biofilm matrixdefinition "A structure lying external to microbial cells. A biofilm is an aggregate of surface-associated cells, and the biofilm matrix is the envelope of polymeric substances that surrounds the cells."
biofilm matrixdefinition "A type of extracellular matrix that surrounds the cells within a microbial biofilm. The matrix is composed of extracellular polymeric substances including exopolysaccharides, proteins, nucleic acids, lipids, and other biomolecules."
galactosaminoglycan biosynthetic processdefinition "The chemical reactions and pathways resulting in the formation of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan biosynthetic processdefinition "OBSOLETE. The chemical reactions and pathways resulting in the formation of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan catabolic process http://purl.obolibrary.org/obo/GO_0006028
Removed
galactosaminoglycan catabolic processdefinition "The chemical reactions and pathways resulting in the breakdown of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan catabolic processdefinition "OBSOLETE. The chemical reactions and pathways resulting in the breakdown of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan metabolic processdefinition "The chemical reactions and pathways involving galactosaminoglycans, any one of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan metabolic processdefinition "OBSOLETE. The chemical reactions and pathways involving galactosaminoglycans, any one of a group of polysaccharides that contain amino sugars derived from the galactose."
Here's a diff of how these changes impact the classified ontology:
Ontology comparison
Left
http://purl.obolibrary.org/obo/go.owlhttp://purl.obolibrary.org/obo/go/releases/2024-11-21/go.owlfile:/__w/go-ontology/go-ontology/src/ontology/../../reasoned-master.owl/reasoned.owlRight
http://purl.obolibrary.org/obo/go.owlhttp://purl.obolibrary.org/obo/go/releases/2024-11-21/go.owlfile:/__w/go-ontology/go-ontology/src/ontology/../../reasoned-pr.owl/reasoned.owlOntology imports
Ontology annotations
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity
http://purl.obolibrary.org/obo/GO_0047006Removed
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity definition "Catalysis of the reaction: NAD(P)+ + 17-alpha,20-alpha-dihydroxypregn-4-en-3-one = NAD(P)H + H+ + 17-alpha-hydroxyprogesterone."
database_cross_reference "MetaCyc:1.1.1.149-RXN"
database_cross_reference "EC:1.1.1.149"
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity database_cross_reference "EC:1.1.1.149"
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity label "17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity"
Added
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity has_exact_synonym "17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity"
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity definition "Catalysis of the reaction: NAD(P)+ + 17-alpha,20-alpha-dihydroxypregn-4-en-3-one = NAD(P)H + H+ + 17-alpha-hydroxyprogesterone."
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity label "17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase [NAD(P)+] activity"
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity database_cross_reference "RHEA:15857"
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity database_cross_reference "EC:1.1.1.149"
17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity database_cross_reference "RHEA:15853"
3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity
http://purl.obolibrary.org/obo/GO_0102175Removed
3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity definition "Catalysis of the reaction: a 3beta-hydroxysteroid-4alpha-carboxylate + NAD+ = a 3-oxosteroid + CO2 + NADH."
database_cross_reference "GOC:pz"
database_cross_reference "RHEA:34775"
3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity label "3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity"
3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity SubClassOf oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
Added
3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity label "3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase (NAD+) activity"
3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity definition "Catalysis of the reaction: a 3beta-hydroxysteroid-4alpha-carboxylate + NAD+ = a 3-oxosteroid + CO2 + NADH."
