LiteFold/GO huggingface dataset:
obsolete MAPK export from nucleus (GO:0045204)
Namespace: biological_process
Definition: OBSOLETE. The directed movement of a MAP kinase from the nucleus to the cytoplasm.
Synonyms: cytoplasmic translocation of MAP kinase; cytoplasmic translocation of mitogen-activated protein kinase; MAPK export from cell nucleus; MAPK export out of nucleus; MAPK transport from nucleus to cytoplasm; MAPK-nucleus export
Comment: The reason for obsoletion is that this term represents a specific substrate, out of scope for GO.
obsolete MAPK transporter activity (GO:0045205)
Namespace: molecular_function
Definition: OBSOLETE. Enables the directed movement of MAP kinase into, out of or within a cell, or between cells.
Synonyms: MAPK transporter activity
Comment: This term was made obsolete because we do not know what it was intended to represent when it was created.
obsolete MAPK phosphatase export from nucleus (GO:0045208)
Namespace: biological_process
Definition: OBSOLETE. The directed movement of a MAPK phosphatase from the nucleus to the cytoplasm.
Synonyms: MAPK phosphatase export from cell nucleus; MAPK phosphatase export out of nucleus; MAPK phosphatase transport from nucleus to cytoplasm; MAPK phosphatase-nucleus export
Comment: The reason for obsoletion is that this term represents a specific substrate, out of scope for GO.
obsolete MAPK phosphatase export from nucleus, leptomycin B sensitive (GO:0045209)
Namespace: biological_process
Definition: OBSOLETE. Leptomycin B-sensitive movement of a MAPK phosphatase from the nucleus to the cytoplasm.
Synonyms: leptomycin B-sensitive MAPK phosphatase export out of nucleus; leptomycin B-sensitive MAPK phosphatase transport from nucleus to cytoplasm; leptomycin B-sensitive MAPK phosphatase-nucleus export; MAPK phosphatase export from cell nucleus, leptomycin B sensitive; MAPK phosphatase export out of nucleus, leptomycin B sensitive; MAPK phosphatase transport from nucleus to cytoplasm, leptomycin B sensitive; MAPK phosphatase-nucleus export, leptomycin B sensitive
Comment: The reason for obsoletion is that this term represents a specific substrate, out of scope for GO.
obsolete FasL biosynthetic process (GO:0045210)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of fas ligand (FasL or CD95L), an antigen originally found to be expressed on the cell surface of activated human T-lymphocytes and B-lymphocytes and a variety of malignant human lymphoid cell lines.
Synonyms: APT1LG1 biosynthetic process; CD178 biosynthetic process; CD95L biosynthesis; CD95L biosynthetic process; fas ligand biosynthetic process; Fas-L biosynthetic process; FasL anabolism; FasL biosynthesis; FasL formation; FasL synthesis; FASLG biosynthetic process
Comment: The reason for obsoletion is that this term represents a gene product.
postsynaptic membrane (GO:0045211)
Namespace: cellular_component
Definition: A specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft). Neurotransmitters cross the synaptic cleft and transmit the signal to the postsynaptic membrane.
Synonyms: post-synaptic membrane
obsolete neurotransmitter receptor biosynthetic process (GO:0045212)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of neurotransmitter receptors.
Synonyms: neurotransmitter receptor anabolism; neurotransmitter receptor biosynthesis; neurotransmitter receptor formation; neurotransmitter receptor synthesis
Comment: The reason for obsoletion is that those represent specific gene products, and genes annotated to those terms should be annotated to 'regulation of gene expression' or 'regulation of transcription' or some signaling term.
obsolete neurotransmitter receptor metabolic process (GO:0045213)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving neurotransmitter receptors.
Synonyms: neurotransmitter receptor metabolism
Comment: The reason for obsoletion is that 'neurotransmitter' is unnecessary grouping in the metabolism branch of the ontology, and it creates true path violations.
sarcomere organization (GO:0045214)
Namespace: biological_process
Definition: The myofibril assembly process that results in the organization of muscle actomyosin into sarcomeres. The sarcomere is the repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs.
Synonyms: sarcomere alignment; sarcomere organisation
cell-cell junction organization (GO:0045216)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a cell-cell junction. A cell-cell junction is a specialized region of connection between two cells.
