LiteFold/GO huggingface dataset:
nuclear cyclin-dependent protein kinase holoenzyme complex (GO:0019908)
Namespace: cellular_component
Definition: Cyclin-dependent protein kinase (CDK) complex found in the nucleus.
Synonyms: CDK holoenzyme
obsolete [pyruvate dehydrogenase (lipoamide)] phosphatase regulator activity (GO:0019909)
Namespace: molecular_function
Definition: OBSOLETE. Binds to and modulates of the activity of [pyruvate dehydrogenase (lipoamide)] phosphatase.
Synonyms: [pyruvate dehydrogenase (lipoamide)] phosphatase, intrinsic regulator activity
Comment: This term was obsoleted becaus it represents the same activity as [pyruvate dehydrogenase (acetyl-transferring)]-phosphatase activity ; GO:0004741.
mitochondrial pyruvate dehydrogenase (lipoamide) phosphatase complex (GO:0019910)
Namespace: cellular_component
Definition: A mitochondrial complex of a regulatory and catalytic subunit that catalyzes the dephosphorylation and concomitant reactivation of the alpha subunit of the E1 component of the pyruvate dehydrogenase complex. An example of this component is found in Mus musculus.
Comment: See also the cellular component term 'mitochondrial pyruvate dehydrogenase complex ; GO:0005967'.
structural constituent of myelin sheath (GO:0019911)
Namespace: molecular_function
Definition: The action of a molecule that contributes to the structural integrity of the myelin sheath of a nerve.
obsolete cyclin-dependent protein kinase activating kinase activity (GO:0019912)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: ATP + a protein = ADP + a phosphoprotein; increases the activity of a cyclin-dependent protein kinase (CDK).
Synonyms: CAK; cdk-activating kinase activity; cyclin-dependent protein kinase activating kinase, intrinsic catalyst activity
Comment: The reason for obsoletion is that the term is s kinase+ substrate, but covers a number of unrelated kinases.
cyclin-dependent protein kinase regulator activity (GO:0019914)
Namespace: molecular_function
Definition: Modulation of the activity of the enzyme cyclin-dependent protein kinase activating kinase.
Synonyms: cyclin-dependent protein kinase activating kinase, intrinsic regulator activity
lipid storage (GO:0019915)
Namespace: biological_process
Definition: The accumulation and maintenance in cells or tissues of lipids, compounds soluble in organic solvents but insoluble or sparingly soluble in aqueous solvents. Lipid reserves can be accumulated during early developmental stages for mobilization and utilization at later stages of development.
Synonyms: lipid retention; lipid sequestering; lipid sequestration; retention of lipids; sequestering of lipids; sequestration of lipid; sequestration of lipids; storage of lipids
obsolete peptidyl-D-alanine racemization, direct (GO:0019916)
Namespace: biological_process
Definition: OBSOLETE. The racemization of peptidyl-alanine.
Comment: This term was obsoleted because it represents a molecular function.
peptidyl-arginine methylation, to asymmetrical-dimethyl arginine (GO:0019919)
Namespace: biological_process
Definition: The process of methylation of peptidyl-arginine to form peptidyl-N(omega),N(omega)-dimethyl-L-arginine.
Synonyms: peptidyl-arginine methylation, to unsymmetrical-dimethyl arginine
obsolete peptidyl-1-thioglycine biosynthetic process, carboxy-terminal (GO:0019921)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of carboxy-terminal peptidyl-1-thioglycine, which has a carboxy-terminal thiocarboxy-C(=O)-SH bond.
Synonyms: peptidyl-1-thioglycine anabolism, carboxy-terminal; peptidyl-1-thioglycine formation, carboxy-terminal; peptidyl-1-thioglycine synthesis, carboxy-terminal
Comment: This term was obsoleted because it represents a molecular function.
obsolete protein-chromophore linkage via peptidyl-cysteine (GO:0019922)
Namespace: biological_process
Definition: OBSOLETE. The covalent linking of a chromophore to a protein via peptidyl-cysteines.
Comment: Term describes modified products or self-catalyzed processes.
obsolete alpha-1-microglobulin-chromophore linkage (GO:0019923)
Namespace: biological_process
Definition: OBSOLETE. The covalent linking of the alpha-1-microglobulin chromophore to the protein; the structure of the chromophore is not known. It is probably heterogeneous and involving two cysteines in thioether bonds.
Comment: Term describes modified products or self-catalyzed processes.
obsolete peptide cross-linking via 4-(S-L-cysteinyl)-L-glutamic acid (GO:0019929)
Namespace: biological_process
Definition: OBSOLETE. The cross-linking of a cysteine residue to a glutamic acid residue to form 4-(S-L-cysteinyl)-L-glutamic acid.
