LiteFold/GO huggingface dataset:
forebrain development (GO:0030900)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the forebrain over time, from its formation to the mature structure. The forebrain is the anterior of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes especially the cerebral hemispheres, the thalamus, and the hypothalamus and especially in higher vertebrates is the main control center for sensory and associative information processing, visceral functions, and voluntary motor functions).
Synonyms: prosencephalon development
midbrain development (GO:0030901)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the midbrain over time, from its formation to the mature structure. The midbrain is the middle division of the three primary divisions of the developing chordate brain or the corresponding part of the adult brain (in vertebrates, includes a ventral part containing the cerebral peduncles and a dorsal tectum containing the corpora quadrigemina and that surrounds the aqueduct of Sylvius connecting the third and fourth ventricles).
Synonyms: mesencephalon development
hindbrain development (GO:0030902)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the hindbrain over time, from its formation to the mature structure. The hindbrain is the posterior of the three primary divisions of the developing chordate brain, or the corresponding part of the adult brain (in vertebrates, includes the cerebellum, pons, and medulla oblongata and controls the autonomic functions and equilibrium).
Synonyms: rhombencephalon development
notochord development (GO:0030903)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the notochord over time, from its formation to the mature structure. The notochord is a mesoderm-derived structure located ventral of the developing nerve cord. In vertebrates, the notochord serves as a core around which other mesodermal cells form the vertebrae. In the most primitive chordates, which lack vertebrae, the notochord persists as a substitute for a vertebral column.
retromer, tubulation complex (GO:0030905)
Namespace: cellular_component
Definition: The dimeric subcomplex of the retromer, believed to be peripherally associated with the membrane. This dimeric complex is responsible for remodeling endosomal membranes to form a tube-structure to which cargo molecules are selected for recycling. The budding yeast complex comprises Vps5p and Vps17p, and may contain multiple copies of a Vps5p/Vps17p dimer. The mammalian complex contains SNX1 or SNX2 dimerized with SNX5 or SNX6.
Synonyms: heterodimeric membrane-deforming retromer subcomplex; retromer complex, outer shell; SNX-BAR dimer
retromer, cargo-selective complex (GO:0030906)
Namespace: cellular_component
Definition: The trimeric subcomplex of the retromer, believed to be closely associated with the membrane. This trimeric complex is responsible for recognizing and binding to cargo molecules. The complex comprises three Vps proteins in both yeast and mammalian cells: Vps35p, Vps29p, and Vps26p in yeast, and VPS35, VPS29 and VPS26A or VPS26B in mammals.
Synonyms: cargo-selective retromer subcomplex; retromer complex, inner shell; retromer CSC; retromer, cargo recognition complex; retromer, CRC
MBF transcription complex (GO:0030907)
Namespace: cellular_component
Definition: A protein complex that binds to the Mlu1 cell cycle box (MCB) promoter element, consensus sequence ACGCGN, and is involved in regulation of transcription during the G1/S transition of the cell cycle. In Saccharomyces, the complex contains a heterodimer of the DNA binding protein Mbp1p and the activator Swi6p, and is associated with additional proteins known as Nrm1p, Msa1p, and Msa2p; in Schizosaccharomyces the complex contains Res1p, Res2p, and Cdc10p.
Synonyms: DSC1 transcription factor complex; MBF; Mlu1-box binding factor
protein splicing (GO:0030908)
Namespace: biological_process
Definition: The post-translational removal of peptide sequences from within a protein sequence.
non-intein-mediated protein splicing (GO:0030909)
Namespace: biological_process
Definition: The post-translational removal of peptide sequences from within a protein sequence, by a process not involving inteins.
olfactory placode formation (GO:0030910)
Namespace: biological_process
Definition: The formation of a thickening of the neural ectoderm in the head region of the vertebrate embryo which develops into the olfactory region of the nasal cavity.
TPR domain binding (GO:0030911)
Namespace: molecular_function
Definition: Binding to a tetratricopeptide repeat (TPR) domain of a protein, the consensus sequence of which is defined by a pattern of small and large hydrophobic amino acids and a structure composed of helices.
Synonyms: tetratricopeptide repeat domain binding
paranodal junction assembly (GO:0030913)
Namespace: biological_process
Definition: Formation of the junction between an axon and the glial cell that forms the myelin sheath. Paranodal junctions form at each paranode, i.e. at the ends of the unmyelinated nodes of Ranvier.
