LiteFold/GO huggingface dataset:
folic acid-containing compound biosynthetic process (GO:0009396)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of folic acid and its derivatives.
Synonyms: folate and derivative biosynthesis; folate and derivative biosynthetic process; folate-containing compound biosynthesis; folate-containing compound biosynthetic process; folic acid and derivative biosynthesis; folic acid and derivative biosynthetic process; folic acid-containing compound anabolism; folic acid-containing compound biosynthesis; folic acid-containing compound formation; folic acid-containing compound synthesis; vitamin B9 and derivative biosynthesis; vitamin B9 and derivative biosynthetic process; vitamin M and derivative biosynthesis; vitamin M and derivative biosynthetic process
folic acid-containing compound catabolic process (GO:0009397)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of folic acid and its derivatives.
Synonyms: folate and derivative catabolic process; folate and derivative catabolism; folate-containing compound catabolic process; folate-containing compound catabolism; folic acid and derivative catabolic process; folic acid and derivative catabolism; folic acid-containing compound breakdown; folic acid-containing compound catabolism; folic acid-containing compound degradation; vitamin B9 and derivative catabolic process; vitamin B9 and derivative catabolism; vitamin M and derivative catabolic process; vitamin M and derivative catabolism
FMN biosynthetic process (GO:0009398)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of FMN, the oxidized form of flavin mononucleotide (riboflavin 5'-(dihydrogen phosphate)), which acts as a coenzyme for a number of oxidative enzymes including NADH dehydrogenase.
Synonyms: FMN anabolism; FMN biosynthesis; FMN formation; FMN synthesis
nitrogen fixation (GO:0009399)
Namespace: biological_process
Definition: The process in which nitrogen is taken from its relatively inert molecular form (N2) in the atmosphere and converted into ammonium, which is more biologically available.
obsolete signal transducer, downstream of receptor, with serine/threonine phosphatase activity (GO:0009400)
Namespace: molecular_function
Definition: OBSOLETE. Conveys a signal from an upstream receptor or intracellular signal transducer by catalysis of the reaction: protein serine phosphate + H2O = protein serine + phosphate, and protein threonine phosphate + H2O = protein threonine + phosphate.
Synonyms: receptor signaling protein serine/threonine phosphatase activity; receptor signalling protein serine/threonine phosphatase activity
Comment: This term was obsoleted because it was not clearly defined.
phosphoenolpyruvate-dependent sugar phosphotransferase system (GO:0009401)
Namespace: biological_process
Definition: The uptake and phosphorylation of specific carbohydrates from the extracellular environment; uptake and phosphorylation are coupled, making the PTS a link between the uptake and metabolism of sugars; phosphoenolpyruvate is the original phosphate donor; phosphoenolpyruvate passes the phosphate via a signal transduction pathway, to enzyme 1 (E1), which in turn passes it on to the histidine protein, HPr; the next step in the system involves sugar-specific membrane-bound complex, enzyme 2 (EII), which transports the sugar into the cell; it includes the sugar permease, which catalyzes the transport reactions; EII is usually divided into three different domains, EIIA, EIIB, and EIIC.
Synonyms: PTS system
obsolete toxin resistance (GO:0009402)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: toxin resistance
Comment: This term was made obsolete because 'resistance' implies a phenotype rather than a biological process.
toxin biosynthetic process (GO:0009403)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of toxin, a poisonous compound (typically a protein) that is produced by cells or organisms and that can cause disease when introduced into the body or tissues of an organism.
Synonyms: toxin anabolism; toxin biosynthesis; toxin formation; toxin synthesis
toxin metabolic process (GO:0009404)
Namespace: biological_process
Definition: The chemical reactions and pathways involving a toxin, a poisonous compound (typically a protein) that is produced by cells or organisms and that can cause disease when introduced into the body or tissues of an organism.
