LiteFold/GO huggingface dataset:
antifreeze activity (GO:0016172)
Namespace: molecular_function
Definition: Inhibits the growth and recrystallization of ice crystals, thereby lowering the freezing point of water and preventing cellular damage at subzero temperatures. This activity is observed in various cold-adapted organisms, including certain fish, insects, and plants, and contributes to survival in extreme cold environments by stabilizing supercooled liquid states.
Comment: Note that this term was reinstated from obsolete.
obsolete ice nucleation inhibitor activity (GO:0016173)
Namespace: molecular_function
Definition: OBSOLETE. Inhibits the formation of ice crystals.
Synonyms: ice nucleation inhibitor activity
Comment: This term was made obsolete because it refers to a biological process.
NAD(P)H oxidase H2O2-forming activity (GO:0016174)
Namespace: molecular_function
Definition: Catalysis of the reaction: NAD(P)H + H+ + O2 = NAD(P)+ + H2O2.
Synonyms: dual oxidase activity; NAD(P)H oxidase activity; NAD(P)H:oxygen oxidoreductase activity; NADPH oxidase; p138tox; ThOX activity; THOX2 activity; thyroid NADPH oxidase activity; thyroid oxidase 2 activity; thyroid oxidase activity
superoxide-generating NAD(P)H oxidase activity (GO:0016175)
Namespace: molecular_function
Definition: Catalysis of the reaction: NAD(P)H + O2 = NAD(P)H + O2-.
Synonyms: cytochrome B-245
superoxide-generating NADPH oxidase activator activity (GO:0016176)
Namespace: molecular_function
Definition: Binds to and increases the activity of the enzyme superoxide-generating NADPH oxidase.
Synonyms: neutrophil cytosol factor 2
synaptic vesicle budding from endosome (GO:0016182)
Namespace: biological_process
Definition: Budding of synaptic vesicles during the formation of constitutive recycling vesicles from early endosomes.
Synonyms: endosome to synaptic vesicle budding; synaptic vesicle budding involved in synaptic vesicle exocytosis
synaptic vesicle coating (GO:0016183)
Namespace: biological_process
Definition: The formation of clathrin coated pits in the presynaptic membrane endocytic zone, triggered by the presence of high concentrations of synaptic vesicle components. This process leads to, but does not include budding of the membrane to form new vesicles.
obsolete synaptic vesicle retrieval (GO:0016184)
Namespace: biological_process
Definition: OBSOLETE. Return of a vesicle from the postsynaptic membrane to presynaptic membrane.
Synonyms: synaptic vesicle retrieval
Comment: This term was made obsolete because it was wrongly defined.
synaptic vesicle budding from presynaptic endocytic zone membrane (GO:0016185)
Namespace: biological_process
Definition: Evagination of the presynaptic membrane, resulting in the formation of a new synaptic vesicle.
Synonyms: synaptic vesicle budding from pre-synaptic membrane; synaptic vesicle budding involved in synaptic vesicle endocytosis
obsolete synaptic vesicle fission (GO:0016186)
Namespace: biological_process
Definition: OBSOLETE. Separation of a synaptic vesicle from the presynaptic membrane.
Synonyms: synaptic vesicle fission
Comment: This term was made obsolete because it was wrongly defined.
obsolete synaptic vesicle internalization (GO:0016187)
Namespace: biological_process
Definition: OBSOLETE. Internalization of the contents of a synaptic vesicle into the postsynaptic membrane following endocytosis.
Synonyms: synaptic vesicle internalization
Comment: This term was made obsolete because it was wrongly defined.
synaptic vesicle maturation (GO:0016188)
Namespace: biological_process
Definition: Steps required to form an initiated synaptic vesicle into a fully formed and transmissible synaptic vesicle.
synaptic vesicle to endosome fusion (GO:0016189)
Namespace: biological_process
Definition: Fusion of a synaptic vesicle with an endosome.
Comment: This covers fusion of synaptic vesicles trafficked to the synapse as well as fusion of endocytosed vesicles as part of recycling. It is there for not part of the synaptic vesicle cycle.
synaptic vesicle uncoating (GO:0016191)
Namespace: biological_process
Definition: The removal of the protein coat on a synaptic vesicle following the pinching step at the end of budding from the presynaptic membrane.
Synonyms: synaptic vesicle coat depolymerization; synaptic vesicle coat protein depolymerization
vesicle-mediated transport (GO:0016192)
Namespace: biological_process
Definition: A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.