Synonyms: paranodal axoglial junction formation; paranodal junction biosynthesis; paranodal junction formation
Smc5-Smc6 complex (GO:0030915)
Namespace: cellular_component
Definition: A conserved complex that contains a heterodimer of SMC proteins (Smc5p and Smc6p, or homologs thereof) and several other proteins, and is involved in DNA repair and maintaining cell cycle arrest following DNA damage. In S. cerevisiae, this is an octameric complex called Mms21-Smc5-Smc6 complex, with at least five of its subunits conserved in fission yeast and humans.
otic vesicle formation (GO:0030916)
Namespace: biological_process
Definition: The process resulting in the transition of the otic placode into the otic vesicle, a transient embryonic structure formed during development of the vertebrate inner ear.
Synonyms: otocyst biosynthesis; otocyst formation
peptidyl-serine O-acetylation (GO:0030919)
Namespace: biological_process
Definition: The acetylation of peptidyl-serine to form peptidyl-O-acetyl-L-serine.
peptidyl-serine acetylation (GO:0030920)
Namespace: biological_process
Definition: The acetylation of peptidyl-serine.
obsolete peptidyl-tyrosine dehydrogenation to form (Z)-2,3-didehydrotyrosine (GO:0030921)
Namespace: biological_process
Definition: OBSOLETE. The oxidation of the C alpha-C beta bond of peptidyl-tyrosine to form peptidyl-(Z)-2,3-didehydrotyrosine coupled with cyclization of neighboring residues.
Comment: This term was obsoleted because it represents a molecular function.
obsolete peptidyl-tyrosine dehydrogenation to form (E)-2,3-didehydrotyrosine (GO:0030922)
Namespace: biological_process
Definition: OBSOLETE. The oxidation of the C alpha-C beta bond of peptidyl-tyrosine to form peptidyl-(E)-2,3-didehydrotyrosine coupled with cyclization of neighboring residues.
Comment: This term was obsoleted because it represents a molecular function.
obsolete manganese incorporation into metallo-oxygen cluster (GO:0030924)
Namespace: biological_process
Definition: OBSOLETE. The incorporation of manganese into a metallo-oxygen cluster.
Comment: This term represents a molecular function.
obsolete calcium incorporation into metallo-oxygen cluster (GO:0030925)
Namespace: biological_process
Definition: OBSOLETE. The incorporation of calcium into a metallo-oxygen cluster.
Comment: This term represents a molecular function.
obsolete calcium incorporation into metallo-oxygen cluster via bis-L-aspartato tris-L-glutamato L-histidino calcium tetramanganese tetroxide (GO:0030926)
Namespace: biological_process
Definition: OBSOLETE. The incorporation of calcium into a 4Mn-Ca-4O complex by bis-L-aspartato tris-L-glutamato L-histidino calcium tetramanganese tetroxide as in the photosystem II catalytic site.
Comment: This term represents a molecular function.
obsolete manganese incorporation into metallo-oxygen cluster via bis-L-aspartato tris-L-glutamato L-histidino calcium tetramanganese tetroxide (GO:0030927)
Namespace: biological_process
Definition: OBSOLETE. The incorporation of manganese into a 4Mn-Ca-4O complex by bis-L-aspartato tris-L-glutamato L-histidino calcium tetramanganese tetroxide as in the photosystem II catalytic site.
Comment: This term represents a molecular function.
ADPG pyrophosphorylase complex (GO:0030929)
Namespace: cellular_component
Definition: Complex that possesses ADPG pyrophosphorylase activity. In all organisms where it has been found, the complex is a tetramer. In bacteria, it is a homotetramer. In plants, the complex is a heterotetramer composed small and large subunits.
homotetrameric ADPG pyrophosphorylase complex (GO:0030930)
Namespace: cellular_component
Definition: A protein complex composed of four identical subunits that possesses ADPG pyrophosphorylase activity. Examples of this component are found in Bacterial species.
heterotetrameric ADPG pyrophosphorylase complex (GO:0030931)
Namespace: cellular_component
Definition: A protein complex composed of four different subunits that possesses ADPG pyrophosphorylase activity. An example of this process is found in Mus musculus.
amyloplast ADPG pyrophosphorylase complex (GO:0030932)
Namespace: cellular_component
Definition: An ADPG pyrophosphorylase complex found in the amyloplast.
chloroplast ADPG pyrophosphorylase complex (GO:0030933)
Namespace: cellular_component
Definition: An ADPG pyrophosphorylase complex found in the chloroplast.
obsolete anchoring collagen complex (GO:0030934)
Namespace: cellular_component
Definition: OBSOLETE. Any collagen complex which links one collagen assembly, such as a collagen fibril or sheet, to other structures.