Comment: This term was obsoleted because it represents a molecular function; however the enzyme responsible for this reaction has not been defined.
obsolete cis-14-hydroxy-10,13-dioxo-7-heptadecenoic acid peptidyl-aspartate ester biosynthetic process from peptidyl-aspartic acid (GO:0019930)
Namespace: biological_process
Definition: OBSOLETE. The modification of peptidyl-aspartic acid to form peptidyl-cis-14-hydroxy-10,13-dioxo-7-heptadecenoic acid aspartate ester, typical of the barley lipid transfer protein 1.
Synonyms: cis-14-hydroxy-10,13-dioxo-7-heptadecenoic acid peptidyl-aspartate ester anabolism from peptidyl-aspartic acid; cis-14-hydroxy-10,13-dioxo-7-heptadecenoic acid peptidyl-aspartate ester formation from peptidyl-aspartic acid; cis-14-hydroxy-10,13-dioxo-7-heptadecenoic acid peptidyl-aspartate ester synthesis from peptidyl-aspartic acid
Comment: This term was obsoleted because it represents a molecular function.
obsolete protein-chromophore linkage via peptidyl-N6-3-dehydroretinal-L-lysine (GO:0019931)
Namespace: biological_process
Definition: OBSOLETE. The modification of peptidyl-lysine to form N6-3,4-didehydroretinylidene-L-lysine.
Comment: Term describes modified products or self-catalyzed processes.
obsolete second-messenger-mediated signaling (GO:0019932)
Namespace: biological_process
Definition: OBSOLETE. Any intracellular signal transduction in which the signal is passed on within the cell via a second messenger; a small molecule or ion that can be quickly generated or released from intracellular stores, and can diffuse within the cell. Second-messenger signaling includes production or release of the second messenger, and effectors downstream of the second messenger that further transmit the signal within the cell.
Synonyms: second messenger mediated signaling; second messenger mediated signalling; second messenger-mediated signaling; second messenger-mediated signalling; second-messenger-mediated signal transduction; second-messenger-mediated signalling
Comment: This term was obsoleted because it was an unnecessary grouping class.
obsolete cAMP-mediated signaling (GO:0019933)
Namespace: biological_process
Definition: OBSOLETE. An intracellular signaling cassette that starts with production of cyclic AMP (cAMP), and ends with activation of downstream effectors that further transmit the signal within the cell.
Synonyms: 3',5' cAMP-mediated signaling; 3',5' cAMP-mediated signalling; 3',5'-cAMP-mediated signaling; 3',5'-cAMP-mediated signalling; adenosine 3',5'-cyclophosphate-mediated signaling; adenosine 3',5'-cyclophosphate-mediated signalling; cAMP signaling; cAMP signalling; cAMP-mediated signal transduction; cAMP-mediated signalling; cyclic AMP-mediated signaling; cyclic AMP-mediated signalling
Comment: This term was obsoleted because it does not represent a specific pathway. Consider cAMP/PKA signal transduction ; GO:0141156 or adenylate cyclase-activating G protein-coupled receptor signaling pathway ; GO:0007189.
obsolete cGMP-mediated signaling (GO:0019934)
Namespace: biological_process
Definition: OBSOLETE. An intracellular signaling cassette that starts with production of cyclic GMP (cGMP), and ends with activation of downstream effectors that further transmit the signal within the cell.
Synonyms: cGMP-mediated signalling
Comment: This term was obsoleted because it was not clearly defined. Several pathways use cGMP; consider: receptor guanylyl cyclase signaling pathway ; GO:0007168, nitric oxide-cGMP-mediated signaling ; GO:0038060 or G protein-coupled receptor signaling pathway coupled to cGMP nucleotide second messenger ; GO:0007199.
obsolete inositol phospholipid-mediated signaling (GO:0019936)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: inositol phospholipid-mediated signaling; inositol phospholipid-mediated signalling
Comment: This term was made obsolete because it did not adequately describe phosphoinositide-mediated signaling.
obsolete protein catenane formation via N6-(L-isoaspartyl)-L-lysine, autocatalytic (GO:0019937)
Namespace: biological_process
Definition: OBSOLETE. The autocatalytic formation of isopeptide bonds by ligation of peptidyl-lysine and peptidyl-asparagine residues; known to occur in the capsid of some bacteriophage, such as HK97, where it is thought to provide a mechanism for stabilizing the capsid.
