format-version: 1.2
data-version: go/2024-12-18/subsets/goslim_euk_cellular_processes_ribbon.owl
subsetdef: chebi_ph7_3 "Rhea list of ChEBI terms representing the major species at pH 7.3."
subsetdef: gocheck_do_not_annotate "Term not to be used for direct annotation"
subsetdef: gocheck_obsoletion_candidate "Terms planned for obsoletion"
subsetdef: goslim_agr "AGR slim"
subsetdef: goslim_aspergillus "Aspergillus GO slim"
subsetdef: goslim_candida "Candida GO slim"
subsetdef: goslim_chembl "ChEMBL protein targets summary"
subsetdef: goslim_drosophila "Drosophila GO slim"
subsetdef: goslim_euk_cellular_processes_ribbon "GO ribbon for eukaroytic cellular processes"
subsetdef: goslim_flybase_ribbon "Insecta GO ribbon slim"
subsetdef: goslim_generic "Generic GO slim"
subsetdef: goslim_metagenomics "Metagenomics GO slim"
subsetdef: goslim_mouse "Mouse GO slim"
subsetdef: goslim_pir "PIR GO slim"
subsetdef: goslim_plant "Plant GO slim"
subsetdef: goslim_plant_ribbon "Plant GO ribbon"
subsetdef: goslim_pombe "Fission yeast GO slim"
subsetdef: goslim_prokaryote "GO subset for prokaryotes"
subsetdef: goslim_prokaryote_ribbon "Prokaryote GO ribbon slim"
subsetdef: goslim_synapse "synapse GO slim"
subsetdef: goslim_virus "GO subset for viruses"
subsetdef: goslim_yeast "Yeast GO slim"
synonymtypedef: syngo_official_label "label approved by the SynGO project"
synonymtypedef: systematic_synonym "Systematic synonym" EXACT
ontology: go/subsets/goslim_euk_cellular_processes_ribbon
property_value: owl:versionInfo "2024-12-18" xsd:string

[Term]
id: GO:0003677
name: DNA binding
namespace: molecular_function
alt_id: GO:0043566
def: "Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid)." [GOC:dph, GOC:jl, GOC:tb, GOC:vw]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "microtubule/chromatin interaction" RELATED []
synonym: "plasmid binding" NARROW []
synonym: "structure specific DNA binding" RELATED []
synonym: "structure-specific DNA binding" RELATED []

[Term]
id: GO:0003723
name: RNA binding
namespace: molecular_function
alt_id: GO:0000498
alt_id: GO:0044822
def: "Binding to an RNA molecule or a portion thereof." [GOC:jl, GOC:mah]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "base pairing with RNA" NARROW []
synonym: "poly(A) RNA binding" RELATED []
synonym: "poly(A)-RNA binding" RELATED []
synonym: "poly-A RNA binding" RELATED []
xref: Reactome:R-HSA-203922 "Exportin-5 recognizes 3' overhang of pre-miRNA"

[Term]
id: GO:0003774
name: cytoskeletal motor activity
namespace: molecular_function
def: "Generation of force resulting in movement, for example along a microfilament or microtubule, or in torque resulting in membrane scission or rotation of a flagellum. The energy required is obtained either from the hydrolysis of a nucleoside triphosphate or by an electrochemical proton gradient (proton-motive force)." [GOC:mah, GOC:vw, PMID:11242086, PMID:29716949]
subset: goslim_candida
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "motor activity" BROAD []
xref: Reactome:R-HSA-1861595 "Extension of pseudopodia by myosin-X in a PI3K dependent manner"
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19590" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21756" xsd:anyURI

[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_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote_ribbon
synonym: "enzyme activity" EXACT [GOC:dph, GOC:tb]
xref: Wikipedia:Enzyme

[Term]
id: GO:0005198
name: structural molecule activity
namespace: molecular_function
def: "The action of a molecule that contributes to the structural integrity of a complex." [GOC:mah, GOC:vw]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24130" xsd:anyURI