Synonyms: toxin metabolism
obsolete pathogenesis (GO:0009405)
Namespace: biological_process
Definition: OBSOLETE. The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
Synonyms: virulence
Comment: This term was obsoleted because it does not describe a single, normal biological process; rather it is the effect of an interaction between two organisms, under specific conditions.
obsolete virulence (GO:0009406)
Namespace: biological_process
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: virulence
Comment: This term was made obsolete because it represents a phenotype rather than a biological process.
toxin catabolic process (GO:0009407)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of toxin, a poisonous compound (typically a protein) that is produced by cells or organisms and that can cause disease when introduced into the body or tissues of an organism.
Synonyms: toxin breakdown; toxin catabolism; toxin degradation
response to heat (GO:0009408)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
Synonyms: response to heat shock
response to cold (GO:0009409)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cold stimulus, a temperature stimulus below the optimal temperature for that organism.
Synonyms: freezing tolerance
response to UV (GO:0009411)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ultraviolet radiation (UV light) stimulus. Ultraviolet radiation is electromagnetic radiation with a wavelength in the range of 10 to 380 nanometers.
Synonyms: response to ultraviolet light stimulus; response to ultraviolet radiation stimulus; response to UV light stimulus; response to UV radiation stimulus
obsolete response to heavy metal (GO:0009412)
Namespace: biological_process
Definition: OBSOLETE. Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heavy metal stimulus. Heavy metals are those metals that can form a coordination bond with a protein; this definition includes the following biologically relevant heavy metals: Cd, Co, Cu, Fe, Hg, Mn, Mo, Ni, V, W, Zn.
Synonyms: response to heavy metal
Comment: This term was made obsolete because 'heavy metal' is an ambiguous grouping term which has no set meaning (see Pure Appl. Chem. Vol. 74, No. 5, pp. 793-807, 2002, for more information).
response to water deprivation (GO:0009414)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a water deprivation stimulus, prolonged deprivation of water.
Synonyms: drought tolerance; response to dehydration; response to drought; response to thirst
response to water (GO:0009415)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus reflecting the presence, absence, or concentration of water.
Synonyms: response to water stimulus
response to light stimulus (GO:0009416)
Namespace: biological_process
Definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light.
obsolete fimbrin (GO:0009417)
Namespace: cellular_component
Definition: OBSOLETE. A class of proteins that are the subunit components of fimbria.
Synonyms: fimbrin
Comment: This term was made obsolete because it represents a class of gene products.
pilus shaft (GO:0009418)
Namespace: cellular_component
Definition: The long, slender, mid section of a pilus.
Synonyms: fimbrial shaft
pilus tip (GO:0009419)
Namespace: cellular_component
Definition: The pointed extremity furthest from the cell of a pilus.
Synonyms: fimbrial tip
bacterial-type flagellum filament (GO:0009420)
Namespace: cellular_component
Definition: The long (approximately 20 nm), thin external structure of the bacterial-type flagellum, which acts as a propeller.
Synonyms: flagellar filament; flagellin-based flagellum filament
bacterial-type flagellum filament cap (GO:0009421)
Namespace: cellular_component
Definition: The proteinaceous structure at the distal tip of the bacterial-type flagellar filament.
Synonyms: flagellar filament cap; flagellin-based flagellum filament cap
bacterial-type flagellum hook-filament junction (GO:0009422)
Namespace: cellular_component
Definition: The region of the bacterial-type flagellum where the hook and filament meet.
Synonyms: flagellar hook-filament junction
bacterial-type flagellum hook (GO:0009424)
Namespace: cellular_component
Definition: The portion of the bacterial-type flagellum that connects the filament to the basal body.
Synonyms: flagellar hook; flagellin-based flagellum hook
bacterial-type flagellum basal body (GO:0009425)
Namespace: cellular_component
Definition: One of the three major substructures of the bacterial-type flagellum, the basal body is embedded in the cell envelope (the plasma membrane, peptidoglycan cell wall, and, if one is present, the outer membrane); it houses the secretion apparatus that exports the more distal components and the flagellar motor.
Synonyms: flagellar basal body; flagellin-based flagellum basal body
bacterial-type flagellum basal body, distal rod (GO:0009426)
Namespace: cellular_component
Definition: The portion of the central rod of the bacterial-type flagellar basal body that is distal to the cell membrane; spans most of the distance between the inner and outer membranes.
