LiteFold/GO huggingface dataset:
nuclear matrix (GO:0016363)
Namespace: cellular_component
Definition: A dynamic, proteinaceous framework within the nucleus of eukaryotic cells, composed of proteins and RNA, that provides structural support for chromatin organization, gene regulation, and nuclear processes.
Synonyms: nucleoskeleton
dimethylargininase activity (GO:0016403)
Namespace: molecular_function
Definition: Catalysis of the reaction: N(G),N(G)-dimethyl-L-arginine + H2O = dimethylamine + L-citrulline.
Synonyms: dimethylarginine dimethylaminohydrolase activity; N(G),N(G)-dimethylarginine dimethylaminohydrolase activity; NG,NG-dimethyl-L-arginine dimethylamidohydrolase activity; NG,NG-dimethylarginine dimethylaminohydrolase activity
S-acyltransferase activity (GO:0016417)
Namespace: molecular_function
Definition: Catalysis of the transfer of an acyl group to a sulfur atom on the acceptor molecule.
CoA carboxylase activity (GO:0016421)
Namespace: molecular_function
Definition: Catalysis of the joining of a carboxyl group to a molecule that is attached to CoA, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
tRNA (guanine) methyltransferase activity (GO:0016423)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + guanosine in tRNA = S-adenosyl-L-homocysteine + tRNA containing methylguanine.
Synonyms: tRNA (guanosine) methyltransferase activity
rRNA (uridine) methyltransferase activity (GO:0016436)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + rRNA = S-adenosyl-L-homocysteine + rRNA containing methyluridine.
post-transcriptional gene silencing (GO:0016441)
Namespace: biological_process
Definition: The inactivation of gene expression that occurs after transcription.
Synonyms: posttranscriptional gene silencing; PTGS
chaperonin ATPase complex (GO:0016465)
Namespace: cellular_component
Definition: Multisubunit protein complex with 2x7 (Type I, in most cells) or 2x8 (Type II, in Archaea) ATP-binding sites involved in maintaining an unfolded polypeptide structure before folding or to entry into mitochondria and chloroplasts.
obsolete hydrogen-translocating A-type ATPase activity (GO:0016466)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: ATP + H2O + H+(in) = ADP + phosphate + H+(out). Found in archae.
Synonyms: hydrogen-translocating A-type ATPase activity; proton-translocating A-type ATPase activity
Comment: This term was made obsolete because it represents a gene product.
sodium ion-transporting two-sector ATPase complex (GO:0016472)
Namespace: cellular_component
Definition: A large protein complex that catalyzes the synthesis or hydrolysis of ATP by a rotational mechanism, coupled to the transport of sodium ions across a membrane. The complex comprises a membrane sector (F0 or V0) that carries out ion transport and a cytoplasmic compartment sector (F1 or V1) that catalyzes ATP synthesis or hydrolysis.
Synonyms: sodium-transporting two-sector ATPase complex
sodium ion-transporting V-type ATPase complex (GO:0016474)
Namespace: cellular_component
Definition: A sodium ion-transporting two-sector ATPase complex that couples ATP hydrolysis to the transport of sodium ions across a concentration gradient. The complex comprises a membrane sector (V0) that carries out proton transport and a cytoplasmic compartment sector (V1) that catalyzes ATP hydrolysis.
Synonyms: sodium-translocating V-type ATPase complex
cell migration (GO:0016477)
Namespace: biological_process
Definition: The controlled self-propelled movement of a cell from one site to a destination guided by molecular cues.
C-X-C chemokine receptor activity (GO:0016494)
Namespace: molecular_function
Definition: Combining with a C-X-C chemokine and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity. A C-X-C chemokine has a single amino acid between the first two cysteines of the characteristic four cysteine motif.
protein-hormone receptor activity (GO:0016500)
Namespace: molecular_function
Definition: Combining with a protein hormone to initiate a change in cell activity.
obsolete apoptosis activator activity (GO:0016506)
Namespace: molecular_function
Definition: OBSOLETE. The function held by products which directly activate any step in the process of apoptosis.
Synonyms: apoptosis activator activity
Comment: This term was made obsolete because it represents involvement in a biological process.
obsolete endothelin-converting enzyme activity (GO:0016511)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: endothelin-converting enzyme activity
Comment: This term was made obsolete because it represents a gene product.
sarcoplasmic reticulum (GO:0016529)
Namespace: cellular_component
Definition: A fine reticular network of membrane-limited elements that pervades the sarcoplasm of a muscle cell; continuous over large portions of the cell and with the nuclear envelope; that part of the endoplasmic reticulum specialized for calcium release, uptake and storage.
