LiteFold/GO huggingface dataset:
UTP:galactose-1-phosphate uridylyltransferase activity (GO:0017103)
Namespace: molecular_function
Definition: Catalysis of the reaction: alpha-D-galactose 1-phosphate + UTP = diphosphate + UDP-D-galactose.
Synonyms: alpha-D-galactose 1-phosphate uridylyltransferase activity; Gal-1-P uridylyltransferase activity; galactose 1-phosphate uridyltransferase activity; galactose 1-phosphate uridylyltransferase activity; galactose-1-phosphate uridylyltransferase activity; UDPgalactose pyrophosphorylase activity; uridine diphosphate galactose pyrophosphorylase activity; uridine diphosphogalactose pyrophosphorylase activity; UTP-hexose-1-phosphate uridylyltransferase activity; UTP:alpha-D-hexose-1-phosphate uridylyltransferase activity; UTP:hexose-1-phosphate uridylyltransferase activity
acyl-CoA 11-(Z)-desaturase activity (GO:0017105)
Namespace: molecular_function
Definition: Catalysis of the reaction: an 11,12-saturated fatty acyl-CoA + 2 Fe(II)-[cytochrome b5] + 2 H+ + O2 = an (11Z)-delta-11-fatty acyl-CoA + 2 Fe(III)-[cytochrome b5] + 2 H2O.
Synonyms: acyl-CoA D11-desaturase activity; acyl-CoA delta(11)-desaturase activity; acyl-CoA delta11-(Z)-desaturase activity; acyl-CoA delta11-desaturase activity; delta(11) desaturase; delta(11)-fatty-acid desaturase; delta(11)-palmitoyl-CoA desaturase; fatty acid delta(11)-desaturase; myristoyl-CoA 11-(Z) desaturase activity; Z/E11-desaturase
obsolete activin inhibitor activity (GO:0017106)
Namespace: molecular_function
Definition: OBSOLETE. Acts to negatively regulate the activity of activin, a nonsteroidal regulator synthesized in the pituitary gland and gonads that stimulates the secretion of follicle-stimulating hormone.
Synonyms: activin inhibitor activity
Comment: This term was made obsolete because it refers to an obsolete molecular function term, 'activin'.
obsolete anion exchanger adaptor activity (GO:0017107)
Namespace: molecular_function
Definition: OBSOLETE. The binding activity of a molecule that brings together an anion exchanger and one or more other molecules, permitting them to function in a coordinated way.
Comment: The term was made obsolete because it referred to an interaction of an anion transporter with the AP1 adaptor by which it is probably transported, see: PMID:22744004; PMID:20833140; ie the adaptor does not specifically target an anion adaptor.
5'-flap endonuclease activity (GO:0017108)
Namespace: molecular_function
Definition: Catalysis of the cleavage of a 5' flap structure in DNA, but not other DNA structures; processes the 5' ends of Okazaki fragments in lagging strand DNA synthesis.
Synonyms: 5' flap endonuclease activity
glutamate-cysteine ligase complex (GO:0017109)
Namespace: cellular_component
Definition: An enzyme complex that catalyzes the ligation of glutamate to cysteine, forming glutamylcysteine.
Synonyms: gamma-glutamylcysteine synthetase complex
nucleoside diphosphate phosphatase activity (GO:0017110)
Namespace: molecular_function
Definition: Catalysis of the reaction: a nucleoside diphosphate + H2O = a nucleoside monophosphate + phosphate.
Synonyms: apyrase activity; inosine 5'-diphosphatase; inosine diphosphatase; NDPase activity; nucleoside 5'-diphosphatase activity; nucleoside diphosphatase activity; nucleoside diphosphate phosphohydrolase activity; nucleoside-diphosphatase activity; nucleoside-diphosphate phosphohydrolase activity; type B nucleoside diphosphatase; type L nucleoside diphosphatase
ribonucleoside triphosphate phosphatase activity (GO:0017111)
Namespace: molecular_function
Definition: Catalysis of the reaction: a ribonucleoside triphosphate + H2O = a ribonucleoside diphosphate + H+ + phosphate.
Synonyms: apyrase activity; NTPase activity; nucleoside 5-triphosphatase activity; nucleoside triphosphatase activity; nucleoside triphosphate hydrolase activity; nucleoside triphosphate phosphatase activity; nucleoside triphosphate phosphohydrolase activity; nucleoside-5-triphosphate phosphohydrolase activity; nucleoside-triphosphatase activity
dihydropyrimidine dehydrogenase (NADP+) activity (GO:0017113)
Namespace: molecular_function
Definition: Catalysis of the reaction: 5,6-dihydrouracil + NADP+ = uracil + NADPH + H+.
