LiteFold/GO huggingface dataset:
homogentisate solanesyltransferase activity (GO:0010357)
Namespace: molecular_function
Definition: Catalysis of the reaction: all-trans-nonaprenyl diphosphate + H+ + homogentisate = 2-methyl-6-all-trans-nonaprenylbenzene-1,4-diol + CO2 + diphosphate. 2-methyl-6-solanyl-1,4-benzoquinonone is also known as 2-methyl-6-solanesylplastoquinol and all-trans-nonaprenyl diphosphate as solanesyl diphosphate.
Synonyms: homogentisate solanyltransferase activity; HST activity
leaf shaping (GO:0010358)
Namespace: biological_process
Definition: The developmental process that pertains to the organization of a leaf in three-dimensional space once the structure has initially formed.
Synonyms: leaf structural organization
obsolete regulation of anion channel activity (GO:0010359)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of anion channel activity.
Comment: This term was obsoleted because it represents a molecular function. Consider molecular function regulator activity ; GO:0098772 or a child.
negative regulation of anion channel activity (GO:0010360)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate, or extent of the anion channel activity.
obsolete regulation of anion channel activity by blue light (GO:0010361)
Namespace: biological_process
Definition: OBSOLETE. Any process in which blue light modulates the frequency, rate or extent of anion channel activity.
Synonyms: regulation by blue light of anion channel activity
Comment: This term was obsoleted because it represents a molecular function.
obsolete negative regulation of anion channel activity by blue light (GO:0010362)
Namespace: biological_process
Definition: OBSOLETE. Any process in which blue light stops, prevents, or reduces the frequency, rate, or extent of the anion channel activity.
Synonyms: inhibition by blue light of anion channel activity; negative regulation by blue light of anion channel activity
Comment: This term was obsoleted because it represents a molecular function.
regulation of plant-type hypersensitive response (GO:0010363)
Namespace: biological_process
Definition: Any endogenous process that modulates the frequency, rate or extent of the plant hypersensitive response.
Synonyms: regulation of HR; regulation of HR-PCD; regulation of plant hypersensitive response
Comment: Note that term is to be used to annotate gene products in the plant. To annotate genes in a symbiont, consider the biological process term 'modulation by symbiont of host programmed cell death ; GO:0052040'.
regulation of ethylene biosynthetic process (GO:0010364)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate, or extent of an ethylene biosynthetic process.
positive regulation of ethylene biosynthetic process (GO:0010365)
Namespace: biological_process
Definition: Any process that activates or increases the frequency, rate or extent of an ethylene biosynthetic process.
negative regulation of ethylene biosynthetic process (GO:0010366)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of an ethylene biosynthetic process.
extracellular isoamylase complex (GO:0010367)
Namespace: cellular_component
Definition: A protein complex whose composition varies amongst species; in rice it probably exists in a homo-tetramer to homo-hexamer form and in Gram negative bacteria as a dimer. Functions in the hydrolysis of alpha-(1,6)-D-glucosidic branch linkages. Isoamylases in animals are localized in the extracellular space.
chloroplast isoamylase complex (GO:0010368)
Namespace: cellular_component
Definition: A protein complex whose composition varies amongst species; in rice it probably exists in a homo-tetramer to homo-hexamer form and in Gram negative bacteria as a dimer. Functions in the hydrolysis of alpha-(1,6)-D-glucosidic branch linkages. Isoamylases in plants are intracellular and probably chloroplast localized.
chromocenter (GO:0010369)
Namespace: cellular_component
Definition: A region in which centric, heterochromatic portions from more than one chromosomes form a compact structure.
perinucleolar chromocenter (GO:0010370)
Namespace: cellular_component
Definition: A chromocenter adjacent to the nucleolus.
regulation of gibberellin biosynthetic process (GO:0010371)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of gibberellins.
Synonyms: regulation of gibberellic acid biosynthetic process
positive regulation of gibberellin biosynthetic process (GO:0010372)
Namespace: biological_process
Definition: Any process that activates, maintains or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of gibberellins.
