diff --git a/src/ontology/go-edit.obo b/src/ontology/go-edit.obo index fe51959ad8..36ffb99f1c 100644 --- a/src/ontology/go-edit.obo +++ b/src/ontology/go-edit.obo @@ -3319,7 +3319,7 @@ id: GO:0000310 name: xanthine phosphoribosyltransferase activity namespace: molecular_function alt_id: GO:0009043 -def: "Catalysis of the reaction: 5-phospho-alpha-D-ribose 1-diphosphate + xanthine = (9-D-ribosylxanthine)-5'-phosphate + diphosphate." [EC:2.4.2.22, GOC:clt] +def: "Catalysis of the reaction: diphosphate + XMP = 5-phospho-alpha-D-ribose 1-diphosphate + xanthine." [RHEA:10800] synonym: "5-phospho-alpha-D-ribose-1-diphosphate:xanthine phospho-D-ribosyltransferase activity" RELATED [EC:2.4.2.22] synonym: "Xan phosphoribosyltransferase activity" RELATED [EC:2.4.2.22] synonym: "xanthine-guanine phosphoribosyltransferase activity" EXACT [] @@ -3328,9 +3328,9 @@ synonym: "xanthylate pyrophosphorylase activity" RELATED [EC:2.4.2.22] synonym: "xanthylic pyrophosphorylase activity" RELATED [EC:2.4.2.22] synonym: "XMP pyrophosphorylase activity" RELATED [EC:2.4.2.22] synonym: "XMP:diphosphate 5-phospho-alpha-D-ribosyltransferase activity" RELATED [EC:2.4.2.22] -xref: EC:2.4.2.22 +xref: EC:2.4.2.22 {source="skos:exactMatch"} xref: MetaCyc:XANPRIBOSYLTRAN-RXN -xref: RHEA:10800 +xref: RHEA:10800 {source="skos:exactMatch"} is_a: GO:0106130 ! purine phosphoribosyltransferase activity [Term] @@ -11708,7 +11708,7 @@ is_a: GO:0016301 ! kinase activity id: GO:0001729 name: ceramide kinase activity namespace: molecular_function -def: "Catalysis of the reaction: ATP + ceramide = ADP + ceramide-1-phosphate." [EC:2.7.1.138] +def: "Catalysis of the reaction: an N-acylsphing-4-enine + ATP = ADP + an N-acylsphing-4-enine 1-phosphate + H+." [EC:2.7.1.138] synonym: "acylsphingosine kinase activity" RELATED [EC:2.7.1.138] synonym: "ATP:ceramide 1-phosphotransferase activity" RELATED [EC:2.7.1.138] xref: EC:2.7.1.138 @@ -33996,7 +33996,7 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i id: GO:0003999 name: adenine phosphoribosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: AMP + diphosphate = adenine + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.7] +def: "Catalysis of the reaction: AMP + diphosphate = adenine + 5-phospho-alpha-D-ribose 1-diphosphate." [RHEA:16609] synonym: "adenine phosphoribosylpyrophosphate transferase activity" RELATED [EC:2.4.2.7] synonym: "adenosine phosphoribosyltransferase activity" RELATED [EC:2.4.2.7] synonym: "adenylate pyrophosphorylase activity" RELATED [EC:2.4.2.7] @@ -34007,9 +34007,9 @@ synonym: "AMP-pyrophosphate phosphoribosyltransferase activity" RELATED [EC:2.4. synonym: "AMP:diphosphate phospho-D-ribosyltransferase activity" RELATED [EC:2.4.2.7] synonym: "APRT activity" RELATED [EC:2.4.2.7] synonym: "transphosphoribosidase activity" RELATED [EC:2.4.2.7] -xref: EC:2.4.2.7 +xref: EC:2.4.2.7 {source="skos:exactMatch"} xref: MetaCyc:ADENPRIBOSYLTRAN-RXN -xref: RHEA:16609 +xref: RHEA:16609 {source="skos:exactMatch"} is_a: GO:0106130 ! purine phosphoribosyltransferase activity [Term] @@ -35326,7 +35326,7 @@ is_obsolete: true id: GO:0004084 name: branched-chain-amino-acid transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: a branched-chain amino acid + 2-oxoglutarate = L-glutamate + a 2-oxocarboxylate derived from the branched-chain amino acid." [EC:2.6.1.42, GOC:mah] +def: "Catalysis of the reaction: a branched-chain amino acid (L-leucine, L-isoleucine and L-valine) + 2-oxoglutarate = L-glutamate + a 2-oxocarboxylate derived from the branched-chain amino acid." [EC:2.6.1.42] synonym: "branched-chain amino acid aminotransferase activity" EXACT [] synonym: "branched-chain amino acid-glutamate transaminase activity" RELATED [EC:2.6.1.42] synonym: "branched-chain aminotransferase activity" RELATED [EC:2.6.1.42] @@ -35334,7 +35334,7 @@ synonym: "branched-chain-amino-acid:2-oxoglutarate aminotransferase activity" RE synonym: "glutamate-branched-chain amino acid transaminase activity" RELATED [EC:2.6.1.42] synonym: "L-branched chain amino acid aminotransferase activity" RELATED [EC:2.6.1.42] synonym: "transaminase B activity" RELATED [EC:2.6.1.42] -xref: EC:2.6.1.42 +xref: EC:2.6.1.42 {source="skos:exactMatch"} is_a: GO:0008483 ! transaminase activity [Term] @@ -40469,7 +40469,7 @@ is_a: GO:0046912 ! acyltransferase activity, acyl groups converted into alkyl on id: GO:0004422 name: hypoxanthine phosphoribosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: IMP + diphosphate = hypoxanthine + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.8, GOC:curators] +def: "Catalysis of the reaction: IMP + diphosphate = hypoxanthine + 5-phospho-alpha-D-ribose 1-diphosphate." [RHEA:17973] synonym: "6-hydroxypurine phosphoribosyltransferase activity" RELATED [EC:2.4.2.8] synonym: "6-mercaptopurine phosphoribosyltransferase activity" RELATED [EC:2.4.2.8] synonym: "guanine-hypoxanthine phosphoribosyltransferase activity" BROAD [EC:2.4.2.8] @@ -40486,10 +40486,10 @@ synonym: "inosinic acid pyrophosphorylase activity" RELATED [EC:2.4.2.8] synonym: "inosinic pyrophosphorylase activity" RELATED [EC:2.4.2.8] synonym: "purine-6-thiol phosphoribosyltransferase activity" RELATED [EC:2.4.2.8] synonym: "Transphosphoribosidase activity" BROAD [EC:2.4.2.8] -xref: EC:2.4.2.8 +xref: EC:2.4.2.8 {source="skos:broadMatch"} xref: KEGG_REACTION:R01132 xref: MetaCyc:HYPOXANPRIBOSYLTRAN-RXN -xref: RHEA:17973 +xref: RHEA:17973 {source="skos:exactMatch"} is_a: GO:0106130 ! purine phosphoribosyltransferase activity [Term] @@ -43884,7 +43884,7 @@ is_a: GO:0016742 ! hydroxymethyl-, formyl- and related transferase activity id: GO:0004645 name: 1,4-alpha-oligoglucan phosphorylase activity namespace: molecular_function -def: "Catalysis of the reaction: 1,4-alpha-D-glucosyl(n) + phosphate = 1,4-alpha-D-glucosyl(n-1) + alpha-D-glucose 1-phosphate. The name should be qualified in each instance by adding the name of the natural substrate, e.g. maltodextrin phosphorylase, starch phosphorylase, glycogen phosphorylase." [EC:2.4.1.1] +def: "Catalysis of the reaction: 1,4-alpha-D-glucosyl(n) + phosphate = 1,4-alpha-D-glucosyl(n-1) + alpha-D-glucose 1-phosphate." [RHEA:41732] synonym: "1,4-alpha-D-glucan:phosphate alpha-D-glucosyltransferase activity" RELATED [EC:2.4.1.1] synonym: "1,4-alpha-glucan phosphorylase activity" RELATED [EC:2.4.1.1] synonym: "alpha-glucan phosphorylase" BROAD [EC:2.4.1.1] @@ -43899,9 +43899,11 @@ synonym: "myophosphorylase" NARROW [EC:2.4.1.1] synonym: "polyphosphorylase activity" RELATED [EC:2.4.1.1] synonym: "potato phosphorylase" NARROW [EC:2.4.1.1] synonym: "starch phosphorylase" NARROW [EC:2.4.1.1] -xref: EC:2.4.1.1 -xref: MetaCyc:RXN-1826 +xref: EC:2.4.1.1 {source="skos:exactMatch"} +xref: MetaCyc:RXN0-5184 +xref: RHEA:41732 {source="skos:exactMatch"} is_a: GO:0016758 ! hexosyltransferase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0004648 @@ -75475,7 +75477,7 @@ is_a: GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity id: GO:0008120 name: ceramide glucosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: UDP-glucose + N-acylsphingosine = UDP + D-glucosyl-N-acylsphingosine." [EC:2.4.1.80] +def: "Catalysis of the reaction: an N-acylsphing-4-enine + UDP-alpha-D-glucose = a beta-D-glucosyl-(1<->1')-N-acylsphing-4-enine + H+ + UDP." [RHEA:12088] synonym: "ceramide:UDP-glucose glucosyltransferase activity" RELATED [EC:2.4.1.80] synonym: "ceramide:UDPGlc glucosyltransferase activity" RELATED [EC:2.4.1.80] synonym: "glucosylceramide synthase activity" RELATED [EC:2.4.1.80] @@ -75484,9 +75486,9 @@ synonym: "UDP-glucose:ceramide glucosyltransferase activity" RELATED [EC:2.4.1.8 synonym: "UDP-glucose:N-acylsphingosine D-glucosyltransferase activity" RELATED [EC:2.4.1.80] synonym: "UDPglucose:N-acylsphingosine D-glucosyltransferase activity" RELATED [EC:2.4.1.80] synonym: "uridine diphosphoglucose-ceramide glucosyltransferase activity" RELATED [EC:2.4.1.80] -xref: EC:2.4.1.80 +xref: EC:2.4.1.80 {source="skos:exactMatch"} xref: MetaCyc:CERAMIDE-GLUCOSYLTRANSFERASE-RXN -xref: RHEA:12088 +xref: RHEA:12088 {source="skos:exactMatch"} is_a: GO:0035251 ! UDP-glucosyltransferase activity [Term] @@ -76217,8 +76219,9 @@ consider: GO:0051726 id: GO:0008184 name: glycogen phosphorylase activity namespace: molecular_function -def: "Catalysis of the reaction: glycogen + phosphate = maltodextrin + alpha-D-glucose 1-phosphate." [EC:2.4.1.1, MetaCyc:GLYCOPHOSPHORYL-RXN] -xref: MetaCyc:GLYCOPHOSPHORYL-RXN +def: "Catalysis of the reaction: glycogen + phosphate = maltodextrin + alpha-D-glucose 1-phosphate." [MetaCyc:GLYCOPHOSPHORYL-RXN] +xref: EC:2.4.1.1 {source="skos:broadMatch"} +xref: MetaCyc:GLYCOPHOSPHORYL-RXN {source="skos:exactMatch"} is_a: GO:0004645 ! 