Comment: This term was obsoleted because it represents a molecular function.
obsolete peptide cross-linking via N6-(L-isoaspartyl)-L-lysine, presumed catalytic (GO:0019938)
Namespace: biological_process
Definition: OBSOLETE. The formation of isopeptide bonds by ligation of peptidyl-lysine and peptidyl-asparagine residues; occurs in mammals in proteins as yet unidentified by a mechanism probably analogous to that of transglutaminase reactions.
Comment: This term was obsoleted because it represents a molecular function.
obsolete peptidyl-S-palmitoleyl-L-cysteine biosynthetic process from peptidyl-cysteine (GO:0019939)
Namespace: biological_process
Definition: OBSOLETE. The modification of peptidyl-cysteine to form peptidyl-S-palmitoleyl-L-cysteine specifically.
Synonyms: peptidyl-S-palmitoleyl-L-cysteine anabolism from peptidyl-cysteine; peptidyl-S-palmitoleyl-L-cysteine formation from peptidyl-cysteine; peptidyl-S-palmitoleyl-L-cysteine synthesis from peptidyl-cysteine
Comment: This term was obsoleted because it represents a molecular function.
modification-dependent protein catabolic process (GO:0019941)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent modification of the target protein.
Synonyms: modification-dependent protein breakdown; modification-dependent protein catabolism; modification-dependent protein degradation; modification-dependent proteolysis; modification-initiated protein catabolic process; modification-initiated protein catabolism; modification-initiated proteolysis; protein degradation tagging activity; protein-ligand-dependent protein catabolic process; protein-ligand-dependent protein catabolism
SUMO activating enzyme activity (GO:0019948)
Namespace: molecular_function
Definition: Catalysis of the activation of the proteolytically processed small ubiquitin-related modifier SUMO, through the formation of an ATP-dependent high-energy thiolester bond.
Synonyms: SMT3 activating enzyme; SUMO E1 activator enzyme
obsolete SMT3-dependent protein catabolic process (GO:0019950)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by covalent attachment of the ubiquitin-like protein SMT3 to the target protein.
Synonyms: SMT3-dependent protein breakdown; SMT3-dependent protein catabolism; SMT3-dependent protein degradation
Comment: See issue #21890. SMT3 protein mod is sumoylation and does not always lead to degradation.
sexual reproduction (GO:0019953)
Namespace: biological_process
Definition: A type of reproduction that combines the genetic material of two gametes (such as a sperm or egg cell or fungal spores). The gametes have an haploid genome (with a single set of chromosomes, the product of a meiotic division) and combines with one another to produce a zygote (diploid).
Comment: Note that gametes may come from two organisms or from a single organism in the case of self-fertilizing hermaphrodites, e.g. C. elegans, or self-fertilization in plants. Note also that sexual reproduction may be seen as the regular alternation, in the life cycle of haplontic, diplontic and diplohaplontic organisms, of meiosis and fertilization which provides for the production offspring. In diplontic organisms there is a life cycle in which the products of meiosis behave directly as gametes, fusing to form a zygote from which the diploid, or sexually reproductive polyploid, adult organism will develop. In diplohaplontic organisms a haploid phase (gametophyte) exists in the life cycle between meiosis and fertilization (e.g. higher plants, many algae and Fungi); the products of meiosis are spores that develop as haploid individuals from which haploid gametes develop to form a diploid zygote; diplohaplontic organisms show an alternation of haploid and diploid generations. In haplontic organisms meiosis occurs in the zygote, giving rise to four haploid cells (e.g. many algae and protozoa), only the zygote is diploid and this may form a resistant spore, tiding organisms over hard times.
asexual reproduction (GO:0019954)
Namespace: biological_process
Definition: A type of reproduction in which new individuals are produced from a single organism, either from an unfertilized egg or from a single cell or group of cells.
Synonyms: parthenogenesis
cytokine binding (GO:0019955)
Namespace: molecular_function
Definition: Binding to a cytokine, any of a group of proteins that function to control the survival, growth and differentiation of tissues and cells, and which have autocrine and paracrine activity.
Synonyms: IL binding; interleukin binding
chemokine binding (GO:0019956)
Namespace: molecular_function
Definition: Binding to a chemokine. Chemokines are a family of small chemotactic cytokines; their name is derived from their ability to induce directed chemotaxis in nearby responsive cells. All chemokines possess a number of conserved cysteine residues involved in intramolecular disulfide bond formation. Some chemokines are considered pro-inflammatory and can be induced during an immune response to recruit cells of the immune system to a site of infection, while others are considered homeostatic and are involved in controlling the migration of cells during normal processes of tissue maintenance or development. Chemokines are found in all vertebrates, some viruses and some bacteria.
