LiteFold/GO huggingface dataset:
T cell receptor V(D)J recombination (GO:0033153)
Namespace: biological_process
Definition: The process in which T cell receptor V, D, and J, or V and J gene segments, depending on the specific locus, are recombined within a single locus utilizing the conserved heptamer and nonomer recombination signal sequences (RSS).
Synonyms: T cell receptor V(D)J joining; T cell receptor V-D-J joining; T cell receptor V-D-J recombination; T cell receptor V-J joining; T cell receptor V-J recombination; T-cell receptor V(D)J recombination; TCR V(D)J recombination
ABC-type oligogalacturonide transporter activity (GO:0033154)
Namespace: molecular_function
Definition: Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + oligogalacturonide(out) = ADP + phosphate + oligogalacturonide(in).
Synonyms: ATP-dependent oligogalacturonide transmembrane transporter activity; ATPase-coupled oligogalacturonide transmembrane transporter activity; oligogalacturonide transmembrane transporter activity; oligogalacturonide transporting ATPase activity; oligogalacturonide-transporting ATPase activity
oligogalacturonide transport (GO:0033156)
Namespace: biological_process
Definition: The directed movement of oligogalacturonides into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
obsolete regulation of protein import into nucleus, translocation (GO:0033158)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the vectorial transfer of a protein from the cytoplasm into the nucleus, across the nuclear membrane.
Synonyms: regulation of protein import into cell nucleus, translocation
Comment: This term has been obsoleted because it represents a substep of the parent (GO:0006606 protein import into nucleus), has been incorrectly used.
obsolete negative regulation of protein import into nucleus, translocation (GO:0033159)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops, prevents or reduces the vectorial transfer of a protein from the cytoplasm into the nucleus, across the nuclear membrane.
Synonyms: negative regulation of protein import into cell nucleus, translocation
Comment: This term has been obsoleted because it represents a substep of the parent (GO:0006606 protein import into nucleus), has been incorrectly used.
obsolete positive regulation of protein import into nucleus, translocation (GO:0033160)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the vectorial transfer of a protein from the cytoplasm into the nucleus, across the nuclear membrane.
Synonyms: positive regulation of protein import into cell nucleus, translocation
Comment: This term has been obsoleted because it represents a substep of the parent (GO:0006606 protein import into nucleus), has been incorrectly used.
melanosome membrane (GO:0033162)
Namespace: cellular_component
Definition: The lipid bilayer surrounding a melanosome.
microneme membrane (GO:0033163)
Namespace: cellular_component
Definition: The lipid bilayer surrounding a microneme.
initiation-specific glycolipid 1,6-alpha-mannosyltransferase activity (GO:0033164)
Namespace: molecular_function
Definition: Catalysis of the transfer of an alpha-D-mannosyl residue from GDP-mannose to Man(8)GlcNAc or Man(9)GlcNAc via an alpha-(1->6)-D-mannosyl-D-mannose linkage to form Man(9)GlcNAc or Man(10)GlcNAc, respectively. This is the first step specific to the biosynthesis of the outer chain of yeast mannoproteins.
Synonyms: GDP-mannose:glycolipid 1,6-alpha-D-mannosyltransferase activity; GDP-mannose:oligosaccharide 1,6-alpha-D-mannosyltransferase activity; GDP-mannose:oligosaccharide 6-alpha-D-mannosyltransferase activity; glycolipid 1,6-alpha-mannosyltransferase activity; glycolipid 6-alpha-mannosyltransferase activity; initiation-specific alpha-1,6-mannosyltransferase activity
interphotoreceptor matrix (GO:0033165)
Namespace: cellular_component
Definition: A specialized extracellularc matrix that surrounds the photoreceptors of the retina and lies between them and the apical surface of the retinal pigment epithelium. The IPM has been implicated in several important activities required for photoreceptor function and maintenance.
hyaline layer (GO:0033166)
Namespace: cellular_component
Definition: A multilayered extraembryonic matrix that functions as a substrate for cell adhesion through early development. It is thought to protect and lubricate the embryo, stabilize the blastomeres during morphogenesis, and regulate nutrient intake. The major constituent of the hyaline layer is the protein hyalin. This matrix has been found in echinoderms.
ARC complex (GO:0033167)
Namespace: cellular_component
Definition: A ribonucleoprotein complex that contains members of the Argonaute family of proteins, additional protein subunits, and duplex siRNA; required for heterochromatin assembly and siRNA generation. Possibly involved in the conversion of ds siRNA to ss siRNA.
