LiteFold/GO huggingface dataset:
obsolete N-glycan processing to secreted and cell-surface N-glycans (GO:0016257)
Namespace: biological_process
Definition: OBSOLETE. The modification of high-mannose (Man9-Asn) N-glycans by mannosyl-oligosaccharide 1,2-alpha-mannosidase. This may result in Man8GlcNAc2-Asn N-glycans (which in yeast may be subsequently modified by the addition of further mannose residues) or Man5GlcNAc2-Asn N-glycans that are substrates for further diversification in the Golgi apparatus.
Comment: This term was obsoleted because is not clearly defined and is similar to its parent, N-glycan processing ; GO:0006491.
Golgi apparatus N-glycan diversification (GO:0016258)
Namespace: biological_process
Definition: The generation, in the Golgi apparatus, of side chain diversity from paucimannose mannose Man5GlcNAc2-Asn or Man3GlcNAc2-Asn N-glycans by specific glycosyltransferases and glycosidases.
Synonyms: N-glycan diversification
obsolete selenocysteine metabolic process (GO:0016259)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving selenocysteine, an essential component of glutathione peroxidase and some other proteins.
Synonyms: selenocysteine metabolism
Comment: This term was obsoleted because it is an unnecessary grouping term.
L-selenocysteine biosynthetic process (GO:0016260)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of L-selenocysteine, an essential component of glutathione peroxidase and some other proteins.
Synonyms: selenocysteine anabolism; selenocysteine biosynthesis; selenocysteine formation; selenocysteine synthesis
L-selenocysteine catabolic process (GO:0016261)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of selenocysteine, an essential component of glutathione peroxidase and some other proteins.
Synonyms: selenocysteine breakdown; selenocysteine catabolic process; selenocysteine catabolism; selenocysteine degradation
protein N-acetylglucosaminyltransferase activity (GO:0016262)
Namespace: molecular_function
Definition: Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + protein = UDP + 4-N-(N-acetyl-D-glucosaminyl)-protein.
Synonyms: N-GlcNAc transferase activity; protein N-GlcNAc transferase activity; UDP-N-acetyl-D-glucosamine:protein beta-N-acetyl-D-glucosaminyl-transferase activity; UDP-N-acetylglucosamine-peptide N-acetylglucosaminyltransferase activity; uridine diphospho-N-acetylglucosamine:polypeptide beta-N-acetylglucosaminyltransferase activity; uridine diphosphoacetylglucosamine-protein acetylglucosaminyltransferase activity
N-acetylgalactosaminide beta-1,3-galactosyltransferase activity (GO:0016263)
Namespace: molecular_function
Definition: Catalysis of the reaction: an N-acetyl-alpha-D-galactosaminyl derivative + UDP-alpha-D-galactose = a beta-D-galactosyl-(1->3)-N-acetyl-alpha-D-galactosaminyl derivative + UDP + H+.
Synonyms: Core 1 GalT; glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase activity; UDP-galactose:glycoprotein-N-acetyl-D-galactosamine 3-beta-D-galactosyltransferase activity; UDPgalactose:glycoprotein-N-acetyl-D-galactosamine 3-beta-D-galactosyltransferase activity; uridine diphosphogalactose-mucin beta-(1->3)-galactosyltransferase activity
gap junction assembly (GO:0016264)
Namespace: biological_process
Definition: Assembly of gap junctions, which are found in most animal tissues, and serve as direct connections between the cytoplasms of adjacent cells. They provide open channels through the plasma membrane, allowing ions and small molecules (less than approximately a thousand daltons) to diffuse freely between neighboring cells, but preventing the passage of proteins and nucleic acids.
obsolete death (GO:0016265)
Namespace: biological_process
Definition: OBSOLETE. A permanent cessation of all vital functions: the end of life; can be applied to a whole organism or to a part of an organism.
