LiteFold/GO huggingface dataset:
obsolete MAPKKK cascade during sporulation (sensu Saccharomyces) (GO:0000202)
Namespace: biological_process
Definition: OBSOLETE. MAPKKK cascade involved in transduction of signal promoting sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930).
Synonyms: MAPKKK cascade during sporulation (sensu Saccharomyces)
Comment: This term was made obsolete because it is a gene product specific term.
obsolete activation of MAPKKK during sporulation (sensu Saccharomyces) (GO:0000203)
Namespace: biological_process
Definition: OBSOLETE. Upregulation of MAPKKK activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930).
Synonyms: activation of MAPKKK during sporulation (sensu Saccharomyces)
Comment: This term was made obsolete because it is a gene product specific term.
obsolete activation of MAPKK during sporulation (sensu Saccharomyces) (GO:0000204)
Namespace: biological_process
Definition: OBSOLETE. Upregulation of a MAP kinase kinase in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930).
Synonyms: activation of MAPKK during sporulation (sensu Saccharomyces)
Comment: This term was made obsolete because it is a gene product specific term.
obsolete activation of MAPK during sporulation (sensu Saccharomyces) (GO:0000205)
Namespace: biological_process
Definition: OBSOLETE. Upregulation of MAP kinase activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930).
Synonyms: activation of MAPK during sporulation (sensu Saccharomyces)
Comment: This term was made obsolete because it is a gene product specific term.
obsolete inactivation of MAPK during sporulation (sensu Saccharomyces) (GO:0000206)
Namespace: biological_process
Definition: OBSOLETE. Downregulation of MAP kinase activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930).
Synonyms: inactivation of MAPK during sporulation (sensu Saccharomyces)
Comment: This term was made obsolete because it is a gene product specific term.
obsolete MAPK import into nucleus involved in osmosensory signaling pathway (GO:0000208)
Namespace: biological_process
Definition: OBSOLETE. The directed movement of a MAP kinase to the nucleus during osmolarity sensing.
Synonyms: MAPK import into nucleus during osmolarity sensing; MAPK import into nucleus involved in osmosensory signalling pathway; nuclear translocation of MAPK during osmolarity sensing; nuclear translocation of MAPK involved in osmosensory signaling pathway; nuclear translocation of MAPK involved in osmosensory signalling pathway; osmolarity sensing, MAPK import into nucleus; osmolarity sensing, nuclear translocation of MAPK
Comment: The reason for obsoletion is that this term represents a GO-CAM model.
protein polyubiquitination (GO:0000209)
Namespace: biological_process
Definition: Addition of multiple ubiquitin groups to a protein, forming a ubiquitin chain.
Synonyms: polyubiquitin; protein polyubiquitinylation; protein polyubiquitylation
NAD+ diphosphatase activity (GO:0000210)
Namespace: molecular_function
Definition: Catalysis of the reaction: NAD+ + H2O = AMP + NMN.
Synonyms: NAD diphosphatase activity; NAD pyrophosphatase activity; NAD(+) pyrophosphatase activity; NAD+ phosphohydrolase activity; NAD+ pyrophosphatase activity; NADP pyrophosphatase activity; nicotinamide adenine dinucleotide pyrophosphatase activity
obsolete protein degradation tagging activity (GO:0000211)
Namespace: molecular_function
Definition: OBSOLETE. Covalent addition of polyubiquitin to another protein, targeting the tagged protein for destruction.
Synonyms: protein degradation tagging activity
Comment: This term was made obsolete because it represents a biological process and a molecular function.
meiotic spindle organization (GO:0000212)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle during a meiotic cell cycle.
Synonyms: meiotic spindle organisation; meiotic spindle organization and biogenesis; meiotic spindle stabilization; spindle organization during meiosis
tRNA-intron lyase activity (GO:0000213)
Namespace: molecular_function
Definition: Catalysis of the reaction: pretRNA = a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus.
