LiteFold/GO huggingface dataset:
histone H3-containing nucleosome (GO:0140573)
Namespace: cellular_component
Definition: A complex comprised of DNA wound around a multisubunit core and associated proteins containing the histone H3, which forms the primary packing unit of DNA into higher order structures.
Synonyms: histone H3 containing nucleosome
transmembrane monodehydroascorbate reductase activity (GO:0140575)
Namespace: molecular_function
Definition: Oxidation of monodehydroascorbate outside of a membrane coupled to the reduction of L-ascorbate to monodehydro-L-ascorbate radical on the inner side of a membrane. Electrons get transferred across the membrane during the reaction.
ascorbate homeostasis (GO:0140576)
Namespace: biological_process
Definition: Any process involved in the maintenance of an internal steady state of ascorbate at the level of a cell.
Synonyms: cellular ascorbate homeostasis
obsolete oxidoreductase activity, reducing metal ions (GO:0140579)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of an oxidation-reduction in which the metal ion is reduced.
Comment: This term was obsoleted because it is an unnecessary grouping class.
adenylate cyclase-activating G protein-coupled cAMP receptor signaling pathway (GO:0140582)
Namespace: biological_process
Definition: An adenylate cyclase-activating G protein-coupled receptor signaling pathway initiated by extracellular cAMP binding to its receptor on the surface of the target cell, and ending with the regulation of a downstream cellular process.
Synonyms: extracellular cAMP signaling pathway
chromatin extrusion motor activity (GO:0140584)
Namespace: molecular_function
Definition: A DNA translocase activity that folds chromosomal DNA and catalytically extends the newly formed loop, driven by ATP hydrolysis.
Synonyms: chromatin extrusion activity
promoter-enhancer loop anchoring activity (GO:0140585)
Namespace: molecular_function
Definition: Bridging together two cis-regulatory elements, colloquially referred to as promoters and/or enhancers, holding two loop anchors together to maintain a chromatin loop.
Synonyms: enhancer-promoter loop anchoring activity
Comment: Note that GO does not separately defines enhancers, since this concept is very close to that of cis-regulatory elements. However the literature refers to 'promoter-enhancer loops' to describe loops that bring together cis-regulatory elements. Note also that while SO defines 'promoter' as the core promoter, here it is used to mean a cis-regulatory element.
promoter-terminator loop anchoring activity (GO:0140586)
Namespace: molecular_function
Definition: Bridging together a cis-regulatory element and a terminator DNA sequences on the chromatin, holding two loop anchors together, maintaining a chromatin loop.
Synonyms: terminator-promoter loop anchoring activity
Comment: Note that GO does not separately defines enhancers, since this concept is very close to that of cis-regulatory elements. However the literature refers to 'promoter-enhancer loops' to describe loops that bring together cis-regulatory elements. Note also that while SO defines 'promoter' as the core promoter, here it is used to mean a cis-regulatory element.
chromatin loop anchoring activity (GO:0140587)
Namespace: molecular_function
Definition: Bridging together two DNA loop anchors together, maintaining a chromatin loop.
Synonyms: chromosomal loop binding; DNA loop binding
chromatin looping (GO:0140588)
Namespace: biological_process
Definition: A chromatin organization process that starts with the loading of an extrusion motor (by an SMC family complex) onto the chromatin, followed by chromatin extrusion that stops at loop anchoring sites on the chromosome.
Synonyms: chromatin folding; chromatin loop assembly; DNA loop extrusion; DNA looping
Comment: To describe the molecular function associated with chromatin looping, consider 'chromatin extrusion motor activity'; GO:0140584.
effector-mediated suppression of host defense response (GO:0140590)
Namespace: biological_process
Definition: A process mediated by a molecule secreted by a symbiont that results in the suppression of a defense response. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: effector-mediated suppression of host defenses; effector-mediated suppression of host defenses by symbiont
nuclear envelope budding (GO:0140591)
Namespace: biological_process
Definition: The process by which large macromolecular complexes are budded through the inner nuclear membrane, into the perinuclear space, thus acquiring a membrane envelope. The enveloped particle fuses with the outer nuclear membrane and is released into the cytoplasm.
histone H3R8 methyltransferase activity (GO:0140592)
Namespace: molecular_function
Definition: Catalysis of the reaction: S-adenosyl-L-methionine + (histone H3)-arginine (position 8) = S-adenosyl-L-homocysteine + (histone H3-N-methyl-arginine (position 8). This reaction is the addition of a methyl group to the arginine residue at position 8 of histone H3.