Synonyms: argonaute siRNA chaperone complex
obsolete conversion of ds siRNA to ss siRNA involved in RNA interference (GO:0033168)
Namespace: biological_process
Definition: OBSOLETE. The process in which double-stranded siRNA molecules are converted to single-stranded siRNAs; required for the formation of a mature RITS complex during RNA interference.
Synonyms: RNA interference, conversion of ds siRNA to ss siRNA
Comment: This term was obsoleted because it represents a GO-CAM model.
obsolete histone H3-K9 demethylation (GO:0033169)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H3 by the removal of a methyl group from lysine at position 9 of the histone.
Comment: This term was obsoleted because it represents a molecular function.
obsolete nucleoprotein filament-forming ATPase activity (GO:0033171)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: ATP + H2O = ADP + phosphate to drive the assembly of proteins such as Rad51p onto single-stranded (ss) DNA to form a helical nucleoprotein filament.
Synonyms: nucleoprotein filament-forming ATPase activity
Comment: This term was made obsolete because nucleoprotein filament formation does not require ATP hydrolysis, so the term is misleading.
gas vesicle shell (GO:0033172)
Namespace: cellular_component
Definition: The proteinaceous structure surrounding a gas vesicle.
Synonyms: gas vesicle membrane; gas vesicle wall
calcineurin-NFAT signaling cascade (GO:0033173)
Namespace: biological_process
Definition: Any intracellular signal transduction in which the signal is passed on within the cell by activation of a member of the NFAT protein family as a consequence of NFAT dephosphorylation by Ca(2+)-activated calcineurin. The cascade begins with calcium-dependent activation of the phosphatase calcineurin. Calcineurin dephosphorylates multiple phosphoserine residues on NFAT, resulting in the translocation of NFAT to the nucleus. The cascade ends with regulation of transcription by NFAT. The calcineurin-NFAT cascade lies downstream of many cell surface receptors, including G protein-coupled receptors (GPCRs) and receptor tyrosine kinases (RTKs) that signal to mobilize calcium ions (Ca2+).
Synonyms: calcineurin-NFAT signaling pathway; calcineurin-NFAT signalling pathway
obsolete chloroplast proton-transporting ATP synthase complex, coupling factor CF(o) (GO:0033175)
Namespace: cellular_component
Definition: OBSOLETE. All non-F1 subunits of the chloroplast hydrogen-transporting ATP synthase, including integral and peripheral chloroplast thylakoid membrane proteins.
Synonyms: chloroplast proton-transporting ATP synthase complex, coupling factor CF(0); chloroplast proton-transporting F-type ATPase complex, coupling factor CF(o)
Comment: The reason for obsoletion is that this term unnecssarily specified a cellular compartment.
proton-transporting V-type ATPase complex (GO:0033176)
Namespace: cellular_component
Definition: A proton-transporting two-sector ATPase complex that couples ATP hydrolysis to the transport of protons across a concentration gradient. The resulting transmembrane electrochemical potential of H+ is used to drive a variety of (i) secondary active transport systems via H+-dependent symporters and antiporters and (ii) channel-mediated transport systems. The complex comprises a membrane sector (V0) that carries out proton transport and a cytoplasmic compartment sector (V1) that catalyzes ATP hydrolysis. V-type ATPases are found in the membranes of organelles such as vacuoles, endosomes, and lysosomes, and in the plasma membrane.
Synonyms: hydrogen-translocating V-type ATPase complex
proton-transporting two-sector ATPase complex, proton-transporting domain (GO:0033177)
Namespace: cellular_component
Definition: A protein complex that forms part of a proton-transporting two-sector ATPase complex and carries out proton transport across a membrane. The proton-transporting domain (F0, V0, or A0) includes integral and peripheral membrane proteins.
proton-transporting two-sector ATPase complex, catalytic domain (GO:0033178)
Namespace: cellular_component
Definition: A protein complex that forms part of a proton-transporting two-sector ATPase complex and catalyzes ATP hydrolysis or synthesis. The catalytic domain (F1, V1, or A1) comprises a hexameric catalytic core and a central stalk, and is peripherally associated with the membrane when the two-sector ATPase is assembled.
proton-transporting V-type ATPase, V0 domain (GO:0033179)
Namespace: cellular_component
Definition: A protein complex that forms part of a proton-transporting V-type ATPase and mediates proton transport across a membrane. The V0 complex consists of at least four different subunits (a,c,d and e); six or more c subunits form a proton-binding rotor ring.