Synonyms: 4,5-dihydrothymine: oxidoreductase activity; 5,6-dihydrouracil:NADP+ 5-oxidoreductase activity; dehydrogenase, dihydrouracil (nicotinamide adenine dinucleotide phosphate); DHPDH; DHU dehydrogenase activity; dihydropyrimidine dehydrogenase activity; dihydrothymine dehydrogenase activity; dihydrouracil dehydrogenase (NADP); dihydrouracil dehydrogenase (NADP+) activity; DPD; hydropyrimidine dehydrogenase activity
single-stranded DNA-dependent ATP-dependent DNA helicase complex (GO:0017117)
Namespace: cellular_component
Definition: A protein complex that possesses single-stranded DNA-dependent DNA helicase activity.
Synonyms: ssDNA-dependent ATP-dependent DNA helicase complex
lipoyltransferase activity (GO:0017118)
Namespace: molecular_function
Definition: Catalysis of the reaction: (R)-lipoyl-5'-AMP + L-lysyl-[lipoyl-carrier protein] = (R)-N6-lipoyl-L-lysyl-[lipoyl-carrier protein] + AMP + 2 H+.
COG complex (GO:0017119)
Namespace: cellular_component
Definition: A multisubunit tethering complex of the CATCHR family (complexes associated with tethering containing helical rods) that has a role in tethering vesicles to the Golgi prior to fusion. Composed of 8 subunits COG1-8.
Synonyms: conserved oligomeric Golgi complex; Golgi transport complex; Sec34/35 complex
obsolete polyphosphatidylinositol phosphatase activity (GO:0017120)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the conversion of phosphatidylinositol-3-phosphate, phosphatidylinositol-4-phosphate, and phosphatidylinositol-3,5-bisphosphate, but not PI-4,5-bisphosphate, to phosphatidylinositol; PPIPase activity is a key regulator of membrane trafficking and actin cytoskeleton organization.
Synonyms: polyphosphatidylinositol phosphatase activity; polyphosphoinositide phosphatase activity
Comment: This term was made obsolete because it represents a gene product.
plasma membrane phospholipid scrambling (GO:0017121)
Namespace: biological_process
Definition: The movement of a population of phospholipid molecules from one leaflet of the plasma membrane bilayer to the opposite leaflet, resulting in loss of lipid asymmetry and surface exposure of phosphatidylserine (PS) and phosphatidylethanolamine (PE).
Synonyms: phospholipid scrambling; PL scrambling
Comment: Note that this term describes the trans-bilayer motion of a population of phospholipid molecules, and should not be confused with 'phospholipid translocation ; GO:0045332'.
protein N-acetylglucosaminyltransferase complex (GO:0017122)
Namespace: cellular_component
Definition: A protein complex capable of protein N-acetylglucosaminyltransferase activity, the addition of nucleotide-activated sugars onto the polypeptide according to reaction: UDP-N-acetyl-D-glucosamine + protein = UDP + 4-N-(N-acetyl-D-glucosaminyl)-protein. The complex has different compositions in different species: In mammals it is often a homotrimer, in bacteria a heterotetramer of 2 different subunits.
Synonyms: O-GlcNAc transferase complex; UDP-N-acetylglucosamine-peptide N-acetylglucosaminyltransferase
deoxycytidyl transferase activity (GO:0017125)
Namespace: molecular_function
Definition: Catalysis of the insertion of a dCMP residue opposite a template abasic site in DNA.
Synonyms: deoxycytidyl transferase activity, template-dependent
nucleologenesis (GO:0017126)
Namespace: biological_process
Definition: A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a nucleolus, a small, dense body one or more of which are present in the nucleus of eukaryotic cells.
Synonyms: nucleolus assembly; nucleolus biogenesis
phospholipid scramblase activity (GO:0017128)
Namespace: molecular_function
Definition: Catalysis of the movement of phospholipids from one membrane bilayer leaflet to the other, by an ATP-independent mechanism.