Synonyms: histone H3R8 arginine methylase activity; histone H3R8 arginine methyltransferase activity; histone methyltransferase activity (H3-R8 specific); histone-H3R8 methyltransferase activity
Comment: Comment: Note that the residue position corresponds to the canonical human H3 histone (UniProtKB:P84243); this residue is conserved across all eukaryotes. Residue 1 is the first residue following removal of the initiating Methionine (Met). Note that each histone is encoded by multiple genes, and sequences may vary across different genes within an organism.
host apoplast (GO:0140593)
Namespace: cellular_component
Definition: The apoplast region surrounding a host plant cell. Plants may be described as having two major compartments: the living symplast and the non-living apoplast. The apoplast is external to the plasma membrane and includes cell walls, intercellular spaces and the lumen of dead structures such as xylem vessels. Water and solutes pass freely through it. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: host cell apoplast
xyloglucan-specific endo-beta-1,4-glucanase inhibitor activity (GO:0140594)
Namespace: molecular_function
Definition: Stops, prevents or reduces the activity of xyloglucan-specific endo-beta-1,4-glucanase.
MIM complex (GO:0140595)
Namespace: cellular_component
Definition: A protein complex located in the mitochondrial outer membrane that functions as an insertase, mediating the insertion of alpha-helical proteins from the cytosol into the outer membrane. Client proteins are usually single- and multi-span proteins that include components of the TOM complex.
Synonyms: mitochondrial outer import machinery
TOM complex (GO:0140596)
Namespace: cellular_component
Definition: A large mitochondrial outer membrane translocase complex that mediates transport of proteins into mitochondrial compartments. TOM transports beta-barrel precursors across the outer membrane and the sorting and assembly machinery (SAM complex) inserts them into the target membrane.
Synonyms: translocase of the outer mitochondrial membrane
protein carrier activity (GO:0140597)
Namespace: molecular_function
Definition: Binding to and carrying a protein to an acceptor molecule or to a specific location by moving along with the target protein.
Synonyms: protein carrier chaperone; protein chaperone
lipoprotein carrier activity (GO:0140598)
Namespace: molecular_function
Definition: Binding to and carrying a lipoprotein between two different cellular locations by moving along with the target lipoprotein.
mitotic nuclear bridge midzone membrane domain (GO:0140599)
Namespace: cellular_component
Definition: A nuclear membrane part at the midzone of the mitotic nuclear bridge. The midzone forms a bulge that is enriched in nuclear pores that lack baskets.
nucleolar peripheral inclusion body (GO:0140602)
Namespace: cellular_component
Definition: Inclusion bodies located at the nucleolar periphery where several nuclear factors are reversibly aggregated and sequestered during acute heat stress or starvation.
Synonyms: nucleolar rings; NuRs
mycofactocin biosynthetic process (GO:0140604)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of the coenzyme mycofactocin, a variably glycosylated small molecule electron pair carrier derived from the C-terminal valine-tyrosine dipeptide of the ribosomally translated precursor peptide MftA.
proton motive force-driven motor activity (GO:0140605)
Namespace: molecular_function
Definition: A motor activity driven by an electrochemical proton gradient (proton-motive force). PMF-driven motors are used by bacterial flagella.
cysteine-type endopeptidase activator activity (GO:0140608)
Namespace: molecular_function
Definition: Binds to and increases the activity of a cysteine-type endopeptidase.
Synonyms: caspase activator activator activity
phycocyanobilin biosynthetic process (GO:0140609)
Namespace: biological_process
Definition: The chemical reactions or pathway resulting in the formation of phycocyanobilin, which involves the oxidative cleavage of heme by a heme oxygenase (HO) to form biliverdin IX alpha. Biliverdin IX alpha is subsequently converted to phycocyanobilin by a ferredoxin-dependent oxidoreductase (PCYA).
Synonyms: phycocyanobilin biosynthesis
RNA sequestering activity (GO:0140610)
Namespace: molecular_function
Definition: Binding to a specific RNA molecule to prevent it from interacting with other partners or to inhibit its localization to the area of the cell or complex where it is active.
DNA damage sensor activity (GO:0140612)
Namespace: molecular_function
Definition: A molecule that recognises toxic DNA structures, for example, double-strand breaks or collapsed replication forks, and initiates a signaling response.
Synonyms: DNA damage sensing activity
P-type manganese transporter activity (GO:0140613)
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 + Mn2+(in) = ADP + H+ + Mn2+(out) + phosphate.