proton-transporting V-type ATPase, V1 domain (GO:0033180)
Namespace: cellular_component
Definition: A protein complex that forms part of a proton-transporting V-type ATPase and catalyzes ATP hydrolysis. The V1 complex consists of: (1) a globular headpiece with three alternating copies of subunits A and B that form a ring, (2) a central rotational stalk composed of single copies of subunits D and F, and (3) a peripheral stalk made of subunits C, E, G and H. Subunits A and B mediate the hydrolysis of ATP at three reaction sites associated with subunit A.
plasma membrane proton-transporting V-type ATPase complex (GO:0033181)
Namespace: cellular_component
Definition: A proton-transporting two-sector ATPase complex found in the plasma membrane.
Synonyms: plasma membrane hydrogen ion-transporting ATPase
obsolete regulation of histone ubiquitination (GO:0033182)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of the addition of a ubiquitin group to a histone protein.
Comment: This term was obsoleted because it represents a molecular function.
obsolete negative regulation of histone ubiquitination (GO:0033183)
Namespace: biological_process
Definition: OBSOLETE. Any process that stops, prevents, or reduces the frequency, rate or extent of the addition of a ubiquitin group to a histone protein.
Comment: This term was obsoleted because it represents a molecular function.
obsolete positive regulation of histone ubiquitination (GO:0033184)
Namespace: biological_process
Definition: OBSOLETE. Any process that activates or increases the frequency, rate or extent of the addition of a ubiquitin group to a histone protein.
Comment: This term was obsoleted because it represents a molecular function.
CAF-1 complex (GO:0033186)
Namespace: cellular_component
Definition: A conserved heterotrimeric protein complex that promotes histone H3 and H4 deposition onto newly synthesized DNA during replication or DNA repair; specifically facilitates replication-dependent nucleosome assembly with the major histone H3 (H3.1). In many species the CAF-1 subunits are designated p150, p60, and p48.
Synonyms: chromatin assembly factor 1 complex
Comment: In yeast the subunits are MSI1/p50, CAC2/p60 and CAC1/p90.
obsolete inositol hexakisphosphate 4-kinase or 6-kinase activity (GO:0033187)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: ATP + 1D-myo-inositol hexakisphosphate = ADP + 4-diphospho-1D-myo-inositol (1,2,3,5,6)pentakisphosphate, and ATP + 1D-myo-inositol hexakisphosphate = ADP + 6-diphospho-1D-myo-inositol (1,2,3,4,5)pentakisphosphate.
Synonyms: inositol hexakisphosphate 4-kinase or 6-kinase activity
Comment: This term was made obsolete because it represents two reactions, and should be two separate terms.
sphingomyelin synthase activity (GO:0033188)
Namespace: molecular_function
Definition: Catalysis of the reaction: 1,2-diacyl-sn-glycero-3-phosphocholine + ceramide = 1,2-diacyl-sn-glycerol + sphingomyelin.
Synonyms: ceramide:phosphatidylcholine cholinephosphotransferase activity; phosphatidylcholine:ceramide cholinephosphotransferase activity; SM synthase activity; SMS1; SMS2
response to vitamin A (GO:0033189)
Namespace: biological_process
Definition: Any process that results in 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 vitamin A stimulus.
Synonyms: response to retinol
solanapyrone synthase activity (GO:0033190)
Namespace: molecular_function
Definition: Catalysis of the cyclization of double bonds in prosolanapyrone II to form (-)-solanapyrone A.
macrophomate synthase activity (GO:0033191)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 2-pyrone + oxalacetate = macrophomate.
calmodulin-dependent protein phosphatase activity (GO:0033192)
Namespace: molecular_function
Definition: Catalysis of the reaction: protein serine/threonine phosphate + H2O = protein serine/threonine + phosphate, dependent on the presence of calcium-bound calmodulin.
Synonyms: Ca2+/CaM-dependent protein phosphatase activity; calcineurin activity; calcium- and calmodulin-dependent protein phosphatase activity; calcium/calmodulin-dependent protein phosphatase activity
Lsd1/2 complex (GO:0033193)
Namespace: cellular_component
Definition: A nucleosome-binding protein complex that comprises two SWIRM domain histone demethylases and two PHD finger proteins. The complex is involved in transcriptional regulation via heterochromatic silencing and the regulation of chromatin boundary formation, and was first identified in fission yeast.