Synonyms: nonselective vesicle transport; protein sorting along secretory pathway; vesicle trafficking; vesicle transport; vesicular transport
endosomal transport (GO:0016197)
Namespace: biological_process
Definition: The directed movement of substances mediated by an endosome, a membrane-bounded organelle that carries materials enclosed in the lumen or located in the endosomal membrane.
Synonyms: endosome localisation; endosome localization; endosome transport
axon choice point recognition (GO:0016198)
Namespace: biological_process
Definition: The recognition of molecules at a choice point by an axon growth cone; at a choice point the growth cone determines the direction of its future growth.
axon midline choice point recognition (GO:0016199)
Namespace: biological_process
Definition: The recognition of molecules at the central nervous system midline choice point by an axon growth cone; this choice point determines whether the growth cone will cross the midline.
synaptic target attraction (GO:0016200)
Namespace: biological_process
Definition: The process in which a neuronal cell in a multicellular organism recognizes chemoattractant signals from, and grows towards, potential targets.
synaptic target inhibition (GO:0016201)
Namespace: biological_process
Definition: The process in which a neuronal cell in a multicellular organism recognizes chemorepellent signals that inhibit its growth toward the source.
regulation of striated muscle tissue development (GO:0016202)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of striated muscle development.
muscle attachment (GO:0016203)
Namespace: biological_process
Definition: The developmental process in which a skeletal muscle attaches to its target (such as bone or body wall).
determination of muscle attachment site (GO:0016204)
Namespace: biological_process
Definition: The process that mediates the transfer of information from the cells of a muscle to those of its intended target, thereby identifying the target site.
selenocysteine methyltransferase activity (GO:0016205)
Namespace: molecular_function
Definition: Catalysis of the reaction: selenocysteine + S-adenosyl-L-methionine = Se-methylselenocysteine + S-adenosyl-homocysteine.
catechol O-methyltransferase activity (GO:0016206)
Namespace: molecular_function
Definition: Catalysis of the reaction: a catechol + S-adenosyl-L-methionine = a guaiacol + H+ + S-adenosyl-L-homocysteine. Acts on catechols and on catecholamines such as adrenaline or noradrenaline.
Synonyms: catechol methyltransferase activity; catecholamine O-methyltransferase activity; COMT I; COMT II; MB-COMT (membrane-bound form of catechol-O-methyltransferase); S-adenosyl-L-methionine:catechol O-methyltransferase activity; S-COMT (soluble form of catechol-O-methyltransferase)
4-coumarate-CoA ligase activity (GO:0016207)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + 4-coumarate + CoA = AMP + diphosphate + 4-coumaroyl-CoA.
Synonyms: 4-coumarate-CoA synthetase activity; 4-coumarate:CoA ligase (AMP-forming); 4-coumarate:CoA ligase activity; 4-coumarate:coenzyme A ligase activity; 4-coumaroyl-CoA synthase activity; 4-coumaroyl-CoA synthetase activity; 4-coumaryl-CoA synthetase activity; 4CL; caffeolyl coenzyme A synthetase activity; feruloyl CoA ligase activity; feruloyl coenzyme A synthetase activity; hydroxycinnamate:CoA ligase activity; hydroxycinnamoyl CoA synthetase activity; p-coumaroyl CoA ligase activity; p-coumaryl coenzyme A synthetase activity; p-coumaryl-CoA ligase activity; p-coumaryl-CoA synthetase activity; p-hydroxycinnamic acid:CoA ligase activity; p-hydroxycinnamoyl coenzyme A synthetase activity; sinapoyl coenzyme A synthetase activity
AMP binding (GO:0016208)
Namespace: molecular_function
Definition: Binding to AMP, adenosine monophosphate.
antioxidant activity (GO:0016209)
Namespace: molecular_function
Definition: Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage.
naringenin-chalcone synthase activity (GO:0016210)
Namespace: molecular_function
Definition: Catalysis of the reaction: 3 malonyl-CoA + 4-coumaroyl-CoA = 4 CoA + naringenin chalcone + 3 CO2.
Synonyms: DOCS; malonyl-CoA:4-coumaroyl-CoA malonyltransferase (cyclizing)
ammonia ligase activity (GO:0016211)
Namespace: molecular_function
Definition: Catalysis of the ligation of ammonia (NH4+) to another substance via a carbon-nitrogen bond with concomitant breakage of a diphosphate linkage, usually in a nucleoside triphosphate.