Comment: Nomenclature note. Scramblases are ATP-independent, non-selective, translocases inducing non-specific transbilayer movements across the membrane. Flippases and floppases are ATP-dependent transbilayer lipid translocators. According to an extensively used, though not universal, nomenclature, they catalyze lipid transfer towards the inward monolayer (flippases) or towards the outward monolayer (floppases).
triglyceride binding (GO:0017129)
Namespace: molecular_function
Definition: Binding to a triester of glycerol.
Synonyms: triacylglycerol binding
poly(C) RNA binding (GO:0017130)
Namespace: molecular_function
Definition: Binding to a sequence of cytosine residues in an RNA molecule.
Synonyms: poly(C) binding; poly(rC) binding
uridine-rich cytoplasmic polyadenylylation element binding (GO:0017131)
Namespace: molecular_function
Definition: Binding to a U-rich sequence in the 3'-end of nuclear-transcribed mRNAs; required for cytoplasmic polyadenylylation.
Synonyms: U-rich CPE binding; uridine-rich cytoplasmic polyadenylation element binding
fibroblast growth factor binding (GO:0017134)
Namespace: molecular_function
Definition: Binding to a fibroblast growth factor.
Synonyms: FGF 1 binding; FGF 2 binding; FGF 3 binding; FGF 4 binding; FGF 5 binding; FGF 6 binding; FGF binding; fibroblast growth factor 1 binding; fibroblast growth factor 2 binding; fibroblast growth factor 3 binding; fibroblast growth factor 4 binding; fibroblast growth factor 5 binding; fibroblast growth factor 6 binding
obsolete membrane-associated protein with guanylate kinase activity interacting (GO:0017135)
Namespace: molecular_function
Definition: OBSOLETE. The interaction with synapse-associated membrane-associated protein with guanylate kinase activity.
Synonyms: membrane-associated protein with guanylate kinase activity interacting
Comment: This term was made obsolete because it does not represent a molecular function and the term name appears to make no sense.
histone deacetylase activity, NAD-dependent (GO:0017136)
Namespace: molecular_function
Definition: Catalysis of the reaction: N(6)-acetyl-L-lysyl-[histone] + NAD+ + H2O = L-lysyl-[protein] + 2''-O-acetyl-ADP-D-ribose + nicotinamide. This reaction transfers an acetyl group from a histone to NAD, producing nicotinamide.
Synonyms: histone deacetylase activity; NAD-dependent histone deacetylase activity; NAD-dependent histone lysine deacetylase activity; SIR2; sirtuin
Comment: Histone deacytylase (HDAC) enzymes are divided into four classes: the Class I Rpd3-like proteins (in human: HDAC1, HDAC2, HDAC3, and HDAC8); the Class II Hda1-like proteins (in human: HDAC4, HDAC5, HDAC6, HDAC7, HDAC9, and HDAC10); the Class III Sir2-like proteins (in human: SIRT1, SIRT2, SIRT3, SIRT4, SIRT5, SIRT6, and SIRT7); and the Class IV protein (HDAC11 in human). Except for Class III enzymes, the mechanism is a metal-dependent hydrolysis of the acetylated substrate. The Class III HDACs use NAD+ as a reactant to deacetylate acetyl lysine residues of protein substrates forming nicotinamide, the deacetylated product, and the metabolite 2'-O-acetyl-ADP-ribose. Therefore, Class III are classified as transferases (EC:2) and others are hydrolases (EC:3).
obsolete arsenate sensitivity/resistance (GO:0017139)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: arsenate sensitivity/resistance
Comment: This term was made obsolete because 'sensitivity/resistance' implies a phenotype rather than a biological process.
obsolete toxin susceptibility/resistance (GO:0017142)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: toxin susceptibility/resistance
Comment: This term was made obsolete because 'susceptibility/resistance' implies a phenotype rather than a biological process.
insecticide metabolic process (GO:0017143)
Namespace: biological_process
Definition: The chemical reactions and pathways involving insecticides, chemicals used to kill insects.
Synonyms: insecticide metabolism
stem cell division (GO:0017145)
Namespace: biological_process
Definition: The self-renewing division of a stem cell. A stem cell is an undifferentiated cell, in the embryo or adult, that can undergo unlimited division and give rise to one or several different cell types.