Synonyms: positive regulation of gibberellic acid biosynthetic process
negative regulation of gibberellin biosynthetic process (GO:0010373)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of gibberellins.
Synonyms: negative regulation of gibberellic acid biosynthetic process
stomatal complex development (GO:0010374)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the stomatal complex over time from its formation to the mature structure. The stomatal complex is the stomatal guard cells and their associated epidermal cells.
stomatal complex patterning (GO:0010375)
Namespace: biological_process
Definition: The regionalization process of establishing the non-random spatial arrangement of stomatal complex on the surface of a leaf. The stomatal complex is the stomatal guard cells and their associated epidermal cells.
stomatal complex formation (GO:0010376)
Namespace: biological_process
Definition: The process that gives rise to the stomatal complex. This process pertains to the initial formation of a structure from unspecified parts. The stomatal complex is the stomatal guard cells and their associated epidermal cells.
guard cell fate commitment (GO:0010377)
Namespace: biological_process
Definition: The process in which the developmental fate of a cell becomes restricted such that it will develop into a stomatal guard cell. Guard cells are located in the leaf epidermis and pairwise surround stomatal pores, which allow CO2 influx for photosynthetic carbon fixation and water loss via transpiration to the atmosphere.
Synonyms: stomatal cell fate commitment
temperature compensation of the circadian clock (GO:0010378)
Namespace: biological_process
Definition: The process in which the circadian clock maintains robust and accurate timing over a broad range of physiological temperatures. The circadian clock is an endogenous 24-h timer found in most eukaryotes and in photosynthetic bacteria. The clock drives rhythms in the physiology, biochemistry, and metabolism of the organisms.
Synonyms: regulation of the circadian clock by temperature
phaseic acid biosynthetic process (GO:0010379)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of phaseic acid (PA), a catabolite of the plant hormone abscisic acid (ABA).
regulation of chlorophyll biosynthetic process (GO:0010380)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of chlorophyll, any compound of magnesium complexed in a porphyrin (tetrapyrrole) ring and which functions as a photosynthetic pigment, from less complex precursors.
peroxisome-chloroplast membrane tethering (GO:0010381)
Namespace: biological_process
Definition: The attachment of a peroxisome to a chloroplast via molecular tethers that physically bridge their respective membranes and attach them to each other. The tethering may facilitate exchange of metabolites between the organelles.
Synonyms: attachment of peroxisome to chloroplast
cell wall polysaccharide metabolic process (GO:0010383)
Namespace: biological_process
Definition: The chemical reactions and pathways involving cell wall polysaccharides.
cell wall proteoglycan metabolic process (GO:0010384)
Namespace: biological_process
Definition: The chemical reactions and pathways involving cell wall peptidoglycan, a group of glycoproteins that consist of a core-protein backbone O-glycosylated by one or more complex carbohydrates.
Synonyms: cell wall proteoglycan metabolism
double-stranded methylated DNA binding (GO:0010385)
Namespace: molecular_function
Definition: Binding to double-stranded methylated DNA. Methylation of cytosine or adenine in DNA is an important mechanism for establishing stable heritable epigenetic marks.
COP9 signalosome assembly (GO:0010387)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a COP9 signalosome.
Synonyms: signalosome assembly
regulation of G2/M transition of mitotic cell cycle (GO:0010389)
Namespace: biological_process
Definition: Any signaling pathway that modulates the activity of a cell cycle cyclin-dependent protein kinase to modulate the switch from G2 phase to M phase of the mitotic cell cycle.
Synonyms: regulation of mitotic entry
obsolete histone monoubiquitination (GO:0010390)
Namespace: biological_process
Definition: OBSOLETE. The modification of histones by addition of a single ubiquitin group.
Comment: This term was obsoleted because it represents a molecular function.
glucomannan metabolic process (GO:0010391)
Namespace: biological_process
Definition: The chemical reactions and pathways involving glucomannan, a polysaccharide composed of D-glucose and D-mannose. The mannose units form the backbone structure (a linear main chain) with the D-glucose as single side-units.