1,4-alpha-oligoglucan phosphorylase activity [Term] @@ -79457,20 +79460,21 @@ is_a: GO:0046997 ! oxidoreductase activity, acting on the CH-NH group of donors, [Term] id: GO:0008481 -name: sphinganine kinase activity +name: sphingosine kinase activity namespace: molecular_function alt_id: GO:0001728 -def: "Catalysis of the reaction: ATP + sphinganine = ADP + sphinganine 1-phosphate." [EC:2.7.1.91] +def: "Catalysis of the reaction: a sphingoid base + ATP = a sphingoid 1-phosphate + ADP + H+." [RHEA:51496] synonym: "ATP:sphinganine 1-phosphotransferase activity" RELATED [EC:2.7.1.91] synonym: "dihydrosphingosine kinase (phosphorylating)" RELATED [EC:2.7.1.91] synonym: "dihydrosphingosine kinase activity" RELATED [EC:2.7.1.91] +synonym: "sphinganine kinase activity" RELATED [] synonym: "sphingosine kinase (phosphorylating)" RELATED [EC:2.7.1.91] -synonym: "sphingosine kinase activity" RELATED [] -xref: EC:2.7.1.91 +xref: EC:2.7.1.91 {source="skos:exactMatch"} xref: MetaCyc:SPHINGANINE-KINASE-RXN -xref: RHEA:15465 +xref: RHEA:51496 {source="skos:exactMatch"} is_a: GO:0001727 ! lipid kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0008482 @@ -84808,9 +84812,9 @@ def: "Catalysis of the reaction: ATP + inosine = ADP + IMP." [EC:2.7.1.73] synonym: "ATP:inosine 5'-phosphotransferase activity" RELATED [EC:2.7.1.73] synonym: "inosine kinase (phosphorylating)" RELATED [EC:2.7.1.73] synonym: "inosine-guanosine kinase activity" RELATED [EC:2.7.1.73] -xref: EC:2.7.1.73 +xref: EC:2.7.1.73 {source="skos:broadMatch"} xref: MetaCyc:INOSINEKIN-RXN -xref: RHEA:21140 +xref: RHEA:21140 {source="skos:exactMatch"} is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor @@ -86391,13 +86395,13 @@ is_a: GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptid id: GO:0009018 name: sucrose phosphorylase activity namespace: molecular_function -def: "Catalysis of the reaction: sucrose + phosphate = D-fructose + alpha-D-glucose 1-phosphate." [EC:2.4.1.7] +def: "Catalysis of the reaction: sucrose + phosphate = D-fructose + alpha-D-glucose 1-phosphate." [RHEA:24048] synonym: "disaccharide glucosyltransferase activity" BROAD [EC:2.4.1.7] synonym: "sucrose glucosyltransferase activity" RELATED [EC:2.4.1.7] synonym: "sucrose:phosphate alpha-D-glucosyltransferase activity" RELATED [EC:2.4.1.7] xref: EC:2.4.1.7 xref: MetaCyc:SUCROSE-PHOSPHORYLASE-RXN -xref: RHEA:24048 +xref: RHEA:24048 {source="skos:exactMatch"} is_a: GO:0004645 ! 1,4-alpha-oligoglucan phosphorylase activity [Term] @@ -124639,7 +124643,7 @@ is_a: GO:0016740 ! transferase activity id: GO:0016758 name: hexosyltransferase activity namespace: molecular_function -def: "Catalysis of the transfer of a hexosyl group from one compound (donor) to another (acceptor)." [GOC:jl] +def: "Catalysis of the transfer of a hexosyl group from one compound (donor) to another (acceptor)." [EC:2.4.1.-] synonym: "transferase activity, transferring hexosyl groups" EXACT [] xref: EC:2.4.1.