LiteFold/GO huggingface dataset:
obsolete intrinsic component of nuclear inner membrane (GO:0031229)
Namespace: cellular_component
Definition: OBSOLETE. The component of the nuclear inner membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Synonyms: intrinsic to nuclear inner membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete intrinsic component of cell outer membrane (GO:0031230)
Namespace: cellular_component
Definition: OBSOLETE. The component of the cell outer membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Synonyms: intrinsic to cell outer membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
obsolete intrinsic component of peroxisomal membrane (GO:0031231)
Namespace: cellular_component
Definition: OBSOLETE. The component of the peroxisomal membrane consisting of the gene products and protein complexes having either part of their peptide sequence embedded in the hydrophobic region of the membrane or some other covalently attached group such as a GPI anchor that is similarly embedded in the membrane.
Synonyms: intrinsic to peroxisomal membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
extrinsic component of external side of plasma membrane (GO:0031232)
Namespace: cellular_component
Definition: The component of a plasma membrane consisting of gene products and protein complexes that are loosely bound to its external surface, but not integrated into the hydrophobic region.
Synonyms: extrinsic to external leaflet of plasma membrane; extrinsic to external side of plasma membrane
extrinsic component of cytoplasmic side of plasma membrane (GO:0031234)
Namespace: cellular_component
Definition: The component of a plasma membrane consisting of gene products and protein complexes that are loosely bound to its cytoplasmic surface, but not integrated into the hydrophobic region.
Synonyms: extrinsic to cytoplasmic side of plasma membrane; extrinsic to internal leaflet of plasma membrane; extrinsic to internal side of plasma membrane
Comment: Consider also annotating to 'cell cortex ; GO:0005938'.
obsolete intrinsic component of the cytoplasmic side of the plasma membrane (GO:0031235)
Namespace: cellular_component
Definition: OBSOLETE. The component of a plasma membrane consisting of gene products and protein complexes that have some covalently attached part (e.g. peptide sequence or GPI anchor) which is embedded in the cytoplasmic side of the plasma membrane only.
Synonyms: intrinsic to cytoplasmic side of plasma membrane; intrinsic to internal leaflet of plasma membrane; intrinsic to internal side of plasma membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
extrinsic component of periplasmic side of plasma membrane (GO:0031236)
Namespace: cellular_component
Definition: The component of a plasma membrane consisting of gene products and protein complexes that are loosely bound to its periplasmic surface, but not integrated into the hydrophobic region.
Synonyms: extrinsic to external leaflet of plasma membrane, in periplasmic space; extrinsic to external side of plasma membrane, in periplasmic space
obsolete intrinsic component of periplasmic side of plasma membrane (GO:0031237)
Namespace: cellular_component
Definition: OBSOLETE. The component of a plasma membrane consisting of gene products and protein complexes that penetrate the periplasmic side of the plasma membrane only, either directly or via some covalently attached hydrophobic anchor.
Synonyms: intrinsic to external leaflet of plasma membrane, in periplasmic space; intrinsic to periplasmic side of plasma membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
external side of cell outer membrane (GO:0031240)
Namespace: cellular_component
Definition: The leaflet of the outer membrane that is opposite to the side that faces the periplasm of the cell, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: external leaflet of cell outer membrane; external side of outer membrane
Comment: In GO, 'external side' still refers to part of the membrane and does not refer to components beyond (outside of) the membrane.
periplasmic side of cell outer membrane (GO:0031241)
Namespace: cellular_component
Definition: The leaflet of a outer cell membrane that faces the periplasm, including any protein embedded in, attached to, or peripherally associated with it.
Synonyms: internal leaflet of cell outer membrane; internal side of cell outer membrane; internal side of outer membrane
Comment: In GO, 'internal side' still refers to part of the membrane and does not refer to components beyond (inside of) the membrane.
extrinsic component of external side of cell outer membrane (GO:0031242)
Namespace: cellular_component
Definition: The component of a cell outer membrane consisting of gene products and protein complexes that are loosely bound to its external surface, but not integrated into the hydrophobic region.