[Term]
id: GO:0005215
name: transporter activity
namespace: molecular_function
alt_id: GO:0005478
def: "Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, accross or in between cells." [GOC:ai, GOC:dgf]
comment: Some transporters, such as certain members of the SLC family, are referred to as 'carriers'; however GO uses carrier with a different meaning: a carrier binds to and transports the substance (see GO:0140104 molecular carrier activity), whereas a transporter forms some pore that allows the passing of molecules.
subset: gocheck_do_not_annotate
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "carrier" RELATED []
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27621" xsd:anyURI

[Term]
id: GO:0005515
name: protein binding
namespace: molecular_function
alt_id: GO:0001948
alt_id: GO:0045308
def: "Binding to a protein." [GOC:go_curators]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote_ribbon
synonym: "glycoprotein binding" NARROW []
synonym: "protein amino acid binding" EXACT []
xref: Reactome:R-HSA-9866132 "Intermediate II binds CYC1, UQCRC1, UQCRC2, UQCRH"

[Term]
id: GO:0005576
name: extracellular region
namespace: cellular_component
def: "The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite." [GOC:go_curators]
comment: Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'.
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "extracellular" EXACT []
xref: Wikipedia:Extracellular

[Term]
id: GO:0005618
name: cell wall
namespace: cellular_component
def: "The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins." [GOC:giardia, ISBN:0198547684, PMID:15134259, Wikipedia:Microbial_cyst]
comment: Not to be used for manual annotation. Please choose a more specific term: for bacteria, annotate to GO:0009274; peptidoglycan-based cell wall, for plants: annotate to GO:0009505 ; plant-type cell wall, for fungi: GO:0009277 ; fungal-type cell wall, and for archae, use GO:0030115 S-layer (see PMID:31214995).
subset: gocheck_do_not_annotate
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
xref: Wikipedia:Cell_wall
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21669" xsd:anyURI

[Term]
id: GO:0005634
name: nucleus
namespace: cellular_component
def: "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent." [GOC:go_curators]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "cell nucleus" EXACT []
synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757]
xref: NIF_Subcellular:sao1702920020
xref: Wikipedia:Cell_nucleus

[Term]
id: GO:0005739
name: mitochondrion
namespace: cellular_component
def: "A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." [GOC:giardia, ISBN:0198506732]
comment: Some anaerobic or microaerophilic organisms (e.g. Entamoeba histolytica, Giardia intestinalis and several Microsporidia species) do not have mitochondria, and contain mitochondrion-related organelles (MROs) instead, called mitosomes or hydrogenosomes, very likely derived from mitochondria. To annotate gene products located in these mitochondrial relics in species such as Entamoeba histolytica, Giardia intestinalis or others, please use GO:0032047 'mitosome' or GO:0042566 'hydrogenosome'. (See PMID:24316280 for a list of species currently known to contain mitochondrion-related organelles.)
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "mitochondria" EXACT []
xref: NIF_Subcellular:sao1860313010
xref: Wikipedia:Mitochondrion

[Term]
id: GO:0005768
name: endosome
namespace: cellular_component
def: "A vacuole to which materials ingested by endocytosis are delivered." [ISBN:0198506732, PMID:19696797]
subset: goslim_agr
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
xref: NIF_Subcellular:sao1720343330
xref: Wikipedia:Endosome

[Term]
id: GO:0005773
name: vacuole
namespace: cellular_component
def: "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol." [GOC:mtg_sensu, ISBN:0198506732]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "vacuolar carboxypeptidase Y" RELATED []
xref: Wikipedia:Vacuole

[Term]
id: GO:0005777
name: peroxisome
namespace: cellular_component
alt_id: GO:0019818
def: "A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism." [GOC:pm, PMID:9302272, UniProtKB-KW:KW-0576]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "peroxisomal" RELATED []
synonym: "peroxisome vesicle" BROAD []
xref: NIF_Subcellular:sao499555322
xref: Wikipedia:Peroxisome

[Term]
id: GO:0005783
name: endoplasmic reticulum
namespace: cellular_component
def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [ISBN:0198506732]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "ER" EXACT []
xref: NIF_Subcellular:sao1036339110
xref: Wikipedia:Endoplasmic_reticulum

