LiteFold/GO huggingface dataset:
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity (GO:0070204)
Namespace: molecular_function
Definition: Catalysis of the reaction: 2-oxoglutarate + H+ + isochorismate = 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1-carboxylate + CO2.
Synonyms: MenD; SEPHCHC synthase activity
2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase activity (GO:0070205)
Namespace: molecular_function
Definition: Catalysis of the reaction: 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1-carboxylate = (1R,6R)-2-succinyl-6-hydroxycyclohexa-2,4-diene-1-carboxylate + pyruvate.
Synonyms: 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylic acid synthase activity; 6-hydroxy-2-succinylcyclohexa-2,4-diene-1-carboxylate synthase activity; MenH; SHCHC synthase activity; YfbB
protein trimerization (GO:0070206)
Namespace: biological_process
Definition: The formation of a protein trimer, a macromolecular structure consisting of three noncovalently associated identical or nonidentical subunits.
Synonyms: protein trimer assembly; protein trimer biosynthesis; protein trimer biosynthetic process; protein trimer formation
protein homotrimerization (GO:0070207)
Namespace: biological_process
Definition: The formation of a protein homotrimer, a macromolecular structure consisting of three noncovalently associated identical subunits.
Synonyms: protein homotrimer assembly; protein homotrimer biosynthesis; protein homotrimer biosynthetic process; protein homotrimer formation
protein heterotrimerization (GO:0070208)
Namespace: biological_process
Definition: The formation of a protein heterotrimer, a macromolecular structure consisting of three noncovalently associated subunits, of which not all are identical.
Synonyms: protein heterotrimer assembly; protein heterotrimer biosynthesis; protein heterotrimer biosynthetic process; protein heterotrimer formation
obsolete ASTRA complex (GO:0070209)
Namespace: cellular_component
Definition: OBSOLETE. A protein complex that is part of the chromatin remodeling machinery; the acronym stands for ASsembly of Tel, Rvb and Atm-like kinase. In Saccharomyces cerevisiae this complex includes Rvb1p, Rvb2p, Tra1p, Tel2p, Asa1p, Ttilp and Tti2p.
Comment: The reason for obsoletion is that the data from the paper for which the term was requested can be accurately described using TTT complex.
Rpd3L-Expanded complex (GO:0070210)
Namespace: cellular_component
Definition: A protein complex that contains a histone deacetylase and is part of the chromatin remodeling machinery. In Saccharomyces cerevisiae this complex contains the Rpd3p, Sin3p, Ume1p, Pho23p, Sap30p, Sds3p, Cti6p, Rxt2p, Rxt3p, Dep1p, Ume6p, Ash1p, Dot6p, Snt1, Sif2p, Set3p, Hos2p, Tos4p and Tod6p proteins.
Synonyms: Clr6-LE complex
Snt2C complex (GO:0070211)
Namespace: cellular_component
Definition: A histone deacetylase complex that is part of the chromatin remodeling machinery. In Saccharomyces cerevisiae this complex contains Snt2p, Ecm5p and Rpd3p.
protein poly-ADP-ribosylation (GO:0070212)
Namespace: biological_process
Definition: The transfer of multiple ADP-ribose residues from NAD to a protein amino acid, forming a poly(ADP-ribose) chain.
Synonyms: addition of poly-ADP-ribose to protein; poly(ADP-ribose) addition to protein; protein amino acid poly-ADP-ribosylation; protein poly(ADP-ribose) metabolism; protein poly(ADP-ribose) synthesis
protein auto-ADP-ribosylation (GO:0070213)
Namespace: biological_process
Definition: The ADP-ribosylation by a protein of one or more of its own amino acid residues, or residues on an identical protein.
Synonyms: protein amino acid auto-ADP-ribosylation
CSK-GAP-A.p62 complex (GO:0070214)
Namespace: cellular_component
Definition: A protein complex that contains the protein-tyrosine kinase CSK and the GTPase-activating protein (GAP)-associated p62 (GAP-A.p62); may mediate translocation of proteins, including GAP and CSK, to membrane or cytoskeletal regions upon c-Src activation.
Comment: Note that the gene/protein name 'APC' should not be confused with the abbreviation for 'anaphase promoting complex'.
obsolete MDM2 binding (GO:0070215)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an isoform of the MDM2 protein, a negative regulator of p53.
