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 @@
-
+