Synonyms: connecting collagen; linking collagen
Comment: This term was obsoleted because it is an unnecessary grouping class.
transmembrane collagen trimer (GO:0030936)
Namespace: cellular_component
Definition: Any collagen trimer that passes through a lipid bilayer membrane.
Synonyms: MACIT
collagen type XVII trimer (GO:0030937)
Namespace: cellular_component
Definition: A collagen homotrimer of alpha1(XVII) chains; type XVII collagen triple helices span the plasma membrane and associate with hemidesmosomes and the basal lamina where they bind laminin.
collagen type XVIII trimer (GO:0030938)
Namespace: cellular_component
Definition: A collagen homotrimer of alpha1(XVIII) chains.
obsolete response to long-day photoperiod (GO:0030939)
Namespace: biological_process
Definition: OBSOLETE. A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a photoperiod, an intermittent cycle of light (day) and dark (night) photoperiod regimes, with the light phase being longer than the dark.
Synonyms: response to long-day photoperiod
Comment: This term was made obsolete because it was wrongly defined.
obsolete response to short-day photoperiod (GO:0030940)
Namespace: biological_process
Definition: OBSOLETE. A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a photoperiod, an intermittent cycle of light (day) and dark (night) photoperiod regimes, with the dark phase being longer than the light.
Synonyms: response to short-day photoperiod
Comment: This term was made obsolete because it was wrongly defined.
chloroplast targeting sequence binding (GO:0030941)
Namespace: molecular_function
Definition: Binding to a chloroplast targeting sequence, a specific peptide sequence that acts as a signal to localize the protein within the chloroplast.
endoplasmic reticulum signal peptide binding (GO:0030942)
Namespace: molecular_function
Definition: Binding to an endoplasmic reticulum signal peptide, a specific peptide sequence that acts as a signal to localize the protein within the endoplasmic reticulum.
Synonyms: ER signal peptide binding
mitochondrion targeting sequence binding (GO:0030943)
Namespace: molecular_function
Definition: Binding to a mitochondrion targeting sequence, a specific peptide sequence that acts as a signal to localize the protein within the mitochondrion.
Synonyms: mitochondrial targeting sequence binding
DDEL sequence binding (GO:0030944)
Namespace: molecular_function
Definition: Binding to a KDEL sequence, the C terminus tetrapeptide sequence Asp-Asp-Glu-Leu found in proteins that are to be retained in the endoplasmic reticulum.
regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030947)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of vascular endothelial growth factor receptor signaling pathway activity.
Synonyms: regulation of vascular endothelial growth factor receptor signalling pathway; regulation of VEGF receptor signaling pathway; regulation of VEGF receptor signalling pathway
negative regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030948)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of vascular endothelial growth factor receptor signaling pathway activity.
Synonyms: down regulation of vascular endothelial growth factor receptor signaling pathway; down-regulation of vascular endothelial growth factor receptor signaling pathway; downregulation of vascular endothelial growth factor receptor signaling pathway; inhibition of vascular endothelial growth factor receptor signaling pathway; negative regulation of vascular endothelial growth factor receptor signalling pathway; negative regulation of VEGF receptor signaling pathway; negative regulation of VEGF receptor signalling pathway
positive regulation of vascular endothelial growth factor receptor signaling pathway (GO:0030949)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of vascular endothelial growth factor receptor signaling pathway activity.
Synonyms: activation of vascular endothelial growth factor receptor signaling pathway; positive regulation of vascular endothelial growth factor receptor signalling pathway; positive regulation of VEGF receptor signaling pathway; positive regulation of VEGF receptor signalling pathway; stimulation of vascular endothelial growth factor receptor signaling pathway; up regulation of vascular endothelial growth factor receptor signaling pathway; up-regulation of vascular endothelial growth factor receptor signaling pathway; upregulation of vascular endothelial growth factor receptor signaling pathway
establishment or maintenance of actin cytoskeleton polarity (GO:0030950)
Namespace: biological_process
Definition: Any cellular process that results in the specification, formation or maintenance of polarized actin-based cytoskeletal structures.
establishment or maintenance of microtubule cytoskeleton polarity (GO:0030951)
Namespace: biological_process
Definition: Any cellular process that results in the specification, formation or maintenance of polarized microtubule-based cytoskeletal structures.
establishment or maintenance of cytoskeleton polarity (GO:0030952)
Namespace: biological_process
Definition: Any cellular process that results in the specification, formation or maintenance of polarized cytoskeletal structures.