[Term]
id: GO:0005794
name: Golgi apparatus
namespace: cellular_component
def: "A membrane-bound cytoplasmic organelle of the endomembrane system that further processes the core oligosaccharides (e.g. N-glycans) added to proteins in the endoplasmic reticulum and packages them into membrane-bound vesicles. The Golgi apparatus operates at the intersection of the secretory, lysosomal, and endocytic pathways." [ISBN:0198506732]
comment: Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon.
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "Golgi" BROAD []
synonym: "Golgi complex" EXACT []
synonym: "Golgi ribbon" NARROW []
xref: NIF_Subcellular:sao451912436
xref: Wikipedia:Golgi_apparatus

[Term]
id: GO:0005815
name: microtubule organizing center
namespace: cellular_component
def: "An intracellular structure that can catalyze gamma-tubulin-dependent microtubule nucleation and that can anchor microtubules by interacting with their minus ends, plus ends or sides." [GOC:vw, ISBN:0815316194, PMID:17072892, PMID:17245416, Wikipedia:Microtubule_organizing_center]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_yeast
synonym: "microtubule organising centre" EXACT []
synonym: "MTOC" EXACT []
xref: Wikipedia:Microtubule_organizing_center
relationship: part_of GO:0005856 ! cytoskeleton

[Term]
id: GO:0005829
name: cytosol
namespace: cellular_component
def: "The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes." [GOC:hjd, GOC:jl]
subset: goslim_agr
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_plant
xref: NIF_Subcellular:sao101633890
xref: Wikipedia:Cytosol

[Term]
id: GO:0005840
name: ribosome
namespace: cellular_component
alt_id: GO:0033279
def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046]
synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653]
synonym: "ribosomal RNA" RELATED []
xref: NIF_Subcellular:sao1429207766
xref: Wikipedia:Ribosome

[Term]
id: GO:0005856
name: cytoskeleton
namespace: cellular_component
def: "A cellular structure that forms the internal framework of eukaryotic and prokaryotic cells. The cytoskeleton includes intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles." [GOC:mah, PMID:16959967, PMID:27419875]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_yeast
xref: Wikipedia:Cytoskeleton

[Term]
id: GO:0005886
name: plasma membrane
namespace: cellular_component
alt_id: GO:0005887
alt_id: GO:0005904
def: "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." [ISBN:0716731363]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "bacterial inner membrane" NARROW []
synonym: "cell membrane" EXACT []
synonym: "cellular membrane" EXACT [NIF_Subcellular:sao6433132645]
synonym: "cytoplasmic membrane" EXACT []
synonym: "inner endospore membrane" NARROW []
synonym: "integral component of plasma membrane" NARROW []
synonym: "integral to plasma membrane" NARROW []
synonym: "juxtamembrane" BROAD []
synonym: "plasma membrane lipid bilayer" NARROW [GOC:mah]
synonym: "plasmalemma" EXACT []
xref: NIF_Subcellular:sao1663586795
xref: Wikipedia:Cell_membrane

[Term]
id: GO:0006091
name: generation of precursor metabolites and energy
namespace: biological_process
def: "The chemical reactions and pathways resulting in the formation of precursor metabolites, substances from which energy is derived, and any process involved in the liberation of energy from these substances." [GOC:jl]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "energy pathways" BROAD []
synonym: "intermediary metabolism" RELATED [GOC:mah]
synonym: "metabolic energy generation" RELATED []
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0006260
name: DNA replication
namespace: biological_process
alt_id: GO:0055133
def: "The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA." [GOC:mah]
comment: DNA biosynthesis is only part of this process. See also the biological process terms 'DNA-dependent DNA replication ; GO:0006261' and 'RNA-dependent DNA replication ; GO:0006278'.
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_yeast
xref: Reactome:R-HSA-176187 "Activation of ATR in response to replication stress"
xref: Reactome:R-HSA-69239 "Synthesis of DNA"
xref: Wikipedia:DNA_replication
is_a: GO:0044238 ! primary metabolic process
relationship: has_part GO:0044238 ! primary metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/10596" xsd:anyURI

[Term]
id: GO:0006281
name: DNA repair
namespace: biological_process
def: "The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway." [PMID:11563486]
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_yeast
xref: Reactome:R-HSA-73894 "DNA Repair"
xref: Wikipedia:DNA_repair
is_a: GO:0044238 ! primary metabolic process

[Term]
id: GO:0006310
name: DNA recombination
namespace: biological_process
def: "Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Interchromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction." [ISBN:0198506732]
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_yeast
is_a: GO:0044238 ! primary metabolic process

