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demoo-full.obo
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format-version: 1.2
data-version: demoo/releases/2020-03-23/demoo-full.owl
subsetdef: Angiosperm ""
subsetdef: Arabidopsis ""
subsetdef: Bryophytes ""
subsetdef: CL ""
subsetdef: gocheck_do_not_annotate ""
subsetdef: gocheck_do_not_manually_annotate ""
subsetdef: goslim_agr ""
subsetdef: goslim_aspergillus ""
subsetdef: goslim_candida ""
subsetdef: goslim_chembl ""
subsetdef: goslim_drosophila ""
subsetdef: goslim_flybase_ribbon ""
subsetdef: goslim_generic ""
subsetdef: goslim_metagenomics ""
subsetdef: goslim_mouse ""
subsetdef: goslim_pir ""
subsetdef: goslim_plant ""
subsetdef: goslim_pombe ""
subsetdef: goslim_yeast ""
subsetdef: Maize ""
subsetdef: Poaceae ""
subsetdef: reference ""
subsetdef: Rice ""
subsetdef: ro-eco ""
subsetdef: RO:0002259 ""
subsetdef: TraitNet ""
ontology: demoo/demoo-full
property_value: http://purl.org/dc/elements/1.1/description "None" xsd:string
property_value: http://purl.org/dc/elements/1.1/title "Demo Ontology" xsd:string
property_value: http://purl.org/dc/terms/license https://creativecommons.org/licenses/unspecified
[Term]
id: BFO:0000002
name: continuant
def: "An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts." []
disjoint_from: BFO:0000003 ! occurrent
relationship: part_of BFO:0000002 ! continuant
[Term]
id: BFO:0000003
name: occurrent
def: "An entity that has temporal parts and that happens, unfolds or develops through time." []
relationship: part_of BFO:0000003 ! occurrent
[Term]
id: BFO:0000004
name: independent continuant
def: "A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything." []
is_a: BFO:0000002 ! continuant
disjoint_from: BFO:0000020 ! specifically dependent continuant
relationship: part_of BFO:0000004 ! independent continuant
[Term]
id: BFO:0000015
name: process
def: "An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t." []
is_a: BFO:0000003 ! occurrent
[Term]
id: BFO:0000020
name: specifically dependent continuant
def: "A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same." []
is_a: BFO:0000002 ! continuant
relationship: part_of BFO:0000020 ! specifically dependent continuant
[Term]
id: BFO:0000040
name: material entity
def: "An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time." []
is_a: BFO:0000004 ! independent continuant
[Term]
id: CARO:0000000
name: anatomical entity
is_a: CARO:0030000 ! biological entity
property_value: IAO:0000412 http://purl.obolibrary.org/obo/caro.owl
[Term]
id: CARO:0001010
name: organism or virus or viroid
is_a: BFO:0000040 ! material entity
[Term]
id: CARO:0030000
name: biological entity
is_a: BFO:0000004 ! independent continuant
[Term]
id: DEMOO:00000000
name: root node
[Term]
id: GO:0003674
name: molecular_function
namespace: molecular_function
alt_id: GO:0005554
def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process." [GOC:pdt]
comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code "no data" (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.
subset: goslim_aspergillus
subset: goslim_candida
subset: goslim_chembl
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
synonym: "molecular function" EXACT []
is_a: BFO:0000015 ! process
property_value: IAO:0000589 "molecular process" xsd:string
[Term]
id: GO:0003824
name: catalytic activity
namespace: molecular_function
def: "Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic." [GOC:vw, ISBN:0198506732]
subset: goslim_agr
subset: goslim_chembl
subset: goslim_flybase_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
synonym: "enzyme activity" EXACT [GOC:dph, GOC:tb]
xref: Wikipedia:Enzyme
is_a: GO:0003674 ! molecular_function
[Term]
id: GO:0005102
name: signaling receptor binding
namespace: molecular_function
def: "Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function." [GOC:bf, GOC:ceb, ISBN:0198506732]
comment: Where appropriate, also consider annotating to 'receptor agonist activity ; GO:0048018'.
subset: goslim_agr
subset: goslim_chembl
subset: goslim_flybase_ribbon
subset: goslim_mouse
subset: goslim_plant
synonym: "receptor binding" BROAD []
synonym: "receptor ligand" NARROW []
synonym: "receptor-associated protein activity" RELATED []
xref: Wikipedia:Ligand_(biochemistry)
is_a: GO:0005515 ! protein binding
[Term]
id: GO:0005488
name: binding
namespace: molecular_function
def: "The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule." [GOC:ceb, GOC:mah, ISBN:0198506732]
comment: Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children.