Comment: This term was made obsolete because it refers to a phenotype. When death of a cell or tissue is a result of a true biological process, this should be captured using 'programmed cell death' or one of its descendants.
protein O-linked glycosylation via N-acetyl-galactosamine (GO:0016266)
Namespace: biological_process
Definition: A glycoprotein biosynthetic process starting with the covalent linkage of an N-acetyl-galactosamine via an alpha-glycosidic bond to the oxygen atom of a serine or threonine side chain in a protein, which can be further elongated with the sequential addition of sugar units resulting in the formation of a protein O-linked glycan.
Synonyms: core O-glycan biosynthetic process; mucin-type O-glycan synthesis; O-glycan processing; protein O-linked GalNAcylation
obsolete core 2 O-glycan biosynthetic process (GO:0016268)
Namespace: biological_process
Definition: OBSOLETE. The stepwise addition of carbohydrate or carbohydrate derivative residues to the initially added O-linked residue (usually GalNAc or Core 1) to form the core 2 O-glycan structure, GlcNAc-beta-(1->6)[Gal-beta-(1->3)]-GalNAc.
Synonyms: core 2 O-glycan biosynthesis; O-glycan processing, core 2
Comment: This term was obsoleted because it represents a part of core 1 and core 2 O-glycan biosynthetic process ; GO:0016267.
obsolete core 3 and core 4 O-glycan biosynthetic process (GO:0016269)
Namespace: biological_process
Definition: OBSOLETE. The stepwise addition of carbohydrate or carbohydrate derivative residues to the initially added O-linked residue (usually GalNAc) to form the core 3 O-glycan structure, GlcNAc-beta-(1->3)-GalNAc, which ultimately forms the core 3 O-glycan structure, GlcNAc-beta-(1->6)[GalNAc-beta-(1->3)]-GalNAc.
Synonyms: core 3 O-glycan biosynthesis; O-glycan processing, core 3
Comment: This term was obsoleted because it represents a specific GalNAcylation pathway, and these are too diverse to fully represent in GO.
obsolete O-glycan processing, core 4 (GO:0016270)
Namespace: biological_process
Definition: OBSOLETE. The stepwise addition of carbohydrate or carbohydrate derivative residues to the initially added O-linked residue (usually GalNAc) to form the core 4 O-glycan structure, GlcNAc-beta-(1->6)[GalNAc-beta-(1->3)]-GalNAc.
Comment: This term was obsoleted because it represents a molecular function.
obsolete tissue death (GO:0016271)
Namespace: biological_process
Definition: OBSOLETE. A permanent cessation of all vital functions of a tissue.
Comment: This term was made obsolete because it refers to a phenotype. When death of a cell or tissue is a result of a true biological process, this should be captured using 'programmed cell death' or one of its descendants.
prefoldin complex (GO:0016272)
Namespace: cellular_component
Definition: A multisubunit chaperone that is capable of delivering unfolded proteins to cytosolic chaperonin, which it acts as a cofactor for. In humans, the complex is a heterohexamer of two PFD-alpha and four PFD-beta type subunits. In Saccharomyces cerevisiae, it also acts in the nucleus to regulate the rate of elongation by RNA polymerase II via a direct effect on histone dynamics.
Synonyms: GIM complex
protein-arginine N-methyltransferase activity (GO:0016274)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + (protein)-arginine = S-adenosyl-L-homocysteine + (protein)-N-methyl-arginine.
Synonyms: PRMT activity
obsolete [cytochrome c]-arginine N-methyltransferase activity (GO:0016275)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: S-adenosyl-L-methionine + (cytochrome c)-arginine = S-adenosyl-L-homocysteine + (cytochrome c)-N(omega)-methyl-arginine.