Synonyms: cytoskeleton polarization
astral microtubule organization (GO:0030953)
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 astral microtubules, any of the spindle microtubules that radiate in all directions from the spindle poles.
Synonyms: astral microtubule organisation; astral microtubule organization and biogenesis
astral microtubule nucleation (GO:0030954)
Namespace: biological_process
Definition: The 'de novo' formation of an astral microtubule, in which tubulin heterodimers form metastable oligomeric aggregates, some of which go on to support formation of a complete microtubule.
potassium ion binding (GO:0030955)
Namespace: molecular_function
Definition: Binding to a potassium ion (K+).
Synonyms: K ion binding
glutamyl-tRNA(Gln) amidotransferase complex (GO:0030956)
Namespace: cellular_component
Definition: A protein complex that possesses glutamyl-tRNA(Gln) amidotransferase activity, and therefore creates Gln-tRNA by amidating Glu-tRNA; usually composed of 3 subunits: A, B, and C. Note that the C subunit may not be required in all organisms.
Synonyms: AdT; GatCAB; GatFAB
Comment: Note that this term represents a location and not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function possessed by this complex is represented by the molecular function term 'glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity ; GO:0050567'.
Tat protein binding (GO:0030957)
Namespace: molecular_function
Definition: Binding to Tat, a viral transactivating regulatory protein from the human immunodeficiency virus, or the equivalent protein from another virus.
RITS complex (GO:0030958)
Namespace: cellular_component
Definition: A protein complex required for heterochromatin assembly; contains an Argonaute homolog, a chromodomain protein, and at least one additional protein; named for RNA-induced initiation of transcriptional gene silencing.
obsolete peptide cross-linking via 3'-(3'-L-tyrosinyl)-L-tyrosine (GO:0030959)
Namespace: biological_process
Definition: OBSOLETE. The modification of two peptidyl-tyrosines to form a 3'-(3'-L-tyrosinyl)-L-tyrosine protein cross-link.
Comment: This term was obsoleted because it represents a molecular function; however the enzyme responsible for this reaction has not been defined.
obsolete peptide cross-linking via 3'-(O4'-L-tyrosinyl)-L-tyrosine (GO:0030960)
Namespace: biological_process
Definition: OBSOLETE. The modification of two peptidyl-tyrosines to form a 3'-(O4'-L-tyrosinyl)-L-tyrosine protein cross-link.
Comment: This term was obsoleted because it represents a molecular function; however the enzyme responsible for this reaction has not been defined.
peptidyl-arginine hydroxylation (GO:0030961)
Namespace: biological_process
Definition: The hydroxylation of peptidyl-arginine to form peptidyl-hydroxyarginine.
obsolete peptidyl-arginine dihydroxylation to peptidyl-3,4-dihydroxy-L-arginine (GO:0030962)
Namespace: biological_process
Definition: OBSOLETE. The dihydroxylation of peptidyl-arginine to form peptidyl-3,4-dihydroxy-L-arginine.
Comment: This term was obsoleted because it represents a molecular function.
obsolete peptidyl-lysine dihydroxylation to 4,5-dihydroxy-L-lysine (GO:0030963)
Namespace: biological_process
Definition: OBSOLETE. The dihydroxylation of peptidyl-lysine to peptidyl-4,5-dihydroxy-L-lysine.
Comment: This term was obsoleted because it represents a molecular function.
NADH dehydrogenase complex (GO:0030964)
Namespace: cellular_component
Definition: An integral membrane complex that possesses NADH oxidoreductase activity. The complex is one of the components of the electron transport chain. It catalyzes the transfer of a pair of electrons from NADH to a quinone.