Synonyms: MDM2 binding
Comment: This term was made obsolete because it represents binding to an individual protein.
obsolete MDM4 binding (GO:0070216)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an isoform of the MDM4 protein, a negative regulator of p53.
Synonyms: MDM4 binding; MDMX binding
Comment: This term was made obsolete because it represents binding to an individual protein.
transcription factor TFIIIB complex assembly (GO:0070217)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a transcription factor TFIIIB complex.
Synonyms: TFIIIB assembly
obsolete sulfide ion homeostasis (GO:0070218)
Namespace: biological_process
Definition: OBSOLETE. Any process involved in the maintenance of an internal steady state of sulfide ions within an organism or cell.
Synonyms: sulfide generation; sulfide homeostasis; sulfide production; sulphide generation; sulphide homeostasis; sulphide ion homeostasis; sulphide production
Comment: This term was obsoleted because it does not represent a GO process.
obsolete intracellular sulfide ion homeostasis (GO:0070219)
Namespace: biological_process
Definition: OBSOLETE. A homeostatic process involved in the maintenance of a steady state level of sulfide ions within a cell.
Synonyms: cellular sulfide homeostasis; cellular sulfide ion homeostasis; cellular sulphide homeostasis; cellular sulphide ion homeostasis
Comment: This term was obsoleted because it does not represent a GO process.
aerobic sulfur oxidation (GO:0070220)
Namespace: biological_process
Definition: A sulfur oxidation process that proceeds via the reaction catalyzed by sulfur dioxygenase, and requires the presence of oxygen.
Synonyms: aerobic sulphur oxidation
sulfide oxidation, using sulfide:quinone oxidoreductase (GO:0070221)
Namespace: biological_process
Definition: A sulfide oxidation process that proceeds via the reaction catalyzed by sulfide:quinone oxidoreductase.
Synonyms: sulfide oxidation, using sulfide-quinone reductase; sulphide oxidation, using sulfide:quinone oxidoreductase
sulfide oxidation, using sulfide dehydrogenase (GO:0070222)
Namespace: biological_process
Definition: A sulfide oxidation process that proceeds via the reaction catalyzed by sulfide dehydrogenase.
Synonyms: sulphide oxidation, using sulfide dehydrogenase
sulfide oxidation, using sulfur dioxygenase (GO:0070223)
Namespace: biological_process
Definition: A sulfide oxidation process that proceeds via the reaction catalyzed by sulfur dioxygenase.
Synonyms: sulphide oxidation, using sulfur dioxygenase
sulfide dehydrogenase activity (GO:0070225)
Namespace: molecular_function
Definition: Catalysis of the reaction: hydrogen sulfide + oxidized cytochrome c = S + reduced cytochrome c.
Synonyms: flavocytochrome c sulfide dehydrogenase activity; sulphide dehydrogenase activity
lymphocyte apoptotic process (GO:0070227)
Namespace: biological_process
Definition: Any apoptotic process in a lymphocyte, a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin.
Synonyms: lymphocyte apoptosis
Comment: Note that a lymphocyte is a cell of the B cell, T cell, or natural killer cell lineage (CL:0000542).
negative regulation of lymphocyte apoptotic process (GO:0070229)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of lymphocyte death by apoptotic process.
Synonyms: down regulation of lymphocyte apoptosis; down-regulation of lymphocyte apoptosis; downregulation of lymphocyte apoptosis; inhibition of lymphocyte apoptosis; negative regulation of lymphocyte apoptosis
Comment: Note that a lymphocyte is a cell of the B cell, T cell, or natural killer cell lineage (CL:0000542).
positive regulation of lymphocyte apoptotic process (GO:0070230)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of lymphocyte death by apoptotic process.
Synonyms: activation of lymphocyte apoptosis; positive regulation of lymphocyte apoptosis; stimulation of lymphocyte apoptosis; up regulation of lymphocyte apoptosis; up-regulation of lymphocyte apoptosis; upregulation of lymphocyte apoptosis
Comment: Note that a lymphocyte is a cell of the B cell, T cell, or natural killer cell lineage (CL:0000542).
T cell apoptotic process (GO:0070231)
Namespace: biological_process
Definition: Any apoptotic process in a T cell, a type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex.
