format-version: 1.2 data-version: go/2024-03-21/subsets/goslim_yeast.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_yeast "Yeast GO slim" synonymtypedef: syngo_official_label "label approved by the SynGO project" synonymtypedef: systematic_synonym "Systematic synonym" EXACT ontology: go/subsets/goslim_yeast property_value: owl:versionInfo "2024-03-21" xsd:string [Term] id: GO:0000054 name: ribosomal subunit export from nucleus namespace: biological_process def: "The directed movement of a ribosomal subunit from the nucleus into the cytoplasm." [GOC:ai] subset: goslim_yeast synonym: "ribosomal subunit export from cell nucleus" EXACT [GOC:mah] synonym: "ribosomal subunit export out of nucleus" EXACT [GOC:mah] synonym: "ribosomal subunit transport from nucleus to cytoplasm" EXACT [GOC:mah] synonym: "ribosomal subunit-nucleus export" EXACT [GOC:mah] synonym: "ribosome export from nucleus" RELATED [GOC:mah, GOC:rb] is_a: GO:0051169 ! nuclear transport [Term] id: GO:0000278 name: mitotic cell cycle namespace: biological_process alt_id: GO:0007067 def: "Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent." [GOC:mah, ISBN:0815316194, Reactome:69278] comment: Note that this term should not be confused with 'GO:0140014 ; mitotic nuclear division'. 'GO:0000278 ; mitotic cell cycle represents the entire mitotic cell cycle, while 'GO:0140014 ; mitotic nuclear division' specifically represents the actual nuclear division step of the mitotic cell cycle. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_yeast synonym: "mitosis" RELATED [] xref: Wikipedia:Mitosis is_a: GO:0008150 ! biological_process relationship: has_part GO:0048285 ! organelle fission [Term] id: GO:0000747 name: conjugation with cellular fusion namespace: biological_process alt_id: GO:0007322 alt_id: GO:0007333 alt_id: GO:0030461 alt_id: GO:0030477 def: "A conjugation process that results in the union of cellular and genetic information from compatible mating types. An example of this process is found in Saccharomyces cerevisiae." [GOC:elh] subset: goslim_candida subset: goslim_pir subset: goslim_pombe subset: goslim_yeast synonym: "cell fusion" RELATED [] synonym: "mating" RELATED [] xref: Wikipedia:Conjugation is_a: GO:0008150 ! biological_process relationship: has_part GO:0061025 ! membrane fusion [Term] id: GO:0000902 name: cell morphogenesis namespace: biological_process alt_id: GO:0007148 alt_id: GO:0045790 alt_id: GO:0045791 def: "The developmental process in which the size or shape of a cell is generated and organized." [GOC:clt, GOC:dph, GOC:go_curators, GOC:tb] subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "cellular morphogenesis" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0000910 name: cytokinesis namespace: biological_process alt_id: GO:0007104 alt_id: GO:0016288 alt_id: GO:0033205 def: "The division of the cytoplasm and the plasma membrane of a cell and its partitioning into two daughter cells." [GOC:mtg_cell_cycle] comment: Note that this term should not be used for direct annotation. When annotating eukaryotic species, mitotic or meiotic cytokinesis should always be specified for manual annotation and for prokaryotic species use 'FtsZ-dependent cytokinesis ; GO:0043093' or Cdv-dependent cytokinesis ; GO:0061639. Also, note that cytokinesis does not necessarily result in physical separation and detachment of the two daughter cells from each other. subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_generic subset: goslim_prokaryote subset: goslim_yeast synonym: "cell cycle cytokinesis" EXACT [] synonym: "cytokinesis involved in cell cycle" EXACT [GOC:dph, GOC:tb] xref: Wikipedia:Cytokinesis is_a: GO:0008150 ! biological_process relationship: has_part GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0001403 name: invasive growth in response to glucose limitation namespace: biological_process def: "A growth pattern exhibited by budding haploid cells under certain growth conditions, in which cells retain the typical axial budding pattern of haploids, but become elongated and fail to separate after division; during growth on a solid substrate, this results in penetration of cells into the agar medium. An example of this process is found in Saccharomyces cerevisiae." [GOC:mcc, PMID:9728395] comment: Note that this term should not be used to describe the invasion of host tissues by pathogenic organisms, which is described by the biological process term 'entry into host ; GO:0044409', nor should it be used to describe growth of diseased cells of an organism into the surrounding normal tissue, which is outside of the scope of GO. subset: goslim_yeast synonym: "colony morphology" RELATED [] is_a: GO:0008150 ! biological_process [Term] id: GO:0002181 name: cytoplasmic translation namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a protein in the cytoplasm. This is a ribosome-mediated process in which the information in messenger RNA (mRNA) is used to specify the sequence of amino acids in the protein." [GOC:hjd] comment: Note that this term applies to translation performed by cytoplasmic ribosomes, which is distinct from translation performed by organellar ribosomes. For mitochondrial translation, consider GO:0032543 'mitochondrial translation' or its child terms. subset: goslim_generic subset: goslim_pombe subset: goslim_yeast is_a: GO:0008150 ! biological_process relationship: has_part GO:0006414 ! translational elongation created_by: hjd creation_date: 2011-06-09T03:11:53Z [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." [GOC:pdt] comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended 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_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "molecular function" EXACT [] [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 [] is_a: GO:0003674 ! molecular_function [Term] id: GO:0003682 name: chromatin binding namespace: molecular_function def: "Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase." [GOC:jl, ISBN:0198506732, PMID:20404130] subset: goslim_chembl subset: goslim_drosophila subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "lamin/chromatin binding" NARROW [] synonym: "microtubule/chromatin interaction" NARROW [] synonym: "nuclear membrane vesicle binding to chromatin" NARROW [] is_a: GO:0003674 ! molecular_function [Term] id: GO:0003700 name: DNA-binding transcription factor activity namespace: molecular_function alt_id: GO:0000130 alt_id: GO:0001071 alt_id: GO:0001130 alt_id: GO:0001131 alt_id: GO:0001151 alt_id: GO:0001199 alt_id: GO:0001204 def: "A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons." [GOC:txnOH-2018] comment: Usage guidance: Most DNA-binding transcription factors do not have enzymatic activity. The presence of specific DNA-binding domains known to be present in