LiteFold/GO huggingface dataset:
RNA polymerase II CTD heptapeptide repeat modifying activity (GO:0140994)
Namespace: molecular_function
Definition: A catalytic activity that acts on the RNA polymerase II large subunit CTD heptapeptide repeat (consensus YSPTSPS). Reversible modifications cof the RNA polymerase II CTD repeats contribute to regulation of RNA polymerase activity.
Synonyms: RNA polymerase II CTD repeat modifying activity; RNA polymerase II large subunit CTD heptapeptide repeat modifying activity
histone H2A kinase activity (GO:0140995)
Namespace: molecular_function
Definition: Catalysis of the transfer of a phosphate group to a histone H2A.
histone H3 kinase activity (GO:0140996)
Namespace: molecular_function
Definition: Catalysis of the transfer of a phosphate group to a histone H3.
histone H4 kinase activity (GO:0140997)
Namespace: molecular_function
Definition: Catalysis of the transfer of a phosphate group to a histone H4.
histone H2B kinase activity (GO:0140998)
Namespace: molecular_function
Definition: Catalysis of the transfer of a phosphate group to a histone H2B.
histone H3K4 trimethyltransferase activity (GO:0140999)
Namespace: molecular_function
Definition: Catalysis of the reaction: L-lysyl4-[histone H3] + 3 S-adenosyl-L-methionine = 2 H+ + N6,N6-trimethyl-L-lysyl4-[histone H3] + 3 S-adenosyl-L-homocysteine. This reaction is the successive addition of three methyl groups to the unmethylated lysine residue at position 4 of histone H3, producing histone H3K4me3.
Synonyms: histone H3-K4 trimethylation; histone H3K4 trimethylase activity; histone H3K4 trimethylation; histone lysine N-trimethyltransferase activity (H3-K4 specific)
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.
histone H4K91 ubiquitin ligase activity (GO:0141000)
Namespace: molecular_function
Definition: Catalysis of the transfer of a ubiquitin molecule to histone 4 at the lysine-91 residue.
Synonyms: histone H4-K91 ubiquitin ligase activity; histone ubiquitin ligase activity (H4-K91 specific)
Comment: Note that the residue position corresponds to the canonical human H4 histone (UniProtKB:P02309); this residue is conserved across all eukaryotes. Note that the initiation methionine is cleaved, so the first residue is S1.
histone H4K16 propionyltransferase activity (GO:0141002)
Namespace: molecular_function
Definition: Catalysis of the reaction: histone H4 L-lysine (position 16) + propionyl-CoA = CoA + H+ + histone H3 N6-propionyl-L-lysyl (position 16).
Comment: Note that the residue position corresponds to the canonical human H4 histone (UniProtKB:P02309); this residue is conserved across all eukaryotes. Note that the initiation methionine is cleaved, so the first residue is S1.
histone H2AX kinase activity (GO:0141003)
Namespace: molecular_function
Definition: Catalysis of the transfer of a phosphate group to a histone variant H2AX.
transposable element silencing by piRNA-mediated heterochromatin formation (GO:0141006)
Namespace: biological_process
Definition: A transposable element silencing mechanism in which a Piwi-associated RNA (piRNA) triggers heterochromatin assembly. Heterochromatin is a chromatin conformation that is refractory to transcription.
Synonyms: piRNA-mediated retrotransposon silencing by heterochromatin formation
transposable element silencing by siRNA-mediated heterochromatin formation (GO:0141007)
Namespace: biological_process
Definition: A transposable element silencing mechanism in which a siRNA triggers heterochromatin assembly. Heterochromatin is a chromatin conformation that is refractory to transcription.
Synonyms: siRNA-mediated retrotransposon silencing by heterochromatin formation
transposable element silencing by mRNA destabilization (GO:0141008)
Namespace: biological_process
Definition: A transposable element silencing mechanism in which mRNAs transcribed from transposons are targeted for degradation.
Synonyms: post-transcriptional retrotransposon silencing; retrotransposon silencing by mRNA destabilization
transposable element silencing by piRNA-mediated mRNA destabilization (GO:0141009)
Namespace: biological_process
Definition: A transposable element silencing mechanism in which mRNAs transcribed from transposons are targeted for degradation by a Piwi-associated RNA (piRNA).
