LiteFold/GO huggingface dataset:
positive regulation of transcription by transcription factor localization (GO:0061586)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of DNA-dependent transcription using a mechanism that involves the localization of a transcription factor.
obsolete tRNA locus-associated negative regulation of gene expression (GO:0061587)
Namespace: biological_process
Definition: OBSOLETE. The chromatin silencing process that results in the inhibition of RNA polymerase II-transcribed genes located in the vicinity of tRNA genes.
Synonyms: tDNA-mediated gene silencing; tgm silencing; transfer RNA gene-mediated chromatin silencing; transfer RNA gene-mediated gene silencing; transfer RNA gene-mediated silencinga; tRNA gene-mediated chromatin silencing; tRNA gene-mediated gene silencing
Comment: This term was obsoleted because there is no evidence that it is a separate process.
calcium activated phospholipid scrambling (GO:0061588)
Namespace: biological_process
Definition: The movement of a population of phospholipid molecules from one leaflet of the plasma membrane bilayer to the opposite leaflet as a result of a calcium stimulus.
calcium activated phosphatidylserine scrambling (GO:0061589)
Namespace: biological_process
Definition: The movement of a population of phosphatidylserine molecules from one leaflet of the plasma membrane bilayer to the opposite leaflet as a result of a calcium stimulus.
calcium activated phosphatidylcholine scrambling (GO:0061590)
Namespace: biological_process
Definition: The movement of a population of phosphatidylcholine molecules from one leaflet of the plasma membrane bilayer to the opposite leaflet as a result of a calcium stimulus.
calcium activated galactosylceramide scrambling (GO:0061591)
Namespace: biological_process
Definition: The movement of a population of galactosylceramide molecules from one leaflet of the plasma membrane bilayer to the opposite leaflet as a result of a calcium stimulus.
obsolete phosphatidylserine exposure on osteoblast involved in bone mineralization (GO:0061592)
Namespace: biological_process
Definition: OBSOLETE. A phospholipid scrambling process that results in the appearance of phosphatidylserine on the surface of osteoblasts, and contributes to bone mineralization.
Comment: This term was obsoleted because it is a pre-composed term that should be captured as a GO-CAM model.
sulfoquinovose isomerase activity (GO:0061593)
Namespace: molecular_function
Definition: Catalysis of the reaction: 6-sulfo-beta-D-quinovose = 6-deoxy-6-sulfo-D-fructose.
6-deoxy-6-sulfofructose kinase activity (GO:0061594)
Namespace: molecular_function
Definition: Catalysis of the reaction 6-deoxy-6-sulfofructose + ATP = 6-deoxy-6-sulfofructose-1-phosphate + ADP.
6-deoxy-6-sulfofructose-1-phosphate aldolase activity (GO:0061595)
Namespace: molecular_function
Definition: Catalysis of the reaction 6-deoxy-6-sulfofructose-1-phosphate = 3-sulfolactaldehyde + dihydroxyacetone phosphate.
3-sulfolactaldehyde reductase activity (GO:0061596)
Namespace: molecular_function
Definition: Catalysis of the reaction 2,3-dihydroxypropane-1-sulfonate + NAD+ = 3-sulfolactaldehyde + NADH + H+.
molybdenum cofactor cytidylyltransferase activity (GO:0061602)
Namespace: molecular_function
Definition: Catalysis of the reaction: Mo-molybdopterin + CTP + H+ = Mo-molybdopterin cytosine dinucleotide + diphosphate.
molybdenum cofactor guanylyltransferase activity (GO:0061603)
Namespace: molecular_function
Definition: Catalysis of the reaction GTP + molybdenum cofactor = diphosphate + guanylyl molybdenum cofactor.
molybdopterin-synthase sulfurtransferase activity (GO:0061604)
Namespace: molecular_function
Definition: Catalysis of the reaction: [Molybdopterin-synthase sulfur-carrier protein]-Gly-Gly-AMP + [cysteine desulfurase]-S-sulfanyl-L-cysteine = AMP [molybdopterin-synthase sulfur-carrier protein]-Gly-NH-CH(2)-C(O)SH + cysteine desulfurase.
molybdopterin-synthase adenylyltransferase activity (GO:0061605)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP [molybdopterin-synthase sulfur-carrier protein]-Gly-Gly = diphosphate [molybdopterin-synthase sulfur-carrier protein]-Gly-Gly-AMP.
