LiteFold/GO huggingface dataset:
obsolete verbascose metabolic process (GO:0033533)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving verbascose, the pentasaccharide beta-D-fructofuranosyl alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-glucopyranoside.
Synonyms: verbascose metabolism
Comment: This term was obsoleted because it is an unnecessary grouping term.
verbascose biosynthetic process (GO:0033534)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of verbascose, the pentasaccharide beta-D-fructofuranosyl alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-glucopyranoside.
Synonyms: verbascose anabolism; verbascose biosynthesis; verbascose formation; verbascose synthesis
obsolete ajugose metabolic process (GO:0033535)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving ajugose, the hexasaccharide beta-D-fructofuranosyl alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-glucopyranoside.
Synonyms: ajugose metabolism
Comment: This term was obsoleted because it is an unnecessary grouping term.
ajugose biosynthetic process (GO:0033536)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of ajugose, the hexasaccharide beta-D-fructofuranosyl alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-glucopyranoside.
Synonyms: ajugose anabolism; ajugose biosynthesis; ajugose formation; ajugose synthesis
ajugose biosynthetic process using galactinol:raffinose galactosyltransferase (GO:0033537)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of ajugose, the hexasaccharide beta-D-fructofuranosyl alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-glucopyranoside, by a pathway in which galactinol:raffinose galactosyltransferase catalyzes chain elongation by transferring the alpha-galactosyl residue of galactinol to the oligosaccharide.
Synonyms: ajugose anabolism using galactinol:raffinose galactosyltransferase; ajugose biosynthesis using galactinol:raffinose galactosyltransferase; ajugose formation using galactinol:raffinose galactosyltransferase; ajugose synthesis using galactinol:raffinose galactosyltransferase
ajugose biosynthetic process using galactan:galactan galactosyltransferase (GO:0033538)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of ajugose, the hexasaccharide beta-D-fructofuranosyl alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-galactopyranosyl-(1->6)-alpha-D-glucopyranoside, by a pathway in which galactan:galactan galactosyltransferase catalyzes chain elongation by transferring the alpha-galactosyl residue of one raffinose-family oligosaccharide to another.
Synonyms: ajugose anabolism using galactan:galactan galactosyltransferase; ajugose biosynthesis using galactan:galactan galactosyltransferase; ajugose formation using galactan:galactan galactosyltransferase; ajugose synthesis using galactan:galactan galactosyltransferase
fatty acid beta-oxidation using acyl-CoA dehydrogenase (GO:0033539)
Namespace: biological_process
Definition: A fatty acid beta-oxidation pathway in which the initial step of each oxidation cycle, which converts an acyl-CoA to a trans-2-enoyl-CoA, is catalyzed by acyl-CoA dehydrogenase; the electrons removed by oxidation pass through the respiratory chain to oxygen and leave H2O as the product. Fatty acid beta-oxidation begins with the addition of coenzyme A to a fatty acid, and ends when only two or three carbons remain (as acetyl-CoA or propionyl-CoA respectively).
fatty acid beta-oxidation using acyl-CoA oxidase (GO:0033540)
Namespace: biological_process
Definition: A fatty acid beta-oxidation pathway in which the initial step, which converts an acyl-CoA to a trans-2-enoyl-CoA, is catalyzed by acyl-CoA oxidase; the electrons removed by oxidation pass directly to oxygen and produce hydrogen peroxide, which is cleaved by peroxisomal catalases. Fatty acid beta-oxidation begins with the addition of coenzyme A to a fatty acid, and ends when only two or three carbons remain (as acetyl-CoA or propionyl-CoA respectively).
fatty acid beta-oxidation, unsaturated, odd number (GO:0033541)
Namespace: biological_process
Definition: A fatty acid beta-oxidation pathway by which fatty acids having cis-double bonds on odd-numbered carbons are degraded. In this pathway, a cis-3-enoyl-CoA is generated by the core beta-oxidation pathway, and then converted to a trans-2-enoyl-CoA, which can return to the core beta-oxidation pathway for complete degradation. Fatty acid beta-oxidation begins with the addition of coenzyme A to a fatty acid, and ends when only two or three carbons remain (as acetyl-CoA or propionyl-CoA respectively).