3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity SubClassOf steroid dehydrogenase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
3alpha,7alpha,12beta-trihydroxy-5beta-cholanate dehydrogenase activity
http://purl.obolibrary.org/obo/GO_0047521Removed
3alpha,7alpha,12beta-trihydroxy-5beta-cholanate dehydrogenase activity label "3alpha,7alpha,12beta-trihydroxy-5beta-cholanate dehydrogenase activity"
3alpha,7alpha,12beta-trihydroxy-5beta-cholanate dehydrogenase activity has_broad_synonym "12-beta-hydroxysteroid dehydrogenase activity"
Added
3alpha,7alpha,12beta-trihydroxy-5beta-cholanate dehydrogenase activity has_broad_synonym "3alpha,7alpha,12beta-trihydroxy-5beta-cholanate dehydrogenase activity"
3alpha,7alpha,12beta-trihydroxy-5beta-cholanate dehydrogenase activity label "12-beta-hydroxysteroid dehydrogenase (NADP+) activity"
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity
http://purl.obolibrary.org/obo/GO_0102191Removed
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity label "3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity"
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity SubClassOf has participant some carbon dioxide
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity SubClassOf has participant some NAD(1-)
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity SubClassOf oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity SubClassOf has participant some NADH(2-)
Added
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity has_exact_synonym "3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) (NAD+) activity"
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity label "3-beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) (NAD+) activity"
3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase (decarboxylating) [NAD(+)] activity SubClassOf 3-beta-hydroxysteroid dehydrogenase/C4-decarboxylase activity
5alpha-androstane-3beta,17beta-diol dehydrogenase activity
http://purl.obolibrary.org/obo/GO_0047024Removed
Added
5alpha-androstane-3beta,17beta-diol dehydrogenase activity has_exact_synonym "5alpha-androstane-3beta,17beta-diol dehydrogenase activity"
5alpha-androstane-3beta,17beta-diol dehydrogenase activity label "5-alpha-androstane-3beta,17beta-diol dehydrogenase (NADP+) activity"
C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity
http://purl.obolibrary.org/obo/GO_0000252Removed
Added
C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity term tracker item "https://github.com/geneontology/go-ontology/issues/20597"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)
C-3 sterol dehydrogenase (C-4 sterol decarboxylase) activity SubClassOf steroid dehydrogenase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
NADPH-dependent curcumin reductase activity
http://purl.obolibrary.org/obo/GO_0052849Removed
NADPH-dependent curcumin reductase activity database_cross_reference "EC:1.3.1.n3"
NADPH-dependent curcumin reductase activity definition "Catalysis of the reaction: curcumin + NADPH + H+ = dihydrocurcumin + NADP+."
NADPH-dependent curcumin reductase activity label "NADPH-dependent curcumin reductase activity"
Added
NADPH-dependent curcumin reductase activity has_exact_synonym "NADPH-dependent curcumin reductase activity"
NADPH-dependent curcumin reductase activity database_cross_reference "EC:1.3.1.n3"
NADPH-dependent curcumin reductase activity database_cross_reference "RHEA:34815"
NADPH-dependent curcumin reductase activity label "curcumin reductase (NADP+) activity"
NADPH-dependent curcumin reductase activity definition "Catalysis of the reaction: 2 NADP+ + tetrahydrocurcumin = curcumin + 2 H+ + 2 NADPH."
NADPH-dependent dihydrocurcumin reductase activity
http://purl.obolibrary.org/obo/GO_0052850Removed
NADPH-dependent dihydrocurcumin reductase activity database_cross_reference "MetaCyc:RXN0-6677"
NADPH-dependent dihydrocurcumin reductase activity definition "Catalysis of the reaction: dihydrocurcumin + NADPH+ + H+ = tetrahydrocurcumin + NADP+."
NADPH-dependent dihydrocurcumin reductase activity label "NADPH-dependent dihydrocurcumin reductase activity"
NADPH-dependent dihydrocurcumin reductase activity SubClassOf oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor
Added
NADPH-dependent dihydrocurcumin reductase activity has_exact_synonym "NADPH-dependent dihydrocurcumin reductase activity"
NADPH-dependent dihydrocurcumin reductase activity term replaced by "GO:0052849"
NADPH-dependent dihydrocurcumin reductase activity definition "OBSOLETE. Catalysis of the reaction: dihydrocurcumin + NADP+ = curcumin + H+ + NADPH."
NADPH-dependent dihydrocurcumin reductase activity term tracker item "https://github.com/geneontology/go-ontology/issues/9201"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)
NADPH-dependent dihydrocurcumin reductase activity comment "This term was obsoleted because it is a subreaction of curcumin reductase (NADP+) activity ; GO:0052849."