Synonyms: flagellar basal body, distal rod; flagellin-based flagellum basal body, distal rod
bacterial-type flagellum basal body, distal rod, L ring (GO:0009427)
Namespace: cellular_component
Definition: One of the rings of the bacterial-type flagellar basal body; anchors the basal body to the outer membrane.
Synonyms: flagellar basal body, distal rod, L ring; flagellin-based flagellum basal body, distal rod, L ring
bacterial-type flagellum basal body, distal rod, P ring (GO:0009428)
Namespace: cellular_component
Definition: One of the rings of the bacterial-type flagellar basal body; anchors the basal body to the peptidoglycan layer.
Synonyms: flagellar basal body, distal rod, P ring; flagellin-based flagellum basal body, distal rod, P ring
bacterial-type flagellum basal body, proximal rod (GO:0009429)
Namespace: cellular_component
Definition: The portion of the central rod of the bacterial-type flagellar basal body that is proximal to the cell membrane; the proximal rod connects the distal rod to the flagellar motor.
Synonyms: flagellar basal body, proximal rod; flagellin-based flagellum basal body, proximal rod
bacterial-type flagellum basal body, MS ring (GO:0009431)
Namespace: cellular_component
Definition: One of the rings of the bacterial-type flagellar basal body; a double-flanged ring that anchors the basal body to the cytoplasmic membrane.
Synonyms: flagellar basal body, mounting plate; flagellar basal body, MS ring; flagellin-based flagellum basal body, MS ring
SOS response (GO:0009432)
Namespace: biological_process
Definition: An error-prone process for repairing damaged microbial DNA.
bacterial-type flagellum basal body, C ring (GO:0009433)
Namespace: cellular_component
Definition: Cytoplasmic ring located at the base of the bacterial-type flagellar basal body; acts as a rotor; includes three switch proteins, which generate torque and can change their conformational state in a bimodal fashion, so that the motor direction can switch between clockwise and counterclockwise.
Synonyms: flagellar basal body, C ring; flagellin-based flagellum basal body, C ring
NAD+ biosynthetic process (GO:0009435)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of nicotinamide adenine dinucleotide (NAD+), a coenzyme that interconverts with its reduced form, NADH, in many redox and catabolic reactions. NAD+ is derived from various sources including vitamin B3.
Synonyms: NAD (oxidized) biosynthesis; NAD (oxidized) biosynthetic process; NAD (reduced) biosynthesis; NAD (reduced) biosynthetic process; NAD anabolism; NAD biosynthesis; NAD biosynthetic process; NAD formation; NAD synthesis; NADH biosynthesis; NADH biosynthetic process; nicotinamide adenine dinucleotide biosynthesis; nicotinamide adenine dinucleotide biosynthetic process; oxidized NAD biosynthesis; oxidized NAD biosynthetic process; oxidized nicotinamide adenine dinucleotide biosynthesis; oxidized nicotinamide adenine dinucleotide biosynthetic process; reduced NAD biosynthesis; reduced NAD biosynthetic process; reduced nicotinamide adenine dinucleotide biosynthesis; reduced nicotinamide adenine dinucleotide biosynthetic process
glyoxylate catabolic process (GO:0009436)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of glyoxylate, the anion of glyoxylic acid, HOC-COOH.
Synonyms: glyoxylate breakdown; glyoxylate catabolism; glyoxylate degradation
carnitine metabolic process (GO:0009437)
Namespace: biological_process
Definition: The chemical reactions and pathways involving carnitine (hydroxy-trimethyl aminobutyric acid), a compound that participates in the transfer of acyl groups across the inner mitochondrial membrane.
Synonyms: carnitine metabolism; vitamin Bt metabolic process; vitamin Bt metabolism
methylglyoxal metabolic process (GO:0009438)
Namespace: biological_process
Definition: The chemical reactions and pathways involving methylglyoxal, CH3-CO-CHO, the aldehyde of pyruvic acid.