Synonyms: cell-cell junction assembly and maintenance; cell-cell junction biogenesis; cell-cell junction organisation; intercellular junction assembly and maintenance
cell-cell junction maintenance (GO:0045217)
Namespace: biological_process
Definition: The maintenance of junctions between cells.
Synonyms: intercellular junction maintenance
zonula adherens maintenance (GO:0045218)
Namespace: biological_process
Definition: Maintaining the zonula adherens junction, the cell-cell adherens junction formed near the apex of epithelial cells.
obsolete regulation of FasL production (GO:0045219)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of FasL.
Synonyms: regulation of FasL anabolism; regulation of FasL biosynthesis; regulation of FasL formation; regulation of FasL synthesis
Comment: The reason for obsoletion is that this term represents a gene product.
obsolete negative regulation of FasL production (GO:0045221)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of FasL.
Synonyms: down regulation of FasL biosynthetic process; down-regulation of FasL biosynthetic process; downregulation of FasL biosynthetic process; inhibition of FasL biosynthetic process; negative regulation of FasL anabolism; negative regulation of FasL biosynthesis; negative regulation of FasL biosynthetic process; negative regulation of FasL formation; negative regulation of FasL synthesis
Comment: The reason for obsoletion is that this term represents a gene product.
obsolete CD4 biosynthetic process (GO:0045222)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of CD4, a CD marker that occurs on T-helper cells and is involved in MHC class II restricted interactions.
Synonyms: CD4 anabolism; CD4 biosynthesis; CD4 formation; CD4 synthesis
Comment: The reason for obsoletion is that this term represents a gene product.
obsolete regulation of CD4 production (GO:0045223)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of CD4.
Synonyms: regulation of CD4 anabolism; regulation of CD4 biosynthesis; regulation of CD4 biosynthetic process; regulation of CD4 formation; regulation of CD4 synthesis
Comment: The reason for obsoletion is that this term represents a gene product.
obsolete positive regulation of CD4 production (GO:0045224)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of CD4.
Synonyms: activation of CD4 biosynthetic process; positive regulation of CD4 anabolism; positive regulation of CD4 biosynthesis; positive regulation of CD4 biosynthetic process; positive regulation of CD4 formation; positive regulation of CD4 synthesis; stimulation of CD4 biosynthetic process; up regulation of CD4 biosynthetic process; up-regulation of CD4 biosynthetic process; upregulation of CD4 biosynthetic process
Comment: The reason for obsoletion is that this term represents a gene product.
obsolete negative regulation of CD4 production (GO:0045225)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of CD4.
Synonyms: down regulation of CD4 biosynthetic process; down-regulation of CD4 biosynthetic process; downregulation of CD4 biosynthetic process; inhibition of CD4 biosynthetic process; negative regulation of CD4 anabolism; negative regulation of CD4 biosynthesis; negative regulation of CD4 biosynthetic process; negative regulation of CD4 formation; negative regulation of CD4 synthesis
Comment: The reason for obsoletion is that this term represents a gene product.
obsolete extracellular polysaccharide biosynthetic process (GO:0045226)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of polysaccharides used in extracellular structures.
Synonyms: extracellular polysaccharide anabolism; extracellular polysaccharide biosynthesis; extracellular polysaccharide formation; extracellular polysaccharide synthesis
Comment: The reason for obsoletion is that this term is now redundant with GO:0000271, polysaccharide biosynthetic process
capsule polysaccharide biosynthetic process (GO:0045227)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of polysaccharides that make up the capsule, a protective structure surrounding some species of bacteria and fungi.
Synonyms: capsular polysaccharide biosynthesis; capsular polysaccharide biosynthetic process; capsule polysaccharide anabolism; capsule polysaccharide biosynthesis; capsule polysaccharide formation; capsule polysaccharide synthesis
slime layer polysaccharide biosynthetic process (GO:0045228)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of polysaccharides in the slime layer, a diffused layer of polysaccharide exterior to the bacterial cell wall.
Synonyms: slime layer polysaccharide anabolism; slime layer polysaccharide biosynthesis; slime layer polysaccharide formation; slime layer polysaccharide synthesis
external encapsulating structure organization (GO:0045229)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of external structures that lie outside the plasma membrane and surround the entire cell.