Synonyms: programmed cell death of T cells by apoptosis; T cell apoptosis; T lymphocyte apoptosis; T-cell apoptosis; T-lymphocyte apoptosis
negative regulation of T cell apoptotic process (GO:0070233)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of T cell death by apoptotic process.
Synonyms: down regulation of T cell apoptosis; down-regulation of T cell apoptosis; downregulation of T cell apoptosis; inhibition of T cell apoptosis; negative regulation of programmed cell death of T cells by apoptosis; negative regulation of T cell apoptosis; negative regulation of T lymphocyte apoptosis; negative regulation of T-cell apoptosis; negative regulation of T-lymphocyte apoptosis
regulation of activation-induced cell death of T cells (GO:0070235)
Namespace: biological_process
Definition: Any process that modulates the occurrence or rate of activation-induced cell death of T cells.
Synonyms: regulation of activated T cell apoptosis; regulation of activation-induced cell death of T lymphocytes; regulation of activation-induced cell death of T-cells; regulation of activation-induced cell death of T-lymphocytes; regulation of AICD; regulation of antigen-driven apoptosis
negative regulation of activation-induced cell death of T cells (GO:0070236)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of activation-induced cell death of T cells.
Synonyms: down regulation of activation-induced cell death of T cells; down-regulation of activation-induced cell death of T cells; downregulation of activation-induced cell death of T cells; inhibition of activation-induced cell death of T cells; negative regulation of activated T cell apoptosis; negative regulation of activation-induced cell death of T lymphocytes; negative regulation of activation-induced cell death of T-cells; negative regulation of activation-induced cell death of T-lymphocytes; negative regulation of AICD; negative regulation of antigen-driven apoptosis
positive regulation of activation-induced cell death of T cells (GO:0070237)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of activation-induced cell death of T cells.
Synonyms: activation of activation-induced cell death of T cells; positive regulation of activated T cell apoptosis; positive regulation of activation-induced cell death of T lymphocytes; positive regulation of activation-induced cell death of T-cells; positive regulation of activation-induced cell death of T-lymphocytes; positive regulation of AICD; positive regulation of antigen-driven apoptosis; stimulation of activation-induced cell death of T cells; up regulation of activation-induced cell death of T cells; up-regulation of activation-induced cell death of T cells; upregulation of activation-induced cell death of T cells
activated T cell autonomous cell death (GO:0070238)
Namespace: biological_process
Definition: A T cell apoptotic process that occurs towards the end of the expansion phase following the initial activation of mature T cells by antigen via the accumulation of pro-apoptotic gene products and decrease in anti-apoptotic gene products.
Synonyms: ACAD; activated cell autonomous cell death; activated T cell apoptosis; activated T lymphocyte autonomous cell death; activated T-cell autonomous cell death; activated T-lymphocyte autonomous cell death
regulation of activated T cell autonomous cell death (GO:0070239)
Namespace: biological_process
Definition: Any process that modulates the occurrence or rate of activated T cell autonomous cell death.
Synonyms: regulation of ACAD; regulation of activated cell autonomous cell death; regulation of activated T cell apoptosis; regulation of activated T lymphocyte autonomous cell death; regulation of activated T-cell autonomous cell death; regulation of activated T-lymphocyte autonomous cell death
positive regulation of activated T cell autonomous cell death (GO:0070241)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of activated T cell autonomous cell death.
Synonyms: activation of activated T cell autonomous cell death; positive regulation of ACAD; positive regulation of activated cell autonomous cell death; positive regulation of activated T cell apoptosis; positive regulation of activated T lymphocyte autonomous cell death; positive regulation of activated T-cell autonomous cell death; positive regulation of activated T-lymphocyte autonomous cell death; stimulation of activated T cell autonomous cell death; up regulation of activated T cell autonomous cell death; up-regulation of activated T cell autonomous cell death; upregulation of activated T cell autonomous cell death
thymocyte apoptotic process (GO:0070242)
Namespace: biological_process
Definition: Any apoptotic process in a thymocyte, an immature T cell located in the thymus.
Synonyms: immature T cell apoptosis; thymocyte apoptosis
Comment: Note that a thymocyte is an immature T cell located in the thymus (CL:0000893).
regulation of thymocyte apoptotic process (GO:0070243)
Namespace: biological_process
Definition: Any process that modulates the occurrence or rate of thymocyte death by apoptotic process.