[Term]
id: GO:0006351
name: DNA-templated transcription
namespace: biological_process
alt_id: GO:0001121
alt_id: GO:0006350
alt_id: GO:0061018
alt_id: GO:0061022
def: "The synthesis of an RNA transcript from a DNA template." [GOC:jl, GOC:txnOH]
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "bacterial transcription" NARROW []
synonym: "cellular transcription" BROAD []
synonym: "DNA-dependent transcription" EXACT []
synonym: "transcription" BROAD []
synonym: "transcription from bacterial-type RNA polymerase promoter" NARROW []
synonym: "transcription, DNA-dependent" EXACT [GOC:txnOH]
synonym: "transcription, DNA-templated" EXACT []
xref: Reactome:R-HSA-2173793 "Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer"
xref: Reactome:R-HSA-74160 "Gene expression (Transcription)"
xref: Wikipedia:Transcription_(genetics)
is_a: GO:0016070 ! RNA metabolic process
relationship: part_of GO:0008152 ! metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14854" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16737" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22258" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22555" xsd:anyURI

[Term]
id: GO:0006412
name: translation
namespace: biological_process
alt_id: GO:0006416
alt_id: GO:0006453
alt_id: GO:0043037
def: "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome." [GOC:go_curators]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "protein anabolism" EXACT []
synonym: "protein biosynthesis" EXACT []
synonym: "protein biosynthetic process" EXACT []
synonym: "protein formation" EXACT []
synonym: "protein synthesis" EXACT []
synonym: "protein translation" EXACT []
xref: Reactome:R-HSA-72766 "Translation"
xref: Wikipedia:Translation_(genetics)
is_a: GO:0044238 ! primary metabolic process
relationship: part_of GO:0008152 ! metabolic process

[Term]
id: GO:0006457
name: protein folding
namespace: biological_process
alt_id: GO:0007022
alt_id: GO:0007024
alt_id: GO:0007025
def: "The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure." [GOC:go_curators, GOC:rb]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "alpha-tubulin folding" NARROW [GOC:mah]
synonym: "beta-tubulin folding" NARROW [GOC:mah]
synonym: "chaperone activity" RELATED []
synonym: "chaperonin ATPase activity" RELATED []
synonym: "chaperonin-mediated tubulin folding" NARROW [GOC:mah]
synonym: "co-chaperone activity" RELATED []
synonym: "co-chaperonin activity" RELATED []
synonym: "glycoprotein-specific chaperone activity" RELATED []
synonym: "non-chaperonin molecular chaperone ATPase activity" RELATED []
synonym: "protein complex assembly, multichaperone pathway" RELATED []
xref: Reactome:R-HSA-389960 "Formation of tubulin folding intermediates by CCT/TriC"
xref: Reactome:R-HSA-390466 "Chaperonin-mediated protein folding"
xref: Reactome:R-HSA-532668 "N-glycan trimming in the ER and Calnexin/Calreticulin cycle"
xref: Wikipedia:Protein_folding
relationship: part_of GO:0044238 ! primary metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25673" xsd:anyURI

[Term]
id: GO:0006629
name: lipid metabolic process
namespace: biological_process
def: "The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids." [GOC:ma]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "lipid metabolism" EXACT []
xref: Reactome:R-HSA-556833 "Metabolism of lipids"
xref: Wikipedia:Lipid_metabolism
is_a: GO:0044238 ! primary metabolic process

[Term]
id: GO:0006914
name: autophagy
namespace: biological_process
alt_id: GO:0016238
def: "The cellular catabolic process in which cells digest cellular materials, such as organelles and other macromolecular constituents, or non-self materials such as intracellular pathogens. Autophagy serves to provide essential nutrients under conditions of cellular stress; or can remodel intracellular structures during cell differentiation." [GOC:autophagy, ISBN:0198547684, PMID:11099404, PMID:29455577, PMID:9412464]
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_pombe
xref: Reactome:R-HSA-9612973 "Autophagy"
xref: Wikipedia:Autophagy_(cellular)
is_a: GO:0008152 ! metabolic process
relationship: has_part GO:0055085 ! transmembrane transport
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25541" xsd:anyURI