Synonyms: extrinsic to external leaflet of cell outer membrane; extrinsic to external side of cell outer membrane; extrinsic to external side of outer membrane
obsolete intrinsic component of external side of cell outer membrane (GO:0031243)
Namespace: cellular_component
Definition: OBSOLETE. The component of the cell outer membrane consisting of the gene products and protein complexes that penetrate the external side of the cell outer membrane only, either directly or via some covalently attached hydrophobic anchor.
Synonyms: intrinsic to external leaflet of cell outer membrane; intrinsic to external side of cell outer membrane; intrinsic to external side of outer membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
extrinsic component of cell outer membrane (GO:0031244)
Namespace: cellular_component
Definition: The component of the cell outer membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.
Synonyms: extrinsic to cell outer membrane
extrinsic component of periplasmic side of cell outer membrane (GO:0031245)
Namespace: cellular_component
Definition: The component of the cell outer membrane consisting of gene products and protein complexes that are loosely bound to periplasmic surface, but not integrated into the hydrophobic region.
Synonyms: extrinsic to internal leaflet of cell outer membrane; extrinsic to internal side of cell outer membrane; extrinsic to internal side of outer membrane; extrinsic to periplasmic side of cell outer membrane
obsolete intrinsic component of periplasmic side of cell outer membrane (GO:0031246)
Namespace: cellular_component
Definition: OBSOLETE. The component of the cell outer membrane consisting of the gene products that that penetrate the periplasmic side of the cell outer membrane only, either directly or via some covalently attached hydrophobic anchor.
Synonyms: intrinsic to external side of cell outer membrane; intrinsic to internal leaflet of cell outer membrane; intrinsic to internal side of cell outer membrane; intrinsic to internal side of outer membrane
Comment: This term was obsoleted because it represents protein topology, not a cellular component.
actin rod assembly (GO:0031247)
Namespace: biological_process
Definition: The assembly of actin rods, a cellular structure consisting of parallel, hexagonally arranged actin tubules.
Synonyms: actin rod formation
protein acetyltransferase complex (GO:0031248)
Namespace: cellular_component
Definition: A complex that catalyzes the transfer of an acetyl group to a protein acceptor molecule.
denatured protein binding (GO:0031249)
Namespace: molecular_function
Definition: Binding to a denatured protein.
Comment: Note that this term should not be confused with 'unfolded protein binding ; GO:0051082', which usually refers to proteins that have not yet folded into their active states. Denatured proteins once were in their correct functional conformations, but have become incorrectly folded, and often form aggregates.
anaerobic ribonucleoside-triphosphate reductase complex (GO:0031250)
Namespace: cellular_component
Definition: An enzyme complex composed of 4 subunits, 2 copies of the large protein (nrdD in E. coli) and 2 copies of the small protein (nrdG in E. coli). It catalyzes the generation of 2'deoxyribonucleotides under anaerobic growth conditions. The larger subunit is the catalytic unit that is activated by the smaller iron-binding subunit.
PAN complex (GO:0031251)
Namespace: cellular_component
Definition: A complex that possesses poly(A)-specific ribonuclease activity; catalyzes the message-specific shortening of mRNA poly(A) tails. Contains at least two subunits, known as Pan2p and Pan3p in Saccharomyces.
Synonyms: poly(A) nuclease complex
cell leading edge (GO:0031252)
Namespace: cellular_component
Definition: The area of a motile cell closest to the direction of movement.
Synonyms: front of cell; leading edge of cell
cell projection membrane (GO:0031253)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding a plasma membrane bounded cell surface projection.
Synonyms: membrane extension; membrane projection
cell trailing edge (GO:0031254)
Namespace: cellular_component
Definition: The area of a motile cell opposite to the direction of movement.
Synonyms: back of cell; trailing edge
lateral part of motile cell (GO:0031255)
Namespace: cellular_component
Definition: The area of a motile cell perpendicular to the direction of movement.
leading edge membrane (GO:0031256)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding the leading edge of a motile cell.
cell trailing edge membrane (GO:0031257)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding the trailing edge of a motile cell.