Synonyms: glucomannan metabolism
galactoglucomannan metabolic process (GO:0010392)
Namespace: biological_process
Definition: The chemical reactions and pathways involving galactoglucomannan, a polysaccharide composed of D-glucose, D-galactose and D-mannose. The mannose units form the backbone structure (a linear main chain) decorated with a mixture of D-glucose and D-galactose side-units.
Synonyms: galactoglucomannan metabolism
galacturonan metabolic process (GO:0010393)
Namespace: biological_process
Definition: The chemical reactions and pathways involving galacturonan, a pectin polymer containing a backbone of alpha-(1->4)-linked D-galacturonic acid residues.
Synonyms: galacturonan metabolism
homogalacturonan metabolic process (GO:0010394)
Namespace: biological_process
Definition: The chemical reactions and pathways involving homogalacturonan, a pectin characterized by a backbone of alpha-(1->4)-linked D-galacturonic acid residues that can be methyl-esterified at C-6 and carry acetyl groups on O-2 and O-3.
Synonyms: homogalacturonan metabolism
rhamnogalacturonan I metabolic process (GO:0010395)
Namespace: biological_process
Definition: The chemical reactions and pathways involving rhamnogalacturonan I (RGI), a branched pectin with a backbone of alternating alpha-(1->2)-linked rhamnose and alpha-(1->4)-linked D-galacturonic acid residues that carries neutral side-chains of predominantly beta-(1->4)-D-galactose and/or alpha-(1->5)-L-arabinose residues attached to the rhamnose residues of the RGI backbone.
Synonyms: RGI metabolism; rhamnogalacturonan I metabolism
obsolete rhamnogalacturonan II metabolic process (GO:0010396)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving rhamnogalacturonan II, a low molecular mass (5-10KDa) pectic polysaccharide. The backbone of RG-II contains at least 8 1,4-linked alpha-D-GalpA residues.
Synonyms: rhamnogalacturonan II metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete apiogalacturonan metabolic process (GO:0010397)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving the pectic apiogalacturonan, characterized by a backbone of alpha-(1->4)-linked D-galacturonic acid residues substituted with apiose and apiobiose (D-apiofuranosyl-beta-(1->3)-D-apiose) side chains via O-2 or O-3 links.
Synonyms: apiogalacturonan metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
xylogalacturonan metabolic process (GO:0010398)
Namespace: biological_process
Definition: The chemical reactions and pathways involving xylogalacturonan, a pectin characterized by a backbone of alpha-(1->4)-linked D-galacturonic acid residues substituted on C-3 with beta-D-xylopyranose residues.
Synonyms: xylogalacturonan metabolism
rhamnogalacturonan I side chain metabolic process (GO:0010400)
Namespace: biological_process
Definition: The chemical reactions and pathways involving the side chains of the pectin, rhamnogalacturonan I.
Synonyms: rhamnogalacturonan I side chain metabolism
pectic galactan metabolic process (GO:0010401)
Namespace: biological_process
Definition: The chemical reactions and pathways involving galactan, a polymer of D-galactosyl units that can be found as a side chain of the pectin rhamnogalacturonan I.
Synonyms: pectic galactan metabolism
obsolete pectic arabinan metabolic process (GO:0010402)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving pectic arabinan, a polymer with an alpha-(1->5)-linked L-arabinofuranose (Araf) backbone that can be substituted with Araf-alpha-(1->2)-, Araf-alpha-(1->3)-, and/or Araf-alpha-(1->3)-Araf-alpha-(1->3)-side chains. Arabinan can be found as a side chain of the pectin rhamnogalacturonan I.
Synonyms: pectic arabinan metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete pectic arabinogalactan I metabolic process (GO:0010403)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving pectic arabinogalactan I, an alpha-(1,4)-linked D-galactopyranose backbone that is substituted with alpha-l-Araf residues via the O-3 of the D-galactose residues. Arabinogalactan I can be found as a side chain of rhamnogalacturonan I.