[Term]
id: GO:0007155
name: cell adhesion
namespace: biological_process
alt_id: GO:0098602
def: "The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules." [GOC:hb, GOC:pf]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_pombe
subset: goslim_prokaryote
synonym: "cell adhesion molecule activity" RELATED []
synonym: "single organism cell adhesion" RELATED []
xref: Wikipedia:Cell_adhesion
created_by: dos
creation_date: 2014-04-15T15:59:10Z

[Term]
id: GO:0008152
name: metabolic process
namespace: biological_process
alt_id: GO:0044236
alt_id: GO:0044710
def: "A cellular process consisting of the biochemical pathways by which a living organism transforms chemical substances. This includes including anabolism (biosynthetic process) and catabolism (catabolic process). Metabolic processes includes the transformation of small molecules, as well  macromolecular processes such as DNA repair and replication, 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_annotate
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_prokaryote_ribbon
synonym: "metabolism" EXACT []
xref: Reactome:R-HSA-1430728 "Metabolism"
xref: Wikipedia:Metabolism
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28932" xsd:anyURI
created_by: jl
creation_date: 2012-10-17T15:46:40Z

[Term]
id: GO:0008289
name: lipid binding
namespace: molecular_function
def: "Binding to a lipid." [GOC:ai]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast

[Term]
id: GO:0010468
name: regulation of gene expression
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product (protein or RNA)." [GOC:txnOH-2018]
comment: This class covers any process that regulates the rate of production of a mature gene product, and so includes processes that regulate that rate by regulating the level, stability or availability of intermediates in the process of gene expression. For example, it covers any process that regulates the level, stability or availability of mRNA or circRNA for translation and thereby regulates the rate of production of the encoded protein via translation.
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_plant_ribbon
synonym: "gene regulation" RELATED [GOC:cjm]
synonym: "regulation of gene product expression" RELATED []
synonym: "regulation of protein expression" NARROW []
xref: Reactome:R-HSA-163767 "PP2A-mediated dephosphorylation of key metabolic factors"
xref: Reactome:R-HSA-9752946 "Expression and translocation of olfactory receptors"
xref: Wikipedia:Regulation_of_gene_expression
relationship: regulates GO:0008152 ! metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22557" xsd:anyURI

[Term]
id: GO:0012501
name: programmed cell death
namespace: biological_process
alt_id: GO:0016244
def: "A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell." [GOC:lr, GOC:mtg_apoptosis]
comment: Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children.
subset: goslim_agr
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
synonym: "caspase-independent apoptosis" RELATED []
synonym: "caspase-independent cell death" NARROW []
synonym: "non-apoptotic programmed cell death" NARROW []
synonym: "nonapoptotic programmed cell death" NARROW []
synonym: "PCD" RELATED []
synonym: "RCD" RELATED []
synonym: "regulated cell death" BROAD []
xref: Reactome:R-HSA-5357801 "Programmed Cell Death"
xref: Wikipedia:Programmed_cell_death
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24835" xsd:anyURI

[Term]
id: GO:0016070
name: RNA metabolic process
namespace: biological_process
def: "The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [ISBN:0198506732]
subset: goslim_agr
subset: goslim_candida
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_prokaryote
synonym: "RNA metabolism" EXACT []
xref: Reactome:R-HSA-8953854 "Metabolism of RNA"
is_a: GO:0044238 ! primary metabolic process

[Term]
id: GO:0016192
name: vesicle-mediated transport
namespace: biological_process
alt_id: GO:0006899
def: "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane." [GOC:ai, GOC:mah, ISBN:08789310662000]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_pombe
synonym: "nonselective vesicle transport" NARROW []
synonym: "protein sorting along secretory pathway" RELATED []
synonym: "vesicle trafficking" RELATED []
synonym: "vesicle transport" EXACT []
synonym: "vesicular transport" EXACT [GOC:mah]
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25421" xsd:anyURI

[Term]
id: GO:0016209
name: antioxidant activity
namespace: molecular_function
def: "Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage." [ISBN:0198506732]
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
relationship: part_of GO:0098754 ! detoxification

[Term]
id: GO:0019725
name: cellular homeostasis
namespace: biological_process
def: "Any process involved in the maintenance of an internal steady state at the level of the cell." [GOC:isa_complete, GOC:jl, ISBN:0395825172]
subset: goslim_candida
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_plant