1,8-dihydroxynaphthalene-melanin biosynthetic process (GO:0140614)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of dihydroxy naphthalene (DHN)-melanin.
Synonyms: DHN-melanin biosynthesis
ATP-dependent citrate lyase complex (GO:0140615)
Namespace: cellular_component
Definition: A protein complex that catalyzes the cleavage of citrate into oxaloacetate and acetyl-CoA.
Synonyms: citrate lyase complex; citrate synthase complex
iodotyrosine deiodinase activity (GO:0140616)
Namespace: molecular_function
Definition: Catalyzes the reaction: 2 iodide + L-tyrosine + 2 NADP+ = 3,5-diiodo-L-tyrosine + H+ + 2 NADPH. Note that this activity has only been demonstrated in the direction of 3-deiodination. 3-bromo-L-tyrosine and 3-chloro-L-tyrosine can also be used as substrates.
Synonyms: iodide peroxidase-tyrosine iodinase activity; iodotyrosine deiodase activity; monoiodotyrosine deiodinase activity; tyrosine iodinase activity
obsolete transvection (GO:0140617)
Namespace: biological_process
Definition: OBSOLETE. An epigenetic regulation of transcription by physical interaction between a cis-acting element (enhancer, silencer) of one allele on one chromosome and the promoter of the corresponding allele on the homologous chromosome. Transvection can lead to either gene activation or repression.
Comment: This term was obsoleted because it represents an observation, not a GO process.
ferric-chelate reductase (NADH) activity (GO:0140618)
Namespace: molecular_function
Definition: Catalysis of the reaction: 2 a Fe(II)-siderophore + NAD+ + H+ = 2 a Fe(III)-siderophore + NADH.
Synonyms: ferric chelate reductase activity; iron chelate reductase activity; NADH:Fe(3+) oxidoreductase activity; NADH:Fe3+ oxidoreductase activity
DNA strand exchange activator activity (GO:0140619)
Namespace: molecular_function
Definition: Binds to and increases a DNA strand exchange activity.
DNA strand exchange inhibitor activity (GO:0140620)
Namespace: molecular_function
Definition: Binds to and stops, prevents or reduces a DNA strand exchange activity.
type I pilus (GO:0140621)
Namespace: cellular_component
Definition: A short filamentous structure on the surface of a bacterial cell distinguished from other pili by their D-mannose-sensitive agglutinatination of erythrocytes. In E. coli, type I pili consist of a short tip fibrillum made up of the adhesin protein (FimH) and two minor subunits (FimG and FimF) that is joined to the pilus rod, a homopolymer of ~1000 FimA subunits.
Synonyms: type 1 pilus; type I fimbriae; type I pili
ER-to-endosome phospholipid transfer complex (GO:0140622)
Namespace: cellular_component
Definition: Lipid transfer complex that is responsible for the non-vesicular transport of phospholipids, such as phosphatidylserine, from the endoplasmic reticulum to the endosome. It resides in the endosomal (acceptor) membrane and binds to specific lipids on the donor membrane at the ER-endosome contact site.
type I pilus assembly (GO:0140623)
Namespace: biological_process
Definition: The assembly from its constituent parts of a type I pilus.
Synonyms: T1P assembly; type 1 pilus biogenesis; type I fimbria assembly; type I fimbria biogenesis; type I fimbriae assembly; type I fimbriae biogenesis; type I fimbrial assembly; type I fimbrial biogenesis; type I fimbrium assembly; type I fimbrium biogenesis
opioid growth factor receptor signaling pathway (GO:0140626)
Namespace: biological_process
Definition: The series of molecular signals generated as a consequence of an opioid growth factor receptor binding to its physiological ligand, opioid growth factor (OGF, met-enkephalin). The OGF-OGFr complex leads to the increase in the synthesis of the selective cyclin-dependent kinase (CDK) inhibitor proteins, p12 (POLD4) and p16 (CDKN2A).
Comment: Note that this term represents the activation of the zeta-opioid receptor. Do not confuse with GO:0038003 ; G protein-coupled opioid receptor signaling pathway, activated by the delta, kappa, mu, and nociceptin opioid receptors.
ubiquitin-dependent protein catabolic process via the C-end degron rule pathway (GO:0140627)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of a protein or peptide covalently tagged with ubiquitin, via the DesCEND (destruction via C-end degron) pathway. In the DesCEND pathway, C-terminal residues (C-end degrons) in substrates are recognized by Cul2-RING and Cul4-RING E3 ligases, whereupon the substrates are linked to ubiquitin and then delivered to the proteasome for degradation. C-end degrons can be present in full-length proteins, truncated proteins or proteolytically cleaved forms.