Synonyms: pectic arabinogalactan I metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete cell wall hydroxyproline-rich glycoprotein metabolic process (GO:0010404)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving a cell wall hydroxyproline-rich glycoprotein that consist of a core-protein backbone O-glycosylated by one or more complex carbohydrates.
Synonyms: cell wall hydroxyproline-rich glycoprotein metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
arabinogalactan protein metabolic process (GO:0010405)
Namespace: biological_process
Definition: The chemical reactions and pathways involving a cell wall arabinogalactan II glycoprotein, which is composed of a group of core protein of highly varying length and domain complexity. These are O-glycosylated at one or more hydroxyproline residues by arabinogalactan (AG) type II groups, which consist of (1->3)-beta-galactan and (1->6)-beta-linked galactan chains connected to each other by (1->3,1->6)-linked branch points, O-3 and O-6 positions substituted with terminal arabinosyl residues. Also, rhamnose, fucose, glucuronic and galacturonic acid can be present in the glycan structures.
Synonyms: arabinogalactan protein metabolism
classical arabinogalactan protein metabolic process (GO:0010406)
Namespace: biological_process
Definition: The chemical reactions and pathways involving a cell wall arabinogalactan II glycoprotein, which is composed of a group of core protein containing Hyp, Ala, Ser, Thr and Gly as the major amino acid constituents, and the C-terminus is GPI anchored.
Synonyms: classical-arabinogalactan protein metabolism
non-classical arabinogalactan protein metabolic process (GO:0010407)
Namespace: biological_process
Definition: The chemical reactions and pathways involving a cell wall arabinogalactan II glycoprotein where other amino acids besides Hyp, Ala, Ser, Thr and Gly can be present and grouped into regions, such as a Cys-rich or Asn-rich domains.
Synonyms: non-classical arabinogalactan protein metabolism
obsolete fasciclin-like arabinogalactan protein metabolic process (GO:0010408)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving the cell wall arabinogalactan II glycoprotein variant which contains both an arabinogalactan protein (AGP) motif and a fasciclin domain.
Synonyms: fasciclin-like arabinogalactan protein metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete extensin metabolic process (GO:0010409)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving extensins, a group of 60-90 kDNA hydroxyproline (Hyp)-rich glycoproteins whose polypeptide backbone consists of many repeats of structural Ser(Hyp)4-6 motifs, with heavily glycosylated 1-4 arabinose residues O-linked to contiguous stretches of Hyp residues, with most of the Ser residues being O-galactosylated.
Synonyms: extensin metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete hemicellulose metabolic process (GO:0010410)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving hemicelluloses, plant cell wall polysaccharides that have a backbone of 1,4-linked beta-D-pyranosyl residues in which O4 is in the equatorial orientation. Many different hemicelluloses usually occur intermixed with each molecular type representing different degrees of polymerization and contain many different sugar monomers, which can include glucose, xylose, mannose, galactose, and arabinose. Hemicelluloses also contain most of the D-pentose sugars and occasionally small amounts of L-sugars as well. Xylose is always the sugar monomer present in the largest amount, but mannuronic acid and galacturonic acid also tend to be present.
Synonyms: hemicellulose metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
xyloglucan metabolic process (GO:0010411)
Namespace: biological_process
Definition: The chemical reactions and pathways involving xyloglucan, the cross-linking glycan composed of (1->4)-beta-D-glucan backbone substituted at regular intervals with beta-D-xylosyl-(1->6) residues, which is present in the primary cell wall of most higher plants.
Synonyms: xyloglucan metabolism
mannan metabolic process (GO:0010412)
Namespace: biological_process
Definition: The chemical reactions and pathways involving mannan, a group of polysaccharides containing a backbone composed of a polymer of D-mannose units.
Synonyms: mannan metabolism
glucuronoxylan metabolic process (GO:0010413)
Namespace: biological_process
Definition: The chemical reactions and pathways involving xylan, a polymer containing a beta-(1->4)-linked D-xylose backbone decorated with glucuronic acid side units.
Synonyms: glucuronoxylan metabolism
obsolete glucuronoarabinoxylan metabolic process (GO:0010414)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving xylan, a polymer containing a beta-(1->4)-linked D-xylose backbone decorated with glucuronic acid and arabinose side units.