[Term]
id: GO:0019748
name: secondary metabolic process
namespace: biological_process
def: "The chemical reactions and pathways resulting in many of the chemical changes of compounds that are not necessarily required for growth and maintenance of cells, and are often unique to a taxon. In multicellular organisms secondary metabolism is generally carried out in specific cell types, and may be useful for the organism as a whole. In unicellular organisms, secondary metabolism is often used for the production of antibiotics or for the utilization and acquisition of unusual nutrients." [GOC:go_curators]
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_pombe
synonym: "secondary metabolism" EXACT []
synonym: "secondary metabolite metabolic process" EXACT []
synonym: "secondary metabolite metabolism" EXACT []
xref: Wikipedia:Secondary_metabolism
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0022402
name: cell cycle process
namespace: biological_process
def: "The cellular process that ensures successive accurate and complete genome replication and chromosome segregation." [GOC:isa_complete, GOC:mtg_cell_cycle]
subset: gocheck_do_not_annotate
subset: goslim_euk_cellular_processes_ribbon

[Term]
id: GO:0022607
name: cellular component assembly
namespace: biological_process
alt_id: GO:0071844
def: "The aggregation, arrangement and bonding together of a cellular component." [GOC:isa_complete]
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_pir
synonym: "cell structure assembly" EXACT []
synonym: "cellular component assembly at cellular level" EXACT []

[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_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_mouse
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
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 []
created_by: jl
creation_date: 2010-02-16T09:30:50Z

[Term]
id: GO:0031012
name: extracellular matrix
namespace: cellular_component
alt_id: GO:0005578
def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324]
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_prokaryote
synonym: "matrisome" NARROW []
synonym: "proteinaceous extracellular matrix" EXACT []
xref: NIF_Subcellular:nlx_subcell_20090513
xref: Wikipedia:Extracellular_matrix

[Term]
id: GO:0032991
name: protein-containing complex
namespace: cellular_component
alt_id: GO:0043234
def: "A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together." [GOC:dos, GOC:mah]
comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole.
subset: goslim_agr
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_mouse
subset: goslim_pir
synonym: "macromolecular complex" EXACT []
synonym: "macromolecule complex" EXACT []
synonym: "protein complex" NARROW []
synonym: "protein containing complex" EXACT []
synonym: "protein-protein complex" NARROW []

[Term]
id: GO:0036094
name: small molecule binding
namespace: molecular_function
def: "Binding to a small molecule, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:pm]
comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides.
subset: goslim_agr
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_plant_ribbon
subset: goslim_prokaryote_ribbon
created_by: bf
creation_date: 2012-01-17T04:20:34Z

[Term]
id: GO:0042995
name: cell projection
namespace: cellular_component
def: "A prolongation or process extending from a cell, e.g. a flagellum or axon." [GOC:jl, PMID:16318917]
subset: goslim_agr
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_mouse
subset: goslim_pir
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "cell process" BROAD []
synonym: "cellular process" BROAD []
synonym: "cellular projection" EXACT []

[Term]
id: GO:0044238
name: primary metabolic process
namespace: biological_process
def: "The chemical reactions and pathways involving those compounds which are formed as a part of the normal anabolic and catabolic processes. These processes take place in most, if not all, cells of the organism." [GOC:go_curators]
subset: gocheck_do_not_annotate
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_pir
subset: goslim_plant_ribbon
subset: goslim_prokaryote_ribbon
synonym: "primary metabolism" EXACT []
xref: Wikipedia:Primary_metabolite
is_a: GO:0008152 ! metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI

[Term]
id: GO:0045182
name: translation regulator activity
namespace: molecular_function
def: "Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome." [GOC:ai]
subset: goslim_candida
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "translation factor activity" EXACT []
relationship: part_of GO:0010468 ! regulation of gene expression

[Term]
id: GO:0045202
name: synapse
namespace: cellular_component
def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110]
subset: goslim_agr
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_mouse
subset: goslim_pir
subset: goslim_synapse
synonym: "electrotonic synapse" RELATED [NIF_Subcellular:sao1311109124]
synonym: "mixed synapse" NARROW [NIF_Subcellular:sao1506103497]
synonym: "synaptic junction" EXACT []
xref: NIF_Subcellular:sao914572699
xref: Wikipedia:Chemical_synapse

