LiteFold/GO huggingface dataset:
synaptotagmin-synaptobrevin 2-SNAP-25-syntaxin-1a-syntaxin-1b-Rab3a-complexin II complex (GO:0070355)
Namespace: cellular_component
Definition: A SNARE complex that contains synaptotagmin, synaptobrevin 2 (VAMP2), SNAP-25, syntaxin 1a, syntaxin1b, Rab3a, and complexin II (or orthologs thereof).
Synonyms: SNARE complex (STX1a, STX1b, SNAP25, RAB3a, SYT1, VAMP2, CPLX2); STX1a-STX1b-SNAP25-RAB3a-SYT1-VAMP2-CPLX2 complex
alphav-beta3 integrin-CD47 complex (GO:0070357)
Namespace: cellular_component
Definition: A protein complex that consists of an alphav-beta3 integrin complex bound to CD47 (also known as IAP).
Synonyms: ITGB3-ITGAV-CD47 complex
actin polymerization-dependent cell motility (GO:0070358)
Namespace: biological_process
Definition: A process involved in the controlled movement of a bacterial cell powered by the continuous polymerization of actin at one pole of the cell.
Synonyms: cell motility by actin tail formation
symbiont-mediated actin polymerization-dependent cell-to-cell migration in host (GO:0070360)
Namespace: biological_process
Definition: The directional movement of an organism, usually a bacterial cell, from one place to another within its host organism, by a process involving continuous polymerization of actin at one pole of the symbiont cell. Some bacteria use host actin for migration from cell to cell. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: actin polymerization-dependent cell migration in host; actin polymerization-dependent cell motility involved in migration of symbiont in host; actin polymerization-dependent cell-to-cell migration in host; migration of symbiont within host by polymerization of host actin
hepatocyte differentiation (GO:0070365)
Namespace: biological_process
Definition: The process in which a relatively unspecialized cell acquires the specialized features of a hepatocyte. A hepatocyte is specialized epithelial cell that is organized into interconnected plates called lobules, and is the main structural component of the liver.
Synonyms: liver cell differentiation
regulation of hepatocyte differentiation (GO:0070366)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of hepatocyte differentiation.
Synonyms: regulation of liver cell differentiation
negative regulation of hepatocyte differentiation (GO:0070367)
Namespace: biological_process
Definition: Any process that stops or decreases the rate or extent of hepatocyte differentiation.
Synonyms: down regulation of hepatocyte differentiation; down-regulation of hepatocyte differentiation; downregulation of hepatocyte differentiation; inhibition of hepatocyte differentiation; negative regulation of liver cell differentiation
positive regulation of hepatocyte differentiation (GO:0070368)
Namespace: biological_process
Definition: Any process that activates or increases the rate or extent of hepatocyte differentiation.
Synonyms: activation of hepatocyte differentiation; positive regulation of liver cell differentiation; stimulation of hepatocyte differentiation; up regulation of hepatocyte differentiation; up-regulation of hepatocyte differentiation; upregulation of hepatocyte differentiation
cellular heat acclimation (GO:0070370)
Namespace: biological_process
Definition: Any process that increases heat tolerance of a cell in response to high temperatures.
Synonyms: cellular thermotolerance
ERK1 and ERK2 cascade (GO:0070371)
Namespace: biological_process
Definition: A MAPK cascade containing at least the ERK1 or ERK2 MAP kinases. It starts with the activation of a MAP3K, and the consecutive activation of a MPK2K and of ERK1 or ERK2. The cascade can also contain an additional tier: the upstream MAP4K. The kinases in each tier phosphorylate and activate the kinase in the downstream tier. The ERK1/ERK2 cascade is activated by mitogens, growth factors, G protein-coupled receptors, and results in cellular responses such as cell proliferation, cell differentiation and development.
Synonyms: ERK cascade; ERK1 and ERK2 signaling pathway; ERK1 and ERK2 signalling pathway; ERK1 cascade; ERK1/2 cascade; ERK2 cascade; extracellular signal-regulated kinase 1/2 (ERK1/2) cascade; extracellular signal-regulated kinase 1/2 cascade; MAPK1 cascade; MAPK3 cascade
Comment: Note that this MAPKKK cascade is commonly referred to as the ERK pathway in the literature, but involves only ERK1 or ERK2 and should not be confused with cascades that involve other ERK kinases.
regulation of ERK1 and ERK2 cascade (GO:0070372)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of signal transduction mediated by the ERK1 and ERK2 cascade.
