LiteFold/GO huggingface dataset:
embryonic skeletal limb joint morphogenesis (GO:0036023)
Namespace: biological_process
Definition: The process, occurring in the embryo, in which the anatomical structures of a skeletal limb joint are generated and organized. A skeletal limb joint is the connecting structure between the bones of a limb.
protein C inhibitor-TMPRSS11E complex (GO:0036025)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and transmembrane protease serine 11E (TMPRSS11E); formation of the complex inhibits the serine protease activity of transmembrane protease serine 11E.
Synonyms: PCI-TMPRSS11E complex; plasma serine protease inhibitor-TMPRSS11E complex; protein C inhibitor-transmembrane protease serine 11E complex; serpin A5-TMPRSS11E complex; SERPINA5-TMPRSS11E complex
protein C inhibitor-PLAT complex (GO:0036026)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and tissue-type plasminogen activator (PLAT); formation of the complex inhibits the serine protease activity of tissue-type plasminogen activator.
Synonyms: PCI-PLAT complex; plasma serine protease inhibitor-PLAT complex; protein C inhibitor-tissue-type plasminogen activator complex; protein C inhibitor-tPA complex; serpin A5-PLAT complex; SERPINA5-PLAT complex
protein C inhibitor-thrombin complex (GO:0036028)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and thrombin (F2); formation of the complex inhibits the serine protease activity of thrombin.
Synonyms: PCI-thrombin complex; plasma serine protease inhibitor-thrombin complex; protein C inhibitor-coagulation factor II complex; protein C inhibitor-F2 complex; serpin A5-thrombin complex; SERPINA5-thrombin complex
protein C inhibitor-KLK3 complex (GO:0036029)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and prostate-specific antigen (KLK3); formation of the complex inhibits the serine protease activity of prostate-specific antigen.
Synonyms: PCI-KLK3 complex; plasma serine protease inhibitor-KLK3 complex; protein C inhibitor-kallikrein-3 complex; protein C inhibitor-prostate-specific antigen complex; serpin A5-KLK3 complex; SERPINA5-KLK3 complex
protein C inhibitor-plasma kallikrein complex (GO:0036030)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and plasma kallikrein (KLK1B); formation of the complex inhibits the serine protease activity of plasma kallikrein.
Synonyms: PCI-plasma kallikrein complex; plasma serine protease inhibitor-plasma kallikrein complex; protein C inhibitor-KLKB1 complex; serpin A5-plasma kallikrein complex; SERPINA5-plasma kallikrein complex
obsolete recruitment of mRNA capping enzyme to RNA polymerase II holoenzyme complex (GO:0036031)
Namespace: biological_process
Definition: OBSOLETE. The process in which the guanylyltransferase enzyme responsible for adding a 7-methylguanosine cap on pre-mRNA becomes associated with the RNA polymerase II holoenzyme complex and the 5' end of a transcript.
Synonyms: capping enzyme targeting to RNA polymerase II; recruitment of guanylyltransferase to RNA polymerase II holoenzyme complex
Comment: The reason for obsoletion is that this term represents a molecular function.
neural crest cell delamination (GO:0036032)
Namespace: biological_process
Definition: The negative regulation of cell adhesion process in which a neural crest cell physically separates from the rest of the neural tube.
Synonyms: neural crest cell emigration; neural crest cell individualization; neural crest cell segregation
mediator complex binding (GO:0036033)
Namespace: molecular_function
Definition: Binding to a mediator complex. The mediator complex is a protein complex that interacts with the carboxy-terminal domain of the largest subunit of RNA polymerase II and plays an active role in transducing the signal from a transcription factor to the transcriptional machinery. The Saccharomyces complex contains several identifiable subcomplexes: a head domain comprising Srb2, -4, and -5, Med6, -8, and -11, and Rox3 proteins; a middle domain comprising Med1, -4, and -7, Nut1 and -2, Cse2, Rgr1, Soh1, and Srb7 proteins; a tail consisting of Gal11p, Med2p, Pgd1p, and Sin4p; and a regulatory subcomplex comprising Ssn2, -3, and -8, and Srb8 proteins. Metazoan mediator complexes have similar modular structures and include homologs of yeast Srb and Med proteins.