L-kynurenine:2-oxoglutarate transaminase activity (GO:0016212)
Namespace: molecular_function
Definition: Catalysis of the reaction: 2-oxoglutarate + L-kynurenine = H2O + kynurenate + L-glutamate. The product 4-(2-aminophenyl)-2,4-dioxobutanoate is converted into kynurenate by a spontaneous reaction. Also acts on 3-hydroxykynurenine to form xanthurenate.
Synonyms: kynurenine 2-oxoglutarate transaminase activity; kynurenine aminotransferase activity; kynurenine transaminase (cyclizing); kynurenine--oxoglutarate aminotransferase activity; kynurenine-oxoglutarate aminotransferase activity; kynurenine-oxoglutarate transaminase activity; L-kynurenine aminotransferase activity; L-kynurenine:2-oxoglutarate aminotransferase activity
acyl-CoA 6-desaturase activity (GO:0016213)
Namespace: molecular_function
Definition: Catalysis of the introduction of a cis double bond at carbon 6 of acyl-CoAs, introducing a new double bond between a pre-existing double bond and the carboxyl-end of the fatty acid. Specific reactions include: (9Z,12Z)-octadecadienoyl-CoA + 2 Fe(II)-[cytochrome b5] + 2 H+ + O2 = (6Z,9Z,12Z)-octadecatrienoyl-CoA + 2 Fe(III)-[cytochrome b5] + 2 H2O; and (9Z,12Z,15Z)-octadecatrienoyl-CoA + 2 Fe(II)-[cytochrome b5] + O2 + 2 H+ = (6Z,9Z,12Z,15Z)-octadecatetraenoyl-CoA + 2 Fe(III)-[cytochrome b5] + 2 H2O.
Synonyms: delta(6)-acyl CoA desaturase activity; delta(6)-desaturase activity; delta(6)-fatty acyl-CoA desaturase activity; delta6-acyl CoA desaturase activity; delta6-desaturase activity; delta6-fatty acyl-CoA desaturase activity; fatty acid 6-desaturase activity; fatty acid delta(6)-desaturase activity; fatty acid delta6-desaturase activity; linoleate desaturase activity; linoleic acid desaturase activity; linoleic desaturase activity; linoleoyl CoA desaturase activity; linoleoyl-CoA desaturase activity; linoleoyl-coenzyme A desaturase activity; long-chain fatty acid delta(6)-desaturase activity; long-chain fatty acid delta6-desaturase activity
acyl-CoA desaturase activity (GO:0016215)
Namespace: molecular_function
Definition: Catalysis of the reaction: acyl-CoA + reduced acceptor + O2 = desaturated-acyl-CoA + acceptor + 2 H2O.
Synonyms: CoA desaturase activity
isopenicillin-N synthase activity (GO:0016216)
Namespace: molecular_function
Definition: Catalysis of the reaction: N-[(5S)-5-amino-5-carboxypentanoyl]-L-cysteinyl-D-valine + O2 = 2 H2O + isopenicillin N.
Synonyms: isopenicillin N synthase activity; isopenicillin-N synthetase activity; N-[(5S)-5-amino-5-carboxypentanoyl]-L-cysteinyl-D-valine:oxygen oxidoreductase (cyclizing)
obsolete N-ethylammeline chlorohydrolase activity (GO:0016217)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: deethylsimazine + H2O = N-ethylammeline + chloride + H+.
Comment: This term was obsoleted because it represents a specific substrate.
polyketide synthase activity (GO:0016218)
Namespace: molecular_function
Definition: Catalysis of a multistep reaction that produce polyketides through decarboxylative condensation of carboxylic acids. The key chain-building reaction, a C-N bond-forming reaction, involves the generation of the characteristic peptide bond by nucleophilic attack of the amino group of an amino-acyl donor unit covalently bound to a downstream peptidyl carrier protein module (amino acyl-S-PCP) on the acyl group of an upstream electrophilic acyl- or peptidyl acyl-S-PCP chain, catalyzed by a condensation (C) domain. Supplementing these core chain-elongation domains are variable numbers of auxiliary domains that are responsible for modification of the growing polypeptide chain by a small set of iterated reactions including epimerization, N-methylation, and heterocyclization.
