| http://purl.uniprot.org/unirules/MF_00204#construct | http://www.w3.org/ns/shacl#construct | "CONSTRUCT {
_:84006 up:source unirule:MF_00204 .
_:84007 up:source unirule:MF_00204 .
_:84008 up:source unirule:MF_00204 .
_:84009 up:source unirule:MF_00204 .
_:84010 up:source unirule:MF_00204 .
_:84011 up:source unirule:MF_00204 .
_:84012 up:source unirule:MF_00204 .
_:84013 up:source unirule:MF_00204 .
_:84014 up:source unirule:MF_00204 .
_:84015 up:source unirule:MF_00204 .
_:84016 up:source unirule:MF_00204 .
_:84017 up:source unirule:MF_00204 .
_:84018 up:source unirule:MF_00204 .
_:84019 up:source unirule:MF_00204 .
_:84020 up:source unirule:MF_00204 .
_:84021 up:source unirule:MF_00204 .
_:84022 up:source unirule:MF_00204 .
_:84023 up:source unirule:MF_00204 .
_:84024 up:source unirule:MF_00204 .
_:84025 up:source unirule:MF_00204 .
_:84026 up:source unirule:MF_00204 .
_:84027 up:source unirule:MF_00204 .
_:84028 up:source unirule:MF_00204 .
_:84029 up:source unirule:MF_00204 .
_:84030 up:source unirule:MF_00204 .
?this up:alternativeName ?name1 ;
up:annotation ?annotation3 ,
?annotation4 ,
?annotation5 ,
?annotation7 ,
?annotation8 ;
up:classifiedWith GO:0003677 ,
GO:0005524 ,
GO:0005737 ,
GO:0006281 ,
GO:0006289 ,
GO:0009381 ,
GO:0009432 ,
keyword:227 ,
keyword:228 ,
keyword:234 ,
keyword:267 ,
keyword:547 ,
keyword:67 ,
keyword:742 ,
keyword:963 ;
up:recommendedName ?name0 .
?name0 up:fullName 'UvrABC system protein B' ;
up:shortName 'Protein UvrB' ;
rdf:type up:Structured_Name .
?name1 up:fullName 'Excinuclease ABC subunit B' ;
rdf:type up:Structured_Name .
?gene2 skos:prefLabel 'uvrB' .
?annotation3 a up:Function_Annotation ;
rdfs:comment 'The UvrABC repair system catalyzes the recognition and processing of DNA lesions. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. Upon binding of the UvrA(2)B(2) complex to a putative damaged site, the DNA wraps around one UvrB monomer. DNA wrap is dependent on ATP binding by UvrB and probably causes local melting of the DNA helix, facilitating insertion of UvrB beta-hairpin between the DNA strands. Then UvrB probes one DNA strand for the presence of a lesion. If a lesion is found the UvrA subunits dissociate and the UvrB-DNA preincision complex is formed. This complex is subsequently bound by UvrC and the second UvrB is released. If no lesion is found, the DNA wraps around the other UvrB subunit that will check the other stand for damage.' .
?annotation4 a up:Subunit_Annotation ;
rdfs:comment 'Forms a heterotetramer with UvrA during the search for lesions. Interacts with UvrC in an incision complex.' .
?annotation5 a up:Subcellular_Location_Annotation .
?annotation5li6 up:cellularComponent .
?annotation7 a up:Domain_Annotation ;
rdfs:comment 'The beta-hairpin motif is involved in DNA binding.' .
?annotation8 a up:Similarity_Annotation ;
rdfs:comment 'Belongs to the UvrB family.' .
?pfs9 up:annotation ?annotation10 .
?annotation10 faldo:begin ?pfsb11 ;
faldo:end ?pfse12 ;
rdf:type up:Motif_Annotation ;
rdfs:comment 'Beta-hairpin' .
?pfsb11 faldo:position ?thisPositionOn13 ;
rdf:type faldo:ExactPosition .
?pfse12 faldo:position ?thisPositionOn14 ;
rdf:type faldo:ExactPosition .
?pfs15 up:annotation ?annotation16 .
?annotation16 faldo:begin ?pfsb17 ;
faldo:end ?pfse18 ;
up:ligand ?ligand19 ;
rdf:type up:Binding_Site_Annotation .