C-C chemokine binding (GO:0019957)
Namespace: molecular_function
Definition: Binding to a C-C chemokine; C-C chemokines do not have an amino acid between the first two cysteines of the characteristic four-cysteine motif.
interleukin-8 binding (GO:0019959)
Namespace: molecular_function
Definition: Binding to interleukin-8.
Synonyms: IL-8 binding
C-X3-C chemokine binding (GO:0019960)
Namespace: molecular_function
Definition: Binding to a C-X3-C chemokine; C-X3-C chemokines have three amino acids between the first two cysteines of the characteristic four-cysteine motif.
interferon binding (GO:0019961)
Namespace: molecular_function
Definition: Binding to an interferon, a protein produced by the immune systems of many animals in response to a challenge by a foreign agent.
Synonyms: IFN binding
type I interferon binding (GO:0019962)
Namespace: molecular_function
Definition: Binding to a type I interferon. Type I interferons include the interferon-alpha, beta, delta, epsilon, zeta, kappa, tau, and omega gene families.
Synonyms: interferon-alpha binding; interferon-alpha/beta binding; interferon-beta binding; interferon-delta binding; interferon-epsilon binding; interferon-kappa binding; interferon-omega binding; interferon-tau binding; interferon-zeta binding; type I IFN binding
type II interferon binding (GO:0019964)
Namespace: molecular_function
Definition: Binding to type II interferon, also known as interferon-gamma.
Synonyms: IFN-gamma binding; IFNG binding; interferon-gamma binding
interleukin-1 binding (GO:0019966)
Namespace: molecular_function
Definition: Binding to interleukin-1.
Synonyms: IL-1 binding
interleukin-10 binding (GO:0019969)
Namespace: molecular_function
Definition: Binding to interleukin-10.
Synonyms: IL-10 binding
interleukin-11 binding (GO:0019970)
Namespace: molecular_function
Definition: Binding to interleukin-11.
Synonyms: IL-11 binding
interleukin-12 binding (GO:0019972)
Namespace: molecular_function
Definition: Binding to interleukin-12.
Synonyms: IL-12 binding
interleukin-13 binding (GO:0019973)
Namespace: molecular_function
Definition: Binding to interleukin-13.
Synonyms: IL-13 binding
obsolete interleukin-14 binding (GO:0019974)
Namespace: molecular_function
Definition: OBSOLETE. Binding to interleukin-14.
Synonyms: IL-14 binding
Comment: This term was obsoleted because the gene was shown not to exist, see PMID:8755619.
interleukin-17 binding (GO:0019975)
Namespace: molecular_function
Definition: Binding to a member of the interleukin-17 family of cytokines.
Synonyms: IL-17 binding
interleukin-2 binding (GO:0019976)
Namespace: molecular_function
Definition: Binding to interleukin-2.
Synonyms: IL-2 binding
interleukin-21 binding (GO:0019977)
Namespace: molecular_function
Definition: Binding to interleukin-21.
Synonyms: IL-21 binding
interleukin-3 binding (GO:0019978)
Namespace: molecular_function
Definition: Binding to interleukin-3.
Synonyms: IL-3 binding
interleukin-5 binding (GO:0019980)
Namespace: molecular_function
Definition: Binding to interleukin-5.
Synonyms: IL-5 binding
interleukin-6 binding (GO:0019981)
Namespace: molecular_function
Definition: Binding to interleukin-6.
Synonyms: IL-6 binding
interleukin-7 binding (GO:0019982)
Namespace: molecular_function
Definition: Binding to interleukin-7.
Synonyms: IL-7 binding
interleukin-9 binding (GO:0019983)
Namespace: molecular_function
Definition: Binding to interleukin-9.
Synonyms: IL-9 binding
translesion synthesis (GO:0019985)
Namespace: biological_process
Definition: The replication of damaged DNA by synthesis across a lesion in the template strand; a specialized DNA polymerase or replication complex inserts a defined nucleotide across from the lesion which allows DNA synthesis to continue beyond the lesion. This process can be mutagenic depending on the damaged nucleotide and the inserted nucleotide.
Synonyms: bypass DNA synthesis
obsolete negative regulation of anti-apoptosis (GO:0019987)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops, prevents, or reduces the frequency, rate or extent of anti-apoptosis.
Synonyms: down regulation of anti-apoptosis; down-regulation of anti-apoptosis; downregulation of anti-apoptosis; inhibition of anti-apoptosis; negative regulation of anti-apoptosis
Comment: This term was made obsolete because it was ill-defined.
charged-tRNA amino acid modification (GO:0019988)
Namespace: biological_process
Definition: The covalent alteration of an amino acid charged on a tRNA before it is incorporated into a protein, as in N-formylmethionine, selenocysteine or pyrrolysine.