subset: gocheck_do_not_annotate
subset: goslim_pir
subset: goslim_plant
synonym: "ligand" NARROW []
xref: Wikipedia:Binding_(molecular)
is_a: GO:0003674 ! molecular_function
[Term]
id: GO:0005515
name: protein binding
namespace: molecular_function
alt_id: GO:0001948
alt_id: GO:0045308
def: "Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules)." [GOC:go_curators]
subset: goslim_aspergillus
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
synonym: "glycoprotein binding" NARROW []
synonym: "protein amino acid binding" EXACT []
xref: MIPS_funcat:16.01
xref: MIPS_funcat:18.01.07
xref: Reactome:R-HSA-170835 "An anchoring protein, ZFYVE9 (SARA), recruits SMAD2/3"
xref: Reactome:R-HSA-170846 "TGFBR2 recruits TGFBR1"
is_a: GO:0005488 ! binding
[Term]
id: GO:0006793
name: phosphorus metabolic process
namespace: biological_process
def: "The chemical reactions and pathways involving the nonmetallic element phosphorus or compounds that contain phosphorus, usually in the form of a phosphate group (PO4)." [GOC:ai]
subset: goslim_pir
synonym: "phosphorus metabolism" EXACT []
is_a: GO:0044237 ! cellular metabolic process
[Term]
id: GO:0006796
name: phosphate-containing compound metabolic process
namespace: biological_process
def: "The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid." [GOC:ai]
synonym: "phosphate metabolic process" RELATED []
synonym: "phosphate metabolism" EXACT []
xref: MIPS_funcat:01.04
is_a: GO:0006793 ! phosphorus metabolic process
[Term]
id: GO:0007154
name: cell communication
namespace: biological_process
def: "Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:mah]
subset: goslim_pir
subset: goslim_plant
xref: Wikipedia:Cell_signaling
is_a: GO:0009987 ! cellular process
[Term]
id: GO:0007165
name: signal transduction
namespace: biological_process
alt_id: GO:0023033
def: "The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell." [GOC:go_curators, GOC:mtg_signaling_feb11]
comment: Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not.
subset: goslim_aspergillus
subset: goslim_candida
subset: goslim_chembl
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_plant
synonym: "signaling cascade" NARROW []
synonym: "signaling pathway" RELATED []
synonym: "signalling cascade" NARROW []
synonym: "signalling pathway" RELATED [GOC:mah]
xref: MIPS_funcat:30
xref: Wikipedia:Signal_transduction
is_a: GO:0009987 ! cellular process
is_a: GO:0050794 ! regulation of cellular process
relationship: part_of GO:0007154 ! cell communication
relationship: part_of GO:0023052 ! signaling
relationship: part_of GO:0051716 ! cellular response to stimulus
[Term]
id: GO:0008150
name: biological_process
namespace: biological_process
alt_id: GO:0000004
alt_id: GO:0007582
alt_id: GO:0044699
def: "A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt]
comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code "no data" (ND), is used to indicate this.
subset: goslim_aspergillus
subset: goslim_candida
subset: goslim_chembl
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_pombe
subset: goslim_yeast
synonym: "biological process" EXACT []
synonym: "physiological process" EXACT []
synonym: "single organism process" RELATED []
synonym: "single-organism process" RELATED []
xref: Wikipedia:Biological_process
is_a: BFO:0000015 ! process
created_by: janelomax
creation_date: 2012-09-19T15:05:24Z
[Term]
id: GO:0008152
name: metabolic process
namespace: biological_process
alt_id: GO:0044236
alt_id: GO:0044710
def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684]
comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions.