Synonyms: PKS activity
procollagen-proline 4-dioxygenase complex (GO:0016222)
Namespace: cellular_component
Definition: A protein complex that catalyzes the formation of procollagen trans-4-hydroxy-L-proline and succinate from procollagen L-proline and 2-oxoglutarate, requiring Fe2+ and ascorbate. Contains two alpha subunits that contribute to most parts of the catalytic sites, and two beta subunits that are identical to protein-disulfide isomerase.
Synonyms: procollagen-proline, 2-oxoglutarate-4-dioxygenase complex; prolyl 4-hydroxylase complex
iron-sulfur cluster assembly (GO:0016226)
Namespace: biological_process
Definition: The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.
Synonyms: iron-sulfur cluster biosynthesis; iron-sulphur cluster assembly
sphingomyelin phosphodiesterase activator activity (GO:0016230)
Namespace: molecular_function
Definition: Binds to and increases the activity of the enzyme sphingomyelin phosphodiesterase.
Synonyms: neutral sphingomyelinase activator
HNK-1 sulfotransferase activity (GO:0016232)
Namespace: molecular_function
Definition: Catalysis of the synthesis of the HKK-1 carbohydrate epitope; adds a sulfate group to a precursor, GlcA-beta-(1->3)-Gal-beta-(1->4)-GlcNAc-beta-(1->R), forming sulfo-3GlcA-beta-(1->3)-Gal-beta-(1->4)-GlcNAc-beta-(1->R).
Synonyms: HNK-1 sulphotransferase activity
telomere capping (GO:0016233)
Namespace: biological_process
Definition: A process in which telomeres are protected from degradation and fusion, thereby ensuring chromosome stability by protecting the ends from both degradation and from being recognized as damaged DNA. May be mediated by specific single- or double-stranded telomeric DNA binding proteins.
Synonyms: telomere end protection
inclusion body (GO:0016234)
Namespace: cellular_component
Definition: A discrete intracellular part formed of aggregated molecules such as proteins or other biopolymers.
Synonyms: cellular inclusion; neuronal cytoplasmic inclusion
aggresome (GO:0016235)
Namespace: cellular_component
Definition: An inclusion body formed by dynein-dependent retrograde transport of an aggregated protein on microtubules.
macroautophagy (GO:0016236)
Namespace: biological_process
Definition: The autophagic process that proceeds via the formation of an autophagosome.
Synonyms: autophagy; selective autophagy
microautophagy (GO:0016237)
Namespace: biological_process
Definition: A type of autophagy where cytosolic components are ingested by late endosomes, lysosomes or yeast-type lytic vacuoles by direct invagination of the compartment membrane without prior sequestration into an autophagosome. The engulfing membranes fuse, resulting in the lysosomal delivery of the cargo wrapped in a single membrane derived from the invaginated lysosomal membrane.
Synonyms: lysosomal microautophagy
positive regulation of macroautophagy (GO:0016239)
Namespace: biological_process
Definition: Any process, such as recognition of nutrient depletion, that activates or increases the rate of macroautophagy to bring cytosolic macromolecules to the vacuole/lysosome for degradation.
Synonyms: activation of macroautophagy; positive regulation of starvation-induced autophagy; stimulation of macroautophagy; up regulation of macroautophagy; up-regulation of macroautophagy; upregulation of macroautophagy
autophagosome membrane docking (GO:0016240)
Namespace: biological_process
Definition: The initial attachment of an autophagosome membrane to a target membrane, mediated by proteins protruding from the membrane of the vesicle and the target membrane. Docking requires only that the two membranes come close enough for these proteins to interact and adhere.
Synonyms: autophagic vacuole docking
regulation of macroautophagy (GO:0016241)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of macroautophagy.
Synonyms: regulation of starvation-induced autophagy
negative regulation of macroautophagy (GO:0016242)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of macroautophagy.
Synonyms: down regulation of macroautophagy; down-regulation of macroautophagy; downregulation of macroautophagy; inhibition of macroautophagy; negative regulation of starvation-induced autophagy
regulation of autophagosome size (GO:0016243)
Namespace: biological_process
Definition: Any process that modulates the size of the autophagosome.
Synonyms: regulation of autophagic vacuole size
channel regulator activity (GO:0016247)
Namespace: molecular_function
Definition: Binds to and modulates the activity of a channel. A channel catalyzes energy-independent facilitated diffusion, mediated by passage of a solute through a transmembrane aqueous pore or channel.
channel inhibitor activity (GO:0016248)
Namespace: molecular_function
Definition: Binds to and stops, prevents, or reduces the activity of a channel.