NADPH-dependent dihydrocurcumin reductase activity label "obsolete dihydrocurcumin (NADP+) reductase activity"
NADPH-dependent dihydrocurcumin reductase activity deprecated true
androstan-3-alpha,17-beta-diol dehydrogenase activity
http://purl.obolibrary.org/obo/GO_0047044Removed
Added
androsterone dehydrogenase activity
http://purl.obolibrary.org/obo/GO_0047023Removed
androsterone dehydrogenase activity label "androsterone dehydrogenase activity"
androsterone dehydrogenase activity definition "Catalysis of the reaction: NAD(P)+ + androsterone = NAD(P)H + H+ + 5-alpha-androstane-3,17-dione."
database_cross_reference "EC:1.1.1.209"
database_cross_reference "MetaCyc:1.1.1.209-RXN"
Added
androsterone dehydrogenase activity label "androsterone dehydrogenase [NAD(P)+] activity"
androsterone dehydrogenase activity definition "Catalysis of the reaction: NAD(P)+ + androsterone = NAD(P)H + H+ + 5-alpha-androstane-3,17-dione."
biofilm matrix
http://purl.obolibrary.org/obo/GO_0062039Removed
biofilm matrix definition "A structure lying external to microbial cells. A biofilm is an aggregate of surface-associated cells, and the biofilm matrix is the envelope of polymeric substances that surrounds the cells."
database_cross_reference "PMID:27129222"
database_cross_reference "PMID:22571672"
database_cross_reference "PMID:28516088"
database_cross_reference "GOC:BHF"
Added
biofilm matrix term tracker item "https://github.com/geneontology/go-ontology/issues/22176"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)
biofilm matrix in_subset gocheck_do_not_annotate
biofilm matrix definition "A type of extracellular matrix that surrounds the cells within a microbial biofilm. The matrix is composed of extracellular polymeric substances including exopolysaccharides, proteins, nucleic acids, lipids, and other biomolecules."
database_cross_reference "PMID:27129222"
database_cross_reference "PMID:32663461"
database_cross_reference "PMID:22571672"
database_cross_reference "PMID:28516088"
cholate 7-alpha-dehydrogenase activity
http://purl.obolibrary.org/obo/GO_0008709Removed
Added
cinnamate reductase activity
http://purl.obolibrary.org/obo/GO_0043786Removed
Added
cinnamate reductase activity database_cross_reference "RHEA:50944"
cinnamate reductase activity definition "Catalysis of the reaction: 3-phenylpropanoate + NAD+ = (E)-cinnamate + NADH + H+."
database_cross_reference "RHEA:50944"
database_cross_reference "PMID:10849007"
cis-2-enoyl-CoA reductase (NADPH) activity
http://purl.obolibrary.org/obo/GO_0047774Removed
cis-2-enoyl-CoA reductase (NADPH) activity definition "Catalysis of the reaction: acyl-CoA + NADP+ = cis-2,3-dehydroacyl-CoA + NADPH."
database_cross_reference "EC:1.3.1.37"
database_cross_reference "MetaCyc:CIS-2-ENOYL-COA-REDUCTASE-NADPH-RXN"
Added
cucurbitacin delta23-reductase activity
http://purl.obolibrary.org/obo/GO_0047791Removed
cucurbitacin delta23-reductase activity database_cross_reference "EC:1.3.1.5"
cucurbitacin delta23-reductase activity label "cucurbitacin delta23-reductase activity"
cucurbitacin delta23-reductase activity definition "Catalysis of the reaction: 23,24-dihydrocucurbitacin + NAD(P)+ = cucurbitacin + NAD(P)H + H+."
database_cross_reference "EC:1.3.1.5"
database_cross_reference "MetaCyc:CUCURBITACIN-DELTA-23-REDUCTASE-RXN"
Added
cucurbitacin delta23-reductase activity definition "Catalysis of the reaction: 23,24-dihydrocucurbitacin + NAD(P)+ = cucurbitacin + NAD(P)H + H+."
cucurbitacin delta23-reductase activity database_cross_reference "RHEA:20649"
cucurbitacin delta23-reductase activity label "cucurbitacin Delta23 reductase [NAD(P)H] activity"
cucurbitacin delta23-reductase activity database_cross_reference "RHEA:20653"
cucurbitacin delta23-reductase activity database_cross_reference "EC:1.3.1.5"
cyclohexadienyl dehydrogenase activity
http://purl.obolibrary.org/obo/GO_0047794Removed
cyclohexadienyl dehydrogenase activity definition "Catalysis of the reaction: L-arogenate + NAD+ = L-tyrosine + NADH + CO2."