subset: gocheck_do_not_manually_annotate
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
synonym: "metabolic process resulting in cell growth" NARROW []
synonym: "metabolism" EXACT []
synonym: "metabolism resulting in cell growth" NARROW []
synonym: "multicellular organism metabolic process" NARROW []
synonym: "single-organism metabolic process" RELATED []
xref: MIPS_funcat:01
xref: Wikipedia:Metabolism
is_a: GO:0008150 ! biological_process
created_by: janelomax
creation_date: 2012-10-17T15:46:40Z
[Term]
id: GO:0009892
name: negative regulation of metabolic process
namespace: biological_process
alt_id: GO:0044252
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators]
synonym: "down regulation of metabolic process" EXACT []
synonym: "down-regulation of metabolic process" EXACT []
synonym: "downregulation of metabolic process" EXACT []
synonym: "inhibition of metabolic process" NARROW []
synonym: "inhibition of organismal metabolic process" NARROW []
synonym: "negative regulation of metabolism" EXACT []
synonym: "negative regulation of multicellular organismal metabolic process" NARROW []
synonym: "negative regulation of organismal metabolism" EXACT []
is_a: GO:0019222 ! regulation of metabolic process
is_a: GO:0048519 ! negative regulation of biological process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0008152 ! metabolic process
relationship: negatively_regulates GO:0008152 ! metabolic process
[Term]
id: GO:0009893
name: positive regulation of metabolic process
namespace: biological_process
alt_id: GO:0044253
def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators]
synonym: "activation of metabolic process" NARROW []
synonym: "positive regulation of metabolism" EXACT []
synonym: "positive regulation of multicellular organismal metabolic process" NARROW []
synonym: "positive regulation of organismal metabolism" NARROW []
synonym: "stimulation of metabolic process" NARROW []
synonym: "stimulation of organismal metabolic process" NARROW []
synonym: "up regulation of metabolic process" EXACT []
synonym: "up-regulation of metabolic process" EXACT []
synonym: "up-regulation of organismal metabolic process" NARROW []
synonym: "upregulation of metabolic process" EXACT []
is_a: GO:0019222 ! regulation of metabolic process
is_a: GO:0048518 ! positive regulation of biological process
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0008152 ! metabolic process
relationship: positively_regulates GO:0008152 ! metabolic process
[Term]
id: GO:0009966
name: regulation of signal transduction
namespace: biological_process
alt_id: GO:0035466
def: "Any process that modulates the frequency, rate or extent of signal transduction." [GOC:sm]
synonym: "regulation of signaling pathway" RELATED []
synonym: "regulation of signalling pathway" RELATED [GOC:mah]
is_a: GO:0010646 ! regulation of cell communication
is_a: GO:0023051 ! regulation of signaling
is_a: GO:0048583 ! regulation of response to stimulus
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0007165 ! signal transduction
relationship: regulates GO:0007165 ! signal transduction
[Term]
id: GO:0009967
name: positive regulation of signal transduction
namespace: biological_process
alt_id: GO:0035468
def: "Any process that activates or increases the frequency, rate or extent of signal transduction." [GOC:sm]
synonym: "activation of signal transduction" NARROW []
synonym: "positive regulation of signaling pathway" RELATED []
synonym: "positive regulation of signalling pathway" RELATED [GOC:mah]
synonym: "stimulation of signal transduction" NARROW []
synonym: "up regulation of signal transduction" EXACT []
synonym: "up-regulation of signal transduction" EXACT []
synonym: "upregulation of signal transduction" EXACT []
is_a: GO:0009966 ! regulation of signal transduction
is_a: GO:0010647 ! positive regulation of cell communication
is_a: GO:0023056 ! positive regulation of signaling
is_a: GO:0048584 ! positive regulation of response to stimulus
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0007165 ! signal transduction
relationship: positively_regulates GO:0007165 ! signal transduction
[Term]
id: GO:0009968
name: negative regulation of signal transduction
namespace: biological_process
alt_id: GO:0035467
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of signal transduction." [GOC:sm]
synonym: "down regulation of signal transduction" EXACT []
synonym: "down-regulation of signal transduction" EXACT []
synonym: "downregulation of signal transduction" EXACT []
synonym: "inhibition of signal transduction" NARROW []
synonym: "negative regulation of signaling pathway" RELATED []
synonym: "negative regulation of signalling pathway" RELATED [GOC:mah]
is_a: GO:0009966 ! regulation of signal transduction
is_a: GO:0010648 ! negative regulation of cell communication
is_a: GO:0023057 ! negative regulation of signaling
is_a: GO:0048585 ! negative regulation of response to stimulus
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0007165 ! signal transduction
relationship: negatively_regulates GO:0007165 ! signal transduction
[Term]
id: GO:0009987
name: cellular process
namespace: biological_process
alt_id: GO:0008151
alt_id: GO:0044763
alt_id: GO:0050875
def: "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators, GOC:isa_complete]
subset: goslim_plant
synonym: "cell growth and/or maintenance" NARROW []
synonym: "cell physiology" EXACT []
synonym: "cellular physiological process" EXACT []
synonym: "single-organism cellular process" RELATED []
is_a: GO:0008150 ! biological_process
created_by: janelomax
creation_date: 2012-12-11T16:56:55Z
[Term]
id: GO:0010562
name: positive regulation of phosphorus metabolic process
namespace: biological_process
def: "Any process that increases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus." [GOC:dph, GOC:tb]
is_a: GO:0031325 ! positive regulation of cellular metabolic process
is_a: GO:0051174 ! regulation of phosphorus metabolic process
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0006793 ! phosphorus metabolic process
relationship: positively_regulates GO:0006793 ! phosphorus metabolic process
[Term]
id: GO:0010563
name: negative regulation of phosphorus metabolic process
namespace: biological_process
def: "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways involving phosphorus or compounds containing phosphorus." [GOC:dph, GOC:tb]
is_a: GO:0031324 ! negative regulation of cellular metabolic process
is_a: GO:0051174 ! regulation of phosphorus metabolic process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0006793 ! phosphorus metabolic process
relationship: negatively_regulates GO:0006793 ! phosphorus metabolic process
[Term]
id: GO:0010646
name: regulation of cell communication
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb]
is_a: GO:0050794 ! regulation of cellular process
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0007154 ! cell communication
relationship: regulates GO:0007154 ! cell communication
[Term]
id: GO:0010647
name: positive regulation of cell communication
namespace: biological_process
def: "Any process that increases the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb]
is_a: GO:0010646 ! regulation of cell communication
is_a: GO:0048522 ! positive regulation of cellular process
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0007154 ! cell communication
relationship: positively_regulates GO:0007154 ! cell communication
[Term]
id: GO:0010648
name: negative regulation of cell communication
namespace: biological_process
def: "Any process that decreases the frequency, rate or extent of cell communication. Cell communication is the process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:dph, GOC:tb]
is_a: GO:0010646 ! regulation of cell communication
is_a: GO:0048523 ! negative regulation of cellular process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0007154 ! cell communication
relationship: negatively_regulates GO:0007154 ! cell communication
[Term]
id: GO:0016301
name: kinase activity
namespace: molecular_function
def: "Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [ISBN:0198506732]
comment: Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term.