Synonyms: tRNA splicing endonuclease activity; tRNA-intron endonuclease activity; tRNA-intron endoribonuclease activity
tRNA-intron endonuclease complex (GO:0000214)
Namespace: cellular_component
Definition: A protein complex that catalyzes the endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxyl and 2',3'-cyclic phosphate termini, and specifically removing the intron.
Synonyms: SEN complex; tRNA splicing endonuclease complex
tRNA 2'-phosphotransferase activity (GO:0000215)
Namespace: molecular_function
Definition: Catalysis of the reaction: 2'-phospho-[ligated tRNA] + NAD+ = mature tRNA + ADP ribose 1'',2''-phosphate + nicotinamide + H2O. This reaction is the transfer of the splice junction 2-phosphate from ligated tRNA to NAD+ to produce ADP-ribose 1'-2' cyclic phosphate.
Synonyms: 2'-phospho-[ligated tRNA]:NAD+ phosphotransferase activity; 2'-phospho-tRNA:NAD+ phosphotransferase activity; 2'-phosphotransferase activity; Tpt1; Tpt1p; yeast 2'-phosphotransferase activity
obsolete M/G1 transition of mitotic cell cycle (GO:0000216)
Namespace: biological_process
Definition: OBSOLETE. Progression from M phase to G1 phase of the mitotic cell cycle.
Synonyms: M/G1 transition of mitotic cell cycle
Comment: This term was made obsolete because it does not refer to a real biological process.
DNA secondary structure binding (GO:0000217)
Namespace: molecular_function
Definition: Binding to a DNA secondary structure element such as a four-way junction, a bubble, a loop, Y-form DNA, or a double-strand/single-strand junction.
obsolete vacuolar hydrogen-transporting ATPase (GO:0000219)
Namespace: cellular_component
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: V-ATPase; vacuolar hydrogen-transporting ATPase
Comment: This term was made obsolete because more specific terms were created.
vacuolar proton-transporting V-type ATPase, V0 domain (GO:0000220)
Namespace: cellular_component
Definition: The V0 domain of a proton-transporting V-type ATPase found in the vacuolar membrane.
Synonyms: vacuolar hydrogen ion-transporting ATPase V0 domain
Comment: Note that this domain often consists of five subunits, although in some mammalian tissues it may have an additional subunit.
vacuolar proton-transporting V-type ATPase, V1 domain (GO:0000221)
Namespace: cellular_component
Definition: The V1 domain of a proton-transporting V-type ATPase found in the vacuolar membrane.
Synonyms: vacuolar hydrogen ion-transporting ATPase V1 domain
Comment: Note that this domain generally consists of eight subunits.
plasma membrane proton-transporting V-type ATPase, V0 domain (GO:0000222)
Namespace: cellular_component
Definition: The V0 domain of a proton-transporting V-type ATPase found in the plasma membrane.
Synonyms: plasma membrane hydrogen ion-transporting ATPase V0 domain
plasma membrane proton-transporting V-type ATPase, V1 domain (GO:0000223)
Namespace: cellular_component
Definition: The V1 domain of a proton-transporting V-type ATPase found in the plasma membrane.
Synonyms: plasma membrane hydrogen ion-transporting ATPase V1 domain
peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity (GO:0000224)
Namespace: molecular_function
Definition: Catalysis of the reaction: 4-N-(N-acetyl-D-glucosaminyl)-protein + H2O = N-acetyl-beta-D-glucosaminylamine + peptide L-aspartate. This reaction is the hydrolysis of an N4-(acetyl-beta-D-glucosaminyl)asparagine residue in which the N-acetyl-D-glucosamine residue may be further glycosylated, to yield a (substituted) N-acetyl-beta-D-glucosaminylamine and the peptide containing an aspartic residue.
Synonyms: glycopeptidase activity; glycopeptide N-glycosidase activity; jack-bean glycopeptidase; N-glycanase activity; N-linked-glycopeptide-(N-acetyl-beta-D-glucosaminyl)-L-asparagine amidohydrolase activity; N-oligosaccharide glycopeptidase activity; peptide:N-glycanase; PNGase; PNGase A; PNGase F
N-acetylglucosaminylphosphatidylinositol deacetylase activity (GO:0000225)
Namespace: molecular_function
Definition: Catalysis of the reaction: N-acetyl-D-glucosaminylphosphatidylinositol + H2O = D-glucosaminylphosphatidylinositol + acetate. This reaction is the second step of the biosynthesis of glycosylphosphatidylinositol (GPI), used to anchor various eukaryotic proteins to the cell-surface membrane.