Synonyms: methylglyoxal bypass; methylglyoxal metabolism; methylglyoxal pathway
cyanate catabolic process (GO:0009440)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of cyanate, NCO-, the anion of cyanic acid.
Synonyms: cyanate breakdown; cyanate catabolism; cyanate degradation
glycolate metabolic process (GO:0009441)
Namespace: biological_process
Definition: The chemical reactions and pathways involving glycolate, the anion of hydroxyethanoic acid (glycolic acid).
Synonyms: glycolate metabolism
allantoin assimilation pathway (GO:0009442)
Namespace: biological_process
Definition: The pathways by which allantoin is processed and converted to ureidoglycolate, and then into metabolically useful substrates. E. coli are able to utilize allantoin as a sole nitrogen source under anaerobic conditions by converting it to ureidoglycolate; this may be further metabolized to produce glyoxylate and thence 3-phosphoglycerate, or alternatively oxidized to oxolureate, which can converted into oxamate and carbamoylphosphate. This may then be further metabolized to CO2, NH4+ and ATP.
Synonyms: allantoin catabolic process via ureidoglycolate; allantoin catabolism via ureidoglycolate; allantoin degradation pathway
pyridoxal 5'-phosphate salvage (GO:0009443)
Namespace: biological_process
Definition: Any process that generates pyridoxal 5'-phosphate, the active form of vitamin B6, from derivatives of it without de novo synthesis.
Synonyms: pyridoxal 5' phosphate salvage
obsolete pyruvate oxidation (GO:0009444)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways resulting in the conversion of pyruvate to acetylphosphate.
Comment: This term was obsoleted because it represents a molecular function.
putrescine metabolic process (GO:0009445)
Namespace: biological_process
Definition: The chemical reactions and pathways involving putrescine, 1,4-diaminobutane; putrescine can be formed by decarboxylation of ornithine and is the metabolic precursor of spermidine and spermine.
Synonyms: putrescine metabolism
putrescine biosynthetic process (GO:0009446)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of putrescine, 1,4-diaminobutane; putrescine can be synthesized from arginine or ornithine and is the metabolic precursor of spermidine and spermine.
Synonyms: putrescine anabolism; putrescine biosynthesis; putrescine formation; putrescine synthesis
putrescine catabolic process (GO:0009447)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of putrescine, 1,4-diaminobutane; putrescine is the metabolic precursor of spermidine and spermine.
Synonyms: putrescine breakdown; putrescine catabolism; putrescine degradation
GABA metabolic process (GO:0009448)
Namespace: biological_process
Definition: The chemical reactions and pathways involving gamma-aminobutyric acid (GABA, 4-aminobutyrate), an amino acid which acts as a neurotransmitter in some organisms.
Synonyms: 4-aminobutanoate metabolic process; 4-aminobutanoate metabolism; 4-aminobutyrate metabolic process; 4-aminobutyrate metabolism; GABA metabolism; gamma-aminobutyric acid metabolic process; gamma-aminobutyric acid metabolism
Comment: See also the biological process term 'neurotransmitter metabolic process ; GO:0042133'.
GABA biosynthetic process (GO:0009449)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of gamma-aminobutyric acid (GABA, 4-aminobutyrate), an amino acid which acts as a neurotransmitter in some organisms.
Synonyms: 4-aminobutanoate biosynthesis; 4-aminobutanoate biosynthetic process; 4-aminobutyrate biosynthesis; 4-aminobutyrate biosynthetic process; GABA biosynthesis; gamma-aminobutyric acid anabolism; gamma-aminobutyric acid biosynthesis; gamma-aminobutyric acid biosynthetic process; gamma-aminobutyric acid formation; gamma-aminobutyric acid synthesis
Comment: See also the biological process term 'neurotransmitter biosynthetic process ; GO:0042136' and 'GABA shunt ; GO:0006540'.
GABA catabolic process (GO:0009450)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of gamma-aminobutyric acid (GABA).