?pfsb17 faldo:position ?thisPositionOn20 ;
rdf:type faldo:ExactPosition .
?pfse18 faldo:position ?thisPositionOn21 ;
rdf:type faldo:ExactPosition .
?ligand19 rdfs:subClassOf chebi:30616 .
_:84031 a rdf:Statement ;
up:attribution _:84006 ;
rdf:subject ?this ;
rdf:predicate up:recommendedName ;
rdf:object ?name0 .
_:84032 a rdf:Statement ;
up:attribution _:84007 ;
rdf:subject ?this ;
rdf:predicate up:alternativeName ;
rdf:object ?name1 .
_:84033 a rdf:Statement ;
up:attribution _:84008 ;
rdf:subject ?gene2 ;
rdf:predicate up:encodedBy ;
rdf:object ?gene2 .
_:84034 a rdf:Statement ;
up:attribution _:84009 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation3 .
_:84035 a rdf:Statement ;
up:attribution _:84010 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation4 .
_:84036 a rdf:Statement ;
up:attribution _:84011 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation5 .
_:84037 a rdf:Statement ;
up:attribution _:84012 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation7 .
_:84038 a rdf:Statement ;
up:attribution _:84013 ;
rdf:subject ?this ;
rdf:predicate up:annotation ;
rdf:object ?annotation8 .
_:84039 a rdf:Statement ;
up:attribution _:84014 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:963 .
_:84040 a rdf:Statement ;
up:attribution _:84015 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:227 .
_:84041 a rdf:Statement ;
up:attribution _:84016 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:742 .
_:84042 a rdf:Statement ;
up:attribution _:84017 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:267 .
_:84043 a rdf:Statement ;
up:attribution _:84018 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:234 .
_:84044 a rdf:Statement ;
up:attribution _:84019 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:228 .
_:84045 a rdf:Statement ;
up:attribution _:84020 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:67 .
_:84046 a rdf:Statement ;
up:attribution _:84021 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object keyword:547 .
_:84047 a rdf:Statement ;
up:attribution _:84022 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0005524 .
_:84048 a rdf:Statement ;
up:attribution _:84023 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0003677 .
_:84049 a rdf:Statement ;
up:attribution _:84024 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0009381 .
_:84050 a rdf:Statement ;
up:attribution _:84025 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0006281 .
_:84051 a rdf:Statement ;
up:attribution _:84026 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0006289 .
_:84052 a rdf:Statement ;
up:attribution _:84027 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0009432 .
_:84053 a rdf:Statement ;
up:attribution _:84028 ;
rdf:subject ?this ;
rdf:predicate up:classifiedWith ;
rdf:object GO:0005737 .
_:84054 a rdf:Statement ;
up:source unirule:MF_00204 ;
rdf:subject ?pfs9 ;
rdf:predicate up:annotation ;
rdf:object ?annotation10 .
_:84055 a rdf:Statement ;
up:attribution _:84029 ;
rdf:subject ?pfs9 ;
rdf:predicate up:annotation ;
rdf:object ?annotation10 .
_:84056 a rdf:Statement ;
up:source unirule:MF_00204 ;
rdf:subject ?pfs15 ;
rdf:predicate up:annotation ;
rdf:object ?annotation16 .
_:84057 a rdf:Statement ;
up:attribution _:84030 ;
rdf:subject ?pfs15 ;
rdf:predicate up:annotation ;
rdf:object ?annotation16 .
}
WHERE {
#baseURI: http://purl.uniprot.org/unirule/MF_00204
#Rule MF_00204 Created by:? on:2005-02-28 Modified by:Edouard de Castro on:2023-06-01
VALUES ?supertaxon22 {taxon:2 taxon:2157}
?this up:organism ?thisOrganism ;
rdfs:seeAlso signature:MF_00204 .
?thisOrganism rdfs:subClassOf+ ?supertaxon22 .
BIND(URI(CONCAT(STR(?this), '#MF_00204a0')) AS ?name0) .
BIND(URI(CONCAT(STR(?this), '#MF_00204a1')) AS ?name1) .
BIND(URI(CONCAT(STR(?this), '#MF_00204a3')) AS ?annotation3) .
BIND(URI(CONCAT(STR(?this), '#MF_00204a4')) AS ?annotation4) .
BIND(URI(CONCAT(STR(?this), '#MF_00204a5')) AS ?annotation5) .