[Term]
id: GO:0048870
name: cell motility
namespace: biological_process
def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg]
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_prokaryote
synonym: "cell locomotion" EXACT []
synonym: "cell movement" RELATED []
synonym: "movement of a cell" EXACT []
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI

[Term]
id: GO:0055085
name: transmembrane transport
namespace: biological_process
alt_id: GO:0090662
def: "The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other." [GOC:dph, GOC:jid]
comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes.
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pombe
subset: goslim_yeast
synonym: "ATP hydrolysis coupled transmembrane transport" NARROW []
synonym: "membrane transport" EXACT []
xref: Reactome:R-HSA-382556 "ABC-family proteins mediated transport"
xref: Reactome:R-HSA-425407 "SLC-mediated transmembrane transport"
xref: Reactome:R-HSA-5223345 "Miscellaneous transport and binding events"
created_by: tb
creation_date: 2015-10-21T13:22:47Z

[Term]
id: GO:0060090
name: molecular adaptor activity
namespace: molecular_function
alt_id: GO:0032947
def: "The binding activity of a molecule that brings together two or more molecules through a selective, non-covalent, often stoichiometric interaction, permitting those molecules to function in a coordinated way." [GOC:mtg_MIT_16mar07, GOC:vw]
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pir
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "binding, bridging" EXACT []
synonym: "protein complex scaffold activity" BROAD []
synonym: "protein-containing complex scaffold activity" BROAD []

[Term]
id: GO:0071554
name: cell wall organization or biogenesis
namespace: biological_process
alt_id: GO:0070882
def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cell wall." [GOC:mah]
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "cell wall organisation or biogenesis" EXACT [GOC:mah]
synonym: "cell wall organization or biogenesis at cellular level" EXACT [GOC:mah]
synonym: "cellular cell wall organisation or biogenesis" EXACT [GOC:mah]
synonym: "cellular cell wall organization or biogenesis" EXACT []
created_by: mah
creation_date: 2010-01-13T03:19:38Z

[Term]
id: GO:0098754
name: detoxification
namespace: biological_process
def: "Any process that reduces or removes the toxicity of a toxic substance. These may include transport of the toxic substance away from sensitive areas and to compartments or complexes whose purpose is sequestration of the toxic substance." [GOC:dos]
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon

[Term]
id: GO:0098772
name: molecular function regulator activity
namespace: molecular_function
def: "A molecular function regulator regulates the activity of its target via non-covalent binding that does not result in covalent modification to the target. Examples of molecular function regulators include regulatory subunits of multimeric enzymes and channels. Mechanisms of regulation include allosteric changes in the target and competitive inhibition." [GOC:dos, GOC:pt]
subset: gocheck_do_not_annotate
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "molecular function regulator" EXACT []
relationship: has_part GO:0005515 ! protein binding
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20854" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20862" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25165" xsd:anyURI

[Term]
id: GO:0140104
name: molecular carrier activity
namespace: molecular_function
def: "Directly binding to a specific ion or molecule and delivering it either to an acceptor molecule or to a specific location." [GOC:molecular_function_refactoring, GOC:pdt]
comment: Note that a carrier moves with its substrate/cargo, while a transporter does not move with the cargo, but facilitates the change in localization.
subset: gocheck_do_not_annotate
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
xref: Reactome:R-HSA-1449687 "Corticosteroids bind to CBG in blood"
xref: Reactome:R-HSA-3149494 "MMACHC:cob(II)alamin binds MMADHC"
xref: Reactome:R-HSA-3149563 "MMADHC targets transport of cytosolic cob(II)alamin to mitochondria"
xref: Reactome:R-HSA-3159259 "MMAA:MUT binds AdoCbl"
xref: Reactome:R-HSA-3204318 "cob(II)alamin is transferred from MMACHC:MMADHC:cob(II)alamin to MTRR:MTR"
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14221" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20848" xsd:anyURI
created_by: pg
creation_date: 2017-09-19T13:10:18Z