Synonyms: regulation of ERK cascade; regulation of ERK1 and ERK2 signaling pathway; regulation of ERK1 and ERK2 signalling pathway; regulation of ERK1 cascade; regulation of ERK1/2 cascade; regulation of ERK2 cascade; regulation of MAPK1 cascade; regulation of MAPK3 cascade
negative regulation of ERK1 and ERK2 cascade (GO:0070373)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of signal transduction mediated by the ERK1 and ERK2 cascade.
Synonyms: down regulation of ERK1 and ERK2 cascade; down-regulation of ERK1 and ERK2 cascade; downregulation of ERK1 and ERK2 cascade; inhibition of ERK1 and ERK2 cascade; negative regulation of ERK cascade; negative regulation of ERK1 and ERK2 signaling pathway; negative regulation of ERK1 and ERK2 signalling pathway; negative regulation of ERK1 cascade; negative regulation of ERK1/2 cascade; negative regulation of ERK2 cascade; negative regulation of MAPK1 cascade; negative regulation of MAPK3 cascade
ERK5 cascade (GO:0070375)
Namespace: biological_process
Definition: A MAPK cascade containing at least the ERK5 MAP kinase (MAPK7; also called BMK1). It starts with the activation of a MAP3K, and the consecutive activation of a MPK2K and of ERK5. The cascade can also contain an additional tier: the upstream MAP4K. The kinases in each tier phosphorylate and activate the kinases in the downstream tier. The ERK5 cascade is activated by stress, mitogens, and by G protein-coupled receptors, and results in cellular responses such as cell growth, cell differentiation and development.
Synonyms: big MAP kinase signaling cascade; BMK cascade; BMK signaling pathway; BMK signalling pathway; BMK1 cascade; ERK5 signaling pathway; extracellular signal-regulated kinase 5 cascade; MAPK7 cascade
regulation of ERK5 cascade (GO:0070376)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of signal transduction mediated by the ERK5 cascade.
Synonyms: regulation of BMK cascade; regulation of BMK signaling pathway; regulation of BMK signalling pathway; regulation of BMK1 cascade; regulation of ERK5 signaling pathway; regulation of MAPK7 cascade
negative regulation of ERK5 cascade (GO:0070377)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of signal transduction mediated by the ERK5 cascade.
Synonyms: down regulation of BMK cascade; down-regulation of BMK cascade; downregulation of BMK cascade; inhibition of BMK cascade; negative regulation of BMK cascade; negative regulation of BMK signaling pathway; negative regulation of BMK signalling pathway; negative regulation of BMK1 cascade; negative regulation of ERK5 signaling pathway; negative regulation of MAPK7 cascade
positive regulation of ERK5 cascade (GO:0070378)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the ERK5 cascade.
Synonyms: activation of BMK cascade; positive regulation of BMK cascade; positive regulation of BMK signaling pathway; positive regulation of BMK signalling pathway; positive regulation of BMK1 cascade; positive regulation of ERK5 signaling pathway; positive regulation of MAPK7 cascade; stimulation of BMK cascade; up regulation of BMK cascade; up-regulation of BMK cascade; upregulation of BMK cascade
high mobility group box 1 binding (GO:0070379)
Namespace: molecular_function
Definition: Binding to high mobility group box 1 (HMBGB1).
Synonyms: HMGB1 binding
endosome to plasma membrane transport vesicle (GO:0070381)
Namespace: cellular_component
Definition: A transport vesicle that mediates transport from the endosome to the plasma membrane, and fuses with the plasma membrane to deliver lipids and membrane proteins to the plasma membrane and to release various cargo molecules, such as proteins or hormones, by exocytosis.
Synonyms: endosome to plasma membrane constitutive secretory pathway transport vesicle; endosome-plasma membrane transport vesicle
exocytic vesicle (GO:0070382)
Namespace: cellular_component
Definition: A transport vesicle that mediates transport from an intracellular compartment to the plasma membrane, and fuses with the plasma membrane to release various cargo molecules, such as proteins or hormones, by exocytosis.