Synonyms: 4-aminobutanoate catabolic process; 4-aminobutanoate catabolism; 4-aminobutyrate catabolic process; 4-aminobutyrate catabolism; GABA catabolism; gamma-aminobutyric acid breakdown; gamma-aminobutyric acid catabolic process; gamma-aminobutyric acid catabolism; gamma-aminobutyric acid degradation
Comment: See also the biological process term 'neurotransmitter catabolic process ; GO:0042135' and 'GABA shunt ; GO:0006540'.
RNA modification (GO:0009451)
Namespace: biological_process
Definition: The covalent alteration of one or more nucleotides within an RNA molecule to produce an RNA molecule with a sequence that differs from that coded genetically.
Synonyms: RNA editing
Comment: The term 'RNA editing' (GO:0016547) was merged into 'RNA modification' (GO:0009451) on the basis of statements in the preface of Modification and Editing of RNA (ISBN:1555811337) that there is no clear distinction between modification and editing.
7-methylguanosine RNA capping (GO:0009452)
Namespace: biological_process
Definition: The sequence of enzymatic reactions by which the RNA 5' cap structure, an inverted 7-methylguanosine linked via a 5'-5' triphosphate bridge (m7G(5')ppp(5')X) to the first transcribed residue, is added to a nascent transcript. Additional methylation can occur on the ribose sugars of the first and second nucleotides adjacent to the m7G nRNA cap. These methylations are often referred to as N6,2'-O-dimethyladenosine (m6,2A) and N6,2'-O-dimethylguanosine (m6,2G), respectively.
Synonyms: m(7)G RNA capping; RNA capping
energy taxis (GO:0009453)
Namespace: biological_process
Definition: The directed movement of a motile cell or organism in response to physical parameters involved in energy generation, such as light, oxygen, and oxidizable substrates.
Synonyms: energytaxis; taxis in response to energy source
aerotaxis (GO:0009454)
Namespace: biological_process
Definition: The directed movement of a motile cell or organism in response to environmental oxygen.
Synonyms: taxis in response to atmospheric oxygen
redox taxis (GO:0009455)
Namespace: biological_process
Definition: The directed movement of a motile cell or organism in response to redox potential.
Synonyms: redoxtaxis; taxis in response to redox potential; taxis in response to redox stimulus
obsolete flavodoxin (GO:0009457)
Namespace: molecular_function
Definition: OBSOLETE. A group of small electron carriers, characteristic of anaerobic bacteria, photosynthetic bacteria, cyanobacteria and eukaryotic algae. Contain flavin mononucleotide.
Synonyms: flavodoxin
Comment: This term was made obsolete because it represents a class of gene products.
obsolete cytochrome a (GO:0009459)
Namespace: molecular_function
Definition: OBSOLETE. A cytochrome containing heme a.
Synonyms: cytochrome a
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome b (GO:0009460)
Namespace: molecular_function
Definition: OBSOLETE. A cytochrome containing noncovalently bound protoheme (iron protoporphyrin IX; heme b).
Synonyms: cytochrome b
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome c (GO:0009461)
Namespace: molecular_function
Definition: OBSOLETE. A cytochrome containing heme bound to the protein by one or, more (commonly two) thioether bonds involving sulfhydryl groups of cysteine residues.
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome d (GO:0009462)
Namespace: molecular_function
Definition: OBSOLETE. A cytochrome in which the prosthetic group is a tetrapyrrolic chelate of iron in which the degree of conjugation of double bonds is less than in porphyrin. This definition would appear to include siroheme proteins (e.g. nitrite and sulfite reductases), but these are not cytochromes.
Synonyms: cytochrome d
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome b/b6 (GO:0009463)
Namespace: molecular_function
Definition: OBSOLETE. Diheme cytochrome b; cytochrome b has the hemes b(562) and b(566) and is a component of the mitochondrial respiratory chain complex III. Cytochrome b6 is a component of bc complex acting between photosystems II and I of photosynthesis.
Synonyms: cytochrome b/b6
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome b5 (GO:0009464)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: cytochrome b5
Comment: This term was made obsolete because it represents a gene product.
obsolete soluble cytochrome b562 (GO:0009465)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: soluble cytochrome b562
Comment: This term was made obsolete because it represents a gene product.