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_plant
subset: goslim_yeast
synonym: "phosphokinase activity" EXACT []
xref: Reactome:R-HSA-6788855 "FN3KRP phosphorylates PsiAm, RibAm"
xref: Reactome:R-HSA-6788867 "FN3K phosphorylates ketosamines"
is_a: GO:0016772 ! transferase activity, transferring phosphorus-containing groups
relationship: part_of GO:0016310 ! phosphorylation
[Term]
id: GO:0016310
name: phosphorylation
namespace: biological_process
def: "The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide." [ISBN:0198506732]
subset: goslim_chembl
subset: goslim_metagenomics
xref: Wikipedia:Phosphorylation
is_a: GO:0006796 ! phosphate-containing compound metabolic process
[Term]
id: GO:0016740
name: transferase activity
namespace: molecular_function
def: "Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [ISBN:0198506732]
subset: goslim_aspergillus
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
xref: EC:2
xref: Reactome:R-HSA-1483089 "PE is converted to PS by PTDSS2"
xref: Reactome:R-HSA-1483186 "PC is converted to PS by PTDSS1"
xref: Reactome:R-HSA-5668414 "TRAF2 ubiquitinates cIAP1,2 in cIAP1,2:TRAF1:TRAF2:TRAF3:NIK"
xref: Reactome:R-HSA-6787403 "GTPBP3 and MTO1 transform uridine-34 yielding 5-taurinomethyluridine-34 in tRNA"
xref: Reactome:R-HSA-8868783 "TSR3 transfers aminocarboxypropyl group from S-adenosylmethionine to N(1)-methylpseudouridine-1248 of 18SE rRNA yielding N(1)-methyl-N(3)-aminocarboxypropylpseudouridine-1248"
is_a: GO:0003824 ! catalytic activity
[Term]
id: GO:0016772
name: transferase activity, transferring phosphorus-containing groups
namespace: molecular_function
def: "Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor)." [GOC:jl, ISBN:0198506732]
comment: Note that this term encompasses all kinase activities, as well as activities that transfer other phosphorus-containing groups such as diphosphate or nucleotides.
subset: goslim_chembl
xref: EC:2.7
is_a: GO:0016740 ! transferase activity
[Term]
id: GO:0019220
name: regulation of phosphate metabolic process
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators]
synonym: "regulation of phosphate metabolism" EXACT []
is_a: GO:0051174 ! regulation of phosphorus metabolic process
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0006796 ! phosphate-containing compound metabolic process
relationship: regulates GO:0006796 ! phosphate-containing compound metabolic process
[Term]
id: GO:0019222
name: regulation of metabolic process
namespace: biological_process
alt_id: GO:0044246
def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators]
subset: goslim_metagenomics
synonym: "regulation of metabolism" EXACT []
synonym: "regulation of multicellular organismal metabolic process" NARROW []
synonym: "regulation of organismal metabolic process" NARROW [GOC:tb]
is_a: GO:0050789 ! regulation of biological process
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0008152 ! metabolic process
relationship: regulates GO:0008152 ! metabolic process
[Term]
id: GO:0023051
name: regulation of signaling
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of a signaling process." [GOC:mtg_signal]
synonym: "regulation of signaling process" RELATED [GOC:bf]
synonym: "regulation of signalling process" RELATED [GOC:mah]
is_a: GO:0050789 ! regulation of biological process
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0023052 ! signaling
relationship: regulates GO:0023052 ! signaling
creation_date: 2010-02-16T09:30:50Z
[Term]
id: GO:0023052
name: signaling
namespace: biological_process
alt_id: GO:0023046
alt_id: GO:0044700
def: "The entirety of a process in which information is transmitted within a biological system. This process begins with an active signal and ends when a cellular response has been triggered." [GOC:mtg_signal, GOC:mtg_signaling_feb11, GOC:signaling]
comment: Note that a signal is any variable property or parameter that serves to convey information, and may be a physical entity such as a gene product or small molecule, a photon, or a change in state such as movement or voltage change.