Synonyms: stem cell renewal
NMDA selective glutamate receptor complex (GO:0017146)
Namespace: cellular_component
Definition: An assembly of four or five subunits which form a structure with an extracellular N-terminus and a large loop that together form the ligand binding domain. The C-terminus is intracellular. The ionotropic glutamate receptor complex itself acts as a ligand gated ion channel; on binding glutamate, charged ions pass through a channel in the center of the receptor complex. NMDA receptors are composed of assemblies of NR1 subunits (Figure 3) and NR2 subunits, which can be one of four separate gene products (NR2A-D). Expression of both subunits are required to form functional channels. The glutamate binding domain is formed at the junction of NR1 and NR2 subunits. NMDA receptors are permeable to calcium ions as well as being permeable to other ions. Thus NMDA receptor activation leads to a calcium influx into the post-synaptic cells, a signal thought to be crucial for the induction of NMDA-receptor dependent LTP and LTD.
Synonyms: N-methyl-D-aspartate selective glutamate receptor complex; NMDA-selective glutamate receptor
Wnt-protein binding (GO:0017147)
Namespace: molecular_function
Definition: Binding to a Wnt-protein, a secreted growth factor involved in signaling.
negative regulation of translation (GO:0017148)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
Synonyms: down regulation of protein biosynthetic process; down-regulation of protein biosynthetic process; downregulation of protein biosynthetic process; inhibition of protein biosynthetic process; negative regulation of protein anabolism; negative regulation of protein biosynthesis; negative regulation of protein biosynthetic process; negative regulation of protein formation; negative regulation of protein synthesis; protein biosynthesis inhibitor activity; protein biosynthetic process inhibitor activity
obsolete protein biosynthetic process inhibitor activity (GO:0017149)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: protein anabolism inhibitor activity; protein biosynthetic process inhibitor activity; protein formation inhibitor activity; protein synthesis inhibitor activity
Comment: This term was made obsolete because it represents involvement in a biological process.
tRNA dihydrouridine synthase activity (GO:0017150)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 5,6-dihydrouridine in tRNA + NAD(P)+ = a uridine in tRNA + H+ + NAD(P)H.
DEAD/H-box RNA helicase binding (GO:0017151)
Namespace: molecular_function
Definition: Binding to a DEAD/H-box RNA helicase.
sodium:dicarboxylate symporter activity (GO:0017153)
Namespace: molecular_function
Definition: Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: dicarboxylate(out) + Na+(out) = dicarboxylate(in) + Na+(in).
Synonyms: sodium:dicarboxylate cotransporter activity
semaphorin receptor activity (GO:0017154)
Namespace: molecular_function
Definition: Combining with a semaphorin, and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity.
obsolete sodium:hydrogen antiporter regulator activity (GO:0017155)
Namespace: molecular_function
Definition: OBSOLETE. This term was not defined before being made obsolete.
Synonyms: sodium:hydrogen antiporter regulator activity; sodium:proton antiporter regulator
Comment: This term was made obsolete because it represents a biological process.
calcium-ion regulated exocytosis (GO:0017156)
Namespace: biological_process
Definition: The release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle by fusion of the vesicle with the plasma membrane of a cell, induced by a rise in cytosolic calcium-ion levels.
Synonyms: calcium ion-dependent exocytosis
Comment: Note that the calcium regulated exocytosis pathway can be leaky: some level of exocytosis via this pathway occurs spontaneously. This phenomenon underlies spontaneous neurotransmitter release from presynapses. This phenomenon is distinct from the unregulated, calcium independent exocytosis pathway.
regulation of exocytosis (GO:0017157)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of exocytosis.
regulation of calcium ion-dependent exocytosis (GO:0017158)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of calcium ion-dependent exocytosis.
pantetheine hydrolase activity (GO:0017159)
Namespace: molecular_function
Definition: Catalysis of the reaction: (R)-pantetheine + H2O = (R)-pantothenate + cysteamine.
Synonyms: (R)-pantetheine amidohydrolase activity; pantetheinase activity; vanin; vanin-1
inositol-1,3,4-trisphosphate 4-phosphatase activity (GO:0017161)
Namespace: molecular_function
Definition: Catalysis of the reaction: D-myo-inositol 1,3,4-trisphosphate + H2O = myo-inositol 1,3-bisphosphate + phosphate.
obsolete basal transcription repressor activity (GO:0017163)
Namespace: molecular_function
Definition: OBSOLETE. Any transcription regulator activity that prevents or downregulates basal transcription. Basal transcription results from transcription that is controlled by the minimal complement of proteins necessary to reconstitute transcription from a minimal promoter.