fatty acid beta-oxidation, unsaturated, even number, epimerase pathway (GO:0033544)
Namespace: biological_process
Definition: A fatty acid beta-oxidation pathway by which fatty acids having cis-double bonds on even-numbered carbons are degraded. In this pathway, the intermediate 2,4-dienoyl-CoA is converted to cis-2-enoyl-CoA through one more cycle of the core beta-oxidation pathway. Cis-2-enoyl-CoA cannot be completely degraded via the core beta-oxidation pathway because hydratation of cis-2-enoyl-CoA yields D-3-hydroxyacyl-CoA, which is not a substrate for 3-hydroxylacyl-CoA dehydrogenase. Cis-2-enoyl-CoA must enter the so-called epimerase pathway, which involves converting D-3-hydroxyacyl-CoA to L-3-hydroxyacyl-CoA by 3-hydroxylacyl-CoA epimerase or by two stereo-specific enoyl-CoA hydratases. L-3-hydroxyacyl-CoA then returns to the core beta-oxidation pathway. Fatty acid beta-oxidation begins with the addition of coenzyme A to a fatty acid, and ends when only two or three carbons remain (as acetyl-CoA or propionyl-CoA respectively).
myo-inositol hexakisphosphate biosynthetic process, lipid-dependent (GO:0033545)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of 1D-myo-inositol 1,2,3,4,5,6-hexakisphosphate, phytate, by a pathway using inositol 1,4,5-trisphosphate produced from phosphatidylinositol 4,5-biphosphate hydrolysis by phospholipase C.
Synonyms: myo-inositol hexakisphosphate anabolism, lipid-dependent; myo-inositol hexakisphosphate biosynthesis, lipid-dependent; myo-inositol hexakisphosphate formation, lipid-dependent; myo-inositol hexakisphosphate synthesis, lipid-dependent; phytate biosynthesis, lipid-dependent; phytate biosynthetic process, lipid-dependent
myo-inositol hexakisphosphate biosynthetic process, via inositol 1,3,4-trisphosphate (GO:0033546)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of 1D-myo-inositol 1,2,3,4,5,6-hexakisphosphate, phytate, by a pathway using inositol 1,4,5-trisphosphate produced from phosphatidylinositol 4,5-biphosphate hydrolysis by phospholipase C; in this pathway, inositol 1,4,5-trisphosphate is first converted to inositol 1,3,4-trisphosphate, and then phosphorylated further.
Synonyms: myo-inositol hexakisphosphate anabolism, via inositol 1,3,4-trisphosphate; myo-inositol hexakisphosphate biosynthesis, via inositol 1,3,4-trisphosphate; myo-inositol hexakisphosphate formation, via inositol 1,3,4-trisphosphate; myo-inositol hexakisphosphate synthesis, via inositol 1,3,4-trisphosphate; phytate biosynthesis, via inositol 1,3,4-trisphosphate; phytate biosynthetic process, via inositol 1,3,4-trisphosphate
obsolete myo-inositol hexakisphosphate biosynthetic process, via direct phosphorylation of inositol 1,4,5-trisphosphate (GO:0033547)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of 1D myo-inositol 1,2,3,4,5,6-hexakisphosphate, phytate, by a pathway using inositol 1,4,5-trisphosphate produced from phosphatidylinositol 4,5-biphosphate hydrolysis by phospholipase C; in this pathway, inositol 1,4,5-trisphosphate is successively phosphorylated to yield inositol hexakisphosphate.
Synonyms: myo-inositol hexakisphosphate anabolism, via direct phosphorylation of inositol 1,4,5-trisphosphate; myo-inositol hexakisphosphate biosynthesis, via direct phosphorylation of inositol 1,4,5-trisphosphate; myo-inositol hexakisphosphate biosynthetic process, via direct phosphorylation of inositol 1,4,5-trisphosphate; myo-inositol hexakisphosphate formation, via direct phosphorylation of inositol 1,4,5-trisphosphate; myo-inositol hexakisphosphate synthesis, via direct phosphorylation of inositol 1,4,5-trisphosphate; phytate biosynthesis, via direct phosphorylation of inositol 1,4,5-trisphosphate; phytate biosynthetic process, via direct phosphorylation of inositol 1,4,5-trisphosphate
Comment: This term was made obsolete because its only cross-reference points to a MetaCyc entry (PWY-4541) that was deleted from the MetaCyc database.
myo-inositol hexakisphosphate biosynthetic process, lipid-independent (GO:0033548)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of phytic acid, myo-inositol hexakisphosphate, by the successively phosphorylation of myo-inositol or an inositol trisphosphate; the inositol trisphosphates that may be used by this pathway are inositol 3,4,5-trisphosphate and inositol 3,4,6trisphosphate.
