS ?name3) .
BIND(URI(CONCAT(STR(?this), '#MF_00171a5')) AS ?annotation5) .
BIND(URI(CONCAT(STR(?this), '#MF_00171a6')) AS ?annotation6) .
BIND(URI(CONCAT(STR(?this), '#MF_00171a8')) AS ?annotation8) .
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch65 faldo:location ?templateMotifSequenceMatchRegionP0764966 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP0764968 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP07649MF_0017161 .
?templateMotifSequenceMatchRegionP0764966 faldo:begin ?templateMotifSequenceMatchBeginP0764967 .
?templateMotifSequenceMatchBeginP0764967 faldo:position ?templateMotifSequenceMatchBeginPositionP0764962 ;
faldo:reference isoform:P07649-1 .
?templateMotifSequenceProfileAlignmentOperationP0764968 edam:has_input signature:MF_00171 ;
rdf:type edam:operation_0300 .
?targetMotifMatch69 faldo:location ?targetMotifMatchRegionMatch70 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0017172 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP07649MF_0017163 .
?targetMotifMatchRegionMatch70 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0017171 .
?targetMotifMatchRegionMatchBeginMF_0017171 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0017164 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0017172 edam:has_input signature:MF_00171 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017161, 1, (STRLEN(?templateMotifCigarP07649MF_0017161) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017161, CONCAT('^(?:-*[^-]){', STR(((60 - ?templateMotifSequenceMatchBeginPositionP0764962) + 1)), '}'), '')))), '[a-z]', '')) AS ?step173) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017163, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017163) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017163, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step173), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017163, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017163) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017163, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step173), '}'), '')))), '[^-]', ''))) AS ?step274) .
BIND(((?step274 + ?targetMotifMatchRegionMatchBeginPositionMF_0017164) - 1) AS ?thisPositionOn14) .
BIND(?thisPositionOn14 AS ?thisPositionOn15) .
BIND(?this AS ?pfs1t75) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn14))) AS ?pfsb12) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn15))) AS ?pfse13) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn14, 1) = 'D')) .
BIND(URI(CONCAT(STR(?this), '#MF_00171a11')) AS ?annotation11) .
BIND(?this AS ?pfs10) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch80 faldo:location ?templateMotifSequenceMatchRegionP0764981 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP0764983 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP07649MF_0017176 .
?templateMotifSequenceMatchRegionP0764981 faldo:begin ?templateMotifSequenceMatchBeginP0764982 .
?templateMotifSequenceMatchBeginP0764982 faldo:position ?templateMotifSequenceMatchBeginPositionP0764977 ;
faldo:reference isoform:P07649-1 .
?templateMotifSequenceProfileAlignmentOperationP0764983 edam:has_input signature:MF_00171 ;
rdf:type edam:operation_0300 .
?targetMotifMatch84 faldo:location ?targetMotifMatchRegionMatch85 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0017187 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP07649MF_0017178 .
?targetMotifMatchRegionMatch85 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0017186 .
?targetMotifMatchRegionMatchBeginMF_0017186 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0017179 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0017187 edam:has_input signature:MF_00171 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017176, 1, (STRLEN(?templateMotifCigarP07649MF_0017176) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017176, CONCAT('^(?:-*[^-]){', STR(((118 - ?templateMotifSequenceMatchBeginPositionP0764977) + 1)), '}'), '')))), '[a-z]', '')) AS ?step188) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017178, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017178) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017178, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step188), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017178, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017178) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017178, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step188), '}'), '')))), '[^-]', ''))) AS ?step289) .
BIND(((?step289 + ?targetMotifMatchRegionMatchBeginPositionMF_0017179) - 1) AS ?thisPositionOn22) .
BIND(?thisPositionOn22 AS ?thisPositionOn23) .
BIND(?this AS ?pfs1t90) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn22))) AS ?pfsb18) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn23))) AS ?pfse19) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn22, 1) = 'Y')) .
BIND(URI(CONCAT(STR(?this), '#MF_00171a17')) AS ?annotation17) .
BIND(?this AS ?pfs16) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch95 faldo:location ?templateMotifSequenceMatchRegionP0764996 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP0764998 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP07649MF_0017191 .
?templateMotifSequenceMatchRegionP0764996 faldo:begin ?templateMotifSequenceMatchBeginP0764997 .
?templateMotifSequenceMatchBeginP0764997 faldo:position ?templateMotifSequenceMatchBeginPositionP0764992 ;
faldo:reference isoform:P07649-1 .