subset: goslim_agr
subset: goslim_flybase_ribbon
subset: goslim_mouse
subset: goslim_pombe
subset: goslim_yeast
synonym: "biological signaling" EXACT []
synonym: "signaling process" EXACT []
synonym: "signalling" EXACT []
synonym: "signalling process" RELATED [GOC:mah]
synonym: "single organism signaling" RELATED []
is_a: GO:0008150 ! biological_process
created_by: janelomax
creation_date: 2010-02-16T09:30:50Z
[Term]
id: GO:0023056
name: positive regulation of signaling
namespace: biological_process
def: "Any process that activates, maintains or increases the frequency, rate or extent of a signaling process." [GOC:mtg_signal]
synonym: "positive regulation of signaling process" RELATED [GOC:bf]
synonym: "positive regulation of signalling process" EXACT [GOC:mah]
is_a: GO:0023051 ! regulation of signaling
is_a: GO:0048518 ! positive regulation of biological process
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0023052 ! signaling
relationship: positively_regulates GO:0023052 ! signaling
creation_date: 2010-02-16T09:30:50Z
[Term]
id: GO:0023057
name: negative regulation of signaling
namespace: biological_process
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a signaling process." [GOC:mtg_signal]
synonym: "negative regulation of signaling process" RELATED [GOC:bf]
synonym: "negative regulation of signalling process" RELATED [GOC:mah]
is_a: GO:0023051 ! regulation of signaling
is_a: GO:0048519 ! negative regulation of biological process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0023052 ! signaling
relationship: negatively_regulates GO:0023052 ! signaling
creation_date: 2010-02-16T09:30:50Z
[Term]
id: GO:0030545
name: receptor regulator activity
namespace: molecular_function
def: "The function of interacting (directly or indirectly) with receptors such that the proportion of receptors in the active form is changed." [GOC:ceb]
xref: MIPS_funcat:18.02.07
is_a: GO:0098772 ! molecular function regulator
[Term]
id: GO:0030546
name: signaling receptor activator activity
namespace: molecular_function
def: "The function of interacting (directly or indirectly) with receptors such that the proportion of receptors in the active form is increased." [GOC:ceb]
synonym: "receptor activator activity" BROAD []
is_a: GO:0030545 ! receptor regulator activity
[Term]
id: GO:0031323
name: regulation of cellular metabolic process
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah]
synonym: "regulation of cellular metabolism" EXACT []
is_a: GO:0019222 ! regulation of metabolic process
is_a: GO:0050794 ! regulation of cellular process
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0044237 ! cellular metabolic process
relationship: regulates GO:0044237 ! cellular metabolic process
[Term]
id: GO:0031324
name: negative regulation of cellular metabolic process
namespace: biological_process
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah]
synonym: "down regulation of cellular metabolic process" EXACT []
synonym: "down-regulation of cellular metabolic process" EXACT []
synonym: "downregulation of cellular metabolic process" EXACT []
synonym: "inhibition of cellular metabolic process" NARROW []
synonym: "negative regulation of cellular metabolism" EXACT []
is_a: GO:0009892 ! negative regulation of metabolic process
is_a: GO:0031323 ! regulation of cellular metabolic process
is_a: GO:0048523 ! negative regulation of cellular process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0044237 ! cellular metabolic process
relationship: negatively_regulates GO:0044237 ! cellular metabolic process
[Term]
id: GO:0031325
name: positive regulation of cellular metabolic process
namespace: biological_process
def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways by which individual cells transform chemical substances." [GOC:mah]
synonym: "activation of cellular metabolic process" NARROW []
synonym: "positive regulation of cellular metabolism" EXACT []
synonym: "stimulation of cellular metabolic process" NARROW []
synonym: "up regulation of cellular metabolic process" EXACT []
synonym: "up-regulation of cellular metabolic process" EXACT []
synonym: "upregulation of cellular metabolic process" EXACT []
is_a: GO:0009893 ! positive regulation of metabolic process
is_a: GO:0031323 ! regulation of cellular metabolic process
is_a: GO:0048522 ! positive regulation of cellular process
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0044237 ! cellular metabolic process
relationship: positively_regulates GO:0044237 ! cellular metabolic process
[Term]
id: GO:0032091
name: negative regulation of protein binding
namespace: biological_process
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of protein binding." [GOC:mah]
synonym: "down regulation of protein binding" EXACT []
synonym: "down-regulation of protein binding" EXACT []
synonym: "downregulation of protein binding" EXACT []
synonym: "inhibition of protein binding" NARROW []
is_a: GO:0043393 ! regulation of protein binding