Synonyms: myo-inositol hexakisphosphate anabolism, lipid-independent; myo-inositol hexakisphosphate biosynthesis, lipid-independent; myo-inositol hexakisphosphate formation, lipid-independent; myo-inositol hexakisphosphate synthesis, lipid-independent; phytate biosynthesis, lipid-independent; phytate biosynthetic process, lipid-independent
MAP kinase phosphatase activity (GO:0033549)
Namespace: molecular_function
Definition: Catalysis of the reaction: a phosphorylated MAP kinase + H2O = a MAP kinase + phosphate.
Synonyms: MAPK phosphatase activity
MAP kinase tyrosine phosphatase activity (GO:0033550)
Namespace: molecular_function
Definition: Catalysis of the reaction: MAP kinase tyrosine phosphate + H2O = MAP kinase tyrosine + phosphate.
Synonyms: tyrosine-specific MAP kinase phosphatase activity
monopolin complex (GO:0033551)
Namespace: cellular_component
Definition: A protein complex required for clamping microtubule binding sites, ensuring orientation of sister kinetochores to the same pole (mono-orientation) during meiosis I. In the yeast S. cerevisiae this complex consists of Csm1p, Lrs4p, Hrr25p and Mam1p; in S. pombe Psc1 and Mde4 have been identified as subunits.
Synonyms: monopolin subcomplex Csm1/Lrs4; Pcs1/Mde4 complex
response to vitamin B3 (GO:0033552)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a vitamin B3 stimulus.
Synonyms: response to niacin; response to nicotinamide
rDNA heterochromatin (GO:0033553)
Namespace: cellular_component
Definition: A region of heterochromatin located at the rDNA repeats in a chromosome.
Synonyms: nuclear rDNA heterochromatin; ribosomal DNA heterochromatin; ribosomal DNA heterochromatin of cell nucleus; ribosomal DNA heterochromatin of nucleus
cellular response to stress (GO:0033554)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
multicellular organismal response to stress (GO:0033555)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a multicellular organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
obsolete dolichyl pyrophosphate Man7GlcNAc2 alpha-1,3-glucosyltransferase activity (GO:0033556)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the addition of a glucose residue to the lipid-linked oligosaccharide precursor for N-linked glycosylation; the transfer of glucose from dolichyl phosphate glucose (Dol-P-Glc) on to the lipid-linked oligosaccharide Man(7)GlcNAc(2)-PP-Dol.
Synonyms: dolichyl-P-Glc:Man7GlcNAc2-PP-dolichyl glucosyltransferase activity
Comment: The reason for obsoletion is that there is no evidence that this function exists.
Slx1-Slx4 complex (GO:0033557)
Namespace: cellular_component
Definition: A heterodimeric protein complex that possesses an endonuclease activity that specifically cleaves certain types of branched DNA structures; because such structures often form during the replication ribosomal DNA (rDNA) repeats, the complex plays a role in the maintenance of rDNA. The subunits are known as Slx1 and Slx 4 in budding and fission yeasts, and are conserved in eukaryotes.
protein lysine deacetylase activity (GO:0033558)
Namespace: molecular_function
Definition: Catalysis of the reaction: Removal of an acetyl group from a lysine residue in a protein.
Synonyms: protein deacetylase activity
unsaturated fatty acid metabolic process (GO:0033559)
Namespace: biological_process
Definition: The chemical reactions and pathways involving an unsaturated fatty acid, any fatty acid containing one or more double bonds between carbon atoms.
Synonyms: unsaturated fatty acid metabolism
folate reductase activity (GO:0033560)
Namespace: molecular_function
Definition: Catalysis of the reaction: 7,8-dihydrofolate + NADP+ = folate + NADPH + H+.
obsolete regulation of water loss via skin (GO:0033561)
Namespace: biological_process
Definition: OBSOLETE. A process that modulates the rate or extent of water loss from an organism via the skin.