Synonyms: exocytic constitutive secretory pathway transport vesicle; exocytotic vesicle
DNA cytosine deamination (GO:0070383)
Namespace: biological_process
Definition: The removal of an amino group from a cytosine residue in DNA, forming a uracil residue.
Harderian gland development (GO:0070384)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the Harderian gland over time, from its formation to the mature structure. The Harderian gland is an anterior orbital structure usually associated with the nictitating membrane, and produces and secretes a variety of substances to the eye, depending upon the species.
Comment: Note that the Harderian gland is found in all terrestrial vertebrate groups, including amphibia, reptiles, birds, and mammals. However, it appears to be absent in certain mammals such as bats, cows, horses, and higher primates. Though largely absent in the adult human, it is present in the fetal and neonatal stages.
egasyn-beta-glucuronidase complex (GO:0070385)
Namespace: cellular_component
Definition: A protein complex that contains beta-glucuronidase and the carboxyl esterase egasyn; formation of the complex causes beta-glucuronidase to be retained in the endoplasmic reticulum.
procollagen-proline 4-dioxygenase complex, alpha(II) type (GO:0070387)
Namespace: cellular_component
Definition: A procollagen-proline 4-dioxygenase complex that contains alpha subunits of the type II isoform; its activity is inhibited by poly(L-proline) only at high concentrations.
Synonyms: procollagen-proline, 2-oxoglutarate-4-dioxygenase complex, alpha(II) type; prolyl 4-hydroxylase complex (alpha(II)-type)
procollagen-proline 4-dioxygenase complex, alpha(III) type (GO:0070388)
Namespace: cellular_component
Definition: A procollagen-proline 4-dioxygenase complex that contains alpha subunits of the type III isoform.
Synonyms: procollagen-proline, 2-oxoglutarate-4-dioxygenase complex, alpha(III) type; prolyl 4-hydroxylase complex (alpha(III)-type)
transcription export complex 2 (GO:0070390)
Namespace: cellular_component
Definition: A protein complex that couples SAGA-dependent gene expression to mRNA export at the inner side of the nuclear pore complex (NPC). The TREX-2 complex is tethered to the inner side of the NPC via the nucleoporins Nup1 and Nup60; in S. cerevisiae it contains Sac3p, Thp1p, Sem1, Sus1p and Cdc31p.
Synonyms: Sac3-Thp1-Sus1-Sem1-Cdc31 complex; TREX-2 complex
detection of lipoteichoic acid (GO:0070392)
Namespace: biological_process
Definition: The series of events in which a lipoteichoic acid stimulus is received by a cell and converted into a molecular signal; lipoteichoic acid is a major component of the cell wall of gram-positive bacteria and typically consists of a chain of glycerol-phosphate repeating units linked to a glycolipid anchor.
Synonyms: detection of LTA
teichoic acid catabolic process (GO:0070393)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of teichoic acid, which is a major component of the cell wall of Gram-positive bacteria and typically consists of a polymer of glycerol-phosphate or ribitol-phosphate to which are attached glycosyl and D-alanyl ester residues.
Synonyms: teichoic acid breakdown; teichoic acid catabolism; teichoic acid degradation
obsolete lipoteichoic acid metabolic process (GO:0070394)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving lipoteichoic acid, which is a major component of the cell wall of gram-positive bacteria and typically consists of a chain of glycerol-phosphate repeating units linked to a glycolipid anchor.
Synonyms: lipoteichoic acid metabolism; LTA metabolic process
Comment: This term was obsoleted because it is an unnecessary grouping class.
lipoteichoic acid catabolic process (GO:0070396)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of lipoteichoic acid, which is a major component of the cell wall of gram-positive bacteria and typically consists of a chain of glycerol-phosphate repeating units linked to a glycolipid anchor.
Synonyms: lipoteichoic acid breakdown; lipoteichoic acid catabolism; lipoteichoic acid degradation
obsolete wall teichoic acid metabolic process (GO:0070397)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving wall teichoic acid, which is a major component of the cell wall of Gram-positive bacteria and typically consists of a polymer of glycerol-phosphate or ribitol-phosphate to which are attached glycosyl and D-alanyl ester residues and which is covalently linked to peptidoglycan.