is_a: GO:0051100 ! negative regulation of binding
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0005515 ! protein binding
relationship: negatively_regulates GO:0005515 ! protein binding
[Term]
id: GO:0032092
name: positive regulation of protein binding
namespace: biological_process
def: "Any process that activates or increases the frequency, rate or extent of protein binding." [GOC:mah]
synonym: "activation of protein binding" NARROW []
synonym: "stimulation of protein binding" NARROW []
synonym: "up regulation of protein binding" EXACT []
synonym: "up-regulation of protein binding" EXACT []
synonym: "upregulation of protein binding" EXACT []
is_a: GO:0043393 ! regulation of protein binding
is_a: GO:0051099 ! positive regulation of binding
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0005515 ! protein binding
relationship: positively_regulates GO:0005515 ! protein binding
[Term]
id: GO:0033673
name: negative regulation of kinase activity
namespace: biological_process
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:mah]
synonym: "down regulation of kinase activity" EXACT []
synonym: "down-regulation of kinase activity" EXACT []
synonym: "downregulation of kinase activity" EXACT []
synonym: "inhibition of kinase activity" NARROW []
synonym: "kinase inhibitor" NARROW []
is_a: GO:0042326 ! negative regulation of phosphorylation
is_a: GO:0043549 ! regulation of kinase activity
is_a: GO:0051348 ! negative regulation of transferase activity
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0016301 ! kinase activity
relationship: negatively_regulates GO:0016301 ! kinase activity
[Term]
id: GO:0033674
name: positive regulation of kinase activity
namespace: biological_process
def: "Any process that activates or increases the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:mah]
synonym: "kinase activator" NARROW []
synonym: "stimulation of kinase activity" NARROW []
synonym: "up regulation of kinase activity" EXACT []
synonym: "up-regulation of kinase activity" EXACT []
synonym: "upregulation of kinase activity" EXACT []
is_a: GO:0042327 ! positive regulation of phosphorylation
is_a: GO:0043549 ! regulation of kinase activity
is_a: GO:0051347 ! positive regulation of transferase activity
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0016301 ! kinase activity
relationship: positively_regulates GO:0016301 ! kinase activity
[Term]
id: GO:0038023
alt_id: GO:0004872
[Term]
id: GO:0042325
name: regulation of phosphorylation
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of addition of phosphate groups into a molecule." [GOC:jl]
is_a: GO:0019220 ! regulation of phosphate metabolic process
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0016310 ! phosphorylation
relationship: regulates GO:0016310 ! phosphorylation
[Term]
id: GO:0042326
name: negative regulation of phosphorylation
namespace: biological_process
def: "Any process that stops, prevents or decreases the rate of addition of phosphate groups to a molecule." [GOC:jl]
synonym: "down regulation of phosphorylation" EXACT []
synonym: "down-regulation of phosphorylation" EXACT []
synonym: "downregulation of phosphorylation" EXACT []
synonym: "inhibition of phosphorylation" NARROW []
is_a: GO:0042325 ! regulation of phosphorylation
is_a: GO:0045936 ! negative regulation of phosphate metabolic process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0016310 ! phosphorylation
relationship: negatively_regulates GO:0016310 ! phosphorylation
[Term]
id: GO:0042327
name: positive regulation of phosphorylation
namespace: biological_process
def: "Any process that activates or increases the frequency, rate or extent of addition of phosphate groups to a molecule." [GOC:jl]
synonym: "activation of phosphorylation" NARROW []
synonym: "stimulation of phosphorylation" NARROW []
synonym: "up regulation of phosphorylation" EXACT []
synonym: "up-regulation of phosphorylation" EXACT []
synonym: "upregulation of phosphorylation" EXACT []
is_a: GO:0042325 ! regulation of phosphorylation
is_a: GO:0045937 ! positive regulation of phosphate metabolic process
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0016310 ! phosphorylation
relationship: positively_regulates GO:0016310 ! phosphorylation
[Term]
id: GO:0043085
name: positive regulation of catalytic activity
namespace: biological_process
alt_id: GO:0048554
def: "Any process that activates or increases the activity of an enzyme." [GOC:ebc, GOC:jl, GOC:tb, GOC:vw]
subset: goslim_chembl
synonym: "activation of enzyme activity" NARROW []
synonym: "activation of metalloenzyme activity" NARROW []
synonym: "positive regulation of enzyme activity" EXACT [GOC:tb]
synonym: "positive regulation of metalloenzyme activity" NARROW []
synonym: "stimulation of enzyme activity" NARROW []
synonym: "stimulation of metalloenzyme activity" NARROW []
synonym: "up regulation of enzyme activity" EXACT []
synonym: "up regulation of metalloenzyme activity" NARROW []