mediator complex assembly (GO:0036034)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a mediator complex. The mediator complex is a protein complex that interacts with the carboxy-terminal domain of the largest subunit of RNA polymerase II and plays an active role in transducing the signal from a transcription factor to the transcriptional machinery. The Saccharomyces complex contains several identifiable subcomplexes: a head domain comprising Srb2, -4, and -5, Med6, -8, and -11, and Rox3 proteins; a middle domain comprising Med1, -4, and -7, Nut1 and -2, Cse2, Rgr1, Soh1, and Srb7 proteins; a tail consisting of Gal11p, Med2p, Pgd1p, and Sin4p; and a regulatory subcomplex comprising Ssn2, -3, and -8, and Srb8 proteins. Metazoan mediator complexes have similar modular structures and include homologs of yeast Srb and Med proteins.
osteoclast development (GO:0036035)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of a osteoclast from its formation to the mature structure. Cell development does not include the steps involved in committing a cell to a specific fate. An osteoclast is a specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue.
Synonyms: osteoclast cell development
cardiac neural crest cell delamination (GO:0036036)
Namespace: biological_process
Definition: The negative regulation of cell adhesion process in which a cardiac neural crest cell physically separates from the rest of the neural tube.
CD8-positive, alpha-beta T cell activation (GO:0036037)
Namespace: biological_process
Definition: The change in morphology and behavior of a CD8-positive, alpha-beta T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific.
obsolete curcumin metabolic process (GO:0036039)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving the polyphenol, curcumin.
Synonyms: (1E,6E)-1,7-bis(4-hydroxy-3-methoxyphenyl)hepta-1,6-diene-3,5-dione metabolic process; (1E,6E)-1,7-bis(4-hydroxy-3-methoxyphenyl)hepta-1,6-diene-3,5-dione metabolism; curcumin metabolism; diferuloylmethane metabolic process; diferuloylmethane metabolism; turmeric yellow metabolic process; turmeric yellow metabolism
Comment: This term was obsoleted because it is an unnecessary grouping term.
curcumin catabolic process (GO:0036040)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of the polyphenol, curcumin.
Synonyms: (1E,6E)-1,7-bis(4-hydroxy-3-methoxyphenyl)hepta-1,6-diene-3,5-dione breakdown; (1E,6E)-1,7-bis(4-hydroxy-3-methoxyphenyl)hepta-1,6-diene-3,5-dione catabolic process; (1E,6E)-1,7-bis(4-hydroxy-3-methoxyphenyl)hepta-1,6-diene-3,5-dione catabolism; (1E,6E)-1,7-bis(4-hydroxy-3-methoxyphenyl)hepta-1,6-diene-3,5-dione degradation; curcumin breakdown; curcumin catabolism; curcumin degradation; diferuloylmethane breakdown; diferuloylmethane catabolic process; diferuloylmethane catabolism; diferuloylmethane degradation; turmeric yellow breakdown; turmeric yellow catabolic process; turmeric yellow catabolism; turmeric yellow degradation
long-chain fatty acid binding (GO:0036041)
Namespace: molecular_function
Definition: Binding to a long-chain fatty acid. A long-chain fatty acid has an aliphatic tail containing 13 to 22 carbons.
Synonyms: long chain fatty acid binding
Comment: While there is not universal consensus on the lengths of short-, medium-, long- and very-long-chain fatty acids, the GO uses the definitions in ChEBI (see CHEBI:26666, CHEBI:59554, CHEBI:15904 and CHEBI:27283).
long-chain fatty acyl-CoA binding (GO:0036042)
Namespace: molecular_function
Definition: Binding to a long-chain fatty acyl-CoA, any derivative of coenzyme A in which the sulfhydryl group is in a thioester linkage with a long-chain fatty-acyl group. A long-chain fatty acid has an aliphatic tail containing 13 to 22 carbons.
Synonyms: long-chain fatty acyl-coenyme A binding
Comment: While there is not universal consensus on the lengths of short-, medium-, long- and very-long-chain fatty acids, the GO uses the definitions in ChEBI (see CHEBI:26666, CHEBI:59554, CHEBI:15904 and CHEBI:27283).
obsolete microspike (GO:0036043)
Namespace: cellular_component
Definition: OBSOLETE. A dynamic, actin-rich projection extending from the surface of a migrating animal cell.
Synonyms: microspike
Comment: This term was made obsolete because it accidentally reused an existing id. See replacement term GO:0044393.
obsolete protein malonylation (GO:0036044)
Namespace: biological_process
Definition: OBSOLETE. The modification of a protein amino acid by the addition of a malonyl (CO-CH2-CO) group.