Synonyms: glucuronoarabinoxylan metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete unsubstituted mannan metabolic process (GO:0010415)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving the mannan backbone, the unsubstituted polymer of D-mannose units.
Synonyms: unsubstituted mannan metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
obsolete arabinoxylan-containing compound metabolic process (GO:0010416)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving an arabinoxylan, a polymer containing a beta-1,4-linked D-xylose backbone decorated with arabinose side units.
Synonyms: arabinoxylan metabolic process; arabinoxylan metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
glucuronoxylan biosynthetic process (GO:0010417)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of glucuronoxylan, a polymer containing a beta-1,4-linked D-xylose backbone substituted with glucuronic acid residues.
Synonyms: glucuronoxylan anabolism; glucuronoxylan biosynthesis; glucuronoxylan formation; glucuronoxylan synthesis
obsolete rhamnogalacturonan II backbone metabolic process (GO:0010418)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving the backbone structure of pectic rhamnogalacturonan II. The back bone contains at least 8 1,4-linked alpha-D-GalpA residues.
Synonyms: rhamnogalacturonan II backbone metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
polyprenyldihydroxybenzoate methyltransferase activity (GO:0010420)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 3,4-dihydroxy-5-all-trans-polyprenylbenzoate + S-adenosyl-L-methionine = a 3-methoxy,4-hydroxy-5-all-trans-polyprenylbenzoate + S-adenosyl-L-homocysteine + H+.
Synonyms: 3,4-dihydroxy-5-polyprenylbenzoic acid O-methyltransferase activity
Comment: Note that the polyprenyl sidechain substrate for this reaction has a different number of prenyl units in different organisms (for example, ubiquinone-6 in Saccharomyces, ubiquinone- 9 in rat and ubiquinone-10 in human), and thus the natural substrate for the enzymes from different organisms has a different number of prenyl units. However, the enzyme usually shows a low degree of specificity regarding the number of prenyl units.
hydrogen peroxide-mediated programmed cell death (GO:0010421)
Namespace: biological_process
Definition: Programmed cell death induced by hydrogen peroxide. Programmed cell death is the cell death resulting from activation of endogenous cellular processes.
Synonyms: programmed cell death in response to hydrogen peroxide
regulation of brassinosteroid biosynthetic process (GO:0010422)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of brassinosteroids.
negative regulation of brassinosteroid biosynthetic process (GO:0010423)
Namespace: biological_process
Definition: Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of brassinosteroids.
obsolete DNA methylation on cytosine within a CG sequence (GO:0010424)
Namespace: biological_process
Definition: OBSOLETE. The covalent transfer of a methyl group to C-5 or N-4 of a cytosine located within a CG sequence in a DNA molecule.
Synonyms: cytosine methylation within a CG sequence
Comment: This term was obsoleted because it represents a molecular function.
obsolete DNA methylation on cytosine within a CNG sequence (GO:0010425)
Namespace: biological_process
Definition: OBSOLETE. The covalent transfer of a methyl group, to C-5 or N-4, of a cytosine located within a CNG sequence in a DNA molecule. N stands for any nucleotide.
Synonyms: cytosine methylation within a CNG sequence
Comment: This term was obsoleted because it represents a molecular function.
obsolete DNA methylation on cytosine within a CHH sequence (GO:0010426)
Namespace: biological_process
Definition: OBSOLETE. The covalent transfer of a methyl group, to C-5 or N-4, of a cytosine located within an asymmetric CHH sequence in a DNA molecule. H stands for an adenine, cytosine, or thymine nucleotide.
Synonyms: cytosine methylation within a CHH sequence; cytosine methylation within a CNN sequence; DNA methylation on cytosine within a CNN sequence
Comment: This term was obsoleted because it represents a molecular function.
abscisic acid binding (GO:0010427)
Namespace: molecular_function
Definition: Binding to abscisic acid, a plant hormone that regulates aspects of plant growth.
Synonyms: ABA binding; abscisate binding