Synonyms: piRNA-mediated post-transcriptional retrotransposon silencing; piRNA-mediated retrotransposon silencing by mRNA destabilization
transposable element silencing by siRNA-mediated DNA methylation (GO:0141010)
Namespace: biological_process
Definition: A transposable element silencing mechanism mediated by RNA-directed DNA methylation. RNA-directed DNA methylation is a gene silencing process in which small interfering RNAs (siRNAs) guide DNA methylation to the siRNA-generating genomic loci and other loci that are homologous to the siRNAs for de novo DNA methylation. This results in a heterochromatin assembly, a chromatin conformation that is refractory to transcription.
Synonyms: retrostransposon silencing by RdDM; retrotransposon silencing by RNA-directed DNA methylation; retrotransposon silencing by siRNA-directed DNA methylation; transposable element silencing by siRNA-directed DNA methylation
transposable element silencing by siRNA-mediated mRNA destabilization (GO:0141011)
Namespace: biological_process
Definition: A transposable element silencing mechanism in which mRNAs transcribed from transposons are targeted for degradation by a siRNA.
Synonyms: siRNA-mediated post-transcriptional retrotransposon silencing; siRNA-mediated retrotransposon silencing by mRNA destabilization
ribosome hibernation (GO:0141014)
Namespace: biological_process
Definition: A cellular process that results in the silencing of ribosomes in quiescent cells. Quiescence takes place when cells encounter unfavorable conditions and cease to grow in bacteria and yeast. It also takes place in some specialized cells in higher eukaryotes, such as eggs. Ribosomes in a hibernation state are kept silent via association with proteins with inhibitory and protective functions.
G/T mismatch-specific thymine-DNA glycosylase activity (GO:0141016)
Namespace: molecular_function
Definition: Hydrolyzes mismatched double-stranded DNA and polynucleotides, releasing free thymine and leaving an apyrimidinic (AP) site.
effector-mediated induction of cell cycle reactivation in host (GO:0141017)
Namespace: biological_process
Definition: A symbiont process in which a molecule secreted by the symbiont reactivates the host cell cycle, resulting in DNA synthesis and host cell division, and contributing to vegetative tumor formation.
adhesion of symbiont to host via host extracellular matrix (GO:0141018)
Namespace: biological_process
Definition: The attachment of a symbiont to its host by binding to a component of the host extracellular matrix. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: adhesion of symbiont to host extracellular matrix via collagen; adhesion of symbiont to host extracellular matrix via fibronectin; adhesion of symbiont to host extracellular matrix via integrin; adhesion of symbiont to host extracellular matrix via laminin; adhesion of symbiont to host extracellular matrix via vitronectin
symbiont-mediated disruption of host cell-cell adhesion (GO:0141023)
Namespace: biological_process
Definition: A process in which a symbiont alters or subverts host cell adhesion ito its extracellular matrix. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: disruption by symbiont of host cell-cell adhesion
adhesion of symbiont to host cell surface via host membrane carbohydrate (GO:0141024)
Namespace: biological_process
Definition: The attachment of a symbiont to its host by binding to a carbohydrate on the host cell surface. The host is defined as the larger of the organisms involved in a symbiotic interaction.
adhesion of symbiont to host cell surface via host glycoprotein (GO:0141025)
Namespace: biological_process
Definition: The attachment of a symbiont to its host by binding to a glycoprotein on the host cell surface. The host is defined as the larger of the organisms involved in a symbiotic interaction.
adhesion of symbiont to host cell surface via host membrane cholesterol (GO:0141026)
Namespace: biological_process
Definition: The attachment of a symbiont to its host by binding to cholesterol on the host cell surface. The host is defined as the larger of the organisms involved in a symbiotic interaction.