N-terminal protein amino acid propionylation (GO:0061606)
Namespace: biological_process
Definition: The propionylation of the N-terminal amino acid of proteins.
peptide alpha-N-propionyltransferase activity (GO:0061607)
Namespace: molecular_function
Definition: Catalysis of the reaction: propionyl-CoA + peptide = CoA + N-alpha-propionylpeptide. This reaction is the propionylation of the N-terminal amino acid residue of a peptide or protein.
Synonyms: N-terminal propionyltransferase activity
nuclear import signal receptor activity (GO:0061608)
Namespace: molecular_function
Definition: Combining with a nuclear import signal (NIS) on a cargo to be transported, to mediate transport of the cargo through the nuclear pore, from the cytoplasm to the nuclear lumen. The cargo can be either a RNA or a protein.
Synonyms: importin activity
mannose to fructose-6-phosphate catabolic process (GO:0061611)
Namespace: biological_process
Definition: The chemical reactions and pathways in which mannose, the aldohexose manno-hexose, is converted to fructose-6-phosphate.
Synonyms: mannose metabolism to fructose-6-phosphate
obsolete glycolytic process from glycerol (GO:0061613)
Namespace: biological_process
Definition: OBSOLETE. The glycolytic process in which glycerol is catabolized to pyruvate generating ATP and NADH.
Comment: This term was obsoleted because it does not represent a glycolytic pathway, it describes how precursors for glycolysis are produced from glycerol.
miRNA transcription (GO:0061614)
Namespace: biological_process
Definition: The cellular synthesis of microRNA (miRNA) transcripts. MicroRNA genes are synthesized as primary (pri) miRNA transcripts and subsequently processed to produce the ~22nt miRNAs that function in gene regulation.
Synonyms: microRNA gene transcription; miRNA gene transcription; pri-miRNA transcription by RNA polymerase II; pri-miRNA transcription from RNA polymerase II promoter; primary miRNA gene transcription
glycolytic process through fructose-6-phosphate (GO:0061615)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of a monosaccharide into pyruvate, occurring through a fructose-6-phosphate intermediate, with the concomitant production of ATP and NADH.
Synonyms: glycolysis through fructose-6-phosphate
glycolytic process from fructose through fructose-6-phosphate (GO:0061616)
Namespace: biological_process
Definition: The glycolytic process through fructose-6-phosphate in which fructose is catabolized into pyruvate.
Synonyms: glycolysis from fructose through fructose-6-phosphate
MICOS complex (GO:0061617)
Namespace: cellular_component
Definition: Mitochondrial inner membrane complex involved in maintenance of crista junctions, inner membrane architecture, and formation of contact sites to the outer membrane. In Saccharomyces cerevisiae the complex has six subunits: MIC10, MIC12, MIC19, MIC26, MIC27, and MIC60.
Synonyms: Fcj1 complex; MINOS complex; mitochondrial contact site and cristae organizing system; MitOS complex
obsolete sublamina densa (GO:0061618)
Namespace: cellular_component
Definition: OBSOLETE. The part of the basement membrane that lies beneath the lamina densa, containing anchoring fibrils, anchoring plaques, collagen fibers, and elastic fibers.