Synonyms: protein malonylation
Comment: This term was made obsolete because it accidentally shared the same ID as negative regulation of isopentenyl diphosphate biosynthetic process, mevalonate pathway by negative regulation of hydroxymethylglutaryl-CoA reductase (NADPH) activity. New id is GO:0044394.
obsolete peptidyl-lysine malonylation (GO:0036045)
Namespace: biological_process
Definition: OBSOLETE. The addition of a malonyl group (CO-CH2-CO) to peptidyl-lysine to form N6-malonyl-L-lysine.
Synonyms: lysine malonylation; peptidyl-lysine malonylation
Comment: This term was made obsolete because it accidentally reused an existing id. See replacement term GO:0044392.
protein demalonylation (GO:0036046)
Namespace: biological_process
Definition: The removal of a malonyl group (CO-CH2-CO), from an amino acid residue within a protein or peptide.
peptidyl-lysine demalonylation (GO:0036047)
Namespace: biological_process
Definition: The process of removing a malonyl group (CO-CH2-CO) from an malonylated lysine residue in a peptide or protein.
protein desuccinylation (GO:0036048)
Namespace: biological_process
Definition: The removal of a succinyl group (CO-CH2-CH2-CO) from a residue in a peptide or protein.
peptidyl-lysine desuccinylation (GO:0036049)
Namespace: biological_process
Definition: The removal of a succinyl group (CO-CH2-CH2-CO) from a succinylated lysine residue in a peptide or protein.
obsolete peptidyl-lysine succinylation (GO:0036050)
Namespace: biological_process
Definition: OBSOLETE. The modification of a peptidyl-lysine residue by the addition of a succinyl group (CO-CH2-CH2-CO) to form N6-succinyl-L-lysine.
Comment: This term was obsoleted because it represents a molecular function.
protein localization to uropod (GO:0036052)
Namespace: biological_process
Definition: A process in which a protein is transported to, or maintained in, a uropod. A uropod is a membrane projection with related cytoskeletal components at the trailing edge of a migrating cell.
Synonyms: protein localisation to uropod
glomerular endothelium fenestra (GO:0036053)
Namespace: cellular_component
Definition: A large plasma membrane-lined circular pore that perforates the flattened glomerular endothelium and, unlike those of other fenestrated capillaries, is not spanned by diaphragms; the density and size of glomerular fenestrae account, at least in part, for the high permeability of the glomerular capillary wall to water and small solutes.
Synonyms: GEnC fenestration; glomerular endothelial cell fenestration
protein-malonyllysine demalonylase activity (GO:0036054)
Namespace: molecular_function
Definition: Catalysis of the reaction: N(6)-malonyl-L-lysyl-[protein] + NAD+ + H2O = 2''-O-malonyl-ADP-D-ribose + nicotinamide + L-lysyl-[protein].
Synonyms: peptidyl-malonyllysine demalonylase activity; protein lysine demalonylation activity; protein malonyl lysine demalonylation activity
protein-succinyllysine desuccinylase activity (GO:0036055)
Namespace: molecular_function
Definition: Catalysis of the reaction: N(6)-succinyl-L-lysyl-[protein] + NAD+ + H2O = 2''-O-succinyl-ADP-D-ribose + nicotinamide + L-lysyl-[protein].
Synonyms: peptidyl-succinyllysine desuccinylase activity; succinyl lysine desuccinylase activity; succinyllysine desuccinylase activity
Comment: This reaction is the removal of a succinyl group (CO-CH2-CH2-CO) from a succinylated lysine residue of a protein or peptide.
filtration diaphragm (GO:0036056)
Namespace: cellular_component
Definition: A specialized cell-cell junction found between the cells of the excretory system, which provides a barrier for filtration of blood or hemolymph.
slit diaphragm (GO:0036057)
Namespace: cellular_component
Definition: A specialized cell-cell junction found between the interdigitating foot processes of the glomerular epithelium (the podocytes) in the vertebrate kidney, which is adapted for facilitating glomerular filtration.
filtration diaphragm assembly (GO:0036058)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a filtration diaphragm, a specialized cell-cell junction found between the cells of the excretory system, which provides a barrier for filtration of blood or hemolymph.
nephrocyte diaphragm assembly (GO:0036059)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a nephrocyte diaphragm, a specialized cell-cell junction found between nephrocytes of the insect kidney.
slit diaphragm assembly (GO:0036060)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a slit diaphragm, specialized cell-cell junction found between the interdigitating foot processes of the glomerular epithelium (the podocytes) in the vertebrate kidney, which is adapted for facilitating glomerular filtration.
acroblast (GO:0036063)
Namespace: cellular_component
Definition: A cone-shaped structure in the head of a spermatozoon, which is formed by the coalescence of Golgi fragments following the completion of meiosis. The acroblast is situated adjacent to the acrosomal vesicle.