Synonyms: external encapsulating structure organisation; external encapsulating structure organization and biogenesis
capsule organization (GO:0045230)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the capsule, a protective structure surrounding some species of bacteria and fungi.
Synonyms: capsule organisation; capsule organization and biogenesis
slime layer organization (GO:0045231)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a slime layer. A slime layer is an easily removed, diffuse, unorganized layer of extracellular material that surrounds a cell.
Synonyms: slime layer organisation; slime layer organization and biogenesis
S-layer organization (GO:0045232)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an S-layer enveloping the cell. The S-layer is a crystalline protein layer surrounding some bacteria.
Synonyms: S-layer organisation; S-layer organization and biogenesis
obsolete natural killer cell receptor activity (GO:0045233)
Namespace: molecular_function
Definition: OBSOLETE. A receptor found on the surface of natural killer cells which binds Class I MHC antigens and is required for activation of NK activity. It belongs to the Ly49i family.
Synonyms: Ly49i; natural killer cell receptor activity; NK cell receptor activity
Comment: This term was made obsolete because the receptor is defined based on its cellular expression pattern, and the definition is inaccurate: receptors on natural killer cells can either activate or inhibit natural killer (NK) cell-mediated cytotoxicity.
protein palmitoleylation (GO:0045234)
Namespace: biological_process
Definition: The covalent attachment of a palmitoleyl group to a protein.
Synonyms: protein amino acid palmitoleylation
CXCR chemokine receptor binding (GO:0045236)
Namespace: molecular_function
Definition: Binding to a chemokine receptor in the CXCR family.
Synonyms: alpha chemokine receptor binding; alpha chemokine receptor ligand; C-X-C chemokine receptor ligand; CXC chemokine receptor ligand
CXCR1 chemokine receptor binding (GO:0045237)
Namespace: molecular_function
Definition: Binding to a CXCR1 chemokine receptor.
Synonyms: CXCR1 chemokine receptor ligand
CXCR2 chemokine receptor binding (GO:0045238)
Namespace: molecular_function
Definition: Binding to a CXCR2 chemokine receptor.
Synonyms: CXCR2 chemokine receptor ligand
tricarboxylic acid cycle heteromeric enzyme complex (GO:0045239)
Namespace: cellular_component
Definition: Any of the heteromeric enzymes that act in the TCA cycle.
Synonyms: TCA cycle enzyme complex
alpha-ketoacid dehydrogenase complex (GO:0045240)
Namespace: cellular_component
Definition: A multi-enzyme complex that catalyzes the oxidative decarboxylation of an alpha-ketoacid - pyruvate, a branched-chain alpha-ketoacid or alpha-ketoglutarate (also known as 2-oxoglutarate). The complex comprises multiple copies of three enzymes referred to as E1, E2 and E3: a dihydrolipoyl transacylase (E2) forms the core of the complex, with an alpha-ketoacid dehydrogenase (E1) and a dihydrolipoamide dehydrogenase (E3) attached through non-covalent bonds. The E1 and E2 components are specific to different alpha-ketoacid dehydrogenase complexes, whereas the E3 component is the same. Additional proteins may also be present.
Synonyms: 2-oxoacid dehydrogenase complex; dihydrolipoyl dehydrogenase complex
obsolete cytosolic alpha-ketoglutarate dehydrogenase complex (GO:0045241)
Namespace: cellular_component
Definition: OBSOLETE. Cytosolic complex that possesses alpha-ketoglutarate dehydrogenase activity.
Synonyms: 2-oxoglutarate dehydrogenase complex
Comment: The reason for obsoletion is that this term is equivalent to cytosolic oxoglutarate dehydrogenase complex.
isocitrate dehydrogenase complex (NAD+) (GO:0045242)
Namespace: cellular_component
Definition: Complex that possesses isocitrate dehydrogenase (NAD+) activity.
succinate-CoA ligase complex (GDP-forming) (GO:0045244)
Namespace: cellular_component
Definition: A heterodimeric enzyme complex, usually composed of an alpha and beta chain. Functions in the TCA cycle, hydrolyzing succinyl-CoA into succinate and CoA, thereby forming GTP.