BIND(URI(CONCAT(STR(?this), '#MF_00204a7')) AS ?annotation7) .
BIND(URI(CONCAT(STR(?this), '#MF_00204a8')) AS ?annotation8) .
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch27 faldo:location ?templateMotifSequenceMatchRegionP0A8F828 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP0A8F830 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP0A8F8MF_0020423 .
?templateMotifSequenceMatchRegionP0A8F828 faldo:begin ?templateMotifSequenceMatchBeginP0A8F829 .
?templateMotifSequenceMatchBeginP0A8F829 faldo:position ?templateMotifSequenceMatchBeginPositionP0A8F824 ;
faldo:reference isoform:P0A8F8-1 .
?templateMotifSequenceProfileAlignmentOperationP0A8F830 edam:has_input signature:MF_00204 ;
rdf:type edam:operation_0300 .
?targetMotifMatch31 faldo:location ?targetMotifMatchRegionMatch32 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0020434 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP0A8F8MF_0020425 .
?targetMotifMatchRegionMatch32 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0020433 .
?targetMotifMatchRegionMatchBeginMF_0020433 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0020426 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0020434 edam:has_input signature:MF_00204 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP0A8F8MF_0020423, 1, (STRLEN(?templateMotifCigarP0A8F8MF_0020423) - STRLEN(REPLACE(?templateMotifCigarP0A8F8MF_0020423, CONCAT('^(?:-*[^-]){', STR(((92 - ?templateMotifSequenceMatchBeginPositionP0A8F824) + 1)), '}'), '')))), '[a-z]', '')) AS ?step135) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP0A8F8MF_0020425, 1, (STRLEN(?targetMotifMatchCigarP0A8F8MF_0020425) - STRLEN(REPLACE(?targetMotifMatchCigarP0A8F8MF_0020425, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step135), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP0A8F8MF_0020425, 1, (STRLEN(?targetMotifMatchCigarP0A8F8MF_0020425) - STRLEN(REPLACE(?targetMotifMatchCigarP0A8F8MF_0020425, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step135), '}'), '')))), '[^-]', ''))) AS ?step236) .
BIND(((?step236 + ?targetMotifMatchRegionMatchBeginPositionMF_0020426) - 1) AS ?thisPositionOn13) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP0A8F8MF_0020423, 1, (STRLEN(?templateMotifCigarP0A8F8MF_0020423) - STRLEN(REPLACE(?templateMotifCigarP0A8F8MF_0020423, CONCAT('^(?:-*[^-]){', STR(((115 - ?templateMotifSequenceMatchBeginPositionP0A8F824) + 1)), '}'), '')))), '[a-z]', '')) AS ?step137) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP0A8F8MF_0020425, 1, (STRLEN(?targetMotifMatchCigarP0A8F8MF_0020425) - STRLEN(REPLACE(?targetMotifMatchCigarP0A8F8MF_0020425, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step137), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP0A8F8MF_0020425, 1, (STRLEN(?targetMotifMatchCigarP0A8F8MF_0020425) - STRLEN(REPLACE(?targetMotifMatchCigarP0A8F8MF_0020425, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step137), '}'), '')))), '[^-]', ''))) AS ?step238) .
BIND(((?step238 + ?targetMotifMatchRegionMatchBeginPositionMF_0020426) - 1) AS ?thisPositionOn14) .
BIND(?this AS ?pfs1t39) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn13))) AS ?pfsb11) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn14))) AS ?pfse12) .
FILTER ((BOUND(?thisPositionOn13) && BOUND(?thisPositionOn14))) .
BIND(URI(CONCAT(STR(?this), '#MF_00204a10')) AS ?annotation10) .
BIND(?this AS ?pfs9) .
}
OPTIONAL {
?this up:sequence ?thisSequence .
?thisSequence rdf:value ?thisSequenceValue .
?templateMotifMatch44 faldo:location ?templateMotifSequenceMatchRegionP0A8F845 ;
edam:is_output_of ?templateMotifSequenceProfileAlignmentOperationP0A8F847 ;
rdf:type edam:data_0869 ;
rdf:value ?templateMotifCigarP0A8F8MF_0020440 .
?templateMotifSequenceMatchRegionP0A8F845 faldo:begin ?templateMotifSequenceMatchBeginP0A8F846 .