Synonyms: spermatid acroblast
Comment: See also the fly_anatomy.ontology term 'acroblast ; FBbt:00004947'.
ciliary basal body (GO:0036064)
Namespace: cellular_component
Definition: A membrane-tethered, short cylindrical array of microtubules and associated proteins found at the base of a eukaryotic cilium (also called flagellum) that is similar in structure to a centriole and derives from it. The cilium basal body is the site of assembly and remodeling of the cilium and serves as a nucleation site for axoneme growth. As well as anchoring the cilium, it is thought to provide a selective gateway regulating the entry of ciliary proteins and vesicles by intraflagellar transport.
Synonyms: basal body; cilial basal body; cilium basal body; kinetosome; microtubule basal body
Comment: In most eukaryotic cells, 'ciliary basal body' (GO:0036064) and 'centriole' (GO:0005814) represent a common entity that cycles through its function in cell division, then ciliogenesis, then cell division again. However, these structures are modified extensively as they transition into each other, and may contain different proteins, specific to each component.
obsolete fucosylation (GO:0036065)
Namespace: biological_process
Definition: OBSOLETE. The covalent attachment of a fucosyl group to an acceptor molecule.
Comment: The reason for obsoletion is that the term is not clearly defined and usage has been inconsistent
protein O-linked glycosylation via fucose (GO:0036066)
Namespace: biological_process
Definition: A glycoprotein biosynthetic process starting with the covalent linkage of a fucose via an alpha-glycosidic bond to the oxygen atom of a serine or threonine side chain in a protein, which can be further elongated with the sequential addition of sugar units resulting in the formation of a protein O-linked glycan. This modification typically occurs within specific motifs, such as EGF-like or thrombospondin type-1 repeats.
Synonyms: protein O-linked fucosylation
light-dependent chlorophyll biosynthetic process (GO:0036067)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of chlorophyll, any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment, from less complex precursors, which occur in the presence of light.
Synonyms: light dependent chlorophyll biosynthetic process; light-dependent chlorophyll anabolism; light-dependent chlorophyll biosynthesis; light-dependent chlorophyll formation; light-dependent chlorophyll synthesis
light-independent chlorophyll biosynthetic process (GO:0036068)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of chlorophyll, any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment, from less complex precursors, which occur in the absence of light.
Synonyms: light independent chlorophyll biosynthetic process; light-independent chlorophyll anabolism; light-independent chlorophyll biosynthesis; light-independent chlorophyll formation; light-independent chlorophyll synthesis
obsolete N-glycan fucosylation (GO:0036071)
Namespace: biological_process
Definition: OBSOLETE. The process of transferring a fucosyl group to an N-glycan. An N-glycan is the carbohydrate portion of an N-glycoprotein when attached to a nitrogen from asparagine or arginine side-chains.
Synonyms: glycoprotein fucosylation
Comment: The reason for obsoletion is that the term is not clearly defined and usage has been inconsistent.
direct ossification (GO:0036072)
Namespace: biological_process
Definition: The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance, that does not require the replacement of preexisting tissues.
perichondral ossification (GO:0036073)
Namespace: biological_process
Definition: Intramembranous ossification from the surface of a cartilage element as the perichondrium becomes a periosteum, without replacement of cartilage.
replacement ossification (GO:0036075)
Namespace: biological_process
Definition: Ossification that requires the replacement of a preexisting tissue prior to bone tissue formation.
Synonyms: indirect ossification
ligamentous ossification (GO:0036076)
Namespace: biological_process
Definition: Ossification wherein bone tissue forms within ligamentous tissue.
Comment: Ligamentous ossification may occur via replacement ossification or metaplastic ossification or both in any one instance.
intratendonous ossification (GO:0036077)
Namespace: biological_process
Definition: Ossification wherein bone tissue forms within tendonous tissue.