Synonyms: succinyl-CoA synthetase, GDP-forming
obsolete cytosolic tricarboxylic acid cycle enzyme complex (GO:0045246)
Namespace: cellular_component
Definition: OBSOLETE. Any of the heteromeric enzymes, located in the cytosol, that act in the tricarboxylic acid (TCA) cycle.
Synonyms: TCA cycle enzyme complex; tricarboxylic acid cycle enzyme complex
Comment: The reason for obsoletion is that this term is unnecessarily taxon-specific.
cytosolic electron transfer flavoprotein complex (GO:0045247)
Namespace: cellular_component
Definition: A protein complex located in the cytosol containing flavin adenine dinucleotide (FAD) that, together with an acyl-CoA dehydrogenase, forms a system that oxidizes an acyl-CoA molecule and reduces ubiquinone and other acceptors.
obsolete cytosolic oxoglutarate dehydrogenase complex (GO:0045248)
Namespace: cellular_component
Definition: OBSOLETE. A cytosolic complex of multiple copies of three enzymatic components: oxoglutarate dehydrogenase (lipoamide) (E1), dihydrolipoamide S-succinyltransferase (E2) and dihydrolipoamide dehydrogenase (E3); catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and carbon dioxide (CO2).
Comment: This term is unnecessarily taxon-specific.
cytosol pyruvate dehydrogenase (lipoamide) phosphatase complex (GO:0045249)
Namespace: cellular_component
Definition: A cytosolic 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.
Comment: See also the cellular component term 'cytosolic pyruvate dehydrogenase complex ; GO:0045250'.
obsolete cytosolic pyruvate dehydrogenase complex (GO:0045250)
Namespace: cellular_component
Definition: OBSOLETE. A cytosolic complex that carries out the oxidative decarboxylation of pyruvate to form acetyl-CoA; comprises subunits possessing three catalytic activities: pyruvate dehydrogenase (E1), dihydrolipoamide S-acetyltransferase (E2), and dihydrolipoamide dehydrogenase (E3). Usually contains fewer subunits than its eukaryotic counterpart; for example, the E. coli complex contains 12 E1 dimers, 8 E2 trimers, and 6 E3 dimers arranged in highly symmetric cubic order.
Synonyms: pyruvate dehydrogenase complex (lipoamide)
Comment: This term is unnecessarily taxon-specific.
electron transfer flavoprotein complex (GO:0045251)
Namespace: cellular_component
Definition: A protein complex facilitating the electron transfer from an acyl-CoA molecule to ubiquinone via its flavin adenine dinucleotide (FAD) cofactor. Usually contains an alpha and a beta subunit and the structural cofactor adenosine monophosphate (AMP). Part of a system that oxidizes an acyl-CoA molecule and reduces ubiquinone and other acceptors in the electron transport system.
Synonyms: ETF complex
oxoglutarate dehydrogenase complex (GO:0045252)
Namespace: cellular_component
Definition: A multi-enzyme complex that catalyzes the oxidative decarboxylation of alpha-ketoglutarate (also known as 2-oxoglutarate) to form succinyl-CoA. The complex comprises multiple copies of three enzymes referred to as E1, E2 and E3: oxoglutarate dehydrogenase (lipoamide) (E1), dihydrolipoamide S-succinyltransferase (E2) and dihydrolipoamide dehydrogenase (E3). Additional proteins may also be present.
Synonyms: alpha-ketoglutarate dehydrogenase complex; dihydrolipoamide S-succinyltransferase complex; KGDHC
Comment: The catalytic activities of the individual components of this complex are represented by the molecular function terms 'oxoglutarate dehydrogenase (succinyl-transferring) activity ; GO:0004591' (E1), 'dihydrolipoyllysine-residue succinyltransferase activity ; GO:0004149' (E2), and 'dihydrolipoyl dehydrogenase activity ; GO:0004148' (E3).
pyruvate dehydrogenase (lipoamide) phosphatase complex (GO:0045253)
Namespace: cellular_component
Definition: A 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.
Comment: See also the cellular component term 'cytosolic pyruvate dehydrogenase complex ; GO:0045250'.
pyruvate dehydrogenase complex (GO:0045254)
Namespace: cellular_component
Definition: A multi-enzyme complex that catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA. The complex comprises multiple copies of three enzymes referred to as E1, E2 and E3: pyruvate dehydrogenase (E1, which may be a homodimer or a heterotetramer of two alpha and two beta subunits, depending on species), dihydrolipoamide S-acetyltransferase (E2), and dihydrolipoamide dehydrogenase (E3). Additional proteins may also be present.