Comment: See also the cellular component terms 'sarcoplasm ; GO:0016528', 'nuclear envelope ; GO:0005635' and 'endoplasmic reticulum ; GO:0005783'.
protein import into peroxisome matrix (GO:0016558)
Namespace: biological_process
Definition: The import of proteins into the peroxisomal matrix. A peroxisome targeting signal (PTS) binds to a soluble receptor protein in the cytosol, and the resulting complex then binds to a receptor protein in the peroxisome membrane and is imported. The cargo protein is then released into the peroxisome matrix.
Synonyms: peroxisome matrix protein import; protein transport to peroxisome matrix
obsolete histone ubiquitination (GO:0016574)
Namespace: biological_process
Definition: OBSOLETE. The modification of histones by addition of ubiquitin groups.
Synonyms: histone ubiquitinylation; histone ubiquitylation
Comment: This term was obsoleted because it represents a molecular function.
Isw1 complex (GO:0016587)
Namespace: cellular_component
Definition: A protein complex that contains an Isw1 subunit from the ISWI-family of ATPases and acts to modify chromatin structure.
glutamate binding (GO:0016595)
Namespace: molecular_function
Definition: Binding to glutamate, the anion of 2-aminopentanedioic acid.
Synonyms: glutamic acid binding
LYSP100-associated nuclear domain (GO:0016606)
Namespace: cellular_component
Definition: A nuclear body that is enriched in the lymphoid cell-specific protein LYSp100B; LANDs are globular, electron-dense structures and are morphologically distinct from the annular structures characteristic of PML bodies.
Synonyms: LANDs
oxidoreductase activity, acting on the CH-CH group of donors, cytochrome as acceptor (GO:0016632)
Namespace: molecular_function
Definition: Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a cytochrome.
oxidoreductase activity, acting on NAD(P)H as acceptor (GO:0016652)
Namespace: molecular_function
Definition: Catalysis of an oxidation-reduction (redox) reaction in which NADH or NADPH acts as a hydrogen or electron donor and reduces NAD+ or NADP.
Synonyms: oxidoreductase activity, acting on NAD or NADPH, NAD or NADP as acceptor
oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced ascorbate as one donor, and incorporation of one atom of oxygen (GO:0016715)
Namespace: molecular_function
Definition: Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from reduced ascorbate and one other donor, and one atom of oxygen is incorporated into one donor.
oxidoreductase activity, acting on CH or CH2 groups, NAD or NADP as acceptor (GO:0016726)
Namespace: molecular_function
Definition: Catalysis of an oxidation-reduction (redox) reaction in which a CH2 group acts as a hydrogen or electron donor and reduces NAD+ or NADP.
oxidoreductase activity, acting on CH or CH2 groups, oxygen as acceptor (GO:0016727)
Namespace: molecular_function
Definition: Catalysis of an oxidation-reduction (redox) reaction in which a CH2 group acts as a hydrogen or electron donor and reduces an oxygen molecule.
cellulose synthase (UDP-forming) activity (GO:0016760)
Namespace: molecular_function
Definition: Catalysis of the reaction: UDP-glucose + ((1,4)-beta-D-glucosyl)(n) = UDP + ((1,4)-beta-D-glucosyl)(n+1).
Synonyms: 1,4-beta-D-glucan synthase activity; 1,4-beta-glucan synthase activity; beta-1,4-glucan synthase activity; beta-1,4-glucan synthetase activity; beta-1,4-glucosyltransferase activity; beta-glucan synthase activity; glucan synthase activity; GS-I; UDP-glucose-1,4-beta-glucan glucosyltransferase activity; UDP-glucose-beta-D-glucan glucosyltransferase activity; UDP-glucose-cellulose glucosyltransferase activity; UDP-glucose:1,4-beta-D-glucan 4-beta-D-glucosyltransferase activity; UDPglucose-beta-glucan glucosyltransferase activity; UDPglucose-cellulose glucosyltransferase activity; UDPglucose:1,4-beta-D-glucan 4-beta-D-glucosyltransferase activity; uridine diphosphoglucose-1,4-beta-glucan glucosyltransferase activity; uridine diphosphoglucose-cellulose glucosyltransferase activity
cellulose synthase (GDP-forming) activity (GO:0016761)
Namespace: molecular_function
Definition: Catalysis of the reaction: GDP-glucose + ((1,4)-beta-D-glucosyl)(n) = GDP + ((1,4)-beta-D-glucosyl)(n+1).