- is_a: GO:0016757 ! glycosyltransferase activity @@ -127278,12 +127282,12 @@ intersection_of: has_primary_input CHEBI:25905 ! peptide hormone id: GO:0017050 name: D-erythro-sphingosine kinase activity namespace: molecular_function -def: "Catalysis of the reaction: sphingosine + ATP = sphingosine 1-phosphate + ADP." [MetaCyc:RXN3DJ-11417] -synonym: "sphingosine kinase activity" EXACT [] -xref: EC:2.7.1.91 +def: "Catalysis of the reaction: sphingosine + ATP = sphingosine 1-phosphate + ADP." [RHEA:35847] +synonym: "sphingosine kinase activity" BROAD [] +xref: EC:2.7.1.91 {source="skos:broadMatch"} xref: MetaCyc:RXN3DJ-11417 -xref: RHEA:35847 -is_a: GO:0001727 ! lipid kinase activity +xref: RHEA:35847 {source="skos:exactMatch"} +is_a: GO:0008481 ! sphingosine kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor [Term] @@ -169410,6 +169414,7 @@ id: GO:0031220 name: maltodextrin phosphorylase activity namespace: molecular_function def: "Catalysis of the reaction: alpha-maltotetraose + phosphate = alpha-D-glucose 1-phosphate + alpha-maltotriose." [PMID:10348846, RHEA:29691] +xref: EC:2.4.1.1 {source="skos:broadMatch"} xref: MetaCyc:RXN0-5182 {source="skos:exactMatch"} xref: RHEA:29691 {source="skos:exactMatch"} is_a: GO:0004645 ! 1,4-alpha-oligoglucan phosphorylase activity @@ -197495,13 +197500,13 @@ is_a: GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, id: GO:0033834 name: kaempferol 3-O-galactosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: UDP-galactose + kaempferol = UDP + kaempferol 3-O-beta-D-galactoside." [EC:2.4.1.234] +def: "Catalysis of the reaction: UDP-galactose + kaempferol = UDP + kaempferol 3-O-beta-D-galactoside." [RHEA:15709] synonym: "F3GalTase activity" RELATED [EC:2.4.1.234] synonym: "UDP-galactose:kaempferol 3-O-beta-D-galactosyltransferase activity" RELATED [EC:2.4.1.234] -xref: EC:2.4.1.234 +xref: EC:2.4.1.234 {source="skos:exactMatch"} xref: MetaCyc:2.4.1.234-RXN -xref: RHEA:15709 -is_a: GO:0008378 ! galactosyltransferase activity +xref: RHEA:15709 {source="skos:exactMatch"} +is_a: GO:0016758 ! hexosyltransferase activity [Term] id: GO:0033835 @@ -203759,7 +203764,7 @@ relationship: has_part CHEBI:39015 ! apolipoprotein id: GO:0034386 name: 4-aminobutyrate:2-oxoglutarate transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: 4-aminobutanoate + 2-oxoglutarate = succinate semialdehyde + L-glutamate." [EC:2.6.1.19, GOC:mah] +def: "Catalysis of the reaction: 2-oxoglutarate + 4-aminobutanoate = L-glutamate + succinate semialdehyde." [RHEA:23352] synonym: "4-aminobutanoate:2-oxoglutarate aminotransferase activity" RELATED [EC:2.6.1.19] synonym: "4-aminobutyrate-2-ketoglutarate aminotransferase activity" RELATED [EC:2.6.1.19] synonym: "4-aminobutyrate-2-oxoglutarate aminotransferase activity" RELATED [EC:2.6.1.19] @@ -203779,9 +203784,9 @@ synonym: "gamma-aminobutyrate:alpha-oxoglutarate aminotransferase activity" RELA synonym: "gamma-aminobutyric acid-2-oxoglutarate transaminase activity" RELATED [EC:2.6.1.19] synonym: "gamma-aminobutyric acid-alpha-ketoglutarate transaminase activity" RELATED [EC:2.6.1.19] synonym: "gamma-aminobutyric acid-alpha-ketoglutaric acid aminotransferase activity" RELATED [EC:2.6.1.19] -xref: EC:2.6.1.19 +xref: EC:2.6.1.19 {source="skos:exactMatch"} xref: MetaCyc:GABATRANSAM-RXN -xref: RHEA:23352 +xref: RHEA:23352 {source="skos:exactMatch"} is_a: GO:0003867 ! 4-aminobutyrate transaminase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28183" xsd:anyURI @@ -203789,11 +203794,12 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i id: GO:0034387 name: 4-aminobutyrate:pyruvate transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: 4-aminobutanoate + pyruvate = succinate semialdehyde + alanine." [EC:2.6.1.96, GOC:mah] +def: "Catalysis of the reaction: 4-aminobutanoate + pyruvate = succinate semialdehyde + alanine. Also converts glyoxylate to glycine." [EC:2.6.1.96] synonym: "gamma-aminobutyric acid pyruvate transaminase activity" RELATED [EC:2.6.1.96] -xref: EC:2.6.1.96 +xref: EC:2.6.1.96 {source="skos:exactMatch"} xref: MetaCyc:RXN-6902 -xref: RHEA:32263 +xref: RHEA:32263 {source="skos:narrowMatch"} +xref: RHEA:32267 {source="skos:narrowMatch"} is_a: GO:0003867 ! 