Synonyms: cytochrome c-arginine N-methyltransferase activity; S-adenosyl-L-methionine:cytochrome c-arginine nomega-methyltransferasea; S-adenosyl-L-methionine:cytochrome c-arginine omega-N-methyltransferasea
Comment: Specific substrate mentioned
obsolete [myelin basic protein]-arginine N-methyltransferase activity (GO:0016277)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: S-adenosyl-L-methionine + (myelin basic protein)-arginine = S-adenosyl-L-homocysteine + (myelin basic protein)-N(omega)-methyl-arginine.
Comment: This term represents an activity acting on a specific gene product (not a class). the myelin bsic protein is often used as a substrate for assaying for enzyme activity. The original EC for this entry has been depreciated and transferred to 4 other ECs.
lysine N-methyltransferase activity (GO:0016278)
Namespace: molecular_function
Definition: Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to the epsilon-amino group of a lysine residue.
protein-lysine N-methyltransferase activity (GO:0016279)
Namespace: molecular_function
Definition: Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to the epsilon-amino group of a lysine residue in a protein substrate.
Synonyms: protein (lysine) methyltransferase activity; protein lysine methylase activity
eukaryotic translation initiation factor 4F complex (GO:0016281)
Namespace: cellular_component
Definition: The eukaryotic translation initiation factor 4F complex is composed of eIF4E, eIF4A and eIF4G; it is involved in the recognition of the mRNA cap, ATP-dependent unwinding of the 5'-terminal secondary structure and recruitment of the mRNA to the ribosome.
Synonyms: cytoplasmic cap-binding complex; eIF-4F; eukaryotic translation initiation factor 4 complex
eukaryotic 43S preinitiation complex (GO:0016282)
Namespace: cellular_component
Definition: A protein complex composed of the 40S ribosomal subunit plus eIF1, eIF1A, eIF3, eIF5, and eIF2-GTP-bound methionyl-initiator methionine tRNA.
Synonyms: eukaryotic 43S pre-initiation complex
obsolete alanine aminopeptidase activity (GO:0016284)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the release of an N-terminal amino acid, preferentially alanine, from an oligopeptide or polypeptide.
Synonyms: alanine aminopeptidase activity
Comment: This term was made obsolete because it represents a gene product, and the substrate specificity it refers to is not cleanly defined.
alanyl aminopeptidase activity (GO:0016285)
Namespace: molecular_function
Definition: Catalysis of the release of an N-terminal amino acid, preferentially alanine, from a wide range of peptides, amides and arylamides.
Synonyms: aminopolypeptidase activity; arylamidase activity; cytosol alanyl aminopeptidase activity; cytosol aminopeptidase III activity; human liver aminopeptidase; liver aminopeptidase activity; membrane alanine aminopeptidase; membrane alanyl aminopeptidase; puromycin-sensitive aminopeptidase activity; soluble alanyl aminopeptidase activity; thiol-activated aminopeptidase activity
small conductance calcium-activated potassium channel activity (GO:0016286)
Namespace: molecular_function
Definition: Enables the transmembrane transfer of potassium by a channel with a unit conductance of 2 to 20 picoSiemens that opens in response to stimulus by internal calcium ions. Small conductance calcium-activated potassium channels are more sensitive to calcium than are large conductance calcium-activated potassium channels. Transport by a channel involves catalysis of facilitated diffusion of a solute (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel, without evidence for a carrier-mediated mechanism.
Synonyms: SK calcium-activated potassium channel activity; SK KCa channels; small conductance KCa channels
glycerone-phosphate O-acyltransferase activity (GO:0016287)
Namespace: molecular_function
Definition: Catalysis of the reaction: acyl-CoA + glycerone phosphate = 1-acylglycerone 3-phosphate + CoA.
Synonyms: acyl-CoA:glycerone-phosphate O-acyltransferase activity; dihydroxyacetone phosphate acyltransferase activity
acyl-CoA hydrolase activity (GO:0016289)
Namespace: molecular_function
Definition: Catalysis of the reaction: an acyl-CoA + H2O = a carboxylate + CoA + H+.