Synonyms: charged tRNA amino acid modification; charged tRNA modification; charged-tRNA modification; pre-translational amino acid modification; pre-translational protein modification; pretranslation protein modification; pretranslational amino acid modification
pteridine catabolic process (GO:0019990)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of pteridine, pyrazino(2,3-dipyrimidine), the parent structure of pterins and the pteroyl group.
Synonyms: pteridine breakdown; pteridine catabolism; pteridine degradation
septate junction assembly (GO:0019991)
Namespace: biological_process
Definition: The assembly of a septate junction, an intercellular junction found in invertebrate epithelia that is characterized by a ladder like appearance in electron micrographs and thought to provide structural strength and to provide a barrier to diffusion of solutes through the intercellular space.
host cell plasma membrane (GO:0020002)
Namespace: cellular_component
Definition: The plasma membrane surrounding a host cell.
symbiont-containing vacuole (GO:0020003)
Namespace: cellular_component
Definition: Membrane-bounded vacuole within a host cell in which a symbiont organism resides. The vacuole membrane is derived from both the host and symbiont.
Synonyms: bacterium-containing vacuole; parasitophorous vacuole; pathogen-occupied vacuole; Salmonella-containing vacuole; SCV
Comment: Note that this term does not have a relationship to 'vacuole ; GO:0005773' because it does not fit the definition of a vacuole; the parasitophorous vacuole was so named because it resembles a vacuole in the microscope.
symbiont-containing vacuolar space (GO:0020004)
Namespace: cellular_component
Definition: The space between a symbiont plasma membrane and the symbiont-containing vacuole membrane.
Synonyms: parasitophorous vacuolar space; symbiont-containing vacuole space
symbiont-containing vacuole membrane (GO:0020005)
Namespace: cellular_component
Definition: The lipid bilayer surrounding a symbiont-containing vacuole, derived from both the host and symbiont.
Synonyms: parasitophorous vacuolar membrane
symbiont-containing vacuolar membrane network (GO:0020006)
Namespace: cellular_component
Definition: Tubular network of extensions from the symbiont-containing vacuole membrane that protrude into the host cytoplasm.
Synonyms: parasitophorous vacuolar membrane network; symbiont-containing vacuole membrane network; tubulovesicular network
apical complex (GO:0020007)
Namespace: cellular_component
Definition: A group of cytoskeletal structures and associated membrane-bounded organelles found at the anterior end of adult obligate intracellular protozoan parasites in the phylum Apicomplexa. The apical complex is involved in attachment to and penetration of the host cell, and in parasite proliferation.
rhoptry (GO:0020008)
Namespace: cellular_component
Definition: A large, club-shaped secretory organelle that forms part of the apical complex of an apicomplexan parasite, and consists of a bulbous body and a narrow electron-dense neck that extends through the conoid at the apical tip of the parasite. The rhoptry necks serve as ducts through which the contents of the rhoptries are secreted after attachment to the host has been completed and at the commencement of invasion. Rhoptry proteins function in the biogenesis and host organellar association of the parasitophorous vacuole.
Synonyms: paired organelles; toxoneme
microneme (GO:0020009)
Namespace: cellular_component
Definition: A small, elongated secretory organelle that forms part of the apical complex, located along the main axis of an apicomplexan parasite cell within the extreme apical region and at the periphery under the inner membrane complex. Of the specialized secretory compartments identified in apicomplexans, micronemes discharge their contents first, during initial contact of the parasite's apical pole with the host cell surface. Micronemal proteins function during parasite attachment and penetration into the target cell.
Synonyms: sarconeme
apicoplast (GO:0020011)
Namespace: cellular_component
Definition: The plastid organelle found in apicomplexans.
symbiont-mediated perturbation of host erythrocyte aggregation (GO:0020013)
Namespace: biological_process
Definition: Any process in which a symbiont organism modulates the frequency, rate or extent of erythrocyte aggregation in its host organism, e.g. the binding of parasite-infected erythrocytes to uninfected erythrocytes.
Synonyms: modulation by symbiont of host erythrocyte aggregation; rosetting
Comment: Please note that this term does not refer to the in vitro assay called erythrocyte rosetting.
schizogony (GO:0020014)
Namespace: biological_process
Definition: Cell division by multiple fission in which nuclei and other organelles in the parent cell divide repeatedly and move to the cell periphery before internal membranes develop around them, producing a large number of daughter cells simultaneously.
glycosome (GO:0020015)
Namespace: cellular_component
Definition: A membrane-bounded organelle found in organisms from the order Kinetoplastida that houses the enzymes of glycolysis.