Synonyms: regulation of immature T cell apoptosis; regulation of thymocyte apoptosis
Comment: Note that a thymocyte is an immature T cell located in the thymus (CL:0000893).
negative regulation of thymocyte apoptotic process (GO:0070244)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of thymocyte death by apoptotic process.
Synonyms: down regulation of thymocyte apoptosis; down-regulation of thymocyte apoptosis; downregulation of thymocyte apoptosis; inhibition of thymocyte apoptosis; negative regulation of immature T cell apoptosis; negative regulation of thymocyte apoptosis
Comment: Note that a thymocyte is an immature T cell located in the thymus (CL:0000893).
positive regulation of thymocyte apoptotic process (GO:0070245)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of thymocyte death by apoptotic process.
Synonyms: activation of thymocyte apoptosis; positive regulation of immature T cell apoptosis; positive regulation of thymocyte apoptosis; stimulation of thymocyte apoptosis; up regulation of thymocyte apoptosis; up-regulation of thymocyte apoptosis; upregulation of thymocyte apoptosis
Comment: Note that a thymocyte is an immature T cell located in the thymus (CL:0000893).
natural killer cell apoptotic process (GO:0070246)
Namespace: biological_process
Definition: Any apoptotic process in a natural killer cell, a lymphocyte that can spontaneously kill a variety of target cells without prior antigenic activation.
Synonyms: natural killer cell apoptosis; NK cell apoptosis
regulation of natural killer cell apoptotic process (GO:0070247)
Namespace: biological_process
Definition: Any process that modulates the occurrence or rate of natural killer cell death by apoptotic process.
Synonyms: regulation of natural killer cell apoptosis; regulation of NK cell apoptosis
negative regulation of natural killer cell apoptotic process (GO:0070248)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of natural killer cell death by apoptotic process.
Synonyms: down regulation of natural killer cell apoptosis; down-regulation of natural killer cell apoptosis; downregulation of natural killer cell apoptosis; inhibition of natural killer cell apoptosis; negative regulation of natural killer cell apoptosis; negative regulation of NK cell apoptosis
positive regulation of natural killer cell apoptotic process (GO:0070249)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of natural killer cell death by apoptotic process.
Synonyms: activation of natural killer cell apoptosis; positive regulation of natural killer cell apoptosis; positive regulation of NK cell apoptosis; stimulation of natural killer cell apoptosis; up regulation of natural killer cell apoptosis; up-regulation of natural killer cell apoptosis; upregulation of natural killer cell apoptosis
mating projection membrane (GO:0070250)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding a mating projection, the projection formed by unicellular fungi in response to mating pheromone.
Synonyms: shmoo membrane
pristanate-CoA ligase activity (GO:0070251)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + pristanate + CoA = AMP + diphosphate + pristanoyl-CoA.
Synonyms: pristanate:CoA ligase (AMP-forming); pristanoyl-CoA ligase activity
actin-mediated cell contraction (GO:0070252)
Namespace: biological_process
Definition: The actin filament-based process in which cytoplasmic actin filaments slide past one another resulting in contraction of all or part of the cell body.
somatostatin secretion (GO:0070253)
Namespace: biological_process
Definition: The regulated release of somatostatin from secretory granules in the D cells of the pancreas.
negative regulation of mucus secretion (GO:0070256)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of mucus from a cell or a tissue.
Synonyms: negative regulation of mucus production
inner membrane pellicle complex (GO:0070258)
Namespace: cellular_component
Definition: A membrane structure formed of two closely aligned lipid bilayers that lie beneath the plasma membrane and form part of the pellicle surrounding an apicomplexan parasite cell.
Synonyms: inner membrane complex
tyrosyl-DNA phosphodiesterase activity (GO:0070259)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of phosphotyrosyl groups formed as covalent intermediates (in DNA backbone breakage) between a DNA topoisomerase and DNA.
Comment: See also the molecular function term 'DNA topoisomerase type I activity ; GO:0003917'.
5'-tyrosyl-DNA phosphodiesterase activity (GO:0070260)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of 5'-phosphotyrosyl groups formed as covalent intermediates (in DNA backbone breakage) between DNA topoisomerase II and DNA.