[Term]
id: GO:0140110
name: transcription regulator activity
namespace: molecular_function
def: "A molecular function that controls the rate, timing and/or magnitude of gene transcription. The function of transcriptional regulators is to modulate gene expression at the transcription step so that they are expressed in the right cell at the right time and in the right amount throughout the life of the cell and the organism. Genes are transcriptional units, and include bacterial operons." [GOC:pg, GOC:txnOH-2018, Wikipedia:Transcription_factor]
subset: gocheck_do_not_annotate
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/13588" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23609" xsd:anyURI
created_by: pg
creation_date: 2017-10-18T07:05:44Z

[Term]
id: GO:0140223
name: general transcription initiation factor activity
namespace: molecular_function
def: "A molecular function required for core promoter activity that mediates the assembly of the RNA polymerase holoenzyme at promoter DNA to form the pre-initiation complex (PIC). General transcription factors (GTFs) bind to and open promoter DNA, initiate RNA synthesis and stimulate the escape of the polymerase from the promoter. Not all subunits of the general transcription factor are necessarily present at all promoters to initiate transcription. GTFs act at each promoter, although the exact subunit composition at individual promoters may vary." [GOC:txnOH-2018]
comment: Usage guidance: The distinction between general transcription factors and DNA-binding transcription factors is that the latter modulate the selection of which genes are expressed under specific conditions, while general transcription factors are the constitutive machinery required for transcription initiation.
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_plant_ribbon
subset: goslim_prokaryote_ribbon
synonym: "basal transcription factor activity" EXACT []
synonym: "general transcription factor activity" EXACT []
synonym: "GTF activity" EXACT []
relationship: part_of GO:0006351 ! DNA-templated transcription
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI
created_by: pg
creation_date: 2018-05-24T07:51:23Z

[Term]
id: GO:0140299
name: molecular sensor activity
namespace: molecular_function
def: "Binding to a molecule and eliciting a change in the protein's activity in response to the intracellular level of that molecule." [PMID:26328879]
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "small molecular sensor activity" EXACT []
synonym: "small molecule sensing activity" EXACT []
synonym: "small molecule sensor activity" NARROW []
is_a: GO:0098772 ! molecular function regulator activity
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28772" xsd:anyURI
created_by: pg
creation_date: 2018-12-10T14:30:28Z

[Term]
id: GO:0140313
name: molecular sequestering activity
namespace: molecular_function
def: "Binding to a specific molecule to prevent it from interacting with other partners or to inhibit its localization to the area of the cell or complex where it is active." [PMID:13130076]
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
xref: Reactome:R-HSA-203553 "eNOS binds NOSIP"
xref: Reactome:R-HSA-203680 "eNOS:NOSIP translocation from caveolae to intracellular compartments"
xref: Reactome:R-HSA-3245898 "TCN1 binds correnoids in the circulation"
created_by: pg
creation_date: 2019-03-28T10:00:25Z

[Typedef]
id: ends_during
name: ends during
namespace: external
xref: RO:0002093

[Typedef]
id: happens_during
name: happens during
namespace: external
xref: RO:0002092
is_transitive: true
is_a: ends_during ! ends during

[Typedef]
id: has_ontology_root_term
name: has ontology root term
namespace: external
xref: IAO:0000700
is_metadata_tag: true
is_class_level: true

[Typedef]
id: has_part
name: has part
namespace: external
xref: BFO:0000051
is_transitive: true

[Typedef]
id: negatively_regulates
name: negatively regulates
namespace: external
xref: RO:0002212
is_a: regulates ! regulates

[Typedef]
id: occurs_in
name: occurs in
namespace: external
xref: BFO:0000066
transitive_over: part_of ! part of

[Typedef]
id: part_of
name: part of
namespace: external
xref: BFO:0000050
is_transitive: true
inverse_of: has_part ! has part

[Typedef]
id: positively_regulates
name: positively regulates
namespace: external
xref: RO:0002213
holds_over_chain: negatively_regulates negatively_regulates
is_a: regulates ! regulates

[Typedef]
id: regulates
name: regulates
namespace: external
xref: RO:0002211
is_transitive: true

[Typedef]
id: starts_during
name: starts during
namespace: external
xref: RO:0002091

[Typedef]
id: term_tracker_item
name: term tracker item
namespace: external
xref: IAO:0000233
is_metadata_tag: true
is_class_level: true