?templateMotifSequenceProfileAlignmentOperationP0764998 edam:has_input signature:MF_00171 ;
rdf:type edam:operation_0300 .
?targetMotifMatch99 faldo:location ?targetMotifMatchRegionMatch100 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_00171102 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP07649MF_0017193 .
?targetMotifMatchRegionMatch100 faldo:begin ?targetMotifMatchRegionMatchBeginMF_00171101 .
?targetMotifMatchRegionMatchBeginMF_00171101 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0017194 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_00171102 edam:has_input signature:MF_00171 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((107 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1103) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1103), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1103), '}'), '')))), '[^-]', ''))) AS ?step2104) .
BIND(((?step2104 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn28) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((111 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1105) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1105), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1105), '}'), '')))), '[^-]', ''))) AS ?step2106) .
BIND(((?step2106 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn29) .
BIND(?this AS ?pfs2t107) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn28))) AS ?pfsb26) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn29))) AS ?pfse27) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn28, (?thisPositionOn29 - ?thisPositionOn28)) = 'FHARF')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((168 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1108) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1108), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1108), '}'), '')))), '[^-]', ''))) AS ?step2109) .
BIND(((?step2109 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn33) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((172 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1110) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1110), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1110), '}'), '')))), '[^-]', ''))) AS ?step2111) .
BIND(((?step2111 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn34) .
BIND(?this AS ?pfs2t112) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn33))) AS ?pfsb31) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn34))) AS ?pfse32) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn33, (?thisPositionOn34 - ?thisPositionOn33)) = 'QCQSR')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((58 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1113) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1113), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1113), '}'), '')))), '[^-]', ''))) AS ?step2114) .
BIND(((?step2114 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn38) .
BIND(?thisPositionOn38 AS ?thisPositionOn39) .
BIND(?this AS ?pfs2t115) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn38))) AS ?pfsb36) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn39))) AS ?pfse37) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn38, 1) = 'R')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((78 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1116) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1116), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1116), '}'), '')))), '[^-]', ''))) AS ?step2117) .
BIND(((?step2117 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn43) .
BIND(?thisPositionOn43 AS ?thisPositionOn44) .
BIND(?this AS ?pfs2t118) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn43))) AS ?pfsb41) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn44))) AS ?pfse42) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn43, 1) = 'R')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((110 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1119) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1119), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1119), '}'), '')))), '[^-]', ''))) AS ?step2120) .
BIND(((?step2120 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn48) .
BIND(?thisPositionOn48 AS ?thisPositionOn49) .
BIND(?this AS ?pfs2t121) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn48))) AS ?pfsb46) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn49))) AS ?pfse47) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn48, 1) = 'R')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((126 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1122) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1122), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1122), '}'), '')))), '[^-]', ''))) AS ?step2123) .
BIND(((?step2123 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn53) .
BIND(?thisPositionOn53 AS ?thisPositionOn54) .
BIND(?this AS ?pfs2t124) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn53))) AS ?pfsb51) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn54))) AS ?pfse52) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn53, 1) = 'R')) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP07649MF_0017191, 1, (STRLEN(?templateMotifCigarP07649MF_0017191) - STRLEN(REPLACE(?templateMotifCigarP07649MF_0017191, CONCAT('^(?:-*[^-]){', STR(((139 - ?templateMotifSequenceMatchBeginPositionP0764992) + 1)), '}'), '')))), '[a-z]', '')) AS ?step1125) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1125), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP07649MF_0017193, 1, (STRLEN(?targetMotifMatchCigarP07649MF_0017193) - STRLEN(REPLACE(?targetMotifMatchCigarP07649MF_0017193, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step1125), '}'), '')))), '[^-]', ''))) AS ?step2126) .
BIND(((?step2126 + ?targetMotifMatchRegionMatchBeginPositionMF_0017194) - 1) AS ?thisPositionOn58) .
BIND(?thisPositionOn58 AS ?thisPositionOn59) .
BIND(?this AS ?pfs2t127) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn58))) AS ?pfsb56) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn59))) AS ?pfse57) .
FILTER ((SUBSTR(?thisSequenceValue, ?thisPositionOn58, 1) = 'F')) .
BIND(?this AS ?pfs24) .
}
OPTIONAL {
?this a up:Protein .
?this up:organism ?thisOrganism .
?thisOrganism rdfs:subClassOf+ taxon:2 .
BIND(?this AS ?case9) .
}
}
"xsd:string |