4-aminobutyrate transaminase activity [Term] @@ -252257,19 +252263,22 @@ is_a: GO:0016861 ! intramolecular oxidoreductase activity, interconverting aldos id: GO:0043918 name: cadaverine aminopropyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: S-adenosylmethioninamine + cadaverine = 5'-methylthioadenosine + N-(3-aminopropyl)cadaverine." [GOC:jl, PMID:17545282] +def: "Catalysis of the reaction: cadaverine + S-adenosyl 3-(methylsulfanyl)propylamine = aminopropylcadaverine + H+ + S-methyl-5'-thioadenosine." [PMID:17545282, RHEA:33387] synonym: "cadaverine aminopropyl transferase activity" EXACT [] -xref: EC:2.5.1.104 +xref: EC:2.5.1.104 {source="skos:broadMatch"} +xref: RHEA:33387 {source="skos:exactMatch"} is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups [Term] id: GO:0043919 name: agmatine aminopropyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: agmatine + S-adenosylmethioninamine = N1-aminopropylagmatine + 5'-methylthioadenosine." [GOC:jl, PMID:15983049] +def: "Catalysis of the reaction: agmatine + S-adenosyl 3-(methylsulfanyl)propylamine = H+ + N1-(3-aminopropyl)agmatine + S-methyl-5'-thioadenosine." [PMID:15983049, RHEA:36487] synonym: "agmatine aminopropyl transferase activity" EXACT [] -xref: EC:2.5.1.104 +xref: EC:2.5.1.104 {source="skos:broadMatch"} +xref: RHEA:36487 {source="skos:exactMatch"} is_a: GO:0016765 ! transferase activity, transferring alkyl or aryl (other than methyl) groups +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0043920 @@ -294399,11 +294408,11 @@ is_a: GO:0016857 ! racemase and epimerase activity, acting on carbohydrates and id: GO:0047738 name: cellobiose phosphorylase activity namespace: molecular_function -def: "Catalysis of the reaction: cellobiose + phosphate = alpha-D-glucose 1-phosphate + D-glucose." [EC:2.4.1.20, MetaCyc:CELLOBIOSE-PHOSPHORYLASE-RXN] +def: "Catalysis of the reaction: cellobiose + phosphate = alpha-D-glucose 1-phosphate + D-glucose." [RHEA:19493] synonym: "cellobiose:phosphate alpha-D-glucosyltransferase activity" RELATED [EC:2.4.1.20] -xref: EC:2.4.1.20 +xref: EC:2.4.1.20 {source="skos:exactMatch"} xref: MetaCyc:CELLOBIOSE-PHOSPHORYLASE-RXN -xref: RHEA:19493 +xref: RHEA:19493 {source="skos:exactMatch"} is_a: GO:0004645 ! 1,4-alpha-oligoglucan phosphorylase activity [Term] @@ -337054,7 +337063,6 @@ namespace: molecular_function def: "Catalysis of the reaction: 2-oxoglutarate + L-leucine = 4-methyl-2-oxopentanoate + L-glutamatic acid." [EC:2.6.1.42, MetaCyc:BRANCHED-CHAINAMINOTRANSFERLEU-RXN] subset: goslim_chembl synonym: "L-leucine aminotransferase activity" EXACT [] -xref: EC:2.6.1.42 xref: KEGG_REACTION:R01090 xref: MetaCyc:BRANCHED-CHAINAMINOTRANSFERLEU-RXN {source="skos:broadMatch"} is_a: GO:0004084 ! branched-chain-amino-acid transaminase activity @@ -337077,20 +337085,20 @@ is_a: GO:0004084 ! branched-chain-amino-acid transaminase activity id: GO:0052656 name: L-isoleucine transaminase activity namespace: molecular_function -def: "Catalysis of the reaction: 2-oxoglutarate + L-isoleucine = (S)-3-methyl-2-oxopentanoic acid + L-glutamic acid." [EC:2.6.1.42, MetaCyc:BRANCHED-CHAINAMINOTRANSFERILEU-RXN] +def: "Catalysis of the reaction: 2-oxoglutarate + L-isoleucine = (S)-3-methyl-2-oxopentanoic acid + L-glutamic acid." [RHEA:24801] subset: goslim_chembl synonym: "L-isoleucine aminotransferase activity" EXACT [] xref: EC:2.6.1.42 xref: KEGG_REACTION:R02199 xref: MetaCyc:BRANCHED-CHAINAMINOTRANSFERILEU-RXN -xref: RHEA:24801 +xref: RHEA:24801 {source="skos:exactMatch"} is_a: GO:0004084 ! branched-chain-amino-acid transaminase activity [Term] id: GO:0052657 name: guanine phosphoribosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: GMP + diphosphate = guanine + 5-phospho-alpha-D-ribose 1-diphosphate." [EC:2.4.2.8, GOC:curators] +def: "Catalysis of the reaction: GMP + diphosphate = guanine + 5-phospho-alpha-D-ribose 1-diphosphate." [RHEA:25424] synonym: "6-hydroxypurine phosphoribosyltransferase activity" RELATED [EC:2.4.2.8] synonym: "6-mercaptopurine phosphoribosyltransferase activity" RELATED [EC:2.4.2.8] synonym: "GMP pyrophosphorylase activity" RELATED [EC:2.4.2.8] @@ -337103,10 +337111,10 @@ synonym: "guanylic pyrophosphorylase activity" RELATED [EC:2.4.2.8] synonym: "hypoxanthine-guanine phosphoribosyltransferase activity" BROAD [EC:2.4.2.8] synonym: "purine-6-thiol phosphoribosyltransferase activity" RELATED [EC:2.4.2.8] synonym: "Transphosphoribosidase activity" BROAD [EC:2.4.2.8] -xref: EC:2.4.2.8 +xref: EC:2.4.2.8 {source="skos:broadMatch"} xref: KEGG_REACTION:R01229 xref: MetaCyc:GUANPRIBOSYLTRAN-RXN -xref: RHEA:25424 +xref: RHEA:25424 {source="skos:exactMatch"} is_a: GO:0106130 ! purine phosphoribosyltransferase activity [Term] @@ -338482,10 +338490,12 @@ creation_date: 2011-09-22T04:08:13Z [Term] id: GO:0052756 -name: chitobiose phosphorylase activity +name: obsolete chitobiose phosphorylase activity namespace: molecular_function -def: "Catalysis of the reaction: chitobiose + phosphate = N-acetyl-D-glucosamine + N-acetyl-alpha-D-glucosamine 1-phosphate. This reaction is the phosphorolysis of chitobiose, (GlcNAc)2, a dimer of beta-(1->4) linked glucosamine units." [GOC:mengo_curators, PMID:15274915, Wikipedia:chitobiose] -is_a: GO:0004645 ! 1,4-alpha-oligoglucan phosphorylase activity +def: "OBSOLETE. Catalysis of the reaction: chitobiose + phosphate = N-acetyl-D-glucosamine + N-acetyl-alpha-D-glucosamine 1-phosphate. This reaction is the phosphorolysis of chitobiose, (GlcNAc)2, a dimer of beta-(1->4) linked glucosamine units." [GOC:mengo_curators, PMID:15274915, Wikipedia:chitobiose] +comment: This term was obsoleted because there is no evidence that this activity exists, +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true created_by: ai creation_date: 2011-09-27T04:04:53Z @@ -400151,13 +400161,14 @@ creation_date: 2009-04-23T03:51:20Z [Term] id: GO:0080100 -name: L-glutamine:2-oxoglutarate aminotransferase activity +name: obsolete L-glutamine:2-oxoglutarate aminotransferase activity namespace: molecular_function -def: "Catalysis of the reaction: L-glutamine + 2-oxoglutarate = 2-oxoglutaramate + L-glutamate." [PMID:18394996] -comment: This reaction falls within the larger set of reactions associated with EC:2.6.1.50 (See BRENDA: http://www.brenda-enzymes.org/php/result_flat.php4?ecno=2.6.1.50). +def: "OBSOLETE. Catalysis of the reaction: L-glutamine + 2-oxoglutarate = 2-oxoglutaramate + L-glutamate." [PMID:18394996] +comment: This term was obsoleted because it is a specific substrate of L-tryptophan:2-oxoglutarate aminotransferase activity ; GO:0050362. synonym: "L-glutamine:alpha-ketoglutarate aminotransferase activity" EXACT [] -xref: EC:2.6.1.50 -is_a: GO:0070548 ! L-glutamine aminotransferase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0050362 created_by: dhl creation_date: 2009-04-23T03:56:16Z @@ -430442,11 +430453,12 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i id: GO:0102159 name: baicalein 7-O-glucuronosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: UDP-alpha-D-glucuronate + baicalein = H+ + UDP + baicalin." [EC:2.4.1.253, GOC:pz] -xref: EC:2.4.1.253 +def: "Catalysis of the reaction: UDP-alpha-D-glucuronate + baicalein = H+ + UDP + baicalin." [RHEA:28314] +xref: EC:2.4.1.253 {source="skos:broadMatch"} xref: MetaCyc:RXN-11755 -xref: RHEA:28314 +xref: RHEA:28314 {source="skos:exactMatch"} is_a: GO:0016758 ! hexosyltransferase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0102160 @@ -431220,12 +431232,13 @@ is_a: GO:0016780 ! phosphotransferase activity, for other substituted phosphate [Term] id: GO:0102250 -name: linear malto-oligosaccharide phosphorylase activity +name: obsolete linear malto-oligosaccharide phosphorylase activity namespace: molecular_function -def: "Catalysis of the reaction: hydrogenphosphate + a linear malto-oligosaccharide = alpha-D-glucose 1-phosphate + a linear malto-oligosaccharide." [EC:2.4.1.1, GOC:pz] -xref: EC:2.4.1.1 -xref: MetaCyc:RXN-12392 -is_a: GO:0016758 ! hexosyltransferase activity +def: "OBSOLETE. Catalysis of the reaction: hydrogenphosphate + a linear malto-oligosaccharide = alpha-D-glucose 1-phosphate + a linear malto-oligosaccharide." [GOC:pz] +comment: This term was obsoleted because it represents a specific substrate of 1,4-alpha-oligoglucan phosphorylase activity ; GO:0004645. +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0004645 [Term] id: GO:0102251 @@ -432115,13 +432128,13 @@ replaced_by: GO:0102758 [Term] id: GO:0102351 -name: gamma-aminobutyrate transaminase (glyoxylate