Synonyms: CoA hydrolase activity
obsolete palmitoyl-CoA hydrolase activity (GO:0016290)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: palmitoyl-CoA + H2O = CoA + palmitate.
Synonyms: fatty acyl thioesterase I; long-chain fatty-acyl-CoA hydrolase activity; palmitoyl coenzyme A hydrolase activity; palmitoyl thioesterase activity; palmitoyl-CoA deacylase activity; palmityl thioesterase activity; palmityl thioesterase I; palmityl-CoA deacylase activity
Comment: This term was obsoleted because it represents a specific substrate of long-chain fatty acyl-CoA hydrolase activity ; GO:0052816.
obsolete myristoyl-[acyl-carrier-protein] hydrolase activity (GO:0016295)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: tetradecanoyl-[ACP] + H2O = tetradecanoate + holo-[ACP] + H+.
Synonyms: myristoyl-[acyl-carrier protein] hydrolase activity; myristoyl-ACP hydrolase activity; tetradecanoyl-[acyl-carrier-protein] hydrolase activity; tetradecanoyl-ACP hydrolase activity
Comment: This term was obsoleted because it represents a specific substrate of fatty acyl-[ACP] hydrolase activity ; GO:0016297.
obsolete palmitoyl-[acyl-carrier-protein] hydrolase activity (GO:0016296)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: hexadecanoyl-[ACP] + H2O = H+ + hexadecanoate + holo-[ACP].
Synonyms: palmitoyl-[acyl-carrier protein] hydrolase activity; palmitoyl-ACP hydrolase activity
Comment: This term was obsoleted because it represents a specific substrate of fatty acyl-[ACP] hydrolase activity ; GO:0016297.
fatty acyl-[ACP] hydrolase activity (GO:0016297)
Namespace: molecular_function
Definition: Catalysis of the reaction: a fatty acyl-[ACP] + H2O = a fatty acid + H+ + holo-[acyl-carrier protein].
Synonyms: acyl-[acyl-carrier protein] hydrolase activity; acyl-[acyl-carrier-protein] hydrolase activity; acyl-ACP hydrolase activity; acyl-ACP thioesterase activity; acyl-ACP-hydrolase activity; acyl-acyl carrier protein hydrolase activity; acyl-acyl-carrier-protein hydrolase activity
lipase activity (GO:0016298)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of a lipid.
obsolete regulator of G-protein signaling activity (GO:0016299)
Namespace: molecular_function
Definition: OBSOLETE. Inhibits signal transduction the GTPase activity of G-protein alpha subunits, thereby driving them into their inactive GDP-bound form.
Synonyms: regulator of G protein signaling activity; regulator of G protein signalling activity; regulator of G-protein signaling activity; regulator of G-protein signalling activity; RGS
Comment: This term was made obsolete because it refers to a combination of a function and a process.
tRNA (uridine) methyltransferase activity (GO:0016300)
Namespace: molecular_function
Definition: Catalysis of the transfer of a methyl group from a donor to a uracil residue in a tRNA molecule.
Synonyms: tRNA (uracil) methyltransferase activity
kinase activity (GO:0016301)
Namespace: molecular_function
Definition: Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
Synonyms: phosphokinase activity
Comment: Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term.
1-phosphatidylinositol-3-kinase activity (GO:0016303)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 1-phosphatidyl-1D-myo-inositol + ATP = a 1-phosphatidyl-1D-myo-inositol 3-phosphate + ADP + H+.
Synonyms: 1-phosphatidylinositol 3-kinase activity; phosphatidylinositol 3-kinase activity, class I; phosphatidylinositol 3-kinase activity, class II; phosphatidylinositol 3-kinase activity, class III; phosphatidylinositol 3-kinase, class I, catalyst activity; PI3-kinase activity; PI3K; PtdIns-3-kinase activity; type I phosphatidylinositol kinase activity; type III phosphoinositide 3-kinase activity
obsolete phosphatidylinositol 3-kinase activity, class I (GO:0016304)
Namespace: molecular_function
Definition: OBSOLETE. A heterodimeric phosphoinositide 3-kinase which can phosphorylate phosphatidylinositol, phosphatidylinositol-4-phosphate or phosphatidylinositol-4,5-bisphosphate. Also possesses intrinsic protein kinase activity.