Synonyms: trailing edge membrane
lamellipodium membrane (GO:0031258)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding a lamellipodium.
uropod membrane (GO:0031259)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding a uropod.
Synonyms: uropodium membrane
DNA replication preinitiation complex (GO:0031261)
Namespace: cellular_component
Definition: A protein-DNA complex assembled at eukaryotic DNA replication origins immediately prior to the initiation of DNA replication. The preinitiation complex is formed by the assembly of additional proteins onto an existing prereplicative complex. In budding yeast, the additional proteins might include Cdc45p, Sld2p, Sld3p, Dpb11p, DNA polymerases, and others; in fission yeast the GINS complex is present.
Synonyms: pre-IC
Ndc80 complex (GO:0031262)
Namespace: cellular_component
Definition: An essential outer kinetochore complex involved in the attachment of microtubule ends to the chromosomes during mitosis.
Synonyms: Nuf2-Ndc80 complex
death-inducing signaling complex (GO:0031264)
Namespace: cellular_component
Definition: A protein complex formed by the association of signaling proteins with a death receptor upon ligand binding. The complex includes procaspases and death domain-containing proteins in addition to the ligand-bound receptor, and may control the activation of caspases 8 and 10.
Synonyms: death receptor-induced signaling complex; death receptor-induced signalling complex; death-inducing signalling complex; DISC; DISC protein complex
Comment: Gene products that may be annotated to this term include: 1) ligand-bound receptors such as FAS/CD95 (though care should be taken because FAS can also act as a non-apoptotic signal transducer); 2) signaling molecules such as FADD (FAS-associated protein with a death domain), cIAPs (cellular inhibitor of apoptosis proteins), c-FLIPs and caspases 8 and 10.
CD95 death-inducing signaling complex (GO:0031265)
Namespace: cellular_component
Definition: A protein complex formed upon binding of Fas/CD95/APO-1 to its ligand. The complex includes FADD/Mort1, procaspase-8/10 and c-FLIP in addition to the ligand-bound receptor.
Synonyms: CD95 death-inducing signalling complex; CD95 DISC; Fas death-inducing signaling complex
TRAIL death-inducing signaling complex (GO:0031266)
Namespace: cellular_component
Definition: A protein complex formed upon binding of TRAIL to its ligand. The complex includes FADD/Mort1 and procaspase-8 addition to the ligand-bound receptor.
Synonyms: TRAIL death-inducing signalling complex; TRAIL DISC
small GTPase binding (GO:0031267)
Namespace: molecular_function
Definition: Binding to a small monomeric GTPase.
Synonyms: ADP-ribosylation factor binding; ARF binding; GTP-Ral binding; GTP-Rho binding; Rab escort protein activity; Rab GTPase binding; Rab interactor activity; Rac GTPase binding; Ral GTPase binding; Ran GTPase binding; Ran protein binding; Ran-binding protein; Ras GTPase binding; Ras interactor activity; REP; Rho GTPase binding
pseudopodium organization (GO:0031268)
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 pseudopodium, a temporary protrusion or retractile process of a cell, associated with cellular movement.
Synonyms: pseudopodium organisation; pseudopodium organization and biogenesis
pseudopodium assembly (GO:0031269)
Namespace: biological_process
Definition: The assembly of a pseudopodium by rearrangement of the actin cytoskeleton and overlying membrane.
Synonyms: pseudopodium extension; pseudopodium formation
pseudopodium retraction (GO:0031270)
Namespace: biological_process
Definition: The myosin-based contraction and retraction of a pseudopodium.
lateral pseudopodium assembly (GO:0031271)
Namespace: biological_process
Definition: The extension of a pseudopodium from the lateral area of a cell.
Synonyms: lateral pseudopodium formation
regulation of pseudopodium assembly (GO:0031272)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the assembly of pseudopodia.