Synonyms: 6-(N-acetyl-alpha-D-glucosaminyl)-1-phosphatidyl-1D-myo-inositol acetylhydrolase activity; acetylglucosaminylphosphatidylinositol deacetylase activity; GlcNAc-PI de-N-acetylase activity; GlcNAc-PI deacetylase activity; N-acetyl-D-glucosaminylphosphatidylinositol acetylhydrolase activity; N-acetylglucosaminylphosphatidylinositol de-N-acetylase activity
microtubule cytoskeleton organization (GO:0000226)
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 cytoskeletal structures comprising microtubules and their associated proteins.
Synonyms: microtubule cytoskeleton organisation; microtubule cytoskeleton organization and biogenesis
obsolete oxaloacetate secondary active transmembrane transporter activity (GO:0000227)
Namespace: molecular_function
Definition: OBSOLETE. Enables the transfer of oxaloacetate from one side of a membrane to the other, up its concentration gradient. The transporter binds the solute and undergoes a series of conformational changes. Transport works equally well in either direction and is driven by a chemiosmotic source of energy. Secondary active transporters include symporters and antiporters.
Synonyms: oxaloacetate carrier activity
Comment: This term was obsoleted because it does not define a specific transport mechanism.
obsolete cytoplasmic chromosome (GO:0000229)
Namespace: cellular_component
Definition: OBSOLETE. A chromosome found in the cytoplasm.
Synonyms: cytoplasmic interphase chromosome
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete nuclear mitotic chromosome (GO:0000230)
Namespace: cellular_component
Definition: OBSOLETE. A chromosome found in the nucleus during mitosis.
Synonyms: nuclear mitotic chromosome
Comment: This term was made obsolete because it is based on a temporal division of the cell cycle.
obsolete cytoplasmic mitotic chromosome (GO:0000231)
Namespace: cellular_component
Definition: OBSOLETE. A chromosome found in the cytoplasm during mitosis.
Synonyms: cytoplasmic mitotic chromosome
Comment: This term was made obsolete because it is based on a temporal division of the cell cycle.
obsolete nuclear interphase chromosome (GO:0000232)
Namespace: cellular_component
Definition: OBSOLETE. A chromosome found in the nucleus during interphase.
Synonyms: nuclear interphase chromosome
Comment: This term was made obsolete because it is based on a temporal division of the cell cycle.
obsolete cytoplasmic interphase chromosome (GO:0000233)
Namespace: cellular_component
Definition: OBSOLETE. A chromosome found in the cytoplasm during interphase.
Synonyms: cytoplasmic interphase chromosome
Comment: This term was made obsolete because it is based on a temporal division of the cell cycle.
phosphoethanolamine N-methyltransferase activity (GO:0000234)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + ethanolamine phosphate = S-adenosyl-L-homocysteine + N-methylethanolamine phosphate.
Synonyms: phosphoethanolamine methyltransferase activity; S-adenosyl-L-methionine:ethanolamine-phosphate N-methyltransferase activity
astral microtubule (GO:0000235)
Namespace: cellular_component
Definition: Any of the spindle microtubules that radiate in all directions from the spindle poles and are thought to contribute to the forces that separate the poles and position them in relation to the rest of the cell.