Synonyms: cellulose synthase (guanosine diphosphate-forming) activity; GDP-glucose-beta-D-glucan glucosyltransferase activity; GDP-glucose-cellulose glucosyltransferase activity; GDP-glucose:1,4-beta-D-glucan 4-beta-D-glucosyltransferase activity; GDPglucose:1,4-beta-D-glucan 4-beta-D-glucosyltransferase activity; guanosine diphosphoglucose-1,4-beta-glucan glucosyltransferase activity; guanosine diphosphoglucose-cellulose glucosyltransferase activity
phosphatase activity (GO:0016791)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of a phosphoric monoester, releasing a phosphate.
Synonyms: phosphatase; phosphoric monoester hydrolase activity
hydrolase activity, hydrolyzing N-glycosyl compounds (GO:0016799)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of any N-glycosyl bond.
hydrolase activity, acting on ether bonds (GO:0016801)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of any ether or thioether bond, -O- or -S- respectively.
obsolete proprotein convertase activity (GO:0016808)
Namespace: molecular_function
Definition: OBSOLETE. Was not defined before being made obsolete.
Synonyms: proprotein convertase activity
Comment: This term was made obsolete because it represents a gene product.
hydrolase activity, acting on carbon-carbon bonds (GO:0016822)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of any carbon-carbon bond.
hydrolase activity, acting on sulfur-sulfur bonds (GO:0016828)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of any sulfur-sulfur bond.
Synonyms: hydrolase activity, acting on sulphur-sulphur bonds
amine-lyase activity (GO:0016843)
Namespace: molecular_function
Definition: Catalysis of the release of amines by the cleavage of a carbon-nitrogen bond or the reverse reaction with an amine as a substrate.
1-aminocyclopropane-1-carboxylate synthase activity (GO:0016847)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine = 1-aminocyclopropane-1-carboxylate + S-methyl-5'-thioadenosine + H+. 1-aminocyclopropane-1-carboxylate (ACC) is a direct precursor of ethylene biosynthesis.
Synonyms: 1-aminocyclopropane-1-carboxylate synthetase activity; 1-aminocyclopropane-1-carboxylic acid synthase activity; 1-aminocyclopropanecarboxylate synthase activity; ACC synthase activity; aminocyclopropanecarboxylate synthase activity; aminocyclopropanecarboxylic acid synthase activity; L-VG deaminase activity; L-vinylglycine deaminase activity; S-adenosyl-L-methionine methylthioadenosine-lyase (1-aminocyclopropane-1-carboxylate-forming); S-adenosyl-L-methionine methylthioadenosine-lyase activity
obsolete other lyase activity (GO:0016850)
Namespace: molecular_function
Definition: OBSOLETE. A grouping term for lyases that cannot be more accurately categorized.
Synonyms: other lyase activity
Comment: This term was made obsolete because it was an unnecessary grouping term.
racemase and epimerase activity, acting on hydroxy acids and derivatives (GO:0016856)
Namespace: molecular_function
Definition: Catalysis of a reaction that alters the configuration of one or more chiral centers in a hydroxy acid molecule.
acid-amino acid ligase activity (GO:0016881)
Namespace: molecular_function
Definition: Catalysis of the ligation of an acid to an amino acid via a carbon-nitrogen bond, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
Synonyms: peptide synthase activity
obsolete pyroglutamyl-peptidase II activity (GO:0016921)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the release of the N-terminal pyroglutamyl group from pGlu-His-Xaa tripeptides and pGlu-His-Xaa-Gly tetrapeptides.
Synonyms: pyroglutamyl-peptidase II activity
Comment: This term was made obsolete because it represents a gene product.
protein sumoylation (GO:0016925)
Namespace: biological_process
Definition: The process in which a SUMO protein (small ubiquitin-related modifier) is conjugated to a target protein via an isopeptide bond between the carboxy-terminus of SUMO with an epsilon-amino group of a lysine residue of the target protein.