Synonyms: regulation of pseudopodium formation
negative regulation of pseudopodium assembly (GO:0031273)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the assembly of pseudopodia.
Synonyms: down regulation of pseudopodium formation; down-regulation of pseudopodium formation; downregulation of pseudopodium formation; inhibition of pseudopodium formation; negative regulation of pseudopodium formation
positive regulation of pseudopodium assembly (GO:0031274)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of the assembly of pseudopodia.
Synonyms: activation of pseudopodium formation; positive regulation of pseudopodium formation; stimulation of pseudopodium formation; up regulation of pseudopodium formation; up-regulation of pseudopodium formation; upregulation of pseudopodium formation
obsolete regulation of lateral pseudopodium assembly (GO:0031275)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of the assembly of pseudopodia from the lateral side of the cell.
Synonyms: regulation of lateral pseudopodium formation
Comment: The regulation of lateral pseudopodium assembly terms were not used consistently. The negative regulation term has been replaced by GO:0120320 lateral pseudopodium retraction.
obsolete negative regulation of lateral pseudopodium assembly (GO:0031276)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops, prevents, or reduces the frequency, rate or extent of the assembly of pseudopodia from the lateral side of the cell.
Synonyms: down regulation of lateral pseudopodium formation; down-regulation of lateral pseudopodium formation; downregulation of lateral pseudopodium formation; inhibition of lateral pseudopodium formation; negative regulation of lateral pseudopodium formation
Comment: The regulation of lateral pseudopodium assembly terms were not used consistently. The negative regulation term has been replaced by GO:0120320 lateral pseudopodium retraction.
obsolete positive regulation of lateral pseudopodium assembly (GO:0031277)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the frequency, rate or extent of the assembly of pseudopodia from the lateral side of the cell.
Synonyms: activation of lateral pseudopodium formation; positive regulation of lateral pseudopodium formation; stimulation of lateral pseudopodium formation; up regulation of lateral pseudopodium formation; up-regulation of lateral pseudopodium formation; upregulation of lateral pseudopodium formation
Comment: The regulation of lateral pseudopodium assembly terms were not used consistently. The negative regulation term has been replaced by GO:0120320 lateral pseudopodium retraction.
alpha-1,2-galactosyltransferase activity (GO:0031278)
Namespace: molecular_function
Definition: Catalysis of the transfer of a galactose residue from a donor molecule, such as GDP-galactose or UDP-galactose, to an oligosaccharide, forming an alpha-1,2-linkage.
obsolete regulation of cyclase activity (GO:0031279)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of cyclase activity.
Comment: This term was obsoleted because it represents a molecular function.
obsolete negative regulation of cyclase activity (GO:0031280)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops or reduces the activity of a cyclase.
Synonyms: down regulation of cyclase activity; down-regulation of cyclase activity; downregulation of cyclase activity; inhibition of cyclase activity
Comment: This term was obsoleted because it represents a molecular function.
positive regulation of cyclase activity (GO:0031281)
Namespace: biological_process
Definition: Any process that activates or increases the activity of a cyclase.
Synonyms: activation of cyclase activity; stimulation of cyclase activity; up regulation of cyclase activity; up-regulation of cyclase activity; upregulation of cyclase activity
negative regulation of guanylate cyclase activity (GO:0031283)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of guanylate cyclase activity.
Synonyms: down regulation of guanylate cyclase activity; down-regulation of guanylate cyclase activity; downregulation of guanylate cyclase activity; inhibition of guanylate cyclase activity
positive regulation of guanylate cyclase activity (GO:0031284)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of guanylate cyclase activity.
Synonyms: activation of guanylate cyclase activity; stimulation of guanylate cyclase activity; up regulation of guanylate cyclase activity; up-regulation of guanylate cyclase activity; upregulation of guanylate cyclase activity
regulation of sorocarp stalk cell differentiation (GO:0031285)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of sorocarp stalk cell differentiation. An example of this process is found in Dictyostelium discoideum.
Synonyms: regulation of stalk cell differentiation
positive regulation of sorocarp stalk cell differentiation (GO:0031287)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of sorocarp stalk cell differentiation. An example of this process is found in Dictyostelium discoideum.