mitotic prometaphase (GO:0000236)
Namespace: biological_process
Definition: The cell cycle phase in higher eukaryotes which follows mitotic prophase and during which the nuclear envelope is disrupted and breaks into membrane vesicles, and the spindle microtubules enter the nuclear region. Kinetochores mature on each centromere and attach to some of the spindle microtubules. Kinetochore microtubules begin the process of aligning chromosomes in one plane halfway between the poles.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
leptotene (GO:0000237)
Namespace: biological_process
Definition: The cell cycle phase which is the first stage of prophase I in meiosis, and during which the chromosomes first become visible.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
zygotene (GO:0000238)
Namespace: biological_process
Definition: The cell cycle phase which follows leptotene during prophase I of meiosis, and during which each chromosome pairs with its homolog; the two become aligned and crossing over may occur.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
pachytene (GO:0000239)
Namespace: biological_process
Definition: The cell cycle phase which follows zygotene during prophase I of meiosis, and during which crossing over occurs between a chromatid in one partner and another chromatid in the homologous chromosome.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
diplotene (GO:0000240)
Namespace: biological_process
Definition: The cell cycle phase which follows pachytene during prophase I of meiosis, during which the homologous chromosomes begin to separate and the synaptonemal complex dissolves.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
diakinesis (GO:0000241)
Namespace: biological_process
Definition: The cell cycle phase which follows diplotene during prophase I of meiosis, the separation of homologous chromosomes is complete and crossing over has occurred.
Comment: Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).
pericentriolar material (GO:0000242)
Namespace: cellular_component
Definition: A network of small fibers that surrounds the centrioles in cells; contains the microtubule nucleating activity of the centrosome.
commitment complex (GO:0000243)
Namespace: cellular_component
Definition: A spliceosomal complex that is formed by association of the U1 snRNP with the 5' splice site of an unspliced intron in an RNA transcript.
Synonyms: mammalian spliceosomal complex E; mammalian spliceosomal E complex; yeast spliceosomal complex CC
spliceosomal tri-snRNP complex assembly (GO:0000244)
Namespace: biological_process
Definition: The formation of a tri-snRNP complex containing U4 and U6 (or U4atac and U6atac) snRNAs and U5 snRNAs and associated proteins. This includes reannealing of U4 and U6 (or U4atac and U6atac) snRNAs released from previous rounds of splicing to reform the U4/U6 snRNP (or U4atac/U6atac snRNP) as well as the subsequent association of the U5 snRNP with the U4/U6 snRNP (or U4atac/U6atac snRNP) to form a tri-snRNP that is ready to reassemble into another spliceosome complex.
Synonyms: assembly of spliceosomal tri-snRNP; assembly of spliceosomal tri-snRNP U4/U6.U5; assembly of spliceosomal tri-snRNP U4atac/U6atac.U5; snRNP recycling; spliceosomal tri-snRNP assembly; spliceosomal tri-snRNP U4/U6.U5 assembly; spliceosomal tri-snRNP U4atac/U6atac.U5 assembly
spliceosomal complex assembly (GO:0000245)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a spliceosomal complex, a ribonucleoprotein apparatus that catalyzes nuclear mRNA splicing via transesterification reactions.
Synonyms: spliceosome assembly
Delta24(24-1) sterol reductase activity (GO:0000246)
Namespace: molecular_function
Definition: Catalysis of the reaction: ergosterol + NADP+ = ergosta-5,7,22,24(24(1))-tetraen-3beta-ol + H+ + NADPH.
Synonyms: C-24(28) sterol reductase activity; D24(24-1)-sterol reductase activity; delta24(241)-sterol reductase activity; ergosterol:NADP+ delta24(241)-oxidoreductase activity; sterol Delta(24(28))-methylene reductase activity; sterol Delta(24(28))-reductase activity; sterol delta-24(28) methylene reductase activity; sterol delta-24(28) reductase activity; sterol delta24(28)-methylene reductase activity; sterol delta24(28)-reductase activity
C-8 sterol isomerase activity (GO:0000247)
Namespace: molecular_function
Definition: Catalysis of the reaction: fecosterol = episterol.
Synonyms: delta-8-delta-7 sterol isomerase activity
C-5 sterol desaturase activity (GO:0000248)
Namespace: molecular_function
Definition: Catalysis of the reaction: 5,7,24(28)-ergostatrienol + O2 + NADPH = 5,7,22,24(28)-ergostatetraenol + 2 H2O + NADP+.