Synonyms: phosphatidylinositol 3-kinase activity, class I
Comment: This term was made obsolete because it represents a class of gene products.
obsolete phosphatidylinositol 3-kinase activity, class II (GO:0016305)
Namespace: molecular_function
Definition: OBSOLETE. A phosphoinositide 3-kinase which can phosphorylate phosphatidylinositol and phosphatidylinositol-4-phosphate; the human form can phosphorylate phosphatidylinositol-4,5-bisphosphate in the presence of phosphatidylserine.
Synonyms: phosphatidylinositol 3-kinase activity, class II; PI3KC2
Comment: This term was made obsolete because it represents a class of gene products.
obsolete phosphatidylinositol 3-kinase activity, class III (GO:0016306)
Namespace: molecular_function
Definition: OBSOLETE. A phosphoinositide 3-kinase which can only phosphorylate phosphatidylinositol.
Synonyms: phosphatidylinositol 3-kinase activity, class III
Comment: This term was made obsolete because it represents a class of gene products.
obsolete phosphatidylinositol phosphate kinase activity (GO:0016307)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: ATP + a phosphatidylinositol phosphate = ADP + a phosphatidylinositol bisphosphate.
Synonyms: phosphatidylinositol monophosphate kinase activity
Comment: This term was obsoleted because it is an unnecessary grouping class.
1-phosphatidylinositol-4-phosphate 5-kinase activity (GO:0016308)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 1-phosphatidyl-1D-myo-inositol 4-phosphate + ATP = a 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + ADP + H+.
Synonyms: 1-phosphatidylinositol-4-phosphate kinase activity; 1-phosphatidylinositol-4-phosphate kinase, class IA; 1-phosphatidylinositol-4-phosphate kinase, class IB; ATP:1-phosphatidyl-1D-myo-inositol-4-phosphate 5-phosphotransferase activity; diphosphoinositide kinase activity; phosphatidylinositol 4-phosphate kinase activity; phosphatidylinositol-4-phosphate 5-kinase activity; PI(4)5K; PIP kinase activity; PIP5K; PtdIns(4)P-5-kinase activity; type I PIP kinase activity
1-phosphatidylinositol-5-phosphate 4-kinase activity (GO:0016309)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 1-phosphatidyl-1D-myo-inositol 5-phosphate + ATP = a 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + ADP + H+.
Synonyms: 1-phosphatidylinositol-5-phosphate kinase; ATP:1-phosphatidyl-1D-myo-inositol-5-phosphate 4-phosphotransferase activity; PIP4K; type II PIP kinase activity
dephosphorylation (GO:0016311)
Namespace: biological_process
Definition: The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
inositol bisphosphate phosphatase activity (GO:0016312)
Namespace: molecular_function
Definition: Catalysis of the reaction: myo-inositol bisphosphate + H2O = myo-inositol phosphate + phosphate.
obsolete inositol-1,4,5-trisphosphate phosphatase (GO:0016313)
Namespace: molecular_function
Definition: OBSOLETE. The removal of one of the phosphate groups from an inositol triphosphate to produce an inositol bisphosphate.
Synonyms: inositol-1,4,5-trisphosphate phosphatase
Comment: This term was made obsolete because it is a redundant grouping term with only one child.
phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity (GO:0016314)
Namespace: molecular_function
Definition: Catalysis of the reaction: phosphatidylinositol-3,4,5-trisphosphate + H2O = phosphatidylinositol-4,5-bisphosphate + phosphate.