symbiont-mediated perturbation of host actin cytoskeleton (GO:0141027)
Namespace: biological_process
Definition: The process in which an organism effects a change that impairs the structure or function of the host actin cytoskeleton. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: disruption by symbiont of actin cytoskeleton; modification by symbiont of host actin cytoskeleton; perturbation by symbiont of host actin cytoskeleton
symbiont-mediated perturbation of host microtubule cytoskeleton (GO:0141028)
Namespace: biological_process
Definition: The process in which an organism effects a change that impairs the structure or function of the host microtubule cytoskeleton. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: disruption by symbiont of host microtubule cytoskeleton; modification by symbiont of host microtubule cytoskeleton; perturbation by symbiont of host microtubule cytoskeleton
symbiont-mediated perturbation of host actin cytoskeleton via filamentous actin depolymerization (GO:0141030)
Namespace: biological_process
Definition: The process in which an organism effects a change that impairs the structure or function of the host actin cytoskeleton by depolymerizing the host filamentous actin. The host is defined as the larger of the organisms involved in a symbiotic interaction.
symbiont-mediated perturbation of host actin cytoskeleton via actin crosslinking (GO:0141031)
Namespace: biological_process
Definition: The process in which an organism effects a change that impairs the structure or function of the host actin cytoskeleton by actin crosslinking the host actin filaments. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: perturbation by symbiont of host actin cytoskeleton via actin crosslinking
symbiont-mediated perturbation of host actin cytoskeleton via actin filament reorganization (GO:0141032)
Namespace: biological_process
Definition: The process in which an organism effects a change that impairs the structure or function of the host actin cytoskeleton by reorganizing the actin filaments, in a way that keeps the total filementous actin remains approximately constant. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: perturbation by symbiont of host actin cytoskeleton via actin filament rearrangement; perturbation by symbiont of host actin cytoskeleton via actin filament reorganization
symbiont-mediated perturbation of host actin cytoskeleton via actin polymerization (GO:0141033)
Namespace: biological_process
Definition: The process in which an organism effects a change that impairs the structure or function of the host actin cytoskeleton by polymerizing the host filamentous actin. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: perturbation by symbiont of host actin cytoskeleton via actin polymerization
symbiont-mediated perturbation of host actin cytoskeleton via inhibition of actin polymerization (GO:0141034)
Namespace: biological_process
Definition: The process in which an organism effects a change that disrupts the host actin cytoskeleton by inhibiting host actin from polymerizing. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: perturbation by symbiont of host actin cytoskeleton via inhibition of actin polymerization
CTP-dependent diacylglycerol kinase activity (GO:0141035)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 1,2-diacyl-sn-glycerol + CTP = a 1,2-diacyl-sn-glycero-3-phosphate + CDP + H+.
Synonyms: DAG kinase activity; diacylglycerol kinase (CTP dependent); diacylglycerol kinase activity; diacylglycerol kinase activity (CTP)
phosphatidylinositol 3-kinase activator activity (GO:0141038)
Namespace: molecular_function
Definition: Binds to and increases the activity of a phosphatidylinositol 3-kinase (PI3K).
phosphatidylinositol 3-kinase inhibitor activity (GO:0141039)
Namespace: molecular_function
Definition: Binds to and decreases the activity of a phosphatidylinositol 3-kinase (PI3K).
very-long-chain 3-oxoacyl-CoA reductase activity (GO:0141040)
Namespace: molecular_function
Definition: Catalysis of the reaction: a very-long-chain (3R)-3-hydroxyacyl-CoA + NADP+ = a very-long-chain 3-oxoacyl-CoA + H+ + NADPH. This reaction is the second (reduction) step of the four-step fatty acid elongation cycle in the endoplasmic reticulum that extends fatty acids of C-16 or longer with an additional 2-C unit.
obsolete disruption of extracellular matrix of another organism (GO:0141041)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways performed by an organism resulting in the breakdown of the extracellular matrix of another organism.
Comment: This term was obsoleted because it represents an unnecessary grouping term, as this process can occur during host-symbiont interactions or be mediated by toxin secreted by free-living organisms.
symbiont-mediated cAMP intoxication of host cell (GO:0141042)
Namespace: biological_process
Definition: The production by a symbiont of high levels of cyclic AMP in a host cell, impairing host cellular functions in multiple ways, including ATP depletion, interference with host intracellular signaling, cytoskeletal defects and apoptosis-related cell death. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: cAMP intoxication in host
symbiont-mediated evasion of host innate immune response (GO:0141043)
Namespace: biological_process
Definition: A process by which a symbiont avoids recognition by host's innate immune response by altering, concealing or destroying a conserved symbiont molecule recognized by the host. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: evasion of host innate immune recognition; evasion of host innate immune response
epigenetic programming in the endosperm (GO:0141044)
Namespace: biological_process
Definition: The global programming of epigenetic modifications following binucleate central cell fertilization. This involves DNA methylation at the silent allele. In the endosperm, maternal genomes are hypomethylated compared with the paternal genome.