database_cross_reference "EC:1.3.1.43"
database_cross_reference "MetaCyc:CYCLOHEXADIENYL-DEHYDROGENASE-RXN"
Added
delta14-sterol reductase activity
http://purl.obolibrary.org/obo/GO_0050613Removed
Added
delta24(24-1) sterol reductase activity
http://purl.obolibrary.org/obo/GO_0000246Removed
Added
delta24-sterol reductase activity
http://purl.obolibrary.org/obo/GO_0050614Removed
Added
galactosaminoglycan
http://purl.obolibrary.org/obo/CHEBI_24158Removed
galactosaminoglycan biosynthetic process
http://purl.obolibrary.org/obo/GO_0006025Removed
galactosaminoglycan biosynthetic process label "galactosaminoglycan biosynthetic process"
galactosaminoglycan biosynthetic process definition "The chemical reactions and pathways resulting in the formation of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan biosynthetic process EquivalentTo biosynthetic process and (has primary output some galactosaminoglycan)
galactosaminoglycan biosynthetic process SubClassOf has primary output some galactosaminoglycan
galactosaminoglycan biosynthetic process SubClassOf galactosaminoglycan metabolic process
galactosaminoglycan biosynthetic process SubClassOf glycosaminoglycan biosynthetic process
Added
galactosaminoglycan biosynthetic process comment "This term was obsoleted because it was too broad."
galactosaminoglycan biosynthetic process term tracker item "https://github.com/geneontology/go-ontology/issues/29263"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)
galactosaminoglycan biosynthetic process label "obsolete galactosaminoglycan biosynthetic process"
galactosaminoglycan biosynthetic process definition "OBSOLETE. The chemical reactions and pathways resulting in the formation of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan biosynthetic process deprecated true
galactosaminoglycan catabolic process
http://purl.obolibrary.org/obo/GO_0006028Removed
galactosaminoglycan catabolic process definition "The chemical reactions and pathways resulting in the breakdown of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan catabolic process label "galactosaminoglycan catabolic process"
galactosaminoglycan catabolic process EquivalentTo catabolic process and (has primary input some galactosaminoglycan)
galactosaminoglycan catabolic process SubClassOf glycosaminoglycan catabolic process
galactosaminoglycan catabolic process SubClassOf has primary input some galactosaminoglycan
galactosaminoglycan catabolic process SubClassOf galactosaminoglycan metabolic process
Added
galactosaminoglycan catabolic process term tracker item "https://github.com/geneontology/go-ontology/issues/29263"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)
galactosaminoglycan catabolic process definition "OBSOLETE. The chemical reactions and pathways resulting in the breakdown of galactosaminoglycans, any of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan catabolic process comment "This term was obsoleted because it was too broad."
galactosaminoglycan catabolic process label "obsolete galactosaminoglycan catabolic process"
galactosaminoglycan catabolic process deprecated true
galactosaminoglycan metabolic process
http://purl.obolibrary.org/obo/GO_0046350Removed
galactosaminoglycan metabolic process label "galactosaminoglycan metabolic process"
galactosaminoglycan metabolic process definition "The chemical reactions and pathways involving galactosaminoglycans, any one of a group of polysaccharides that contain amino sugars derived from the galactose."
galactosaminoglycan metabolic process EquivalentTo metabolic process and (has primary input or output some galactosaminoglycan)
galactosaminoglycan metabolic process SubClassOf has primary input or output some galactosaminoglycan
galactosaminoglycan metabolic process SubClassOf glycosaminoglycan metabolic process
Added
galactosaminoglycan metabolic process term tracker item "https://github.com/geneontology/go-ontology/issues/29263"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)
galactosaminoglycan metabolic process deprecated true
galactosaminoglycan metabolic process label "obsolete galactosaminoglycan metabolic process"
galactosaminoglycan metabolic process comment "This term was obsoleted because it was too broad."
galactosaminoglycan metabolic process definition "OBSOLETE. The chemical reactions and pathways involving galactosaminoglycans, any one of a group of polysaccharides that contain amino sugars derived from the galactose."
testosterone 17-beta-dehydrogenase (NADP+) activity
http://purl.obolibrary.org/obo/GO_0047045Removed
Added
trans-2-enoyl-CoA reductase (NADH) activity
http://purl.obolibrary.org/obo/GO_0050343Removed
trans-2-enoyl-CoA reductase (NADH) activity definition "Catalysis of the reaction: acyl-CoA + NAD+ = trans-didehydroacyl-CoA + NADH."
database_cross_reference "MetaCyc:TRANS-2-ENOYL-COA-REDUCTASE-NAD+-RXN"
database_cross_reference "EC:1.3.1.44"
Added