Synonyms: wall teichoic acid metabolism; WTA metabolic process
Comment: This term was obsoleted because it is an unnecessary grouping term.
wall teichoic acid biosynthetic process (GO:0070398)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of wall teichoic acid, which is a major component of the cell wall of Gram-positive bacteria and typically consists of a polymer of glycerol-phosphate or ribitol-phosphate to which are attached glycosyl and D-alanyl ester residues and which is covalently linked to peptidoglycan.
Synonyms: wall teichoic acid anabolism; wall teichoic acid biosynthesis; wall teichoic acid formation; wall teichoic acid synthesis; WTA biosynthetic process
wall teichoic acid catabolic process (GO:0070399)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of wall teichoic acid, which is a major component of the cell wall of Gram-positive bacteria and typically consists of a polymer of glycerol-phosphate or ribitol-phosphate to which are attached glycosyl and D-alanyl ester residues and which is covalently linked to peptidoglycan.
Synonyms: wall teichoic acid breakdown; wall teichoic acid catabolism; wall teichoic acid degradation
teichoic acid D-alanylation (GO:0070400)
Namespace: biological_process
Definition: The formation of a D-alanyl ester of teichoic acid. Alanylation of teichoic acids modulates the properties of the bacterial cell wall and modulates the inflammatory properties of the teichoic acid.
Synonyms: teichoic acid alanylation
NADP+ binding (GO:0070401)
Namespace: molecular_function
Definition: Binding to the oxidized form, NADP+, of nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions.
Synonyms: NADP (oxidized) binding; NADP binding; oxidized NADP binding; oxidized nicotinamide adenine dinucleotide phosphate binding
NADPH binding (GO:0070402)
Namespace: molecular_function
Definition: Binding to the reduced form, NADPH, of nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions.
Synonyms: NADP (reduced) binding; reduced NADP binding; reduced nicotinamide adenine dinucleotide phosphate binding
NAD+ binding (GO:0070403)
Namespace: molecular_function
Definition: Binding to the oxidized form, NAD, of nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions.
Synonyms: NAD (oxidized) binding; NAD binding; oxidized NAD binding; oxidized nicotinamide adenine dinucleotide binding
NADH binding (GO:0070404)
Namespace: molecular_function
Definition: Binding to the reduced form, NADH, of nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions.
Synonyms: NAD (reduced) binding; reduced NAD binding; reduced nicotinamide adenine dinucleotide binding
ammonium ion binding (GO:0070405)
Namespace: molecular_function
Definition: Binding to ammonium ions (NH4+).
Synonyms: ammonium binding
L-glutamine binding (GO:0070406)
Namespace: molecular_function
Definition: Binding to L-glutamine, 2,5-diamino-5-oxopentanoic acid.
Synonyms: glutamine binding
oxidation-dependent protein catabolic process (GO:0070407)
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 oxidation of one or more amino acid residues in the protein.
Synonyms: oxidation-dependent protein breakdown; oxidation-dependent protein catabolism; oxidation-dependent protein degradation; oxidation-dependent proteolysis; oxidized protein catabolic process
carbamoyl phosphate metabolic process (GO:0070408)
Namespace: biological_process
Definition: The chemical reactions and pathways involving carbamoyl phosphate, an intermediate in the urea cycle and other nitrogen compound metabolic pathways.
Synonyms: carbamoyl phosphate metabolism
carbamoyl phosphate biosynthetic process (GO:0070409)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of carbamoyl phosphate, an intermediate in the urea cycle and other nitrogen compound metabolic pathways.
Synonyms: carbamoyl phosphate anabolism; carbamoyl phosphate biosynthesis; carbamoyl phosphate formation; carbamoyl phosphate synthesis; carbamyl phosphate biosynthetic process
co-SMAD binding (GO:0070410)
Namespace: molecular_function
Definition: Binding to a common mediator SMAD signaling protein.
Synonyms: common mediator SMAD binding; common partner SMAD binding; common-mediator SMAD binding; common-partner SMAD binding
I-SMAD binding (GO:0070411)
Namespace: molecular_function
Definition: Binding to an inhibitory SMAD signaling protein.
R-SMAD binding (GO:0070412)
Namespace: molecular_function
Definition: Binding to a receptor-regulated SMAD signaling protein.