Synonyms: 1-phosphatidyl-1D-myo-inositol-3,4,5-trisphosphate 3-phosphohydrolase activity; MMAC1; phosphatidylinositol-3,4,5-trisphosphate 3-phosphohydrolase activity; PI(3)P 3-phosphatase activity; PI(3,4,5)P3 3-phosphatase activity; PtdIns(3,4,5)P3 3-phosphatase activity
phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity (GO:0016316)
Namespace: molecular_function
Definition: Catalysis of the reaction: 1-phosphatidyl-1D-myo-inositol 3,4-bisphosphate + H2O = 1-phosphatidyl-1D-myo-inositol 3-phosphate + phosphate.
Synonyms: 1-phosphatidyl-1D-myo-inositol-3,4-bisphosphate 4-phosphohydrolase activity; inositol polyphosphate 4-phosphatase type II activity
ommatidial rotation (GO:0016318)
Namespace: biological_process
Definition: The process in which photoreceptors are arranged in ommatidia in the dorsal and ventral fields to be mirror images. The polarity is established in the imaginal discs concurrently with cell fate specification.
mushroom body development (GO:0016319)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the mushroom body over time, from its formation to the mature structure. The mushroom body is composed of the prominent neuropil structures of the insect central brain, thought to be crucial for olfactory associated learning. These consist mainly of a bulbous calyx and tightly packaged arrays of thin parallel fibers of the Kenyon cells.
endoplasmic reticulum membrane fusion (GO:0016320)
Namespace: biological_process
Definition: The joining of 2 or more lipid bilayer membranes that surround the endoplasmic reticulum.
Synonyms: ER membrane fusion
female meiosis chromosome segregation (GO:0016321)
Namespace: biological_process
Definition: The cell cycle process in which genetic material, in the form of chromosomes, is organized and then physically separated and apportioned to two or more sets during the meiotic cell cycle in a female.
neuron remodeling (GO:0016322)
Namespace: biological_process
Definition: The developmentally regulated remodeling of neuronal projections such as pruning to eliminate the extra dendrites and axons projections set up in early stages of nervous system development.
Synonyms: axon pruning; neuron remodelling; neuronal remodeling
basolateral plasma membrane (GO:0016323)
Namespace: cellular_component
Definition: The region of the plasma membrane that includes the basal end and sides of the cell. Often used in reference to animal polarized epithelial membranes, where the basal membrane is the part attached to the extracellular matrix, or in plant cells, where the basal membrane is defined with respect to the zygotic axis.
apical plasma membrane (GO:0016324)
Namespace: cellular_component
Definition: The region of the plasma membrane located at the apical end of the cell.
oocyte microtubule cytoskeleton organization (GO:0016325)
Namespace: biological_process
Definition: Formation and maintenance of a polarized microtubule array originating from a microtubule-organizing center (MTOC) in the oocyte. An example of this is found in Drosophila melanogaster.
Synonyms: oocyte microtubule cytoskeleton organisation
obsolete kinesin motor activity (GO:0016326)
Namespace: molecular_function
Definition: OBSOLETE. The hydrolysis of ATP (and GTP) that drives the microtubular motor along microtubules.
Synonyms: kinesin motor activity
Comment: This term was made obsolete because it represents a gene product.
apicolateral plasma membrane (GO:0016327)
Namespace: cellular_component
Definition: The apical end of the lateral plasma membrane of epithelial cells.
Synonyms: apical lateral plasma membrane
lateral plasma membrane (GO:0016328)
Namespace: cellular_component
Definition: The portion of the plasma membrane at the lateral side of the cell. In epithelial cells, lateral plasma membranes are on the sides of cells which lie at the interface of adjacent cells.
obsolete apoptosis regulator activity (GO:0016329)
Namespace: molecular_function
Definition: OBSOLETE. The function held by products which directly regulate any step in the process of apoptosis.
Synonyms: apoptosis regulator activity
Comment: This term was made obsolete because it represents involvement in a biological process.