Synonyms: protein sumolation; small ubiquitin-related protein 1 conjugation; Smt3-protein conjugation; Smt3p-protein conjugation; SUMO-protein conjugation; sumoylation
obsolete RNA polymerase III transcription elongation factor activity (GO:0016945)
Namespace: molecular_function
Definition: OBSOLETE. Any activity that modulates the rate of transcription elongation, the addition of ribonucleotides to an RNA molecule catalyzed by RNA polymerase III following transcription initiation.
Synonyms: Pol III transcription elongation factor activity; RNA polymerase III transcription elongation factor activity
Comment: This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this "MF" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function.
obsolete cathepsin F activity (GO:0016946)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the hydrolysis of peptide bonds. Cleavage of substrates with Phe and Leu in P2.
Synonyms: cathepsin F activity
Comment: This term was made obsolete because it represents a gene product.
obsolete receptor-associated protein activity (GO:0016962)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: receptor-associated protein activity
Comment: This term was made obsolete because it describes a gene product and not a molecular function.
alpha-2 macroglobulin receptor activity (GO:0016964)
Namespace: molecular_function
Definition: Combining with alpha-2 macroglobulin and delivering alpha-2 macroglobulin into the cell via receptor-mediated endocytosis.
obsolete alpha-2 macroglobulin (GO:0016975)
Namespace: molecular_function
Definition: OBSOLETE. Inhibition of proteinase by a mechanism involving a bait region which contains specific sites, cleavage of which induces a conformational change that results in trapping of the proteinase; following cleavage in the bait region a thiolester bond is hydrolyzed and mediates the covalent binding of the protein to the proteinase; subsequently epsilon-amino groups of the proteinase react with thiolester linkages in the inhibitor to form stable amide links; the entrapped proteinase can now only act on low molecular mass substrates.
Synonyms: alpha-2 macroglobulin
Comment: This term was made obsolete because it represents a gene product.
lipoate-protein ligase activity (GO:0016979)
Namespace: molecular_function
Definition: Catalysis of the lipoylation of a protein in two steps: ATP + (R)-lipoate + a [lipoyl-carrier protein]-L-lysine = a [lipoyl-carrier protein]-N6-(lipoyl)lysine + AMP + diphosphate (overall reaction): (1) ATP + (R)-lipoate = lipoyl-AMP + diphosphate; (2) lipoyl-AMP + a [lipoyl-carrier protein]-L-lysine = a [lipoyl-carrier protein]-N6-(lipoyl)lysine + AMP.
Synonyms: lipoate-protein ligase A activity; lipoate-protein ligase activity (lipoylation of glycine cleavage complex); lipoate-protein ligase B activity
antibiotic biosynthetic process (GO:0017000)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of an antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.
Synonyms: antibiotic anabolism; antibiotic biosynthesis; antibiotic formation; antibiotic synthesis
regulation of transforming growth factor beta receptor signaling pathway (GO:0017015)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of activity of any TGF-beta receptor signaling pathway.
Synonyms: regulation of TGF-beta receptor signaling pathway; regulation of TGFbeta receptor signaling pathway; regulation of transforming growth factor beta receptor signalling pathway
obsolete dipeptidyl-peptidase III activity (GO:0017039)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the release of an N-terminal dipeptide from a peptide comprising four or more residues, with broad specificity; also acts on dipeptidyl 2-naphthylamides.
Synonyms: dipeptidyl aminopeptidase III activity; dipeptidyl arylamidase III activity; dipeptidyl-peptidase III activity; DPP III activity; enkephalinase B activity; red cell angiotensinase activity
Comment: This term was made obsolete because it represents a gene product.
fatty acid amide hydrolase activity (GO:0017064)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of a fatty acid amide to yield a fatty acid.
Synonyms: anandamide amidohydrolase activity; oleamide hydrolase activity
very-long-chain fatty acyl-CoA dehydrogenase activity (GO:0017099)
Namespace: molecular_function
Definition: Catalysis of the reaction: a very-long-chain 2,3-saturated fatty acyl-CoA + H+ + oxidized [electron-transfer flavoprotein] = a very-long-chain (2E)-enoyl-CoA + reduced [electron-transfer flavoprotein]. A very long-chain fatty acid has an aliphatic tail containing more than 22 carbons.