synonym: "up-regulation of enzyme activity" EXACT []
synonym: "up-regulation of metalloenzyme activity" NARROW []
synonym: "upregulation of enzyme activity" EXACT []
synonym: "upregulation of metalloenzyme activity" NARROW []
xref: MIPS_funcat:18.02.01.01
is_a: GO:0044093 ! positive regulation of molecular function
is_a: GO:0050790 ! regulation of catalytic activity
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0003824 ! catalytic activity
relationship: positively_regulates GO:0003824 ! catalytic activity
[Term]
id: GO:0043086
name: negative regulation of catalytic activity
namespace: biological_process
alt_id: GO:0048553
def: "Any process that stops or reduces the activity of an enzyme." [GOC:ebc, GOC:jl, GOC:tb, GOC:vw]
synonym: "down regulation of enzyme activity" EXACT []
synonym: "down regulation of metalloenzyme activity" NARROW []
synonym: "down-regulation of enzyme activity" EXACT []
synonym: "down-regulation of metalloenzyme activity" EXACT []
synonym: "downregulation of enzyme activity" EXACT []
synonym: "downregulation of metalloenzyme activity" NARROW []
synonym: "inhibition of enzyme activity" NARROW []
synonym: "inhibition of metalloenzyme activity" NARROW []
synonym: "negative regulation of enzyme activity" EXACT [GOC:tb]
synonym: "negative regulation of metalloenzyme activity" NARROW []
is_a: GO:0044092 ! negative regulation of molecular function
is_a: GO:0050790 ! regulation of catalytic activity
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0003824 ! catalytic activity
relationship: negatively_regulates GO:0003824 ! catalytic activity
[Term]
id: GO:0043393
name: regulation of protein binding
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of protein binding." [GOC:go_curators]
is_a: GO:0051098 ! regulation of binding
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0005515 ! protein binding
relationship: regulates GO:0005515 ! protein binding
[Term]
id: GO:0043549
name: regulation of kinase activity
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of kinase activity, the catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [GOC:bf]
is_a: GO:0042325 ! regulation of phosphorylation
is_a: GO:0051338 ! regulation of transferase activity
intersection_of: GO:0008150 ! biological_process
intersection_of: regulates GO:0016301 ! kinase activity
relationship: regulates GO:0016301 ! kinase activity
[Term]
id: GO:0044092
name: negative regulation of molecular function
namespace: biological_process
def: "Any process that stops or reduces the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GO:jl]
is_a: GO:0065009 ! regulation of molecular function
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0003674 ! molecular_function
relationship: negatively_regulates GO:0003674 ! molecular_function
created_by: jane
creation_date: 2009-04-21T04:07:27Z
[Term]
id: GO:0044093
name: positive regulation of molecular function
namespace: biological_process
def: "Any process that activates or increases the rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding." [GO:jl]
is_a: GO:0065009 ! regulation of molecular function
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0003674 ! molecular_function
relationship: positively_regulates GO:0003674 ! molecular_function
created_by: jane
creation_date: 2009-04-21T04:11:06Z
[Term]
id: GO:0044237
name: cellular metabolic process
namespace: biological_process
def: "The chemical reactions and pathways by which individual cells transform chemical substances." [GOC:go_curators]
synonym: "cellular metabolism" EXACT []
synonym: "intermediary metabolism" RELATED [GOC:mah]
is_a: GO:0008152 ! metabolic process
is_a: GO:0009987 ! cellular process
[Term]
id: GO:0045936
name: negative regulation of phosphate metabolic process
namespace: biological_process
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators]
synonym: "down regulation of phosphate metabolic process" EXACT []
synonym: "down-regulation of phosphate metabolic process" EXACT []
synonym: "downregulation of phosphate metabolic process" EXACT []
synonym: "inhibition of phosphate metabolic process" NARROW []
synonym: "negative regulation of phosphate metabolism" EXACT []
is_a: GO:0010563 ! negative regulation of phosphorus metabolic process
is_a: GO:0019220 ! regulation of phosphate metabolic process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0006796 ! phosphate-containing compound metabolic process
relationship: negatively_regulates GO:0006796 ! phosphate-containing compound metabolic process
[Term]
id: GO:0045937
name: positive regulation of phosphate metabolic process
namespace: biological_process
def: "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving phosphates." [GOC:go_curators]
synonym: "activation of phosphate metabolic process" NARROW []
synonym: "positive regulation of phosphate metabolism" EXACT []
synonym: "stimulation of phosphate metabolic process" NARROW []
synonym: "up regulation of phosphate metabolic process" EXACT []