Comment: This term was made obsolete because it is thought to be an experimental artefact.
glycolytic process from mannose through fructose-6-phosphate (GO:0061619)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of mannose into pyruvate, occurring through a fructose-6-phosphate intermediate, with the concomitant production of ATP and NADH.
glycolytic process through glucose-6-phosphate (GO:0061620)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, occurring through a glucose-6-phosphate intermediate, with the concomitant production of a small amount of ATP.
glycolytic process through glucose-1-phosphate (GO:0061622)
Namespace: biological_process
Definition: The chemical reactions and pathways through a glucose-1-phosphate intermediate that result in the catabolism of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP.
glycolytic process from galactose (GO:0061623)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of galactose into pyruvate, with the concomitant production of a small amount of ATP.
fructose catabolic process to hydroxyacetone phosphate and glyceraldehyde-3-phosphate (GO:0061624)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of fructose that results in the formation of dihydroxyacetone phosphate and glyceraldehyde-3-phosphate.
glycolytic process through fructose-1-phosphate (GO:0061625)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of fructose into pyruvate through a fructose-1-phosphate intermediate, with the concomitant production of ATP and NADH.
pharyngeal arch artery morphogenesis (GO:0061626)
Namespace: biological_process
Definition: The process in which the anatomical structures of a pharyngeal arch artery is generated and organized. The pharyngeal arch arteries are a series of six paired embryological vascular structures, the development of which give rise to several major arteries, such as the stapedial artery, the middle meningeal artery, the internal carotid artery and the pulmonary artery.
Synonyms: aortic arch artery morphogenesis
S-methylmethionine-homocysteine S-methyltransferase activity (GO:0061627)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-methyl-L-methionine + L-homocysteine = 2 L-methionine + H+.
Synonyms: homocysteine methyltransferase activity; homocysteine transmethylase activity; methylmethionine:homocysteine methyltransferase activity; S-methylmethionine homocysteine transmethylase activity
histone H3K27me3 reader activity (GO:0061628)
Namespace: molecular_function
Definition: A histone reader that recognizes a histone H3 trimethylated at lysine 27.
Synonyms: H3K27me3 modified histone binding; histone H3-K27me3 modified histone binding
Comment: Comment: Note that the residue position corresponds to the canonical human H3 histone (UniProtKB:P84243); this residue is conserved across all eukaryotes. Residue 1 is the first residue following removal of the initiating Methionine (Met). Note that each histone is encoded by multiple genes, and sequences may vary across different genes within an organism.
RNA polymerase II-specific DNA-binding transcription factor binding (GO:0061629)
Namespace: molecular_function
Definition: Binding to a sequence-specific DNA binding RNA polymerase II transcription factor, any of the factors that interact selectively and non-covalently with a specific DNA sequence in order to modulate transcription.
Synonyms: RNA polymerase II activating transcription factor binding; RNA polymerase II repressing transcription factor binding; RNA polymerase II sequence-specific DNA binding transcription factor binding; RNA polymerase II sequence-specific DNA-binding transcription factor binding; RNA polymerase II transcription factor binding
ubiquitin conjugating enzyme activity (GO:0061631)
Namespace: molecular_function
Definition: Isoenergetic transfer of ubiquitin from one protein to another via the reaction X-ubiquitin + Y = Y-ubiquitin + X, where both the X-ubiquitin and Y-ubiquitin linkages are thioester bonds between the C-terminal glycine of ubiquitin and a sulfhydryl side group of a cysteine residue.
Synonyms: E2; HECT E3
RNA lariat debranching enzyme activator activity (GO:0061632)
Namespace: molecular_function
Definition: Binds to and increases the activity of an RNA lariat debranching enzyme.
transport-coupled glycolytic process through glucose-6-phosphate (GO:0061633)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of glucose into pyruvate, in which the glucose is converted to glucose-6-phosphate intermediate coupled to transmembrane transport.
alpha-D-xyloside xylohydrolase activity (GO:0061634)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of terminal, non-reducing alpha-D-xylose residues with release of alpha-D-xylose.
Synonyms: alpha-xylosidase
regulation of protein complex stability (GO:0061635)
Namespace: biological_process
Definition: Any process that affects the structure and integrity of a protein complex by altering the likelihood of its assembly or disassembly.