N-sulfoglucosamine sulfohydrolase activity (GO:0016250)
Namespace: molecular_function
Definition: Catalysis of the reaction: N-sulfo-D-glucosamine + H2O = D-glucosamine + sulfate.
Synonyms: 2-desoxy-D-glucoside-2-sulphamate sulphohydrolase (sulphamate sulphohydrolase); heparin sulfamidase activity; N-sulfo-D-glucosamine sulfohydrolase activity; N-sulphoglucosamine sulphohydrolase activity; sulfoglucosamine sulfamidase activity; sulphamidase activity
RNA polymerase II general transcription initiation factor activity (GO:0016251)
Namespace: molecular_function
Definition: A general transcription initiation factor activity that contributes to transcription start site selection and transcription initiation of genes transcribed by RNA polymerase II. The general transcription factors for RNA polymerase II include TFIIB, TFIID, TFIIE, TFIIF, TFIIH and TATA-binding protein (TBP). In most species, RNA polymerase II transcribes all messenger RNAs (mRNAs), most untranslated regulatory RNAs, the majority of the snoRNAs, four of the five snRNAs (U1, U2, U4, and U5), and other small noncoding RNAs. For some small RNAs there is variability between species as to whether it is transcribed by RNA polymerase II or RNA polymerase III. However there are also rare exceptions, such as Trypanosoma brucei, where RNA polymerase I transcribes certain mRNAs in addition to its normal role in rRNA transcription.
Synonyms: basal RNA polymerase II transcription factor activity; general RNA polymerase II transcription factor activity; GTF2 activity; RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity; RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly; sequence-specific core promoter binding RNA polymerase II transcription factor activity involved in preinitiation complex assembly; transcription factor activity, RNA polymerase II core promoter sequence-specific binding involved in preinitiation complex assembly; transcription factor activity, RNA polymerase II core promoter sequence-specific DNA binding
Comment: General transcription factors assemble with the RNA polymerase at promoter DNA to form the pre-initiation complex (PIC), bind to and open promoter DNA, initiate RNA synthesis and stimulate the escape of the polymerase from the promoter. Not all subunits of the general transcription factor are necessarily present in all promoters to initiate transcription. The distinction between general transcription factors and DNA-binding transcription factors is that the latter modulate the selection of which genes are expressed under specific conditions, while general transcription factors belong to the constitutive machinery required for transcription to occur.
obsolete nonspecific RNA polymerase II transcription factor activity (GO:0016252)
Namespace: molecular_function
Definition: OBSOLETE. Any function that supports transcription of genes by RNA polymerase II, and is not specific to a particular gene or gene set.
Synonyms: nonspecific RNA polymerase II transcription factor activity
Comment: This term was obsoleted because "general/nonspecific/basal" transcription vs "specific" transcription were determined not to be separable, distinct process. Thus, terms trying to distinguish "general/nonspecific/basal" transcription from "specific" transcription were removed from both the Molecular Function and the Biological Process ontologies. In addition, this Molecular Function term was defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this "MF" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function.
obsolete preassembly of GPI anchor in ER membrane (GO:0016254)
Namespace: biological_process
Definition: OBSOLETE. The stepwise addition of the components of the GPI anchor on to phosphatidylinositol lipids in the endoplasmic reticulum membrane.
Synonyms: preassembly of GPI anchor in endoplasmic reticulum membrane
Comment: The reason for obsoletion is that the data from the paper for which the term was requested can be accurately described using the parent term GPI anchor biosynthetic process GO:0006506
attachment of GPI anchor to protein (GO:0016255)
Namespace: biological_process
Definition: A transamidation reaction that results in the cleavage of the polypeptide chain and the concomitant transfer of the GPI anchor to the newly formed carboxy-terminal amino acid of the anchored protein. The cleaved C-terminal contains the C-terminal GPI signal sequence of the newly synthesized polypeptide chain.
N-glycan processing to lysosome (GO:0016256)
Namespace: biological_process
Definition: The modification of high-mannose N-glycans by UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase and the subsequent removal of the N-acetylglucosamine residues yielding mannose-6-P that occurs in the ER-Golgi apparatus to N-glycans destined for the lysosome.