Synonyms: activation of stalk cell differentiation; positive regulation of stalk cell differentiation; stimulation of stalk cell differentiation; up regulation of stalk cell differentiation; up-regulation of stalk cell differentiation; upregulation of stalk cell differentiation
sorocarp morphogenesis (GO:0031288)
Namespace: biological_process
Definition: The process in which the sorocarp is generated and organized. An example of this process is found in Dictyostelium discoideum.
Synonyms: fruiting body morphogenesis
obsolete actin phosphorylation (GO:0031289)
Namespace: biological_process
Definition: OBSOLETE. The transfer of one or more phosphate groups to an actin molecule.
Comment: This term was obsoleted because it represents a molecular function.
retinal ganglion cell axon guidance (GO:0031290)
Namespace: biological_process
Definition: The process in which the migration of an axon growth cone of a retinal ganglion cell (RGC) is directed to its target in the brain in response to a combination of attractive and repulsive cues.
Synonyms: retinal ganglion cell axon pathfinding
Ran protein signal transduction (GO:0031291)
Namespace: biological_process
Definition: An intracellular signaling cassette in which a small monomeric GTPase of the Ran subfamily relays a signal.
membrane protein intracellular domain proteolysis (GO:0031293)
Namespace: biological_process
Definition: The proteolytic cleavage of a transmembrane protein leading to the release of an intracellular domain.
Synonyms: membrane protein solubilization
lymphocyte costimulation (GO:0031294)
Namespace: biological_process
Definition: The process of providing, via surface-bound receptor-ligand pairs, a second, antigen-independent, signal in addition to that provided by the B- or T cell receptor to augment B- or T cell activation.
Synonyms: lymphocyte co-stimulation
T cell costimulation (GO:0031295)
Namespace: biological_process
Definition: The process of providing, via surface-bound receptor-ligand pairs, a second, antigen-independent, signal in addition to that provided by the T cell receptor to augment T cell activation.
Synonyms: T cell co-stimulation; T lymphocyte costimulation; T-cell co-stimulation; T-cell costimulation; T-lymphocyte costimulation
B cell costimulation (GO:0031296)
Namespace: biological_process
Definition: The process of providing, via surface-bound receptor-ligand pairs, a second, antigen-independent, signal in addition to that provided by the B cell receptor to augment B cell activation.
Synonyms: B cell co-stimulation; B lymphocyte co-stimulation; B lymphocyte costimulation; B-cell co-stimulation; B-cell costimulation; B-lymphocyte co-stimulation; B-lymphocyte costimulation
replication fork processing (GO:0031297)
Namespace: biological_process
Definition: The process in which a DNA replication fork that has stalled is restored to a functional state and replication is restarted. The stalling may be due to DNA damage, DNA secondary structure, bound proteins, dNTP shortage, or other causes.
Synonyms: collapsed replication fork processing; recovery from replication fork arrest; recovery from replication fork arrest at rDNA locus; recovery from replication fork stalling; recovery from replication fork stalling at rDNA locus; replication fork processing at rDNA locus; replication fork processing at ribosomal DNA locus; replication fork restart; replication restart
replication fork protection complex (GO:0031298)
Namespace: cellular_component
Definition: A heterotrimeric replication-pausing complex conserved in eukaryotes and associated with the replication fork; the complex stabilizes stalled replication forks and is thought to be involved in coordinating leading- and lagging-strand synthesis and in replication checkpoint signaling. Required for maximal fork speed both in vivo and in vitro.
Synonyms: fork pausing complex; FPC; Swi1-Swi3 complex; TIMELESS-TIPIN complex
taurine:pyruvate transaminase activity (GO:0031299)
Namespace: molecular_function
Definition: Catalysis of the reaction: taurine + pyruvate = sulfoacetaldehyde + L-alanine.
Synonyms: taurine-pyruvate aminotransferase activity; taurine:pyruvate aminotransferase activity; Tpa