Synonyms: SAPHIRE complex; Swm complex; Swm1/2 complex
response to hydroperoxide (GO:0033194)
Namespace: biological_process
Definition: Any process that results in 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 hydroperoxide stimulus. Hydroperoxides are monosubstitution products of hydrogen peroxide, HOOH.
response to alkyl hydroperoxide (GO:0033195)
Namespace: biological_process
Definition: Any process that results in 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 an alkyl hydroperoxide stimulus. Alkyl hydroperoxides are monosubstitution products of hydrogen peroxide, HOOH, where the substituent is an alkyl group.
response to vitamin E (GO:0033197)
Namespace: biological_process
Definition: Any process that results in 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 vitamin E stimulus.
Synonyms: response to DL-alpha-tocopherol acetate; response to DL-alpha-tocopheryl acetate; response to O-Acetyl-alpha-tocopherol
response to ATP (GO:0033198)
Namespace: biological_process
Definition: Any process that results in 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 an ATP (adenosine 5'-triphosphate) stimulus.
Synonyms: response to adenosine 5'-triphosphate; response to adenosine triphosphate
diphosphoinositol pentakisphosphate 5-kinase activity (GO:0033200)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + 4-diphospho-1D-myo-inositol (1,2,3,5,6)pentakisphosphate = ADP + 4,5-bisdiphosphoinositol-1D-myo-inositol (1,2,3,6)tetrakisphosphate, and ATP + 6-diphospho-1D-myo-inositol (1,2,3,4,5)pentakisphosphate = ADP + 5,6-bisdiphosphoinositol-1D-myo-inositol (1,2,3,4)tetrakisphosphate.
Synonyms: diphosphoinositol-pentakisphosphate 5-kinase activity; inositol heptakisphosphate 5-kinase activity; IP7 5-kinase activity
obsolete alpha-1,4-glucan synthase activity (GO:0033201)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: RDP-glucose + [alpha-D-glucosyl-(1,4)]n = RDP + [alpha-D-glucosyl-(1,4)]n+1, where RDP is ADP or UDP.
Synonyms: 1,4-alpha-glucan synthase activity
Comment: The reason for obsoletion is that this term is equivalent to GO:0033840 alpha-1,4-glucan glucosyltransferase (NDP-glucose donor) activity.
DNA helicase complex (GO:0033202)
Namespace: cellular_component
Definition: A protein complex that possesses DNA helicase activity.
DNA helicase A complex (GO:0033203)
Namespace: cellular_component
Definition: A homohexameric protein complex that possesses DNA helicase activity; associates with DNA polymerase alpha-primase and translocates in the 5' to 3' direction.
ribonuclease P RNA binding (GO:0033204)
Namespace: molecular_function
Definition: Binding to RNA subunit of ribonuclease P.
Synonyms: RNase P RNA binding
meiotic cytokinesis (GO:0033206)
Namespace: biological_process
Definition: A cell cycle process that results in the division of the cytoplasm of a cell after meiosis, resulting in the separation of the original cell into two daughter cells.
Synonyms: cytokinesis after meiosis
obsolete beta-1,4-N-acetylgalactosaminyltransferase activity (GO:0033207)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the transfer of an N-acetylgalactosaminyl residue from UDP-N-acetyl-galactosamine to an acceptor molecule, forming a beta-1,4 linkage.
Synonyms: beta-1,4-GalNAc transferase activity
Comment: This term was obsoleted because it represents the same reaction as N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity ; GO:0033842.
obsolete UDP-N-acetylgalactosamine:N-acetylneuraminyl-alpha-2,3-galactosyl-beta-R 1,4-N-acetylgalactosaminyltransferase activity (GO:0033208)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: UDP-N-acetylgalactosamine + N-acetylneuraminyl-alpha-2,3-galactosyl-beta-oligosaccharide = UDP + N-acetylgalactosaminyl-N-acetylneuraminyl-alpha-2,3-galactosyl-beta-oligosaccharide.