Synonyms: epigenetic reprogramming in the endosperm
Atg8-family conjugating enzyme activity (GO:0141046)
Namespace: molecular_function
Definition: Isoenergetic transfer of an Atg8 family modifier from one protein to a phosphatidylethanolamine or phosphatidylserine on a membrane, via the reaction X-Atg8 + Y = Y-Atg8 + X.
Synonyms: APG8 conjugating enzyme activity; Atg8 conjugating enzyme activity; Atg8-like conjugating activity; E2
molecular tag activity (GO:0141047)
Namespace: molecular_function
Definition: A molecular function exhibited by a protein that is covalently attached (AKA tagged or conjugated) to another molecule (for example a protein or a lipid) where it acts as a marker, recognized by the cellular apparatus to target the tagged protein for some cellular process such as modification, sequestration, transport or degradation.
Synonyms: covalent modifier; tag
Comment: Use this term to annotate conjugated tags, not for conjugating enzymes. At the time of writing, all known gene products with this activity are ubiquitin-like, either based on overall sequence similarity or the presence of common motifs and structures.
membrane tag activity (GO:0141048)
Namespace: molecular_function
Definition: A molecular function exhibited by a protein that is covalently attached (AKA tagged or conjugated) to a lipid, where it acts as a marker for a membrane, recognized by the cellular apparatus to target the tagged protein for some cellular process such as autophagy.
Synonyms: covalent modifier; lipid tag
Comment: Use this term to annotate conjugated tags, not for conjugating enzymes. At the time of writing, all known gene products with this activity are ubiquitin-like, either based on overall sequence similarity or the presence of common motifs and structures.
protein-glutathione oxidoreductase (glutathione) activity (GO:0141049)
Namespace: molecular_function
Definition: Catalysis of the reaction: glutathionylated protein (PSSG) + glutathione (GSH) = protein-thiol (PSH) + glutathione disulfide (GSSG). The reaction may proceed via a 'monothiol' or 'dithiol' mechanism.
Synonyms: glutaredoxin activity; glutathione oxidoreductase activity
histone H3K deacetylase activity (GO:0141050)
Namespace: molecular_function
Definition: Removal of an acetyl group from a lysine residue in a histone H3.
Comment: Histone deacytylase (HDAC) enzymes are divided into four classes: the Class I Rpd3-like proteins (in human: HDAC1, HDAC2, HDAC3, and HDAC8); the Class II Hda1-like proteins (in human: HDAC4, HDAC5, HDAC6, HDAC7, HDAC9, and HDAC10); the Class III Sir2-like proteins (in human: SIRT1, SIRT2, SIRT3, SIRT4, SIRT5, SIRT6, and SIRT7); and the Class IV protein (HDAC11 in human). Except for Class III enzymes, the mechanism is a metal-dependent hydrolysis of the acetylated substrate. The Class III HDACs use NAD+ as a reactant to deacetylate acetyl lysine residues of protein substrates forming nicotinamide, the deacetylated product, and the metabolite 2'-O-acetyl-ADP-ribose. Therefore, Class III are classified as transferases (EC:2) and others are hydrolases (EC:3).
histone H4K deacetylase activity (GO:0141051)
Namespace: molecular_function
Definition: Removal of an acetyl group from a lysine residue in a histone H4.
Comment: Histone deacytylase (HDAC) enzymes are divided into four classes: the Class I Rpd3-like proteins (in human: HDAC1, HDAC2, HDAC3, and HDAC8); the Class II Hda1-like proteins (in human: HDAC4, HDAC5, HDAC6, HDAC7, HDAC9, and HDAC10); the Class III Sir2-like proteins (in human: SIRT1, SIRT2, SIRT3, SIRT4, SIRT5, SIRT6, and SIRT7); and the Class IV protein (HDAC11 in human). Except for Class III enzymes, the mechanism is a metal-dependent hydrolysis of the acetylated substrate. The Class III HDACs use NAD+ as a reactant to deacetylate acetyl lysine residues of protein substrates forming nicotinamide, the deacetylated product, and the metabolite 2'-O-acetyl-ADP-ribose. Therefore, Class III are classified as transferases (EC:2) and others are hydrolases (EC:3).