Comment: Tendonous ossification may occur via replacement ossification or metaplastic ossification or both in any one instance.
minus-end specific microtubule depolymerization (GO:0036078)
Namespace: biological_process
Definition: The removal of tubulin heterodimers from the minus end of a microtubule.
extracellular ammonia-gated monoatomic ion channel activity (GO:0036081)
Namespace: molecular_function
Definition: Enables the transmembrane transfer of an ion by a channel that opens when extracellular ammonia (NH4+) has been bound by the channel complex or one of its constituent parts.
Synonyms: extracellular ammonia-gated ion channel activity; ionotropic ammonia receptor activity
obsolete positive regulation of unsaturated fatty acid biosynthetic process by positive regulation of transcription from RNA polymerase II promoter (GO:0036083)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the frequency, rate or extent of unsaturated fatty acid biosynthetic process by activating or increasing the frequency, rate or extent of transcription from an RNA polymerase II promoter.
Comment: This term was obsoleted because it represents a GO-CAM model.
GDP-fucose import into endoplasmic reticulum lumen (GO:0036084)
Namespace: biological_process
Definition: The directed movement of GDP-fucose into the endoplasmic reticulum lumen. GDP-fucose is a substance composed of fucose in glycosidic linkage with guanosine diphosphate.
Synonyms: GDP-fucose import into endoplasmic reticulum; GDP-fucose transport across endoplasmic reticulum membrane; GDP-fucose transport into endoplasmic reticulum lumen
GDP-fucose import into Golgi lumen (GO:0036085)
Namespace: biological_process
Definition: The directed movement of GDP-fucose into the Golgi lumen. GDP-fucose is a substance composed of fucose in glycosidic linkage with guanosine diphosphate.
Synonyms: GDP-fucose import into Golgi; GDP-fucose transport across Golgi membrane; GDP-fucose transport into Golgi lumen
obsolete positive regulation of transcription from RNA polymerase II promoter in response to iron ion starvation (GO:0036086)
Namespace: biological_process
Definition: OBSOLETE. Any process that increases the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of deprivation of iron ions.
Synonyms: positive regulation of transcription from RNA polymerase II promoter in response to iron deficiency
Comment: This term was obsoleted because it represents a GO-CAM model.
glutathione synthase complex (GO:0036087)
Namespace: cellular_component
Definition: A protein complex composed of two or more polypeptide subunits, and which possesses glutathione synthase activity (catalysis of the reaction: L-gamma-glutamyl-L-cysteine + ATP + glycine = ADP + glutathione + 2 H+ + phosphate). In eukaryotes, the complex is homodimeric, in E. coli glutathione synthase exists as a tetramer, and in S. pombe the complex exists as a homodimer or a heterotetramer.
Synonyms: glutathione synthetase complex
D-serine catabolic process (GO:0036088)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of D-serine.
Synonyms: D-serine breakdown; D-serine catabolism; D-serine degradation
cleavage furrow formation (GO:0036089)
Namespace: biological_process
Definition: Generation of the cleavage furrow, a shallow groove in the cell surface near the old metaphase plate that marks the site of cytokinesis. This process includes the recruitment and localized activation of signals such as RhoA at the site of the future furrow to ensure that furrowing initiates at the correct site in the cell.
Synonyms: cleavage furrow positioning
Comment: Consider also annotating to 'establishment of contractile ring localization involved in cell cycle cytokinesis ; GO:0032188'.
cleavage furrow ingression (GO:0036090)
Namespace: biological_process
Definition: Advancement of the cleavage furrow from the outside of the cell inward towards the center of the cell. The cleavage furrow acts as a 'purse string' which draws tight to separate daughter cells during cytokinesis and partition the cytoplasm between the two daughter cells. The furrow ingresses until a cytoplasmic bridge is formed.
Synonyms: cleavage furrow contraction
Comment: Consider also annotating to 'contractile ring contraction involved in cell cycle cytokinesis ; GO:0000916'.
phosphatidylinositol-3-phosphate biosynthetic process (GO:0036092)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of phosphatidylinositol-3-phosphate, a phosphatidylinositol monophosphate carrying the phosphate group at the 3-position.
Synonyms: phosphatidylinositol-3-phosphate anabolism; phosphatidylinositol-3-phosphate biosynthesis; phosphatidylinositol-3-phosphate formation; phosphatidylinositol-3-phosphate synthesis; PI(3)P biosynthesis; PtdIns3P biosynthesis