CENP-A containing chromatin (GO:0061638)
Namespace: cellular_component
Definition: The specialized chromatin located in the centromeric core region or the entire centromeric region in organisms with point centromeres, which is enriched for CENP-A-containing nucleosomes. This chromatin forms a 3-dimensional structure which provides a platform for kinetochore assembly and microtubule attachment.
Synonyms: centromeric core domain chromatin; centromeric core region chromatin; chromatin containing CENP-A; nuclear CENP-A containing chromatin
cytoskeleton-dependent cytokinesis (GO:0061640)
Namespace: biological_process
Definition: A cytokinesis that involves the function of a set of proteins that are part of the microfilament or microtubule cytoskeleton.
chemoattraction of axon (GO:0061642)
Namespace: biological_process
Definition: The process in which a neuron growth cone is directed to a specific target site in response to an attractive chemical signal.
chemorepulsion of axon (GO:0061643)
Namespace: biological_process
Definition: The process in which a neuron growth cone is directed to a specific target site in response to a repulsive chemical cue.
endocytic patch (GO:0061645)
Namespace: cellular_component
Definition: The part of the cell cortex consisting of an aggregation of proteins that will give rise to an endocytic vesicle.
positive regulation of glutamate neurotransmitter secretion in response to membrane depolarization (GO:0061646)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of glutamate secretion in response to membrane depolarization, where glutamate acts as a neurotransmitter.
obsolete histone H3-K9 modification (GO:0061647)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H3 at a lysine in position 9 of the histone.
Comment: This term was obsoleted because it represents a molecular function.
ubiquitin-modified histone reader activity (GO:0061649)
Namespace: molecular_function
Definition: A histone reader that recognizes a histone bearing a ubiquinated lysine residue.
Synonyms: ubiquitin modification-dependent histone binding; ubiquitinated histone binding
ubiquitin-like protein conjugating enzyme activity (GO:0061650)
Namespace: molecular_function
Definition: Isoenergetic transfer of a ubiquitin-like protein (ULP) from one protein to another molecule, usually another protein, via the reaction X-SCP + Y = Y-SCP + X, where both the X-SCP and Y-SCP linkages are thioester bonds between the C-terminal amino acid of SCP and a sulfhydryl side group of a cysteine residue.
Synonyms: E2; small conjugating protein conjugating enzyme activity
Atg12 conjugating enzyme activity (GO:0061651)
Namespace: molecular_function
Definition: Isoenergetic transfer of Atg12 from one protein to another via the reaction X-Atg12 + Y = Y-Atg12 + X, where both the X-Atg12 and Y-Atg12 linkages are thioester bonds between the C-terminal amino acid of Atg12 and a sulfhydryl side group of a cysteine residue.
Synonyms: E2
FAT10 conjugating enzyme activity (GO:0061652)
Namespace: molecular_function
Definition: Isoenergetic transfer of FAT10 from one protein to another via the reaction X-FAT10 + Y = Y-FAT10 + X, where both the X-FAT10 and Y-FAT10 linkages are thioester bonds between the C-terminal amino acid of FAT10 and a sulfhydryl side group of a cysteine residue.
Synonyms: E2
ISG15 conjugating enzyme activity (GO:0061653)
Namespace: molecular_function
Definition: Isoenergetic transfer of ISG15 from one protein to another via the reaction X-ISG15 + Y = Y-ISG15 + X, where both the X-ISG15 and Y-ISG15 linkages are thioester bonds between the C-terminal amino acid of ISG15 and a sulfhydryl side group of a cysteine residue.
Synonyms: E2
NEDD8 conjugating enzyme activity (GO:0061654)
Namespace: molecular_function
Definition: Isoenergetic transfer of NEDD8 from one protein to another via the reaction X-NEDD8 + Y = Y-NEDD8 + X, where both the X-NEDD8 and Y-NEDD8 linkages are thioester bonds between the C-terminal amino acid of NEDD8 and a sulfhydryl side group of a cysteine residue.