Synonyms: basal transcription repressor 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. Please be aware that you may wish to request a new term if the mechanism of action of your repressor is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. 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 nicotinic acetylcholine receptor-associated protein activity (GO:0017164)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: nicotinic acetylcholine receptor-associated protein activity
Comment: This term was made obsolete because it represents a gene product and not a molecular function.
obsolete dipeptidase E activity (GO:0017165)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the hydrolysis of dipeptides Asp-Xaa; does not act on peptides with N-terminal Glu, Asn or Gln, nor does it cleave isoaspartyl peptides.
Synonyms: alpha-aspartyl dipeptidase activity; aspartyl dipeptidase activity; dipeptidase E activity; PepE gene product (Salmonella typhimurium) activity; peptidase E activity
Comment: This term was made obsolete because it represents a gene product.
5-oxoprolinase (ATP-hydrolyzing) activity (GO:0017168)
Namespace: molecular_function
Definition: Catalysis of the reaction: 5-oxo-L-proline + ATP + 2 H2O = L-glutamate + ADP + 2 H+ + phosphate.
Synonyms: 5-OPase activity; 5-oxo-L-prolinase activity; 5-oxo-L-proline amidohydrolase (ATP-hydrolysing); 5-oxoprolinase (ATP-hydrolysing); 5-oxoprolinase activity; L-pyroglutamate hydrolase activity; oxoprolinase activity; pyroglutamase (ATP-hydrolysing); pyroglutamase (ATP-hydrolyzing) activity; pyroglutamase activity; pyroglutamate hydrolase activity; pyroglutamic hydrolase activity
CDP-alcohol phosphatidyltransferase activity (GO:0017169)
Namespace: molecular_function
Definition: Catalysis of the reaction: CDP + alcohol = CMP + phosphatidyl alcohol.
obsolete KU70 binding (GO:0017170)
Namespace: molecular_function
Definition: OBSOLETE. Binding to Ku70, a protein involved in non-homologous DNA end joining.
Synonyms: KU70 binding
Comment: This term was made obsolete because it represents binding to an individual protein.
serine hydrolase activity (GO:0017171)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of a substrate by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
glycine N-methyltransferase activity (GO:0017174)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + glycine = S-adenosyl-L-homocysteine + sarcosine.
Synonyms: glycine methyltransferase activity; GNMT; S-adenosyl-L-methionine:glycine methyltransferase activity; S-adenosyl-L-methionine:glycine N-methyltransferase activity
obsolete IMP-GMP specific 5'-nucleotidase activity (GO:0017175)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the conversion of 5'-ribonucleotides to ribonucleosides and phosphate, with specificity for IMP or GMP 5'-ribonucleotides and H2O as a nucleophile.
Synonyms: IMP-GMP specific 5'-nucleotidase activity
Comment: This term was made obsolete because it represents a gene product with two different activities.
phosphatidylinositol N-acetylglucosaminyltransferase activity (GO:0017176)
Namespace: molecular_function
Definition: Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + phosphatidylinositol = UDP + N-acetyl-D-glucosaminylphosphatidylinositol.
Synonyms: UDP-N-acetyl-D-glucosamine:1-phosphatidyl-1D-myo-inositol 6-(N-acetyl-alpha-D-glucosaminyl)transferase activity; UDP-N-acetyl-D-glucosamine:phosphatidylinositol N-acetyl-D-glucosaminyltransferase activity; uridine diphosphoacetylglucosamine alpha-1,6-acetyl-D-glucosaminyltransferase activity; uridine diphosphoacetylglucosamine alpha1,6-acetyl-D-glucosaminyltransferase activity
glucosidase II complex (GO:0017177)
Namespace: cellular_component
Definition: A heterodimeric complex that catalyzes the trimming of glucose residues from N-linked core glycans on newly synthesized glycoproteins.
Synonyms: alpha-glucosidase II complex
Comment: Note that alpha-glucosidase I functions as a monomer, and therefore does not have a corresponding cellular component term.
diphthine-ammonia ligase activity (GO:0017178)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + diphthine + NH4 = ADP + diphthamide + H+ + phosphate.
Synonyms: diphthamide synthase activity; diphthamide synthetase activity; diphthine:ammonia ligase (ADP-forming)
obsolete peptidyl-diphthine metabolic process (GO:0017179)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving peptidyl-diphthine, a modified histidine residue.
Synonyms: peptidyl-diphthine metabolism
Comment: This term was obsoleted because it is an unnecessary grouping term.