DNA-binding transcription factors (HOX, GATA etc) should be used to help decide whether a protein is a DNA binding transcription factor or a coregulator. If a protein has an enzymatic activity (for example, ubiquitin ligase, histone acetyl transferase) and no known DNA binding domain, consider annotating to GO:0003712 transcription coregulator activity. Special care should be taken with proteins containing zinc fingers, Myb/SANT and ARID domains, since only a subset of proteins containing these domains directly and selectively bind to regulatory DNA motifs in cis-regulatory regions. subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant subset: goslim_yeast synonym: "bacterial-type DNA binding transcription factor activity" NARROW [] synonym: "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity" NARROW [] synonym: "bacterial-type RNA polymerase transcription enhancer sequence-specific DNA binding transcription factor activity" NARROW [] synonym: "bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding" NARROW [] synonym: "bacterial-type RNA polymerase transcription factor activity, sequence-specific DNA binding" NARROW [] synonym: "DNA binding transcription factor activity" EXACT [] synonym: "gene-specific transcription factor activity" EXACT [] synonym: "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" NARROW [] synonym: "metal ion regulated sequence-specific DNA binding transcription factor activity" NARROW [] synonym: "nucleic acid binding transcription factor activity" BROAD [] synonym: "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" NARROW [] synonym: "sequence-specific DNA binding transcription factor activity" EXACT [] synonym: "transcription factor activity" BROAD [] synonym: "transcription factor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" NARROW [] synonym: "transcription factor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" NARROW [] synonym: "transcription factor activity, bacterial-type RNA polymerase transcription enhancer sequence-specific binding" NARROW [] synonym: "transcription factor activity, metal ion regulated sequence-specific DNA binding" NARROW [] is_a: GO:0003674 ! molecular_function relationship: has_part GO:0003677 ! DNA binding relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15704" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16534" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI created_by: krc creation_date: 2010-10-21T04:37:54Z [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" is_a: GO:0003674 ! molecular_function [Term] id: GO:0003729 name: mRNA binding namespace: molecular_function alt_id: GO:0000499 def: "Binding to messenger RNA (mRNA), an intermediate molecule between DNA and protein. mRNA includes UTR and coding sequences, but does not contain introns." [GOC:kmv, GOC:pr, SO:0000234] subset: goslim_chembl subset: goslim_yeast synonym: "base pairing with mRNA" NARROW [] is_a: GO:0003723 ! RNA binding [Term] id: GO:0003735 name: structural constituent of ribosome namespace: molecular_function alt_id: GO:0003736 alt_id: GO:0003737 alt_id: GO:0003738 alt_id: GO:0003739 alt_id: GO:0003740 alt_id: GO:0003741 alt_id: GO:0003742 def: "The action of a molecule that contributes to the structural integrity of the ribosome." [GOC:mah] comment: Note that this term may be used to annotate ribosomal RNAs as well as ribosomal proteins. subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_yeast synonym: "ribosomal protein" BROAD [] synonym: "ribosomal RNA" RELATED [] is_a: GO:0005198 ! structural molecule activity intersection_of: GO:0005198 ! structural molecule activity intersection_of: occurs_in GO:0005840 ! ribosome relationship: occurs_in GO:0005840 ! ribosome [Term] id: GO:0003924 name: GTPase activity namespace: molecular_function alt_id: GO:0061745 def: "Catalysis of the reaction: GTP + H2O = GDP + H+ + phosphate." [PMID:26832457, PMID:27218782] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote subset: goslim_yeast synonym: "ARF small monomeric GTPase activity" NARROW [] synonym: "dynamin GTPase activity" NARROW [] synonym: "GTPase activity, coupled" RELATED [] synonym: "heterotrimeric G-protein GTPase activity" NARROW [] synonym: "heterotrimeric G-protein GTPase, alpha-subunit" RELATED [] synonym: "heterotrimeric G-protein GTPase, beta-subunit" RELATED [] synonym: "heterotrimeric G-protein GTPase, gamma-subunit" RELATED [] synonym: "hydrolase activity, acting on acid anhydrides, acting on GTP, involved in cellular and subcellular movement" BROAD [] synonym: "protein-synthesizing GTPase activity" NARROW [] synonym: "protein-synthesizing GTPase activity, elongation" NARROW [] synonym: "protein-synthesizing GTPase activity, initiation" NARROW [] synonym: "protein-synthesizing GTPase activity, termination" NARROW [] synonym: "Rab small monomeric GTPase activity" NARROW [] synonym: "Ran small monomeric GTPase activity" NARROW [] synonym: "Ras small monomeric GTPase activity" NARROW [] synonym: "RHEB small monomeric GTPase activity" NARROW [] synonym: "Rho small monomeric GTPase activity" NARROW [] synonym: "Sar small monomeric GTPase activity" NARROW [] synonym: "signal-recognition-particle GTPase activity" NARROW [] synonym: "small monomeric GTPase activity" NARROW [] synonym: "tubulin GTPase activity" NARROW [] xref: MetaCyc:RXN0-5462 xref: Reactome:R-HSA-1445143 "RAB8A,10,13,14 hydrolyze GTP" xref: Reactome:R-HSA-1458485 "RALA hydrolyzes GTP" xref: Reactome:R-HSA-156923 "Hydrolysis of eEF1A:GTP" xref: Reactome:R-HSA-164381 "G alpha (s) auto-inactivates by hydrolysing GTP to GDP" xref: Reactome:R-HSA-165055 "Hydrolysis of Ran:GTP to Ran:GDP" xref: Reactome:R-HSA-167415 "G-protein alpha subunit is inactivated" xref: Reactome:R-HSA-170666 "Adenylate cyclase increases the GTPase activity of G alpha-olf" xref: Reactome:R-HSA-170685 "Adenylaye cyclase increases the GTPase activity of G alpha-olf" xref: Reactome:R-HSA-170686 "Adenylate cyclase increases the GTPase activity of Gi alpha" xref: Reactome:R-HSA-177501 "Endocytosis (internalization) of clathrin-coated vesicle" xref: Reactome:R-HSA-203973 "Vesicle budding" xref: Reactome:R-HSA-2130641 "Translocation of TGN-lysosome vesicle to lysosome" xref: Reactome:R-HSA-2130725 "Internalization of MHC II:Ii clathrin coated vesicle" xref: Reactome:R-HSA-2584246 "GNAT1-GTP hydrolyses its bound GTP to GDP" xref: Reactome:R-HSA-380979 "RHEB in mTORC1:RHEB:GTP hydrolyses GTP" xref: Reactome:R-HSA-392133 "G alpha (z) auto-inactivates by hydrolysing GTP to GDP" xref: Reactome:R-HSA-392212 "G alpha (i) auto-inactivates by hydrolysing GTP to GDP" xref: Reactome:R-HSA-418574 "G alpha (12/13) auto-inactivates by hydrolysing GTP to GDP" xref: Reactome:R-HSA-418582 "G alpha (q) auto-inactivates by hydrolysing GTP to GDP" xref: Reactome:R-HSA-421835 "trans-Golgi