Synonyms: pyruvate dehydrogenase complex (lipoamide)
Comment: The catalytic activities of the individual components of this complex are represented by the molecular function terms 'pyruvate dehydrogenase (acetyl-transferring) activity ; GO:0004739' (E1), 'dihydrolipoyllysine-residue acetyltransferase activity ; GO:0004742' (E2), and 'dihydrolipoyl dehydrogenase activity ; GO:0004148' (E3).
obsolete succinate dehydrogenase complex (ubiquinone) (GO:0045257)
Namespace: cellular_component
Definition: OBSOLETE. The enzyme that catalyzes the oxidation of succinate and ubiquinone to fumarate and ubiquinol; involved in aerobic respiration, repressed in anaerobic respiration.
Comment: The reason for obsoletion is that this term unnecssarily specified a cellular compartment.
obsolete plasma membrane succinate dehydrogenase complex (ubiquinone) (GO:0045258)
Namespace: cellular_component
Definition: OBSOLETE. The enzyme, located in the plasma membrane, that catalyzes the oxidation of succinate and ubiquinone to fumarate and ubiquinol; involved in aerobic respiration, repressed in anaerobic respiration.
Comment: The reason for obsoletion is that this term unnecssarily specified a cellular compartment.
proton-transporting ATP synthase complex (GO:0045259)
Namespace: cellular_component
Definition: A proton-transporting two-sector ATPase complex that catalyzes the phosphorylation of ADP to ATP during oxidative phosphorylation. The complex comprises a membrane sector (F0) that carries out proton transport and a cytoplasmic compartment sector (F1) that catalyzes ATP synthesis by a rotational mechanism; the extramembrane sector (containing 3 a and 3 b subunits) is connected via the d-subunit to the membrane sector by several smaller subunits. Within this complex, the g and e subunits and the 9-12 c subunits rotate by consecutive 120 degree angles and perform parts of ATP synthesis. This movement is driven by the hydrogen ion electrochemical potential gradient.
Synonyms: F1-F0 complex; hydrogen-translocating F-type ATPase complex; hydrogen-transporting ATP synthase complex; proton-transporting F-type ATPase complex
obsolete plasma membrane proton-transporting ATP synthase complex (GO:0045260)
Namespace: cellular_component
Definition: OBSOLETE. A proton-transporting ATP synthase complex found in the plasma membrane. Examples of this component are found in Bacterial species.
Synonyms: hydrogen-translocating F-type ATPase complex; hydrogen-transporting ATP synthase; plasma membrane hydrogen-translocating F-type ATPase complex; proton-transporting ATP synthase complex
Comment: The reason for obsoletion is that this term unnecssarily specified a cellular compartment.
obsolete proton-transporting ATP synthase complex, catalytic core F(1) (GO:0045261)
Namespace: cellular_component
Definition: OBSOLETE. The sector of a hydrogen-transporting ATP synthase complex in which the catalytic activity resides; it comprises the catalytic core and central stalk, and is peripherally associated with a membrane, such as the plasma membrane or the mitochondrial inner membrane, when the entire ATP synthase is assembled.
Synonyms: hydrogen-transporting ATP synthase, F1 sector
Comment: The reason for obsoletion is that this term represents a subcomplex that does not perform a distinct function.
obsolete plasma membrane proton-transporting ATP synthase complex, catalytic core F(1) (GO:0045262)
Namespace: cellular_component
Definition: OBSOLETE. The catalytic sector of the plasma membrane hydrogen-transporting ATP synthase; it comprises the catalytic core and central stalk, and is peripherally associated with the plasma membrane when the entire ATP synthase is assembled. Examples of this component are found in Bacterial species.
Synonyms: hydrogen-transporting ATP synthase, F1 sector; proton-transporting ATP synthase complex, catalytic core F(1)
Comment: See also the cellular component term 'plasma membrane ; GO:0005886'.\nThe reason for obsoletion is that this term unnecssarily specified a cellular compartment.