histone H3 demethylase activity (GO:0141052)
Namespace: molecular_function
Definition: Catalysis of the removal of a methyl group from a modified lysine residue of the histone H3 protein. This is a dioxygenase reaction that is dependent on Fe(II) and 2-oxoglutarate.
histone H2A ubiquitin ligase activity (GO:0141053)
Namespace: molecular_function
Definition: Catalysis of the transfer of ubiquitin to a histone H2A substrate.
histone H3 ubiquitin ligase activity (GO:0141055)
Namespace: molecular_function
Definition: Catalysis of the transfer of ubiquitin to a histone H3 substrate.
histone H3 arginine deiminase activity (GO:0141057)
Namespace: molecular_function
Definition: Catalysis of the reaction: H2O + histone H3 L-arginyl = histone H3 L-citrullyl + NH4+, resulting in histone H3 citrullination.
histone H4 demethylase activity (GO:0141058)
Namespace: molecular_function
Definition: Catalysis of the removal of a methyl group from a modified lysine residue of the histone H4 protein. This is a dioxygenase reaction that is dependent on Fe(II) and 2-oxoglutarate.
symbiont-mediated disruption of host antimicrobial peptide activity (GO:0141059)
Namespace: biological_process
Definition: Any process in which a symbiont interferes with a host antimicrobial peptide, for example by cleavage or degradation.
Synonyms: disruption of host antimicrobial peptide activity
disruption of cell in another organism (GO:0141061)
Namespace: biological_process
Definition: The disruption of a cell of another organism, leading to damage or temporary subversion of that cell.
epigenetic programming in the central cell (GO:0141063)
Namespace: biological_process
Definition: The establishment of epigenetic modifications (imprints) in a plant central cell, leading to an asymmetry between the two maternal alleles and the paternal allele, and differential expression of the corresponding alleles in the developing endosperm. This can happen through heterochromatin formation or differential chromatin loop formation.
zygotic genome activation (GO:0141064)
Namespace: biological_process
Definition: A process that contributes to the onset of de novo transcription from the zygotic genome as part of the maternal-to-zygote transition in gene expression. The zygote overcomes the silencing that has been established. The cause of this silencing could be due to several factors: chromatin modifications leading to repression, or lack of adequate transcription machinery.
Synonyms: ZGA
maternal mRNA clearance (GO:0141065)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the clearance of maternal mRNA transcripts from the zygote as part of the maternal-to-zygote transition in gene expression.
Synonyms: maternal mRNA degradation; maternal transcript clearance; maternal transcript degradation
symbiont-mediated disruption of host extracellular matrix (GO:0141066)
Namespace: biological_process
Definition: The process in which an organism effects a change that impairs the structure or function of the host extracellular matrix.
Synonyms: disruption of host extracellular matrix
intracellular nitrogen homeostasis (GO:0141067)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of nitrogen within a cell.
Synonyms: cellular nitrogen homeostasis; nitrogen homeostasis
autosome genomic imprinting (GO:0141068)
Namespace: biological_process
Definition: The establishment of epigenetic modifications (imprints) in autosomal (non-sexual) chromosomes during gametogenesis, and propagation of these imprints during the organism's life. Genomic imprinting leads to an asymmetry between the maternal and paternal alleles and differential expression of the corresponding alleles. This can happen through heterochromatin formation or differential chromatin loop formation.
Synonyms: autosomal genomic imprinting; genomic imprinting of autosomal genes
receptor ligand inhibitor activity (GO:0141069)
Namespace: molecular_function
Definition: Binds to and decreases the activity of the ligand of a signaling receptor.
Synonyms: signaling receptor ligand inhibitor activity
symbiont-mediated suppression of host MAPK cascade (GO:0141070)
Namespace: biological_process
Definition: A process in which a symbiont interferes with, inhibits or disrupts a MAPK signal transduction pathway in its host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
Synonyms: disruption of host MAP kinase signaling pathway; disruption of host MAPK signal transduction pathway; disruption of host MAPK signaling pathway; symbiont-mediated suppression of host MAPK signal transduction pathway