Synonyms: sterol-C5-desaturase activity
C-22 sterol desaturase (NADPH) activity (GO:0000249)
Namespace: molecular_function
Definition: Catalysis of the reaction: 5-dehydroepisterol + H+ + NADPH + O2 = ergosta-5,7,22,24(28)-tetraen-3beta-ol + 2 H2O + NADP+. This reaction is the introduction of a double bond between the C-22 and C-23 carbons of certain sterols. Also converts sitosterol and 24-epi-campesterol to stigmasterol and brassicasterol, respectively.
lanosterol synthase activity (GO:0000250)
Namespace: molecular_function
Definition: Catalysis of the reaction: (S)-2,3-epoxysqualene = lanosterol. This is a cyclization reaction that forms the sterol nucleus.
Synonyms: (S)-2,3-epoxysqualene mutase (cyclizing, lanosterol-forming); 2,3-epoxysqualene lanosterol cyclase activity; 2,3-epoxysqualene--lanosterol cyclase activity; 2,3-epoxysqualene-lanosterol cyclase activity; 2,3-oxidosqualene sterol cyclase activity; 2,3-oxidosqualene-lanosterol cyclase activity; lanosterol 2,3-oxidosqualene cyclase activity; OSC; oxidosqualene--lanosterol cyclase activity; oxidosqualene-lanosterol cyclase activity; oxidosqualene:lanosterol cyclase activity; squalene 2,3-epoxide:lanosterol cyclase activity; squalene epoxidase-cyclase activity; squalene-2,3-oxide-lanosterol cyclase activity
3-beta-hydroxysteroid 3-dehydrogenase (NADP+) activity (GO:0000253)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 3-betahydroxyl sterol + NADP+ = a 3-oxosterol sterol + NADPH + H+.
Synonyms: 3-keto sterol reductase activity; 3-keto-steroid reductase activity; 3-KSR activity; 3beta-hydroxy-steroid:NADP+ 3-oxidoreductase
C-4 methylsterol oxidase activity (GO:0000254)
Namespace: molecular_function
Definition: Catalysis of the reaction: 4,4-dimethyl-5alpha-cholest-7-en-3beta-ol + 6 Fe(II)-[cytochrome b5] + 5 H+ + 3 O2 = 4alpha-carboxy-4beta-methyl-5alpha-cholest-7-ene-3beta-ol + 6 Fe(III)-[cytochrome b5] + 4 H2O.
Synonyms: 4-methylsterol oxidase activity; methylsterol hydroxylase activity; methylsterol monooxygenase activity
allantoin metabolic process (GO:0000255)
Namespace: biological_process
Definition: The chemical reactions and pathways involving allantoin, (2,5-dioxo-4-imidazolidinyl)urea, an intermediate or end product of purine catabolism.
Synonyms: allantoin metabolism
allantoin catabolic process (GO:0000256)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of allantoin, (2,5-dioxo-4-imidazolidinyl)urea.
Synonyms: allantoin breakdown; allantoin catabolism; allantoin degradation
nitrilase activity (GO:0000257)
Namespace: molecular_function
Definition: Catalysis of the reaction: a nitrile + H2O = a carboxylate + NH4+. Acts on a wide range of aromatic nitriles including (indole-3-yl)-acetonitrile and some aliphatic nitriles, and on the corresponding acid amides.
Synonyms: acetonitrilase activity; benzonitrilase activity; nitrile aminohydrolase activity
obsolete isoleucine/valine:sodium symporter activity (GO:0000258)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: (isoleucine or valine)(out) + Na+(out) = (isoleucine or valine)(in) + Na+(in).
Synonyms: isoleucine/valine:sodium symporter activity
Comment: This term was made obsolete because it represents a multifunctional gene product.
obsolete intracellular nucleoside transmembrane transporter activity (GO:0000259)
Namespace: molecular_function
Definition: OBSOLETE. Enables the directed movement of a nucleoside, a nucleobase linked to either beta-D-ribofuranose (ribonucleoside) or 2-deoxy-beta-D-ribofuranose (a deoxyribonucleotide) within a cell.
Synonyms: intracellular nucleoside transmembrane transporter activity
Comment: This term was made obsolete because it contains component and function information.