dependent) activity +name: obsolete gamma-aminobutyrate transaminase (glyoxylate dependent) activity namespace: molecular_function -def: "Catalysis of the reaction: gamma-aminobutyric acid + 2-oxo monocarboxylic acid anion = 4-oxobutanoate + glycine." [EC:2.6.1.96, GOC:pz] -xref: EC:2.6.1.96 -xref: MetaCyc:RXN-13328 -xref: RHEA:32267 -is_a: GO:0008483 ! transaminase activity +def: "OBSOLETE. Catalysis of the reaction: gamma-aminobutyric acid + 2-oxo monocarboxylic acid anion = 4-oxobutanoate + glycine." [GOC:pz] +comment: This term was obsoleted because it represents a specific substrate of 4-aminobutyrate:pyruvate transaminase activity ; GO:0034387. +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0034387 [Term] id: GO:0102352 @@ -433153,21 +433166,23 @@ is_a: GO:0016709 ! oxidoreductase activity, acting on paired donors, with incorp id: GO:0102467 name: scutellarein 7-O-glucuronosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: UDP-alpha-D-glucuronate + scutellarein = UDP( + scutellarin + H+." [EC:2.4.1.253, GOC:pz] -xref: EC:2.4.1.253 +def: "Catalysis of the reaction: scutellarein + UDP-alpha-D-glucuronate = scutellarin + UDP." [RHEA:28318] +xref: EC:2.4.1.253 {source="skos:broadMatch"} xref: MetaCyc:RXN-14058 -xref: RHEA:28318 +xref: RHEA:28318 {source="skos:exactMatch"} is_a: GO:0016758 ! hexosyltransferase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0102468 name: wogonin 7-O-glucuronosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: UDP-alpha-D-glucuronate + wogonin = UDP + wogonin 7-O-beta-D-glucuronate + H+." [EC:2.4.1.253, GOC:pz] -xref: EC:2.4.1.253 +def: "Catalysis of the reaction: UDP-alpha-D-glucuronate + wogonin = UDP + wogonin 7-O-beta-D-glucuronate + H+." [RHEA:28322] +xref: EC:2.4.1.253 {source="skos:broadMatch"} xref: MetaCyc:RXN-14060 -xref: RHEA:28322 +xref: RHEA:28322 {source="skos:exactMatch"} is_a: GO:0016758 ! hexosyltransferase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI [Term] id: GO:0102469 @@ -433267,12 +433282,13 @@ is_a: GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl compounds [Term] id: GO:0102479 -name: quercetin 3-O-beta:-D-galactosyltransferase activity +name: obsolete quercetin 3-O-beta:-D-galactosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: quercetin-7-olate + UDP-D-galactose = quercetin 3-O-beta-D-galactopyranoside + UDP(3-) + H+." [EC:2.4.1.234, GOC:pz] -xref: EC:2.4.1.234 -xref: MetaCyc:RXN-14109 -is_a: GO:0016758 ! hexosyltransferase activity +def: "OBSOLETE. Catalysis of the reaction: quercetin-7-olate + UDP-D-galactose = quercetin 3-O-beta-D-galactopyranoside + UDP(3-) + H+." [GOC:pz] +comment: This term was obsoleted because it represents a specific substrate of kaempferol 3-O-galactosyltransferase activity ; GO:0033834. +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0033834 [Term] id: GO:0102480 @@ -433455,13 +433471,13 @@ replaced_by: GO:0004558 [Term] id: GO:0102499 -name: SHG alpha-glucan phosphorylase activity +name: obsolete SHG alpha-glucan phosphorylase activity namespace: molecular_function -def: "Catalysis of the reaction: hydrogenphosphate + a plant soluble heteroglycan = alpha-D-glucose 1-phosphate + a plant soluble heteroglycan." [GOC:pz, RHEA:41732] -xref: EC:2.4.1.1 -xref: MetaCyc:RXN-14353 -xref: RHEA:41732 -is_a: GO:0016758 ! hexosyltransferase activity +def: "OBSOLETE. Catalysis of the reaction: hydrogenphosphate + a plant soluble heteroglycan = alpha-D-glucose 1-phosphate + a plant soluble heteroglycan." [GOC:pz] +comment: This term was obsoleted because it represents a specific substrate of 1,4-alpha-oligoglucan phosphorylase activity ; GO:0004645. +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0004645 [Term] id: GO:0102500 @@ -435828,12 +435844,13 @@ is_a: GO:0016706 ! 