Synonyms: E2
Pup conjugating enzyme activity (GO:0061655)
Namespace: molecular_function
Definition: Isoenergetic transfer of Pup from one protein to another via the reaction X-Pup + Y = Y-Pup + X, where both the X-Pup and Y-Pup linkages are thioester bonds between the C-terminal amino acid of Pup and a sulfhydryl side group of a cysteine residue.
Synonyms: E2
SUMO conjugating enzyme activity (GO:0061656)
Namespace: molecular_function
Definition: Isoenergetic transfer of SUMO from one protein to another via the reaction X-SUMO + Y = Y-SUMO + X, where both the X-SUMO and Y-SUMO linkages are thioester bonds between the C-terminal amino acid of SUMO and a sulfhydryl side group of a cysteine residue.
Synonyms: E2
UFM1 conjugating enzyme activity (GO:0061657)
Namespace: molecular_function
Definition: Isoenergetic transfer of UFM1 from one protein to another via the reaction X-UFM1 + Y = Y-UFM1 + X, where both the X-UFM1 and Y-UFM1 linkages are thioester bonds between the C-terminal amino acid of UFM1 and a sulfhydryl side group of a cysteine residue.
Synonyms: E2
URM1 conjugating enzyme activity (GO:0061658)
Namespace: molecular_function
Definition: Isoenergetic transfer of URM1 from one protein to another via the reaction X-URM1 + Y = Y-URM1 + X, where both the X-URM1 and Y-URM1 linkages are thioester bonds between the C-terminal amino acid of URM1 and a sulfhydryl side group of a cysteine residue.
Synonyms: E2
ubiquitin-like protein ligase activity (GO:0061659)
Namespace: molecular_function
Definition: Catalysis of the transfer of a ubiquitin-like protein (ULP) to a substrate protein via the reaction X-ULP + S = X + S-ULP, where X is either an E2 or E3 enzyme, the X-ULP linkage is a thioester bond, and the S-ULP linkage is an isopeptide bond between the C-terminal glycine of ULP and the epsilon-amino group of lysine residues in the substrate.
Synonyms: E3; small conjugating protein ligase activity
Atg12 ligase activity (GO:0061660)
Namespace: molecular_function
Definition: Catalysis of the transfer of Atg12 to a substrate protein via the reaction X-Atg12 + S = X + S-Atg12, where X is either an E2 or E3 enzyme, the X-Atg12 linkage is a thioester bond, and the S-Atg12 linkage is an isopeptide bond between the C-terminal amino acid of Atg12 and the epsilon-amino group of lysine residues in the substrate.
Synonyms: E3
FAT10 ligase activity (GO:0061661)
Namespace: molecular_function
Definition: Catalysis of the transfer of FAT10 to a substrate protein via the reaction X-FAT10 + S = X + S-FAT10, where X is either an E2 or E3 enzyme, the X-FAT10 linkage is a thioester bond, and the S-FAT10 linkage is an isopeptide bond between the C-terminal glycine of FAT10 and the epsilon-amino group of lysine residues in the substrate.
Synonyms: E3
ISG15 ligase activity (GO:0061662)
Namespace: molecular_function
Definition: Catalysis of the transfer of a ISG15 to a substrate protein via the reaction X-ISG15 + S = X + S-ISG15, where X is either an E2 or E3 enzyme, the X-ISG15 linkage is a thioester bond, and the S-ISG15 linkage is an isopeptide bond between the C-terminal amino acid of ISG15 and the epsilon-amino group of lysine residues in the substrate.
Synonyms: E3
NEDD8 ligase activity (GO:0061663)
Namespace: molecular_function
Definition: Catalysis of the transfer of NEDD8 to a substrate protein via the reaction X-NEDD8 + S = X + S-NEDD8, where X is either an E2 or E3 enzyme, the X-NEDD8 linkage is a thioester bond, and the S-NEDD8 linkage is an isopeptide bond between the C-terminal amino acid of NEDD8 and the epsilon-amino group of lysine residues in the substrate.