Synonyms: DesCEND
outward rectifier potassium channel inhibitor activity (GO:0140628)
Namespace: molecular_function
Definition: Binds to and stops, prevents, or reduces the activity of an outwardly rectifying potassium channel.
small conductance calcium-activated potassium channel inhibitor activity (GO:0140629)
Namespace: molecular_function
Definition: Binds to and stops, prevents, or reduces the activity of a small conductance calcium-activated potassium channel.
all-trans-phytoene synthase activity (GO:0140630)
Namespace: molecular_function
Definition: Catalysis of the reaction: 2 geranylgeranyl diphosphate = all-trans-phytoene + 2 diphosphate.
Synonyms: phytoene synthase activity
aldehyde dehydrogenase (NAD+) inhibitor activity (GO:0140631)
Namespace: molecular_function
Definition: Binds to and stops, prevents or reduces the activity of aldehyde dehydrogenase (NAD+).
canonical inflammasome complex assembly (GO:0140632)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form an inflammasome complex.
CARD8 inflammasome complex assembly (GO:0140633)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a CARD8 inflammasome complex.
CARD8 inflammasome complex (GO:0140634)
Namespace: cellular_component
Definition: An inflammasome complex that consists of CARD8 and CASP1.
neutrophil dispersal (GO:0140635)
Namespace: biological_process
Definition: The movement of a neutrophil away from the site of wound or infection following its initial migration to the site.
small ribosomal subunit processing complex (GO:0140638)
Namespace: cellular_component
Definition: A small heterodimeric protein complex that is required during early maturation of nascent 40S ribosomal subunits. The complex has endonuclease activity, it interacts with the small ribosomal subunit pre-rRNA and cleave it it to produce the mature 18S (or small ribosomal subunit) rRNA. In S. cerevisiae it is composed of Rcl1p and Bms1p.
Synonyms: small ribosomal subunit maturation complex
mitotic spindle formation (spindle phase two) (GO:0140641)
Namespace: biological_process
Definition: The spindle organization process in which the spindle is maintained at a constant length during mitotic metaphase.
Synonyms: metaphase spindle stability; metaphase spindle stabilization
meiotic spindle formation (spindle phase two) (GO:0140642)
Namespace: biological_process
Definition: The spindle organization process in which the spindle is maintained at a constant length during meiotic metaphase.
hydroxymethylglutaryl-CoA reductase (NADH) activity (GO:0140643)
Namespace: molecular_function
Definition: Catalysis of the reaction: (R)-mevalonate + CoA + 2 NAD+ = 3-hydroxy-3-methylglutaryl-CoA + 2 NADH.
Synonyms: 3-hydroxy-3-methylglutaryl coenzyme A reductase activity; beta-hydroxy-beta-methylglutaryl CoA-reductase activity; beta-hydroxy-beta-methylglutaryl coenzyme A reductase activity; HMG-CoA reductase activity; hydroxymethylglutaryl coenzyme A reductase activity
Comment: Note that this activity is not present in eukaryotes, see PMID:29224355.
neutrophil extracellular trap (GO:0140644)
Namespace: cellular_component
Definition: Extracellular microbicidal structure composed of nuclear chromatin, histones and granular antimicrobial proteins. Histones and several neutrophil granule proteins associated with the DNA framework damage entrapped microorganisms.
Synonyms: NET
neutrophil extracellular trap formation (GO:0140645)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a neutrophil extracellular trap, a network of extracellular fibers primarily composed of DNA from neutrophils, which bind and neutralizes pathogens.
Synonyms: NET formation
P450-containing electron transport chain (GO:0140647)
Namespace: biological_process
Definition: A electron transport chain in which one or more electron carriers operate to transfer electrons from donors to a cytochrome P450 protein or domain. Electron carriers operating in this chain include FAD-containing flavoproteins or domains, FMN domains, ferredoxins and cytochrome b5. The reduced cytochrome P450 functions as the terminal oxidase and participates in a wide range of biochemical pathways.