Synonyms: pathway restricted SMAD binding; pathway-restricted SMAD binding; receptor regulated SMAD binding; receptor-regulated SMAD binding
obsolete trehalose metabolism in response to stress (GO:0070413)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving trehalose that occur as a result of a stimulus indicating the organism is under stress.
Synonyms: trehalose metabolic process involved in response to stress
Comment: The reason for obsoletion is that this term is pre-composed and should be represented as a GO-CAM model.
obsolete trehalose metabolism in response to heat stress (GO:0070414)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving trehalose that occur as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
Synonyms: trehalose metabolic process involved in response to heat stress
Comment: The reason for obsoletion is that this term is pre-composed and should be represented as a GO-CAM model.
obsolete trehalose metabolism in response to cold stress (GO:0070415)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving trehalose that occur as a result of a cold stimulus, a temperature stimulus below the optimal temperature for that organism.
Synonyms: trehalose metabolic process involved in response to cold stress
Comment: The reason for obsoletion is that this term is pre-composed and should be represented as a GO-CAM model.
obsolete trehalose metabolism in response to water deprivation (GO:0070416)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving trehalose that occur as a result of deprivation of water.
Synonyms: trehalose metabolic process involved in response to water deprivation
Comment: The reason for obsoletion is that this term is pre-composed and should be represented as a GO-CAM model.
nonhomologous end joining complex (GO:0070419)
Namespace: cellular_component
Definition: A protein complex that plays a role in DNA double-strand break repair via nonhomologous end joining. Such complexes typically contain a specialized DNA ligase (e.g. Lig4 in eukaryotes) and one or more proteins that bind to DNA ends.
Synonyms: NHEJ complex; non-homologous end joining complex
DNA ligase III-XRCC1 complex (GO:0070421)
Namespace: cellular_component
Definition: A protein complex that contains DNA ligase III and XRCC1, and is involved in base excision repair.
G-protein beta/gamma-Raf-1 complex (GO:0070422)
Namespace: cellular_component
Definition: A protein complex formed by the association of the serine-threonine protein kinase Raf-1 with the beta and gamma subunits of a heterotrimeric G protein.
Synonyms: G protein complex (GNG2, GNB2L1, RAF1)
Comment: See also the cellular component term 'heterotrimeric G-protein complex ; GO:0005834'.
obsolete nucleotide-binding oligomerization domain containing signaling pathway (GO:0070423)
Namespace: biological_process
Definition: OBSOLETE. The series of molecular signals initiated by the binding of a ligand (such as a bacterial peptidoglycan) to a cytoplasmic nucleotide-binding oligomerization domain containing (NOD) protein receptor, and ending with regulation of a downstream cellular process.
Synonyms: NOD signaling pathway; nucleotide-binding oligomerization domain containing signalling pathway
Comment: This term was obsoleted because it is an unnecessary grouping term.
regulation of nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0070424)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate, or extent of a nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (NLR) pathway.
Synonyms: regulation of NOD signaling pathway; regulation of nucleotide-binding oligomerization domain containing signaling pathway; regulation of nucleotide-binding oligomerization domain containing signalling pathway
negative regulation of nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0070425)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate, or extent of a nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (NLR) pathway.
Synonyms: negative regulation of NOD signaling pathway; negative regulation of nucleotide-binding oligomerization domain containing signaling pathway; negative regulation of nucleotide-binding oligomerization domain containing signalling pathway
positive regulation of nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (GO:0070426)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate, or extent of a nucleotide-binding domain, leucine rich repeat containing receptor signaling pathway (NLR) pathway.
Synonyms: positive regulation of NOD signaling pathway; positive regulation of nucleotide-binding oligomerization domain containing signaling pathway; positive regulation of nucleotide-binding oligomerization domain containing signalling pathway
nucleotide-binding oligomerization domain containing 1 signaling pathway (GO:0070427)
Namespace: biological_process
Definition: The series of molecular signals initiated by the binding of a ligand (such as a bacterial peptidoglycan) to a cytoplasmic nucleotide-binding oligomerization domain containing 1 (NOD1) protein receptor, and ending with regulation of a downstream cellular process.
Synonyms: NOD1 signaling pathway; nucleotide-binding oligomerization domain containing 1 signalling pathway