Synonyms: Sda beta 1,4GalNAc transferase; UDP-GalNAc:Neu5Ac-alpha-2-Gal-beta-1-R beta-1,4-N-acetylgalactosaminyltransferase activity
Comment: This term was obsoleted because it is not known to be catalyzed by any gene product or it represents a specific substrate.
tumor necrosis factor-mediated signaling pathway (GO:0033209)
Namespace: biological_process
Definition: The series of molecular signals initiated by tumor necrosis factor binding to its receptor on the surface of a cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: adipocytokine signaling pathway; TNF-alpha-mediated signaling pathway; tumor necrosis factor alpha-mediated signaling pathway; tumor necrosis factor-mediated signalling pathway
leptin-mediated signaling pathway (GO:0033210)
Namespace: biological_process
Definition: The series of molecular signals initiated by leptin binding to its receptor on the surface of a cell, and ending with the regulation of a downstream cellular process, e.g. transcription. Leptin is a hormone manufactured primarily in the adipocytes of white adipose tissue, and the level of circulating leptin is directly proportional to the total amount of fat in the body.
Synonyms: adipocytokine signaling pathway; leptin-mediated signalling pathway
adiponectin-activated signaling pathway (GO:0033211)
Namespace: biological_process
Definition: The series of molecular signals initiated by adiponectin binding to its receptor on the surface of a cell, and ending with the regulation of a downstream cellular process, e.g. transcription.
Synonyms: adipocytokine signaling pathway; adiponectin-mediated signaling pathway; adiponectin-mediated signalling pathway
iron import into cell (GO:0033212)
Namespace: biological_process
Definition: The directed movement of iron ions from outside of a cell into the cytoplasmic compartment. This may occur via transport across the plasma membrane or via endocytosis.
Synonyms: ferrous ion import; ferrous iron import; ferrous iron uptake; iron assimilation
siderophore-iron import into cell (GO:0033214)
Namespace: biological_process
Definition: A process in which iron (Fe3+) is solubilized by ferric iron-specific chelators, known as siderophores is imported into the cell by transmembrane transport or endocytosis.
Synonyms: iron assimilation by chelation and transport
reductive iron assimilation (GO:0033215)
Namespace: biological_process
Definition: A process in which iron is solubilized by reduction from Fe3+ to Fe2+ via a cell surface reductase and subsequent transport of the iron across the membrane by iron uptake proteins.
Synonyms: iron assimilation by reduction and transport
obsolete regulation of transcription from RNA polymerase II promoter in response to iron ion starvation (GO:0033217)
Namespace: biological_process
Definition: OBSOLETE. Modulation of the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of deprivation of iron ions.
Synonyms: regulation of transcription from RNA polymerase II promoter in response to iron deficiency
Comment: This term was obsoleted because it represents a GO-CAM model.
obsolete amide binding (GO:0033218)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an amide, any derivative of an oxoacid in which an acidic hydroxy group has been replaced by an amino or substituted amino group.
Comment: The reason for obsoletion is that this term was an unnecessary grouping term.
urea binding (GO:0033219)
Namespace: molecular_function
Definition: Binding to urea, a water-soluble carboxamide with the structure H2N-CO-NH2.
obsolete ATPase-coupled amide-transporter activity (GO:0033220)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: ATP + H2O + amide(out) = ADP + phosphate + amide(in).
Synonyms: amide-transporting ATPase activity; ATP-dependent amide-transporter activity
Comment: This term was obsoleted because it is an unnecessary grouping class.
ATPase-coupled urea transmembrane transporter activity (GO:0033221)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + H2O + urea(out) = ADP + phosphate + urea(in).
Synonyms: ATP-dependent urea transmembrane transporter activity; carbamide-transporting ATPase activity; urea-transporting ATPase activity
xylose binding (GO:0033222)
Namespace: molecular_function
Definition: Binding to the D- or L-enantiomer of xylose.
ATPase-coupled 2-aminoethylphosphonate transporter activity (GO:0033225)
Namespace: molecular_function
Definition: Enables the directed movement of 2-aminoethylphosphonate from one side of a membrane to the other by catalysis of the reaction: ATP + H2O + 2-aminoethylphosphonate(out) = ADP + phosphate + 2-aminoethylphosphonate(in).
Synonyms: 2-aminoethylphosphonate transmembrane transporter activity; 2-aminoethylphosphonate transporting ATPase activity; 2-aminoethylphosphonate-transporting ATPase activity; 2-phosphonoethylamine transmembrane transporter activity; 2-phosphonoethylamine transporting ATPase activity; ATP-dependent 2-aminoethylphosphonate transporter activity; ciliatine transporter activity; ciliatine transportingATPase activity
Comment: There is no annotated example of this MF; therefore we cannot classify it more precisely.
2-aminoethylphosphonate binding (GO:0033226)
Namespace: molecular_function
Definition: Binding to 2-aminoethylphosphonate.
Synonyms: 2-phosphonoethylamine binding; ciliatine binding