Network Vesicle Scission" xref: Reactome:R-HSA-428941 "P2Y purinoceptor 1 activates MAP kinase p38 alpha" xref: Reactome:R-HSA-432707 "trans-Golgi Network Lysosomal Vesicle Scission" xref: Reactome:R-HSA-5333615 "80S:Met-tRNAi:mRNA:SECISBP2:Sec-tRNA(Sec):EEFSEC:GTP is hydrolysed to 80S:Met-tRNAi:mRNA:SECISBP2:Sec and EEFSEC:GDP by EEFSEC" xref: Reactome:R-HSA-5389839 "39S subunit binds 28S subunit:mRNA:fMet-tRNA" xref: Reactome:R-HSA-5389842 "TUFM hydrolyzes GTP and TUFM:GDP dissociates from 55S ribosome" xref: Reactome:R-HSA-5419273 "Hydrolysis of GTP and dissociation of 28S and 39S subunits" xref: Reactome:R-HSA-5419279 "Translocation of peptidyl-tRNA from A-site to P-site (and translocation of 55S ribosome by 3 bases along mRNA)" xref: Reactome:R-HSA-555065 "Formation of clathrin coated vesicle" xref: Reactome:R-HSA-5623513 "ASAP1 stimulates GTPase activity of ARF4" xref: Reactome:R-HSA-5638006 "ARL3 hydrolyzes GTP" xref: Reactome:R-HSA-5658231 "RAS GAPs stimulate RAS GTPase activity" xref: Reactome:R-HSA-5665809 "SRGAP2 stimulates RAC1 GTP-ase activity and ends FMNL1-mediated elongation of actin filaments" xref: Reactome:R-HSA-5672017 "Rheb in the MTORC1 complex hydrolyses GTP" xref: Reactome:R-HSA-5694527 "Loss of SAR1B GTPase" xref: Reactome:R-HSA-6807877 "ARFGAPs stimulate ARF GTPase activity" xref: Reactome:R-HSA-6814833 "TBC1D20 stimulates GTPase activity of RAB1, resulting in hydrolysis of GTP" xref: Reactome:R-HSA-8847534 "RAB43 hydrolyses GTP" xref: Reactome:R-HSA-8847883 "CYTH proteins stimulate ARF1 GTPase activity" xref: Reactome:R-HSA-8849082 "ARHGAP35 stimulates RHOA GTPase activity" xref: Reactome:R-HSA-8854173 "TBC RabGAPs accelerate GTP hydrolysis by RAB35" xref: Reactome:R-HSA-8854255 "TBC1D2A accelerates GTP hydrolysis by RAB7" xref: Reactome:R-HSA-8854329 "TBC1D15 accelerates GTP hydrolysis by RAB7" xref: Reactome:R-HSA-8854604 "TBC1D16 accelerates GTP hydrolysis by RAB4A" xref: Reactome:R-HSA-8854612 "TBC1D25 accelerates GTP hydrolysis by RAB33B" xref: Reactome:R-HSA-8868661 "Dynamin-mediated GTP hydrolysis promotes vesicle scission" xref: Reactome:R-HSA-8981353 "RASA1 stimulates RAS GTPase activity" xref: Reactome:R-HSA-8982020 "G alpha (i)i1/i2/i3 in G (i):RGS complex is inactivated" xref: Reactome:R-HSA-8982021 "G alpha (z) in G alpha (z):RGS complex is inactivated" xref: Reactome:R-HSA-8982025 "G alpha (q) in G (q):RGS complex is inactivated" xref: Reactome:R-HSA-9018814 "RHOT1 hydrolyzes GTP" xref: Reactome:R-HSA-9018826 "RHOT2 hydrolyzes GTP" xref: Reactome:R-HSA-9640195 "RRAGA,B hydrolyzes GTP" xref: Reactome:R-HSA-9645598 "RRAGC,D hydrolyzes GTP" xref: Reactome:R-HSA-9649736 "RAS intrinsic GTPase activity hydrolyzes GTP to GDP" xref: Reactome:R-HSA-983422 "Disassembly of COPII coated vesicle" xref: RHEA:19669 is_a: GO:0016787 ! hydrolase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19078" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26014" xsd:anyURI created_by: dph creation_date: 2015-11-11T12:47:56Z [Term] id: GO:0004386 name: helicase activity namespace: molecular_function alt_id: GO:0008026 def: "Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the unwinding of a DNA or RNA helix." [GOC:jl] comment: Note that most helicases catalyze processive duplex unwinding. subset: goslim_candida subset: goslim_chembl subset: goslim_pir subset: goslim_yeast synonym: "ATP-dependent helicase activity" EXACT [] xref: Reactome:R-HSA-169461 "MCM8 mediated fork unwinding" xref: Reactome:R-HSA-169468 "MCM2-7 mediated fork unwinding" xref: Reactome:R-HSA-5686410 "BLM mediates dissolution of double Holliday junction" xref: Reactome:R-HSA-5690996 "ERCC2 and ERCC3 DNA helicases form an open bubble structure in damaged DNA" is_a: GO:0140657 ! ATP-dependent activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21393" xsd:anyURI [Term] id: GO:0004518 name: nuclease activity namespace: molecular_function def: "Catalysis of the hydrolysis of ester linkages within nucleic acids." [ISBN:0198547684] comment: Note that 'tRNA nucleotidyltransferase activity ; GO:0009022', also known as 'ribonuclease PH', and 'DNA-(apurinic or apyrimidinic site) lyase activity ; GO:0003906' do not have parentage in the 'nuclease activity' branch of the ontology because both GO and the Enzyme Commission define nuclease activity as a type of hydrolysis. subset: goslim_chembl subset: goslim_drosophila subset: goslim_plant subset: goslim_yeast is_a: GO:0016787 ! hydrolase activity [Term] id: GO:0005085 name: guanyl-nucleotide exchange factor activity namespace: molecular_function alt_id: GO:0005086 alt_id: GO:0005087 alt_id: GO:0005088 alt_id: GO:0005089 alt_id: GO:0005090 alt_id: GO:0008321 alt_id: GO:0008433 alt_id: GO:0016219 alt_id: GO:0016220 alt_id: GO:0017034 alt_id: GO:0017112 alt_id: GO:0017132 alt_id: GO:0019839 alt_id: GO:0030676 def: "Stimulates the exchange of GDP to GTP on a signaling GTPase, changing its conformation to its active form. Guanine nucleotide exchange factors (GEFs) act by stimulating the release of guanosine diphosphate (GDP) to allow binding of guanosine triphosphate (GTP), which is more abundant in the cell under normal cellular physiological conditions." [GOC:kd, GOC:mah, PMID:23303910, PMID:27218782] subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "ARF guanyl-nucleotide exchange factor activity" NARROW [] synonym: "cAMP-dependent guanyl-nucleotide exchange factor activity" NARROW [] synonym: "GDP-dissociation stimulator activity" EXACT [] synonym: "GDS" EXACT [] synonym: "GEF" EXACT [] synonym: "GNRP" NARROW [] synonym: "guanyl-nucleotide release factor activity" EXACT [] synonym: "guanyl-nucleotide releasing factor" EXACT [] synonym: "Rab guanyl-nucleotide exchange factor activity" NARROW [] synonym: "Rac guanyl-nucleotide exchange factor activity" NARROW [] synonym: "Ral guanyl-nucleotide exchange factor activity" NARROW [] synonym: "Ran guanyl-nucleotide exchange factor activity" NARROW [] synonym: "Rap guanyl-nucleotide exchange factor activity" NARROW [] synonym: "Ras guanyl-nucleotide exchange factor activity" NARROW [] synonym: "Rho guanine nucleotide exchange factor" EXACT [] synonym: "Rho guanyl-nucleotide exchange factor activity" NARROW [] synonym: "RhoGEF" EXACT [] synonym: "Sar guanyl-nucleotide exchange factor activity" NARROW [] xref: Reactome:R-HSA-109807 "GRB2:SOS:p-Y427-SHC1 mediated nucleotide exchange of RAS" xref: Reactome:R-HSA-109817 "GRB2:SOS1:p-Y-IRS1,p-Y-IRS2 mediated nucleotide exchange of RAS" xref: Reactome:R-HSA-114544 "p115-RhoGEF activation of RHOA" xref: Reactome:R-HSA-1168636 "p-RasGRP1,3:DAG cause RAS to exchange GDP for GTP" xref: Reactome:R-HSA-1225951 "SOS-mediated nucleotide exchange of RAS (mediated by GRB2:SOS1 in complex with ligand-responsive p-6Y-EGFR mutants)" xref: Reactome:R-HSA-1225957 "SOS-mediated nucleotide exchange of RAS (mediated by GRB2:SOS1 in complex with phosphorylated SHC1 and ligand-responsive p-6Y-EGFR mutants)" xref: Reactome:R-HSA-1250383 "RAS guanyl-nucleotide exchange mediated by SOS1 in complex with GRB2 and p-Y349,350-SHC1:p-ERBB4" xref: Reactome:R-HSA-1250463 "RAS guanyl-nucleotide exchange mediated by SOS1 in complex with GRB2 and p-SHC1:Phosphorylated ERBB2 heterodimers" xref: Reactome:R-HSA-1250498 "RAS guanyl-nucleotide exchange mediated by SOS1 in complex with GRB2 and phosphorylated EGFR:ERBB2 heterodimers." xref: Reactome:R-HSA-1306972 "RAS guanyl nucleotide exchange mediated by SOS1 bound to GRB2 in complex with phosphorylated ERBB4:ERBB2 heterodimers" xref: Reactome:R-HSA-1433415 "Activation of RAC1" xref: Reactome:R-HSA-1433471 "Activation of RAS by p-KIT bound SOS1" xref: Reactome:R-HSA-156913 "Regeneration of eEF1A:GTP by eEF1B activity" xref: Reactome:R-HSA-169904 "C3G stimulates nucleotide exchange on Rap1" xref: Reactome:R-HSA-170979 "(Frs2)C3G stimulates nucleotide exchange on Rap1" xref: Reactome:R-HSA-171026 "Guanine nucleotide exchange on RAL" xref: Reactome:R-HSA-177938 "SOS1-mediated nucleotide exchange of RAS (EGF:EGFR:GRB2:SOS1)" xref: Reactome:R-HSA-177945 "SOS1-mediated nucleotide exchange of RAS (EGF:EGFR:SHC1:GRB2:SOS1)" xref: Reactome:R-HSA-180687 "Conversion of Ran-GDP to Ran-GTP" xref: Reactome:R-HSA-186834 "SOS-mediated nucleotide exchange on RAS (PDGF receptor:GRB2:SOS)" xref: Reactome:R-HSA-187746 "RIT/RIN are activated" xref: Reactome:R-HSA-194518 "RhoA is activated by nucleotide exchange and inhibits axonal growth" xref: Reactome:R-HSA-2029445 "An unknown GEF exchanges GTP for GDP on CDC42:GDP" xref: Reactome:R-HSA-2029451 "Activation of RAC1 by VAV" xref: Reactome:R-HSA-2029467 "Activation of RAC1 by CRKII:DOCK180:ELMO" xref: Reactome:R-HSA-203977 "SAR1 Activation And Membrane Binding" xref: Reactome:R-HSA-205039 "p75NTR indirectly activates RAC and Cdc42 via a guanyl-nucleotide exchange factor" xref: Reactome:R-HSA-210977 "Sos-mediated nucleotide exchange of Ras (Tie2 receptor:Grb2:Sos)" xref: Reactome:R-HSA-2179407 "SOS1-mediated nucleotide exchange of RAS (HB-EFG-initiated)" xref: Reactome:R-HSA-2424476 "Activation of RAC1 by VAV2/3" xref: Reactome:R-HSA-2424477 "SOS mediated nucleotide exchange of RAS (SHC)" xref: Reactome:R-HSA-2485180 "MII catalyses GDP/GTP exchange on Gt" xref: Reactome:R-HSA-2730840 "Activation of RAC1 by VAV" xref: Reactome:R-HSA-350769 "trans-Golgi Network Coat Activation" xref: Reactome:R-HSA-354173 "Activation of Rap1 by cytosolic GEFs" xref: Reactome:R-HSA-379044 "Liganded Gs-activating GPCR acts as a GEF for Gs" xref: Reactome:R-HSA-379048 "Liganded Gq/11-activating GPCRs act as GEFs for Gq/11" xref: Reactome:R-HSA-380073 "Liganded Gi-activating GPCR acts as a GEF for Gi" xref: Reactome:R-HSA-389348 "Activation of Rac1 by pVav1" xref: Reactome:R-HSA-389350 "Activation of Cdc42 by pVav1" xref: Reactome:R-HSA-392054 "NCAM1:pFAK:Grb2:Sos-mediated nucleotide exchange of Ras" xref: Reactome:R-HSA-392195 "Gi activation by P2Y purinoceptor 12" xref: Reactome:R-HSA-3928592 "p190RhoGEF exchanges GTP for GDP on RHOA, activating it" xref: Reactome:R-HSA-3928612 "KALRN exchanges GTP for GDP on RAC1, activating it" xref: Reactome:R-HSA-3928628 "VAV exchanges GTP for GDP on RAC1, activating it" xref: Reactome:R-HSA-3928632 "ITSN1 exchanges GTP for GDP on CDC42, activating it" xref: Reactome:R-HSA-3928633 "bPIX exchanges GTP for GDP on RAC, activating it" xref: Reactome:R-HSA-3928642 "TIAM1 exchanges GTP for GDP on RAC1, activating it" xref: Reactome:R-HSA-3928651 "NGEF exchanges GTP for GDP on RHOA" xref: Reactome:R-HSA-392870 "Gs activation by prostacyclin receptor" xref: Reactome:R-HSA-3965444 "WNT:FZD complex promotes G-protein nucleotide exchange" xref: Reactome:R-HSA-399938 "Activation of Rac1 by FARP2" xref: Reactome:R-HSA-399995 "Muscarinic Acetylcholine Receptor M3 activates Gq" xref: Reactome:R-HSA-4093336 "p-TIAM1 exchanges GTP for GDP on RAC1, activating it" xref: Reactome:R-HSA-416530 "FFAR1:FFAR1 ligands activates Gq" xref: Reactome:R-HSA-416588 "Activation of Rho by LARG and PDZ-RhoGEF" xref: Reactome:R-HSA-418579 "Gq activation by P2Y purinoceptor 1" xref: Reactome:R-HSA-418850 "Activation of Cdc42" xref: Reactome:R-HSA-418856 "Activation of Rac1" xref: Reactome:R-HSA-419166 "GEFs activate RhoA,B,C" xref: Reactome:R-HSA-420883 "Opsins act as GEFs for G alpha-t" xref: Reactome:R-HSA-428535 "Activation of RAC1 by SOS" xref: Reactome:R-HSA-428750 "Gq activation by TP receptor" xref: Reactome:R-HSA-428917 "G13 activation by TP receptor" xref: Reactome:R-HSA-442273 "VAV1 is a GEF for Rho/Rac family GTPases" xref: Reactome:R-HSA-442291 "VAV2 is a GEF for Rho/Rac family kinases" xref: Reactome:R-HSA-442314 "VAV3 is a GEF for Rho/Rac family kinases" xref: Reactome:R-HSA-442732 "NMDA-activated RASGRF1 activates RAS" xref: Reactome:R-HSA-445064 "Activation of Rac1 by VAV2" xref: Reactome:R-HSA-5218829 "VEGF induces CDC42 activation by unknown mechanism" xref: Reactome:R-HSA-5218839 "DOCK180:ELMO exchanges GTP for GDP, activating RAC1" xref: Reactome:R-HSA-5218850 "VAV exchanges GTP for GDP on RAC1, activating it" xref: Reactome:R-HSA-5617816 "RAB3IP stimulates nucleotide exchange on RAB8A" xref: Reactome:R-HSA-5623508 "GBF1 stimulates nucleotide exchange on ARF4" xref: Reactome:R-HSA-5623521 "RAB3IP stimulates nucleotide exchange on RAB8A" xref: Reactome:R-HSA-5637806 "SOS-mediated nucleotide exchange of RAS (mediated by GRB2:SOS1 in complex with p-EGFRvIII)" xref: Reactome:R-HSA-5637808 "SOS-mediated nucleotide exchange of RAS (mediated by GRB2:SOS1 in complex with phosphorylated SHC1 and p-EGFRvIII)" xref: Reactome:R-HSA-5654392 "Activated FGFR1:p-FRS:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5654402 "Activated FGFR2:p-SHC1:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5654413 "Activated FGFR3:p-FRS2:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5654426 "Activated FGFR4:p-SHC1:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5654600 "Activated FGFR1:p-SHC1:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5654618 "Activated FGFR2:p-FRS2:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5654647 "Activated FGFR3:p-SHC1:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5654663 "Activated FGFR4:p-FRS2:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5655241 "Activated FGFR2 mutants:p-FRS2:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5655277 "Activated FGFR3 point, translocation and fusion mutants:p-FRS2:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5655326 "Activated FGFR1 mutants:p-FRS2:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5655347 "Activated FGFR4 mutants:p-FRS2:GRB2:SOS1 activates RAS nucleotide exchange" xref: Reactome:R-HSA-5672965 "RAS GEFs promote RAS nucleotide exchange" xref: Reactome:R-HSA-5686071 "GRB2-1:SOS1:p-Y-SHC mediated nucleotide exchange of RAS" xref: Reactome:R-HSA-5686318 "GRB2-1:SOS1:p-3Y-SHC1 mediated nucleotide exchange of RAS" xref: Reactome:R-HSA-5694409 "Nucleotide exchange on RAB1" xref: Reactome:R-HSA-6807868 "GBF1 stimulates ARF nucleotide exchange" xref: Reactome:R-HSA-6811414 "GBF1 stimulates nucleotide exchange on ARF" xref: Reactome:R-HSA-6811418 "ARFGAPs stimulate ARF GTPase activity at the Golgi membrane" xref: Reactome:R-HSA-6811429 "RIC1:RGP1 stimulates nucleotide RAB6 nucleotide exchange" xref: Reactome:R-HSA-749453 "Liganded Gz-activating GPCR acts as a GEF for Gz" xref: Reactome:R-HSA-751029 "Liganded G12/13-activating GPCR acts as a GEF for G12/13" xref: Reactome:R-HSA-825631 "Glucagon:GCGR mediates GTP-GDP exchange" xref: Reactome:R-HSA-8848618 "Activation of RAC1 by the PXN:CRK complex" xref: Reactome:R-HSA-8850041 "RAB3GAP1:RAB3GAP2 promotes nucleotide exchange on RAB18" xref: Reactome:R-HSA-8851827 "RAS guanyl nucleotide exchange by MET-bound GRB2:SOS1" xref: Reactome:R-HSA-8851877 "RAS guanyl nucleotide exchange by SOS1 associated with RANBP9 and MET" xref: Reactome:R-HSA-8851899 "RAS guanyl nucleotide exchange by SOS1 bound to GRB2, SCH1-2 and MET" xref: Reactome:R-HSA-8875318 "RAB3 GEFs exchange GTP for GDP on RAB3A" xref: Reactome:R-HSA-8875320 "RAB5 GEFs exchange GTP for GDP on RAB5" xref: Reactome:R-HSA-8875568 "RAPGEF1 activates RAP1" xref: Reactome:R-HSA-8875591 "DOCK7 activates RAC1" xref: Reactome:R-HSA-8876188 "DENND4s exchange GTP for GDP on RAB10" xref: Reactome:R-HSA-8876190 "RAB8 GEFs exchange GTP for GDP on RAB8" xref: Reactome:R-HSA-8876191 "RAB9 GEFs exchange GTP for GDP on RAB9" xref: Reactome:R-HSA-8876193 "RIC1-RGP1 exchanges GTP for GDP on RAB6" xref: Reactome:R-HSA-8876454 "DENND3 exchanges GTP for GDP on RAB12" xref: Reactome:R-HSA-8876615 "RAB13 GEFs exchange GTP for GDP on RAB13" xref: Reactome:R-HSA-8876616 "DENND6A,B exchange GTP for GDP on RAB14" xref: Reactome:R-HSA-8876837 "RAB21 GEFs exchange GTP for GDP on RAB21" xref: Reactome:R-HSA-8877308 "MADD exchanges GTP for GDP on RAB27" xref: Reactome:R-HSA-8877311 "RAB31 GEFs exchange GTP for GDP on RAB31" xref: Reactome:R-HSA-8877451 "MON1:CCZ1 exchanges GTP for GDP on RAB7" xref: Reactome:R-HSA-8877475 "TRAPPC complexes exchange GTP for GDP on RAB1" xref: Reactome:R-HSA-8877612 "DENND1s exchange GTP for GDP on RAB35" xref: Reactome:R-HSA-8877760 "HPS1:HPS4 exchange GTP for GDP on RAB32 and RAB38" xref: Reactome:R-HSA-8877813 "DENND5A,B exchange GTP for GDP on RAB39" xref: Reactome:R-HSA-8877998 "RAB3GAP1:RAB3GAP2 exchanges GTP for GDP on RAB18" xref: Reactome:R-HSA-8964604 "CDC42 in GNB/GNG:PAK1:ARHGEF6:CDC42 is activated" xref: Reactome:R-HSA-8980691 "RHOA GEFs activate RHOA" xref: Reactome:R-HSA-8982637 "Opsins binds G alpha-t" xref: Reactome:R-HSA-8982640 "G-alpha(t):G-beta-gamma:Opsins complex dissociates to active G-alpha(t)" xref: Reactome:R-HSA-9013023 "RHOB GEFs activate RHOB" xref: Reactome:R-HSA-9013109 "RHOC GEFs activate RHOC" xref: Reactome:R-HSA-9013143 "RAC1 GEFs activate RAC1" xref: Reactome:R-HSA-9013159 "CDC42 GEFs activate CDC42" xref: Reactome:R-HSA-9013435 "RHOD auto-activates" xref: Reactome:R-HSA-9014296 "RAC2 GEFs activate RAC2" xref: Reactome:R-HSA-9014433 "RHOG GEFs activate RHOG" xref: Reactome:R-HSA-9017491 "RHOJ GEFs activate RHOJ" xref: Reactome:R-HSA-9018747 "RHOQ GEFs activate RHOQ" xref: Reactome:R-HSA-9018768 "RHOU auto-activates" xref: Reactome:R-HSA-9018804 "RAC3 GEFs activate RAC3" xref: Reactome:R-HSA-9018817 "RHOT1 GEFs activate RHOT1" xref: Reactome:R-HSA-9018825 "RHOT2 GEFs activate RHOT2" xref: Reactome:R-HSA-9026891 "NTRK2 activates RAS signaling through SHC1" xref: Reactome:R-HSA-9029158 "EPO:phospho-EPOR:phospho-JAK2:LYN:IRS2:phospho-CRKL:RAPGEF1:GRB2-1:SOS1,phospho-VAV1 mediates exchange of GTP for GDP bound to RAS" xref: Reactome:R-HSA-9032067 "NTRK2 activates RAS signaling through FRS2" xref: Reactome:R-HSA-9032798 "DOCK3 activates RAC1" xref: Reactome:R-HSA-9033292 "NTRK2 and CDK5 promote activation of RAC1 by TIAM1" xref: Reactome:R-HSA-9036301 "ESTG stimulates GTP exchange on GPER:heterotrimeric G-protein s" xref: Reactome:R-HSA-939265 "Activation of Rap1 by membrane-associated GEFs" xref: Reactome:R-HSA-9607304 "SOS1-mediated nucleotide exchange of RAS downstream of FLT3" xref: Reactome:R-HSA-9619803 "p-S516-ARHGEF7 activates RAC1" xref: Reactome:R-HSA-9624845 "RCC1 stimulates GDP to GTP exchange on RAN" xref: Reactome:R-HSA-9634418 "RAS guanyl-nucleotide exchange mediated by SOS1 in complex with GRB2 and ERBB2 homodimer:p-SHC1" xref: Reactome:R-HSA-9639286 "RRAGC,D exchanges GTP for GDP" xref: Reactome:R-HSA-9640167 "RRAGA,B exchanges GDP for GTP" xref: Reactome:R-HSA-9660824 "ADORA2B (in Ade-Rib:ADORA2B:Heterotrimeric G-protein Gs) exchanges GDP for GTP on Gs" xref: Reactome:R-HSA-9664991 "RAS activation by SOS1 bound to phosphorylated heterodimers of ERBB2 KD mutants" xref: Reactome:R-HSA-9665009 "RAS activation by SOS1 bound to phosphorylated heterodimers of ERBB2 KD mutants and EGFR" xref: Reactome:R-HSA-9665404 "RAS guanyl nucleotide exchange mediated by the p-6Y- ERBB2 ECD mutants:EGF:p-6Y-EGFR:p-SHC1:GRB2:SOS1" xref: Reactome:R-HSA-9665408 "RAS activation by SOS1 bound to phosphorylated heterodimers of ERBB2 ECD mutants and EGFR through GRB2" xref: Reactome:R-HSA-9665700 "RAS activation by SOS1 bound to phosphorylated heterodimers of ERBB2 TMD/JMD mutants" xref: Reactome:R-HSA-9665707 "RAS activation by SOS1 bound to phosphorylated heterodimers of ERBB2 TMD/JMD mutants and EGFR" xref: Reactome:R-HSA-9666428 "DOCK180 exchanges GTP for GDP on RAC1:GDP" xref: Reactome:R-HSA-9666430 "p-VAV1,2,3 exchanges GTP for GDP on RAC1:GDP" xref: Reactome:R-HSA-9670436 "p-KIT mutants:GRB2:SOS catalyzes nucleotide exchange on RAS" xref: Reactome:R-HSA-9672163 "SOS-mediated nucleotide exchange on RAS downstream of PDGFRA extracellular domain dimers" xref: Reactome:R-HSA-9672170 "SOS-mediated nucleotide exchange of RAS downstream of mutant PDGFR receptors" xref: Reactome:R-HSA-9680385 "CSF1R-associated SOS1 mediates exchange of GTP for GDP bound to RAS" xref: Reactome:R-HSA-9693111 "RHOF auto-activates" xref: Reactome:R-HSA-9695853 "FLT3 mutants:GRB2:SOS1-mediated nucleotide exchange on RAS" xref: Reactome:R-HSA-9703441 "SOS1-mediated nucleotide exchange of RAS downstream of FLT3 fusion mutants" xref: Reactome:R-HSA-9751201 "p-VAV1,2,3 exchange 6TGTP for GDP on RAC1" is_a: GO:0030234 ! enzyme regulator activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/18749" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/18750" xsd:anyURI [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 is_a: GO:0003674 ! molecular_function