Synonyms: P450-containing system
positive regulation of cell cycle switching, mitotic to meiotic cell cycle (GO:0140648)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of mitotic to meiotic cell cycle switching, the process in which a cell switches cell cycle mode from mitotic to meiotic division.
symbiont-mediated cell-to-cell migration by invasive hypha (GO:0140649)
Namespace: biological_process
Definition: The directional movement of a hyphal filament from one host cell to another. This process involves the clearance of plant-derived plasmodesmal occlusion materials, cytoskeleton based constriction of invasive hypha to traverse plasmodesmata. Septins and F-actin are reorganized into an hourglass shape at the point of maximum hyphal constriction.
Synonyms: cell-to-cell migration by invasive hypha; host tissue colonization; invasive growth; invasive hyphae formation; plant tissue colonization
Comment: Do not confuse with ' GO:0036267 invasive filamentous growth ', which doesn't include invasion of cells within the host.
radial glia-guided pyramidal neuron migration (GO:0140650)
Namespace: biological_process
Definition: The radial migration of a pyramidal neuron along radial glial cells.
Synonyms: radial glia-dependent neuronal migration
futile creatine cycle (GO:0140651)
Namespace: biological_process
Definition: The phosphorylation and dephosphorylation of creatine in a futile cycle, which dissipates the high energy charge of phosphocreatine as heat without performing any mechanical or chemical work. The futile creatine cycle takes place in thermogenic fat cells and is part of adaptive thermogenesis.
pyripyropene A biosynthetic process (GO:0140652)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of pyripyropene A.
Synonyms: pyripyropene A anabolism; pyripyropene A biosynthesis; pyripyropene A formation; pyripyropene A synthesis
obsolete fumitremorgin C biosynthetic process (GO:0140653)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the formation of the indole alkaloid fumitremorgin C.
Synonyms: fumitremorgin C anabolism; fumitremorgin C biosynthesis; fumitremorgin C formation; fumitremorgin C synthesis
Comment: This term was obsoleted because it represents a pathway intermediate.
tryprostatin A biosynthetic process (GO:0140654)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of tryprostatin A.
Synonyms: tryprostatin A anabolism; tryprostatin A biosynthesis; tryprostatin A formation; tryprostatin A synthesis
endodeoxyribonuclease activator activity (GO:0140656)
Namespace: molecular_function
Definition: Binds to and increases the activity of an endodeoxyribonuclease.
ATP-dependent activity (GO:0140657)
Namespace: molecular_function
Definition: A molecular function characterized by the coupling of ATP hydrolysis to other steps of a reaction mechanism to make the reaction energetically favorable, for example to catalyze a reaction or drive transport against a concentration gradient.
Synonyms: ATP hydrolysis-dependent activity; ATPase activity; ATPase activity, coupled; ATPase-dependent activity
Comment: Note that this term represents a grouping class that includes all proteins that use ATP hydrolysis to drive a reaction; it is not meant to capture the ATP hydrolysis reaction itself. To annotate ATP hydrolysis, please use 'ATP hydrolysis activity ; GO:0016887'.
ATP-dependent chromatin remodeler activity (GO:0140658)
Namespace: molecular_function
Definition: An activity, driven by ATP hydrolysis, that modulates the contacts between histones and DNA, resulting in a change in chromosome architecture within the nucleosomal array, leading to chromatin remodeling.
Synonyms: ATP hydrolysis-dependent chromatin remodeler activity; ATP-dependent chromatin remodeller activity; ATP-dependent chromatin remodelling; ATPase-dependent chromatin remodeler activity; nucleosome-activated ATPase activity; nucleosome-dependent ATPase activity
cytoskeletal motor regulator activity (GO:0140659)
Namespace: molecular_function
Definition: Binds to and modulates the activity of a motor protein.
Synonyms: motor activity regulator activity
cytoskeletal motor activator activity (GO:0140660)
Namespace: molecular_function
Definition: Binds to and increases the activity of a motor protein.
Synonyms: motor activity activator activity
cytoskeletal motor inhibitor activity (GO:0140661)
Namespace: molecular_function
Definition: Binds to and stops, prevents, or reduces the activity of a motor protein.
Synonyms: motor activity inhibitor activity
ATP-dependent protein folding chaperone (GO:0140662)
Namespace: molecular_function
Definition: Binding to a protein or a protein-containing complex to assist the protein folding process, driven by ATP hydrolysis.
ATP-dependent FeS chaperone activity (GO:0140663)
Namespace: molecular_function
Definition: Binding to and delivering metal ions to a target protein, driven by ATP hydrolysis.
Synonyms: ATP-dependent FeS carrier activity