Synonyms: NADH dehydrogenase complex (plastoquinone); NADH dehydrogenase complex (quinone); NADH dehydrogenase complex (ubiquinone); NADH:plastoquinone reductase complex; plastid NADH dehydrogenase complex (plastoquinone)
Comment: Note that this term represents a location and not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function possessed by this complex is represented by the molecular function term 'NADH dehydrogenase (quinone) activity ; GO:0050136'.
plasma membrane electron transport, NADH to quinone (GO:0030965)
Namespace: biological_process
Definition: The transfer of electrons from NADH to the quinone pool that occurs during oxidative phosphorylation and results in the generation of a proton gradient, mediated by the enzyme known as NADH-quinone oxidoreductase.
endoplasmic reticulum unfolded protein response (GO:0030968)
Namespace: biological_process
Definition: The series of molecular signals generated as a consequence of the presence of unfolded proteins in the endoplasmic reticulum (ER) or other ER-related stress; results in changes in the regulation of transcription and translation.
Synonyms: ER unfolded protein response; erUPR; SREBP-mediated signalling pathway
Comment: Note that this term should not be confused with 'response to unfolded protein ; GO:0006986', which refers to any response to the presence of unfolded proteins anywhere in the cell or in multicellular organism.
obsolete mRNA splicing via endonucleolytic cleavage and ligation involved in unfolded protein response (GO:0030969)
Namespace: biological_process
Definition: OBSOLETE. The spliceosome-independent cleavage and ligation of the mRNA encoding a UFP-specific transcription factor to remove a single intron, thereby increasing both the translational efficiency of the processed mRNA and the activity of the protein it encodes.
Synonyms: HAC1 mRNA splicing; IRE1-mediated XBP-1 mRNA splicing; Ire1p-mediated HAC-1 mRNA splicing; non-spliceosomal mRNA splicing in the unfolded protein response pathway; spliceosome-independent UFP-specific transcription factor mRNA processing; UFP-specific transcription factor mRNA processing during unfolded protein response; UFP-specific transcription factor mRNA processing involved in endoplasmic reticulum unfolded protein response; UFP-specific transcription factor mRNA processing involved in endoplasmic reticulum UPR; UFP-specific transcription factor mRNA processing involved in ER unfolded protein response; UFP-specific transcription factor mRNA processing involved in ER UPR; unconventional mRNA splicing involved in UPR; unconventional splicing of XBP1 mRNA; unfolded protein response, cleavage of primary transcript encoding UFP-specific transcription factor; unfolded protein response, ligation of mRNA encoding UFP-specific transcription factor by RNA ligase; XBP1 mRNA splicing; XBP1 mRNA splicing under conditions of endoplasmic reticulum (ER) stress; XBP1 mRNA splicing, via endonucleolytic cleavage and ligation
Comment: The reason for obsoletion is that this process represent a single step (molecular function) of the IRE1-mediated unfolded protein response (GO:0036498).
retrograde protein transport, ER to cytosol (GO:0030970)
Namespace: biological_process
Definition: The directed movement of unfolded or misfolded proteins from the endoplasmic reticulum to the cytosol through the translocon.
Synonyms: protein dislocation from ER; protein retrotranslocation, ER to cytosol; retrograde protein transport, endoplasmic reticulum to cytosol
receptor tyrosine kinase binding (GO:0030971)
Namespace: molecular_function
Definition: Binding to a receptor that possesses protein tyrosine kinase activity.
Synonyms: transmembrane receptor protein tyrosine kinase ligand binding
obsolete cleavage of cytosolic proteins involved in execution phase of apoptosis (GO:0030972)
Namespace: biological_process
Definition: OBSOLETE. The proteolytic degradation of proteins in the cytosol that contributes to apoptosis.
Synonyms: apoptotic cleavage of cytosolic proteins; cleavage of cytosolic proteins involved in apoptosis; cleavage of cytosolic proteins involved in execution phase of apoptosis
Comment: This term was obsoleted because it refers to targets of effector proteins (caspases); the 'cleavage' process referred to in the term name is in fact the same molecular function represented by GO:0097200 'cysteine-type endopeptidase activity involved in execution phase of apoptosis'.
molybdate ion binding (GO:0030973)
Namespace: molecular_function
Definition: Binding to a molybdate ion (MoO4 2-).
Synonyms: MoO4 ion binding
thiamine pyrophosphate transmembrane transport (GO:0030974)
Namespace: biological_process
Definition: The process in which thiamine pyrophosphate is transported across a membrane.
Synonyms: thiamin diphosphate transport; thiamin pyrophosphate transport; thiamine diphosphate transport; thiamine pyrophosphate transport; TPP transport