Synonyms: skin barrier function
Comment: This term was obsoleted because it represents a readout.
co-transcriptional gene silencing by RNA interference machinery (GO:0033562)
Namespace: biological_process
Definition: A process in which the RNAi machinery mediates the degradation of nascent transcripts in association with chromatin.
Synonyms: co-transcriptional gene silencing by small RNA; cotranscriptional gene silencing by RNA interference machinery; cotranscriptional gene silencing by small RNA; RNAi-mediated CTGS; small RNA-mediated cotranscriptional gene silencing
dorsal/ventral axon guidance (GO:0033563)
Namespace: biological_process
Definition: The process in which the migration of an axon growth cone is directed to a specific target site along the dorsal-ventral body axis in response to a combination of attractive and repulsive cues. The dorsal/ventral axis is defined by a line that runs orthogonal to both the anterior/posterior and left/right axes. The dorsal end is defined by the upper or back side of an organism. The ventral end is defined by the lower or front side of an organism.
Synonyms: dorsal-ventral axon guidance; dorsal/ventral axon pathfinding; dorsoventral axon guidance
anterior/posterior axon guidance (GO:0033564)
Namespace: biological_process
Definition: The process in which the migration of an axon growth cone is directed to a specific target site along the anterior-posterior body axis in response to a combination of attractive and repulsive cues. The anterior-posterior axis is defined by a line that runs from the head or mouth of an organism to the tail or opposite end of the organism.
Synonyms: anterior-posterior axon guidance; anterior/posterior axon pathfinding
ESCRT-0 complex (GO:0033565)
Namespace: cellular_component
Definition: A protein complex required for the recycling of Golgi proteins, formation of lumenal membranes and sorting of ubiquitinated proteins into those membranes. This complex includes Vps1p and Hse1p in yeast and the Hrs and STAM proteins in mammals.
Synonyms: Hrs/STAM complex; Vps27p-Hse1p complex
gamma-tubulin complex localization (GO:0033566)
Namespace: biological_process
Definition: Any process in which a gamma-tubulin complex is transported to, or maintained in, a specific location.
Synonyms: establishment and maintenance of gamma-tubulin complex localization; gamma-tubulin complex localisation
DNA replication, Okazaki fragment processing (GO:0033567)
Namespace: biological_process
Definition: The DNA metabolic process, occurring during lagging strand synthesis, by which RNA primers are removed from Okazaki fragments, the resulting gaps filled by DNA polymerization, and the ends ligated to form a continuous strand.
lactoferrin receptor activity (GO:0033568)
Namespace: molecular_function
Definition: Combining with lactoferrin and delivering lactoferrin into the cell via endocytosis. Lactoferrin is an iron-binding glycoprotein which binds ferric iron most efficiently at low pH.
lactoferrin transmembrane transporter activity (GO:0033569)
Namespace: molecular_function
Definition: Enables the transfer of lactoferrin from one side of a membrane to the other.
obsolete transferrin transmembrane transporter activity (GO:0033570)
Namespace: molecular_function
Definition: OBSOLETE. Enables the transfer of transferrin from one side of a membrane to the other.
Comment: This term was obsoleted because there is no evidence that this function exists.
lactoferrin transport (GO:0033571)
Namespace: biological_process
Definition: The directed movement of lactoferrin into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
transferrin transport (GO:0033572)
Namespace: biological_process
Definition: The directed movement of transferrin into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
Synonyms: melanotransferrin transport
obsolete protein glycosylation at cell surface (GO:0033575)
Namespace: biological_process
Definition: OBSOLETE. The addition of a carbohydrate or carbohydrate derivative unit to a protein amino acid at the surface of a cell.
Synonyms: protein amino acid glycosylation at cell surface
Comment: This term was obsoleted because it represented both a process and a cellular component.
obsolete protein glycosylation in cytosol (GO:0033576)
Namespace: biological_process
Definition: OBSOLETE. The addition of a carbohydrate or carbohydrate derivative unit to a protein amino acid in the cytosol.