Comment: See also the molecular function term 'DNA topoisomerase type I activity ; GO:0003917'.
peptidyl-serine dephosphorylation (GO:0070262)
Namespace: biological_process
Definition: The removal of phosphoric residues from peptidyl-O-phospho-L-serine to form peptidyl-serine.
transcription factor TFIIIE complex (GO:0070264)
Namespace: cellular_component
Definition: A transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIE contains a specific subset of ribosomal proteins.
obsolete necrotic cell death (GO:0070265)
Namespace: biological_process
Definition: OBSOLETE. A type of cell death that is morphologically characterized by an increasingly translucent cytoplasm, swelling of organelles, minor ultrastructural modifications of the nucleus (specifically, dilatation of the nuclear membrane and condensation of chromatin into small, irregular, circumscribed patches) and increased cell volume (oncosis), culminating in the disruption of the plasma membrane and subsequent loss of intracellular contents. Necrotic cells do not fragment into discrete corpses as their apoptotic counterparts do. Moreover, their nuclei remain intact and can aggregate and accumulate in necrotic tissues.
Synonyms: cellular necrosis; necrosis
Comment: The reason for obsoletion is that this term represent an assay and not a GO process.\n The reason for obsoletion is that this represents a phenotype.
obsolete oncosis (GO:0070267)
Namespace: biological_process
Definition: OBSOLETE. A cellular process that results in swelling of the cell body, and that is morphologically characteristic of necrotic cell death.
Comment: The reason for obsoletion is that this term represent an assay and not a GO process.\n The reason for obsoletion is that this represents a phenotype.
cornification (GO:0070268)
Namespace: biological_process
Definition: A type of programmed cell death that occurs in the epidermis, morphologically and biochemically distinct from apoptosis. It leads to the formation of corneocytes, i.e. dead keratinocytes containing an amalgam of specific proteins (e.g., keratin, loricrin, SPR and involucrin) and lipids (e.g., fatty acids and ceramides), which are necessary for the function of the cornified skin layer (mechanical resistance, elasticity, water repellence and structural stability).
pyroptotic inflammatory response (GO:0070269)
Namespace: biological_process
Definition: A gasdermin-dependent inflammatory response that is associated with the generation of pyrogenic mediators such as IL-1beta and IL-18. Gasdermins are activated by caspase-1 or caspase-4/11, or by certain granzymes. In some, but not all cells, it can lead to pyroptotic programmed cell death.
Synonyms: pyroptosis
obsolete mitotic catastrophe (GO:0070270)
Namespace: biological_process
Definition: OBSOLETE. A type of programmed cell death that occurs during or shortly after a dysregulated or failed mitosis and can be accompanied by morphological alterations including micronucleation and multinucleation.
Synonyms: cell death occurring during metaphase; cell death preceded by multinucleation; mitotic catastrophe
Comment: This term was made obsolete because it does not refer to a true process, but rather to the consequences of aberrations occurred during mitosis.
obsolete protein complex biogenesis (GO:0070271)
Namespace: biological_process
Definition: OBSOLETE. A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a protein complex. Includes the synthesis of non-protein components, and those protein modifications that are involved in synthesis or assembly of the complex.
Synonyms: protein complex biogenesis and assembly
obsolete proton-transporting ATP synthase complex biogenesis (GO:0070272)
Namespace: biological_process
Definition: OBSOLETE. The biogenesis of a proton-transporting ATP synthase (also known as F-type ATPase), a two-sector ATPase found in the inner membrane of mitochondria and chloroplasts, and in bacterial plasma membranes. Includes the synthesis of constituent proteins and their aggregation, arrangement and bonding together.
Synonyms: F-type ATPase complex biogenesis
Comment: The reason for obsoletion is that 'biogenesis' as related to a protein is translation, and there is no indication that the members of these complexes are synthesized in a particular way. Historically biogenesis terms were created for some processes when the level of a molecule was changed by an unknown mechanism, for instance transcription, translation, assembly etc. This is now considered too indirect for annotation.
phosphatidylinositol-4-phosphate binding (GO:0070273)
Namespace: molecular_function
Definition: Binding to phosphatidylinositol-4-phosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 4' position.