Synonyms: E3
Pup ligase activity (GO:0061664)
Namespace: molecular_function
Definition: Catalysis of the transfer of Pup to a substrate protein via the reaction X-Pup + S = X + S-Pup, where X is either an E2 or E3 enzyme, the X-Pup linkage is a thioester bond, and the S-Pup linkage is an isopeptide bond between the C-terminal amino acid of Pup and the epsilon-amino group of lysine residues in the substrate.
Synonyms: E3
SUMO ligase activity (GO:0061665)
Namespace: molecular_function
Definition: Catalysis of the transfer of SUMO to a substrate protein via the reaction X-SUMO + S = X + S-SUMO, where X is either an E2 or E3 enzyme, the X-SUMO linkage is a thioester bond, and the S-SUMO linkage is an isopeptide bond between the C-terminal amino acid of SUMO and the epsilon-amino group of lysine residues in the substrate.
Synonyms: E3
URM1 ligase activity (GO:0061667)
Namespace: molecular_function
Definition: Catalysis of the transfer of URM1 to a substrate protein via the reaction X-URM1 + S = X + S-URM1, where X is either an E2 or E3 enzyme, the X-URM1 linkage is a thioester bond, and the S-URM1 linkage is an isopeptide bond between the C-terminal amino acid of URM1 and the epsilon-amino group of lysine residues in the substrate.
Synonyms: E3
mitochondrial ribosome assembly (GO:0061668)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of the mitochondrial ribosome and of its subunits.
spontaneous neurotransmitter secretion (GO:0061669)
Namespace: biological_process
Definition: Neurotransmitter secretion that occurs in the absence of the action of a secretagogue or a presynaptic action potential.
Synonyms: stimulus-independent neurotransmitter secretion
evoked neurotransmitter secretion (GO:0061670)
Namespace: biological_process
Definition: Neurotransmitter secretion that occurs in the presence of the action of a secretagogue or a presynaptic action potential.
Synonyms: stimulus-dependant neurotransmitter secretion
Cbp3p-Cbp6 complex (GO:0061671)
Namespace: cellular_component
Definition: A protein complex located at the mitochondrial ribosome tunnel exit that is involved in efficient translation and protein complex assembly.
glutathione hydrolase complex (GO:0061672)
Namespace: cellular_component
Definition: Enzyme complex that in S. cerevisiae has components Dug2/Dug3 and is able to catalyze the cleavage of glutathione into glutamate and Cys-Gly.
Synonyms: gamma-glutamyltranspeptidase complex; glutamine amidotransferase II complex; glutathionase complex
mitotic spindle astral microtubule (GO:0061673)
Namespace: cellular_component
Definition: Any of the mitotic spindle microtubules that radiate in all directions from the spindle poles and are thought to contribute to the forces that separate the poles and position them in relation to the rest of the cell.
gap filling involved in double-strand break repair via nonhomologous end joining (GO:0061674)
Namespace: biological_process
Definition: Repair of the gaps in the DNA helix using a discontinuous template during double-strand break repair via nonhomologous end joining.
importin-alpha family protein binding (GO:0061676)
Namespace: molecular_function
Definition: Binding to a member of the importin-alpha family.
2-dehydro-3-deoxy-D-gluconate aldolase activity (GO:0061677)
Namespace: molecular_function
Definition: Catalysis of the reaction: 2-dehydro-3-deoxy-D-gluconate = pyruvate + D-glyceraldehyde.
Synonyms: 2-keto-3-deoxygluconate aldolase activity; KDG aldolase activity
Entner-Doudoroff pathway (GO:0061678)
Namespace: biological_process
Definition: A cellular carbohydrate catabolic process that converts a carbohydrate to pyruvate and either glyceraldehyde or glyceraldehyde-3 phosphate by dehydration and aldol cleavage via a gluconate or 6-phosphogluconate intermediate.