2-oxoglutarate-dependent dioxygenase activity [Term] id: GO:0102769 -name: dihydroceramide glucosyltransferase activity +name: obsolete dihydroceramide glucosyltransferase activity namespace: molecular_function -def: "Catalysis of the reaction: UDP-alpha-D-glucose + a dihydroceramide = UDP + H+ + a D-glucosyl-N-acylsphinganine." [EC:2.4.1.80, GOC:pz] -xref: EC:2.4.1.80 -xref: MetaCyc:RXN-7793 -is_a: GO:0016758 ! hexosyltransferase activity +def: "OBSOLETE. Catalysis of the reaction: UDP-alpha-D-glucose + a dihydroceramide = UDP + H+ + a D-glucosyl-N-acylsphinganine." [GOC:pz] +comment: This term was obsoleted because it represents a specific substrate of ceramide glucosyltransferase activity ; GO:0008120 +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0008120 [Term] id: GO:0102770 @@ -435871,12 +435888,13 @@ property_value: term_tracker_item "https://github.com/geneontology/go-ontology/i [Term] id: GO:0102773 -name: dihydroceramide kinase activity +name: obsolete dihydroceramide kinase activity namespace: molecular_function -def: "Catalysis of the reaction: ATP + a dihydroceramide = ADP + H+ + a dihydroceramide 1-phosphate." [EC:2.7.1.138, GOC:pz] -xref: EC:2.7.1.138 -xref: MetaCyc:RXN-7799 -is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor +def: "OBSOLETE. Catalysis of the reaction: ATP + a dihydroceramide = ADP + H+ + a dihydroceramide 1-phosphate." [GOC:pz] +comment: This term was obsoleted because it represents a specific susbtrate of ceramide kinase activity ; GO:0001729. +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28070" xsd:anyURI +is_obsolete: true +replaced_by: GO:0001729 [Term] id: GO:0102774 @@ -442372,8 +442390,8 @@ id: GO:0106366 name: guanosine kinase activity namespace: molecular_function def: "Catalysis of the reaction: ATP + guanosine = ADP + GMP." [PMID:10879466, PMID:7665468, RHEA:27710] -xref: EC:2.7.1.73 -xref: RHEA:27710 +xref: EC:2.7.1.73 {source="skos:broadMatch"} +xref: RHEA:27710 {source="skos:exactMatch"} is_a: GO:0016301 ! kinase activity is_a: GO:0016773 ! phosphotransferase activity, alcohol group as acceptor created_by: hjd @@ -467109,13 +467127,14 @@ creation_date: 2012-01-11T03:50:55Z [Term] id: GO:1900022 -name: regulation of D-erythro-sphingosine kinase activity +name: obsolete regulation of D-erythro-sphingosine kinase activity namespace: biological_process -def: "Any process that modulates the frequency, rate or extent of D-erythro-sphingosine kinase activity." [GOC:signaling, GOC:TermGenie] -subset: gocheck_obsoletion_candidate +def: "OBSOLETE. Any process that modulates the frequency, rate or extent of D-erythro-sphingosine kinase activity." [GOC:signaling, GOC:TermGenie] +comment: This term was obsoleted because it represents a molecular function. synonym: "regulation of sphingosine kinase activity" EXACT [GOC:TermGenie] -intersection_of: GO:0065007 ! biological regulation -intersection_of: regulates GO:0017050 ! D-erythro-sphingosine kinase activity +property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22455" xsd:anyURI +is_obsolete: true +consider: GO:0019207 created_by: bf creation_date: 2012-01-11T04:30:29Z @@ -599901,19 +599920,19 @@ xref: RO:0002213 holds_over_chain: negatively_regulates negatively_regulates is_a: regulates ! regulates -[Typedef] -id: positively_regulates_in_another_organism -name: positively regulates in another organism -namespace: external -xref: RO:0012013 -is_a: positively_regulates ! regulates - [Typedef] id: positively_regulates_characteristic name: positively regulates characteristic xref: RO:0019001 is_a: regulates_characteristic ! regulates characteristic +[Typedef] +id: positively_regulates_in_another_organism +name: positively regulates in another organism +namespace: external +xref: RO:0012013 +is_a: positively_regulates ! positively regulates + [Typedef] id: preceded_by name: preceded by diff --git a/src/ontology/imports/go-catalytic-activities-participants.owl b/src/ontology/imports/go-catalytic-activities-participants.owl index 86ac7b6519..fbd4f724e2 100644 --- a/src/ontology/imports/go-catalytic-activities-participants.owl +++ b/src/ontology/imports/go-catalytic-activities-participants.owl @@ -164220,32 +164220,7 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - + @@ -166032,31 +166007,6 @@ - - - - - - - - - - - - - - - - - - - - - - - - - @@ -184496,5 +184446,5 @@ - +