Synonyms: very long-chain-acyl-CoA dehydrogenase activity; very-long-chain acyl-CoA dehydrogenase activity
Comment: While there is not universal consensus on the lengths of short-, medium-, long- and very-long-chain fatty acids, the GO uses the definitions in ChEBI (see CHEBI:26666, CHEBI:59554, CHEBI:15904 and CHEBI:27283).
obsolete wide-spectrum protease inhibitor activity (GO:0017114)
Namespace: molecular_function
Definition: OBSOLETE. Stops, prevents or reduces the activity of a protease by a wide-spectrum protease inhibitor. A wide-spectrum protease inhibitor is a protein having a peptide stretch which contains specific cleavage sites for different proteinases enabling inhibition of all four classes of proteinases by formation of a covalent bond between the inhibitor and the protease.
Synonyms: wide-spectrum protease inhibitor activity; wide-spectrum proteinase inhibitor
Comment: This term was made obsolete because it represents a regulator of non-existent molecular function.
single-stranded DNA helicase activity (GO:0017116)
Namespace: molecular_function
Definition: Catalysis of the reaction: ATP + H2O = ADP + phosphate, in the presence of single-stranded DNA; drives the unwinding of a DNA helix.
Synonyms: single-stranded DNA-dependent ATP-dependent DNA helicase activity; single-stranded DNA-dependent ATPase activity; ssDNA-dependent ATP-dependent DNA helicase activity; ssDNA-dependent ATPase activity
SH3 domain binding (GO:0017124)
Namespace: molecular_function
Definition: Binding to a SH3 domain (Src homology 3) of a protein, small protein modules containing approximately 50 amino acid residues found in a great variety of intracellular or membrane-associated proteins.
mitochondrial electron transfer flavoprotein complex (GO:0017133)
Namespace: cellular_component
Definition: A protein complex located in the mitochondrion. It contains flavin adenine dinucleotide (FAD) that, together with an acyl-CoA dehydrogenase, forms a system that oxidizes an acyl-CoA molecule and reduces ubiquinone and other acceptors in the mitochondrial electron transport system.
obsolete antibiotic susceptibility/resistance (GO:0017141)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: antibiotic susceptibility/resistance
Comment: This term was made obsolete because 'susceptibility/resistance' implies a phenotype rather than a biological process.
aryl hydrocarbon receptor binding (GO:0017162)
Namespace: molecular_function
Definition: Binding to an aryl hydrocarbon receptor.
vinculin binding (GO:0017166)
Namespace: molecular_function
Definition: Binding to vinculin, a protein found in muscle, fibroblasts, and epithelial cells that binds actin and appears to mediate attachment of actin filaments to integral proteins of the plasma membrane.
cysteine dioxygenase activity (GO:0017172)
Namespace: molecular_function
Definition: Catalysis of the reaction: L-cysteine + O2 = 3-sulfino-L-alanine + H+.
peptidyl-glutamic acid carboxylation (GO:0017187)
Namespace: biological_process
Definition: The gamma-carboxylation of peptidyl-glutamic acid; catalyzed by the vitamin K dependent gamma-glutamyl carboxylase.
Comment: See also the molecular function term 'gamma-glutamyl carboxylase activity ; GO:0008488'.
obsolete N-terminal peptidyl-alanine acetylation (GO:0017189)
Namespace: biological_process
Definition: OBSOLETE. The acetylation of the N-terminal alanine of proteins; catalyzed by peptide alpha-N-acetyltransferase or other enzymes of this class, such as ribosomal-protein-alanine N-acetyltransferase.
Comment: This term was obsoleted because it represents a molecular function.
obsolete N-terminal peptidyl-glycine acetylation (GO:0017193)
Namespace: biological_process
Definition: OBSOLETE. The acetylation of the N-terminal glycine of proteins to form the derivative N-acetylglycine.
Comment: This term was obsoleted because it represents a molecular function.
peptidyl-lysine N6-palmitoyltransferase activity (GO:0018031)
Namespace: molecular_function
Definition: Catalysis of the transfer of a palmitoyl group to the N6 nitrogen atom on a lysine residue of a peptide or protein molecule.
obsolete C-terminal peptidyl-asparagine amidation (GO:0018036)
Namespace: biological_process
Definition: OBSOLETE. The formation of a C-terminal peptidyl-asparagine amide by hydrolysis and oxidation of an interior Asn-Gly peptide in a secreted protein.
Comment: This term was obsoleted because it represents a molecular function, and this modification is not known to exist; only c-terminal peptidylglycine has been identified, see PMID:35124797.