property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24130" xsd:anyURI [Term] id: GO:0005575 name: cellular_component namespace: cellular_component alt_id: GO:0008372 def: "A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex)." [GOC:pdt] comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for the annotation of gene products whose cellular component is unknown. When this term is used for annotation, it indicates that no information was available about the cellular component 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_candida subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "cell or subcellular entity" EXACT [] synonym: "cellular component" EXACT [] synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315] xref: NIF_Subcellular:sao1337158144 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI [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 is_a: GO:0005575 ! cellular_component [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 is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005575 ! cellular_component property_value: RO:0002161 NCBITaxon:33208 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 is_a: GO:0005575 ! cellular_component relationship: has_part GO:0016020 ! membrane relationship: part_of GO:0005575 ! cellular_component [Term] id: GO:0005694 name: chromosome namespace: cellular_component def: "A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information." [ISBN:0198547684] comment: Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore. subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] synonym: "prophase chromosome" NARROW [] xref: Wikipedia:Chromosome is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005575 ! cellular_component [Term] id: GO:0005730 name: nucleolus namespace: cellular_component def: "A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_plant subset: goslim_yeast xref: NIF_Subcellular:sao1820400233 xref: Wikipedia:Nucleolus is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005634 ! nucleus [Term] id: GO:0005737 name: cytoplasm namespace: cellular_component def: "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [ISBN:0198547684] subset: goslim_candida subset: goslim_chembl 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:Cytoplasm is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005575 ! cellular_component property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23023" xsd:anyURI [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 is_a: GO:0005575 ! cellular_component relationship: has_part GO:0016020 ! membrane relationship: part_of GO:0005737 ! cytoplasm [Term] id: GO:0005740 name: mitochondrial envelope namespace: cellular_component def: "The double lipid bilayer enclosing the mitochondrion and separating its contents from the cell cytoplasm; includes the intermembrane space." [GOC:ai, GOC:pz] subset: goslim_candida subset: goslim_yeast is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005739 ! mitochondrion [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 is_a: GO:0005575 ! cellular_component relationship: has_part GO:0016020 ! membrane relationship: part_of GO:0005737 ! cytoplasm [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 is_a: GO:0005575 ! cellular_component relationship: has_part GO:0016020 ! membrane relationship: part_of GO:0005737 ! cytoplasm [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 is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0012505 ! endomembrane system [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 is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005737 ! cytoplasm relationship: part_of GO:0012505 ! endomembrane system [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 is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005856 ! cytoskeleton [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 is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005575 ! cellular_component [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 is_a: GO:0005575 ! cellular_component relationship: part_of GO:0005575 ! cellular_component [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 is_a: GO:0016020 ! membrane relationship: part_of GO:0005575 ! cellular_component [Term] id: GO:0005933 name: cellular bud namespace: cellular_component def: "A protuberance from a cell of an organism that reproduces by budding, which will grow larger and become a separate daughter cell after nuclear division, cytokinesis, and cell wall formation (when appropriate). The daughter cell may completely separate from the mother cell, or the mother and daughter cells may remain associated." [GOC:sgd_curators] subset: goslim_candida subset: goslim_pir subset: goslim_yeast is_a: GO:0005575 ! cellular_component property_value: RO:0002161 NCBITaxon:4895 [Term] id: GO:0005938 name: cell cortex namespace: cellular_component def: "The region of a cell that lies just beneath the plasma membrane and often, but not always, contains a network of actin filaments and associated proteins." [GOC:mah, ISBN:0815316194] subset: goslim_candida subset: goslim_yeast synonym: "cell periphery" RELATED [] synonym: "ectoplasm" NARROW [] synonym: "peripheral cytoplasm" RELATED [] xref: Wikipedia:Cell_cortex is_a: GO:0005737 ! cytoplasm property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26298" xsd:anyURI [Term] id: GO:0005975 name: carbohydrate metabolic process namespace: biological_process alt_id: GO:0044261 alt_id: GO:0044723 def: "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y." [GOC:mah, ISBN:0198506732] subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_plant_ribbon subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast synonym: "carbohydrate metabolism" EXACT [] xref: Wikipedia:Carbohydrate_metabolism is_a: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22880" xsd:anyURI created_by: jl creation_date: 2012-10-23T15:40:34Z [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:0008150 ! biological_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: Wikipedia:DNA_replication is_a: GO:0008150 ! biological_process relationship: has_part GO:0008150 ! biological_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: Wikipedia:DNA_repair is_a: GO:0006974 ! DNA damage response [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:0008150 ! biological_process [Term] id: GO:0006325 name: chromatin organization namespace: biological_process alt_id: GO:0006333 alt_id: GO:0006336 alt_id: GO:0016568 alt_id: GO:0031497 alt_id: GO:0034724 def: "The assembly or remodeling of chromatin composed of DNA complexed with histones, other associated proteins, and sometimes RNA." [PMID:20404130] subset: goslim_generic subset: goslim_pombe subset: goslim_yeast synonym: "chromatin assembly" NARROW [] synonym: "chromatin assembly or