?templateMotifSequenceMatchBeginP0A8F846 faldo:position ?templateMotifSequenceMatchBeginPositionP0A8F841 ;
faldo:reference isoform:P0A8F8-1 .
?templateMotifSequenceProfileAlignmentOperationP0A8F847 edam:has_input signature:MF_00204 ;
rdf:type edam:operation_0300 .
?targetMotifMatch48 faldo:location ?targetMotifMatchRegionMatch49 ;
edam:is_output_of ?targetMotifSequenceAlignmentOperationMF_0020451 ;
rdf:type edam:data_0869 ;
rdf:value ?targetMotifMatchCigarP0A8F8MF_0020442 .
?targetMotifMatchRegionMatch49 faldo:begin ?targetMotifMatchRegionMatchBeginMF_0020450 .
?targetMotifMatchRegionMatchBeginMF_0020450 faldo:position ?targetMotifMatchRegionMatchBeginPositionMF_0020443 ;
faldo:reference ?thisSequence .
?targetMotifSequenceAlignmentOperationMF_0020451 edam:has_input signature:MF_00204 ;
rdf:type edam:operation_0300 .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP0A8F8MF_0020440, 1, (STRLEN(?templateMotifCigarP0A8F8MF_0020440) - STRLEN(REPLACE(?templateMotifCigarP0A8F8MF_0020440, CONCAT('^(?:-*[^-]){', STR(((39 - ?templateMotifSequenceMatchBeginPositionP0A8F841) + 1)), '}'), '')))), '[a-z]', '')) AS ?step152) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP0A8F8MF_0020442, 1, (STRLEN(?targetMotifMatchCigarP0A8F8MF_0020442) - STRLEN(REPLACE(?targetMotifMatchCigarP0A8F8MF_0020442, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step152), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP0A8F8MF_0020442, 1, (STRLEN(?targetMotifMatchCigarP0A8F8MF_0020442) - STRLEN(REPLACE(?targetMotifMatchCigarP0A8F8MF_0020442, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step152), '}'), '')))), '[^-]', ''))) AS ?step253) .
BIND(((?step253 + ?targetMotifMatchRegionMatchBeginPositionMF_0020443) - 1) AS ?thisPositionOn20) .
BIND(STRLEN(REPLACE(SUBSTR(?templateMotifCigarP0A8F8MF_0020440, 1, (STRLEN(?templateMotifCigarP0A8F8MF_0020440) - STRLEN(REPLACE(?templateMotifCigarP0A8F8MF_0020440, CONCAT('^(?:-*[^-]){', STR(((46 - ?templateMotifSequenceMatchBeginPositionP0A8F841) + 1)), '}'), '')))), '[a-z]', '')) AS ?step154) .
BIND((STRLEN(SUBSTR(?targetMotifMatchCigarP0A8F8MF_0020442, 1, (STRLEN(?targetMotifMatchCigarP0A8F8MF_0020442) - STRLEN(REPLACE(?targetMotifMatchCigarP0A8F8MF_0020442, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step154), '}'), ''))))) - STRLEN(REPLACE(SUBSTR(?targetMotifMatchCigarP0A8F8MF_0020442, 1, (STRLEN(?targetMotifMatchCigarP0A8F8MF_0020442) - STRLEN(REPLACE(?targetMotifMatchCigarP0A8F8MF_0020442, CONCAT('^(?:[a-z]*(?:[A-Z]|-)){', STR(?step154), '}'), '')))), '[^-]', ''))) AS ?step255) .
BIND(((?step255 + ?targetMotifMatchRegionMatchBeginPositionMF_0020443) - 1) AS ?thisPositionOn21) .
BIND(?this AS ?pfs1t56) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn20))) AS ?pfsb17) .
BIND(URI(CONCAT(STR(?thisSequence), '#position', STR(?thisPositionOn21))) AS ?pfse18) .
FILTER (REGEX('G[IVAT]TG[ST]GK[ST]', SUBSTR(?thisSequenceValue, ?thisPositionOn20, (?thisPositionOn21 - ?thisPositionOn20)))) .
BIND(URI(CONCAT(STR(?this), '#MF_00204a16')) AS ?annotation16) .
BIND(?this AS ?pfs15) .
}
}
"xsd:string |