Synonyms: protein amino acid glycosylation in cytosol
Comment: This term was obsoleted because it represented both a process and a cellular component.
obsolete protein glycosylation in endoplasmic reticulum (GO:0033577)
Namespace: biological_process
Definition: OBSOLETE. The addition of a carbohydrate or carbohydrate derivative unit to a protein amino acid in the endoplasmic reticulum.
Synonyms: core glycosylation; protein amino acid glycosylation in endoplasmic reticulum; protein amino acid glycosylation in ER
obsolete protein galactosylation in endoplasmic reticulum (GO:0033579)
Namespace: biological_process
Definition: OBSOLETE. The addition of a galactose unit to a protein amino acid in the endoplasmic reticulum.
Synonyms: protein amino acid galactosylation in endoplasmic reticulum; protein amino acid galactosylation in ER
obsolete protein galactosylation at cell surface (GO:0033580)
Namespace: biological_process
Definition: OBSOLETE. The addition of a galactose unit to a protein amino acid at the surface of a cell.
Synonyms: protein amino acid galactosylation at cell surface
Comment: This term was obsoleted because it represented both a process and a cellular component.
obsolete protein galactosylation in cytosol (GO:0033582)
Namespace: biological_process
Definition: OBSOLETE. The addition of a galactose unit to a protein amino acid in the cytosol.
Synonyms: protein amino acid galactosylation in cytosol
Comment: This term was obsoleted because it represented both a process and a cellular component.
rhabdomere membrane (GO:0033583)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding the rhabdomere.
obsolete L-tyrosine biosynthetic process from chorismate via L-arogenate (GO:0033584)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of L-tyrosine from other compounds, including chorismate, via the intermediate L-arogenate.
Synonyms: L-tyrosine anabolism from chorismate via L-arogenate; L-tyrosine formation from chorismate via L-arogenate; L-tyrosine synthesis from chorismate via L-arogenate; tyrosine biosynthetic process from chorismate via L-arogenate
Comment: The reason for obsoletion is that this term represents a GO-CAM model.
obsolete L-phenylalanine biosynthetic process from chorismate via phenylpyruvate (GO:0033585)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of L-phenylalanine from other compounds, including chorismate, via the intermediate phenylpyruvate.
Synonyms: L-phenylalanine anabolism from chorismate via phenylpyruvate; L-phenylalanine biosynthesis from chorismate via phenylpyruvate; L-phenylalanine formation from chorismate via phenylpyruvate; L-phenylalanine synthesis from chorismate via phenylpyruvate
Comment: The reason for obsoletion is that this term represents a GO-CAM model.
obsolete L-phenylalanine biosynthetic process from chorismate via L-arogenate (GO:0033586)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of L-phenylalanine from other compounds, including chorismate, via the intermediate L-arogenate.
Synonyms: L-phenylalanine anabolism from chorismate via L-arogenate; L-phenylalanine biosynthesis from chorismate via L-arogenate; L-phenylalanine formation from chorismate via L-arogenate; L-phenylalanine synthesis from chorismate via L-arogenate
Comment: The reason for obsoletion is that this term represents a GO-CAM model.
elongator holoenzyme complex (GO:0033588)
Namespace: cellular_component
Definition: A heterohexameric protein complex composed two discrete heterotrimeric subcomplexes that is involved in modification of wobble nucleosides in tRNA.
Synonyms: Elongator core complex
Comment: Despite its name, this complex is not directly involved in transcriptional elongation (PMID:23165209).
response to cobalamin (GO:0033590)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cobalamin (vitamin B12) stimulus.
Synonyms: response to vitamin B12
response to L-ascorbic acid (GO:0033591)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an L-ascorbic acid (vitamin C) stimulus.
Synonyms: response to ascorbic acid; response to L-ascorbate; response to vitamin C
RNA strand annealing activity (GO:0033592)
Namespace: molecular_function
Definition: An activity that facilitates the formation of a complementary double-stranded RNA molecule.
BRCA2-MAGE-D1 complex (GO:0033593)
Namespace: cellular_component
Definition: A heterodimeric protein complex formed of BRCA2 and MAGE-D1; may mediate the synergistic activities of the two proteins in regulating cell growth.
response to hydroxyisoflavone (GO:0033594)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hydroxyisoflavone stimulus.
response to genistein (GO:0033595)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a genistein stimulus.