synonym: "up-regulation of phosphate metabolic process" EXACT []
synonym: "upregulation of phosphate metabolic process" EXACT []
is_a: GO:0010562 ! positive regulation of phosphorus metabolic process
is_a: GO:0019220 ! regulation of phosphate metabolic process
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0006796 ! phosphate-containing compound metabolic process
relationship: positively_regulates GO:0006796 ! phosphate-containing compound metabolic process
[Term]
id: GO:0048018
name: receptor ligand activity
namespace: molecular_function
alt_id: GO:0071884
def: "The activity of a gene product that interacts with a receptor to effect a change in the activity of the receptor. Ligands may be produced by the same, or different, cell that expresses the receptor. Ligands may diffuse extracellularly from their point of origin to the receiving cell, or remain attached to an adjacent cell surface (e.g. Notch ligands)." [GOC:kv, GOC:molecular_function_refactoring, GOC:pdt]
comment: Definition discussed in https://github.com/geneontology/go-ontology/issues/14220
subset: goslim_chembl
subset: goslim_drosophila
synonym: "receptor agonist activity" BROAD [GOC:molecular_function_refactoring]
synonym: "signaling molecule" EXACT []
synonym: "signaling receptor ligand activity" EXACT []
synonym: "vitamin D receptor activator activity" NARROW []
is_a: GO:0005102 ! signaling receptor binding
is_a: GO:0030546 ! signaling receptor activator activity
relationship: part_of GO:0007165 ! signal transduction
created_by: midori
creation_date: 2010-09-13T04:51:59Z
[Term]
id: GO:0048518
name: positive regulation of biological process
namespace: biological_process
alt_id: GO:0043119
def: "Any process that activates or increases the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:jid]
subset: gocheck_do_not_annotate
synonym: "activation of biological process" NARROW []
synonym: "positive regulation of physiological process" EXACT []
synonym: "stimulation of biological process" NARROW []
synonym: "up regulation of biological process" EXACT []
synonym: "up-regulation of biological process" EXACT []
synonym: "upregulation of biological process" EXACT []
is_a: GO:0050789 ! regulation of biological process
intersection_of: GO:0008150 ! biological_process
intersection_of: positively_regulates GO:0008150 ! biological_process
relationship: positively_regulates GO:0008150 ! biological_process
[Term]
id: GO:0048519
name: negative regulation of biological process
namespace: biological_process
alt_id: GO:0043118
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:jid]
subset: gocheck_do_not_annotate
synonym: "down regulation of biological process" EXACT []
synonym: "down-regulation of biological process" EXACT []
synonym: "downregulation of biological process" EXACT []
synonym: "inhibition of biological process" NARROW []
synonym: "negative regulation of physiological process" EXACT []
is_a: GO:0050789 ! regulation of biological process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0008150 ! biological_process
relationship: negatively_regulates GO:0008150 ! biological_process
[Term]
id: GO:0048522
name: positive regulation of cellular process
namespace: biological_process
alt_id: GO:0051242
def: "Any process that activates or increases the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:jid]
synonym: "activation of cellular process" NARROW []
synonym: "positive regulation of cellular physiological process" EXACT []
synonym: "stimulation of cellular process" NARROW []
synonym: "up regulation of cellular process" EXACT []
synonym: "up-regulation of cellular process" EXACT []
synonym: "upregulation of cellular process" EXACT []
is_a: GO:0048518 ! positive regulation of biological process
is_a: GO:0050794 ! regulation of cellular process
intersection_of: GO:0065007 ! biological regulation
intersection_of: positively_regulates GO:0009987 ! cellular process
relationship: positively_regulates GO:0009987 ! cellular process
[Term]
id: GO:0048523
name: negative regulation of cellular process
namespace: biological_process
alt_id: GO:0051243
def: "Any process that stops, prevents, or reduces the frequency, rate or extent of a cellular process, any of those that are carried out at the cellular level, but are not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:jid]
synonym: "down regulation of cellular process" EXACT []
synonym: "down-regulation of cellular process" EXACT []
synonym: "downregulation of cellular process" EXACT []
synonym: "inhibition of cellular process" NARROW []
synonym: "negative regulation of cellular physiological process" EXACT []
is_a: GO:0048519 ! negative regulation of biological process
is_a: GO:0050794 ! regulation of cellular process
intersection_of: GO:0008150 ! biological_process
intersection_of: negatively_regulates GO:0009987 ! cellular process
relationship: negatively_regulates GO:0009987 ! cellular process
[Term]
id: GO:0048583