disassembly" RELATED [] synonym: "chromatin assembly/disassembly" RELATED [] synonym: "chromatin maintenance" BROAD [] synonym: "chromatin modification" RELATED [] synonym: "chromatin organisation" EXACT [GOC:mah] synonym: "DNA replication-independent chromatin assembly" NARROW [] synonym: "DNA replication-independent chromatin organization" NARROW [] synonym: "DNA replication-independent nucleosome organisation" NARROW [] synonym: "DNA replication-independent nuclesome assembly" NARROW [] synonym: "establishment of chromatin architecture" EXACT [GOC:mah] synonym: "establishment or maintenance of chromatin architecture" EXACT [GOC:mah] synonym: "transcription-coupled nucleosome assembly" NARROW [] is_a: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22130" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23549" xsd:anyURI [Term] id: GO:0006352 name: DNA-templated transcription initiation namespace: biological_process alt_id: GO:0001123 def: "The initial step of transcription, consisting of the assembly of the RNA polymerase preinitiation complex (PIC) at a gene promoter, as well as the formation of the first few bonds of the RNA transcript. Transcription initiation includes abortive initiation events, which occur when the first few nucleotides are repeatedly synthesized and then released, and ends when promoter clearance takes place." [GOC:jid, GOC:txnOH, PMID:18280161] comment: Note that promoter clearance is represented as a separate step, not part_of either initiation or elongation. subset: goslim_yeast synonym: "DNA-dependent RNA polymerase complex assembly at promoter" EXACT [] synonym: "DNA-dependent transcription, initiation" EXACT [GOC:txnOH] synonym: "DNA-templated transcription, initiation" EXACT [] synonym: "initiation of DNA-dependent transcription" EXACT [GOC:jh2] synonym: "initiation of transcription, DNA-dependent" EXACT [GOC:mah] synonym: "transcription initiation factor activity" RELATED [] synonym: "transcription initiation from bacterial-type RNA polymerase promoter" NARROW [] synonym: "transcription initiation, DNA-dependent" RELATED [GOC:jh2] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23386" xsd:anyURI [Term] id: GO:0006353 name: DNA-templated transcription termination namespace: biological_process alt_id: GO:0001125 def: "The completion of transcription: the RNA polymerase pauses, the RNA-DNA hybrid dissociates, followed by the release of the RNA polymerase from its DNA template." [GOC:txnOH, PMID:15020047, PMID:18280161, PMID:30978344] subset: goslim_yeast synonym: "DNA-dependent transcription, termination" EXACT [GOC:txnOH] synonym: "DNA-templated transcription, termination" EXACT [] synonym: "termination of DNA-dependent transcription" EXACT [GOC:jh2] synonym: "termination of transcription, DNA-dependent" EXACT [GOC:mah] synonym: "transcription termination factor activity" RELATED [] synonym: "transcription termination from bacterial-type RNA polymerase promoter" NARROW [] synonym: "transcription termination, DNA-dependent" RELATED [GOC:jh2] synonym: "transcriptional complex disassembly" BROAD [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23386" xsd:anyURI [Term] id: GO:0006354 name: DNA-templated transcription elongation namespace: biological_process alt_id: GO:0001124 def: "The extension of an RNA molecule after transcription initiation and promoter clearance at a DNA-dependent RNA polymerase promoter by the addition of ribonucleotides catalyzed by an RNA polymerase." [GOC:mah, GOC:txnOH, PMID:15020047, PMID:18280161] subset: goslim_pir subset: goslim_yeast synonym: "DNA-dependent transcription, elongation" EXACT [GOC:txnOH] synonym: "DNA-templated transcription, elongation" EXACT [] synonym: "RNA elongation" BROAD [] synonym: "RNA elongation from bacterial-type RNA polymerase promoter" NARROW [] synonym: "transcription elongation from bacterial-type RNA polymerase promoter" NARROW [] synonym: "transcription elongation, DNA-dependent" EXACT [GOC:jh2] synonym: "transcriptional elongation, DNA-dependent" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23386" xsd:anyURI [Term] id: GO:0006360 name: transcription by RNA polymerase I namespace: biological_process def: "The synthesis of RNA from a DNA template by RNA polymerase I (RNAP I), originating at an RNAP I promoter." [GOC:jl, GOC:txnOH] subset: goslim_yeast synonym: "RNA polymerase I transcription factor activity" RELATED [] synonym: "transcription from Pol I promoter" EXACT [] synonym: "transcription from RNA polymerase I promoter" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14854" xsd:anyURI [Term] id: GO:0006364 name: rRNA processing namespace: biological_process alt_id: GO:0006365 def: "Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules." [GOC:curators] subset: goslim_yeast synonym: "35S primary transcript processing" NARROW [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0006366 name: transcription by RNA polymerase II namespace: biological_process alt_id: GO:0032568 alt_id: GO:0032569 def: "The synthesis of RNA from a DNA template by RNA polymerase II (RNAP II), originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs)." [GOC:jl, GOC:txnOH, ISBN:0321000382] subset: goslim_yeast synonym: "gene-specific transcription from RNA polymerase II promoter" RELATED [] synonym: "general transcription from RNA polymerase II promoter" RELATED [] synonym: "RNA polymerase II transcription factor activity" RELATED [] synonym: "specific transcription from RNA polymerase II promoter" RELATED [GOC:mah] synonym: "transcription from Pol II promoter" EXACT [] synonym: "transcription from RNA polymerase II promoter" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14854" xsd:anyURI [Term] id: GO:0006383 name: transcription by RNA polymerase III namespace: biological_process alt_id: GO:0001009 alt_id: GO:0001035 alt_id: GO:0001041 def: "The synthesis of RNA from a DNA template by RNA polymerase III, originating at an RNAP III promoter." [GOC:jl, GOC:txnOH, PMID:12381659] subset: goslim_yeast synonym: "RNA polymerase III transcription factor activity" RELATED [] synonym: "transcription from a RNA polymerase III hybrid type promoter" NARROW [] synonym: "transcription from Pol III promoter" EXACT [] synonym: "transcription from RNA polymerase III promoter" EXACT [] synonym: "transcription from RNA polymerase III type 2 promoter" NARROW [] synonym: "transcription from RNA polymerase III type 3 promoter" NARROW [] synonym: "U2 snRNA transcription (S. cerevisiae)" NARROW [] synonym: "U6 snRNA transcription (mammalian)" NARROW [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_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/9617" xsd:anyURI created_by: krc creation_date: 2010-08-18T06:37:56Z [Term] id: GO:0006397 name: mRNA processing namespace: biological_process def: "Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide." [GOC:mah] subset: goslim_chembl subset: goslim_yeast synonym: "mRNA maturation" RELATED [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0006401 name: RNA catabolic process namespace: biological_process def: "The chemical reactions and pathways resulting in the breakdown of 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_yeast synonym: "RNA breakdown" EXACT [] synonym: "RNA catabolism" EXACT [] synonym: "RNA degradation" EXACT [] is_a: GO:0008150 ! biological_process [Term] id: GO:0006413 name: translational initiation namespace: biological_process alt_id: GO:0006440 alt_id: GO:0006454 def: "The process preceding formation of the peptide bond between the first two amino acids of a protein. This includes the formation of a complex of the ribosome, mRNA or circRNA, and an initiation complex that contains the first aminoacyl-tRNA." [ISBN:019879276X] subset: goslim_yeast synonym: "biopolymerisation" BROAD [] synonym: "biopolymerization" BROAD [] synonym: "protein synthesis initiation" BROAD [] synonym: "translation initiation" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0006414 name: translational elongation namespace: biological_process alt_id: GO:0006442 alt_id: GO:0006455 def: "The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis." [GOC:ems] subset: goslim_yeast synonym: "protein synthesis elongation" BROAD [] synonym: "translation elongation" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0006417 name: regulation of translation namespace: biological_process alt_id: GO:0006445 def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA." [GOC:isa_complete] subset: goslim_yeast synonym: "regulation of protein anabolism" EXACT [] synonym: "regulation of protein biosynthesis" EXACT [] synonym: "regulation of protein formation" EXACT [] synonym: "regulation of protein synthesis" EXACT [] is_a: GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process [Term] id: GO:0006418 name: tRNA aminoacylation for protein translation namespace: biological_process def: "The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA and the alpha carboxylic acid group of an amino acid, to be used in ribosome-mediated polypeptide synthesis." [GOC:ma] subset: goslim_yeast synonym: "tRNA charging" NARROW [] xref: MetaCyc:TRNA-CHARGING-PWY is_a: GO:0006520 ! amino acid metabolic process relationship: part_of GO:0008150 ! biological_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: Wikipedia:Protein_folding is_a: GO:0008150 ! biological_process relationship: part_of GO:0051604 ! protein maturation property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25673" xsd:anyURI [Term] id: GO:0006468 name: protein phosphorylation namespace: biological_process def: "The process of introducing a phosphate group on to a protein." [GOC:hb] subset: gocheck_do_not_annotate subset: goslim_yeast synonym: "protein amino acid phosphorylation" EXACT [GOC:bf] is_a: GO:0008150 ! biological_process [Term] id: GO:0006470 name: protein dephosphorylation namespace: biological_process def: "The process of removing one or more phosphoric residues from a protein." [GOC:hb] subset: gocheck_do_not_annotate subset: goslim_yeast synonym: "protein amino acid dephosphorylation" EXACT [GOC:bf] is_a: GO:0008150 ! biological_process [Term] id: GO:0006486 name: protein glycosylation namespace: biological_process alt_id: GO:0065006 def: "A protein modification process that results in the addition of a carbohydrate or carbohydrate derivative unit to a protein amino acid, e.g. the addition of glycan chains to proteins." [GOC:curators, GOC:pr] subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast synonym: "protein amino acid glycosylation" EXACT [GOC:bf] synonym: "protein-carbohydrate complex assembly" RELATED [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0006497 name: protein lipidation namespace: biological_process alt_id: GO:0042050 def: "The covalent attachment of lipid groups to an amino acid in a protein." [GOC:jl] comment: For non-covalent interactions with a lipid, consider instead the term 'lipid binding ; GO:0008289' and its children. subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_yeast synonym: "lipid:protein modification" EXACT [] synonym: "protein amino acid lipidation" EXACT [GOC:bf] xref: RESID:AA0059 xref: RESID:AA0060 xref: RESID:AA0077 xref: RESID:AA0078 xref: RESID:AA0079 xref: RESID:AA0080 xref: RESID:AA0102 xref: RESID:AA0103 xref: RESID:AA0104 xref: RESID:AA0106 xref: RESID:AA0107 xref: RESID:AA0158 xref: RESID:AA0159 xref: RESID:AA0160 xref: RESID:AA0161 xref: RESID:AA0162 xref: RESID:AA0163 xref: RESID:AA0166 xref: RESID:AA0223 xref: RESID:AA0290 xref: RESID:AA0307 xref: RESID:AA0308 xref: RESID:AA0309 xref: RESID:AA0316 is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0006520 name: amino acid metabolic process namespace: biological_process alt_id: GO:0006519 def: "The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups." [ISBN:0198506732] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote subset: goslim_prokaryote_ribbon subset: goslim_yeast synonym: "amino acid and derivative metabolism" RELATED [] synonym: "cellular amino acid and derivative metabolic process" RELATED [] synonym: "cellular amino acid metabolic process" EXACT [] synonym: "cellular amino acid metabolism" EXACT [] is_a: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17904" xsd:anyURI [Term] id: GO:0006605 name: protein targeting namespace: biological_process def: "The process of targeting specific proteins to particular regions of the cell, typically membrane-bounded subcellular organelles. Usually requires an organelle specific protein sequence motif." [GOC:ma] subset: goslim_chembl subset: goslim_pombe subset: goslim_yeast synonym: "nascent polypeptide association" RELATED [] synonym: "protein sorting along secretory pathway" NARROW [] xref: Wikipedia:Protein_targeting is_a: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26248" 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: Wikipedia:Lipid_metabolism is_a: GO:0008150 ! biological_process [Term] id: GO:0006766 name: vitamin metabolic process namespace: biological_process def: "The chemical reactions and pathways involving vitamins. Vitamin is a general term for a number of unrelated organic substances that occur in many foods in small amounts and that are necessary in trace amounts for the normal metabolic functioning of the body. Vitamins may be water-soluble or fat-soluble and usually serve as components of coenzyme systems." [GOC:ai] subset: goslim_candida subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_yeast synonym: "vitamin metabolism" EXACT [] is_a: GO:0008150 ! biological_process [Term] id: GO:0006811 name: monoatomic ion transport namespace: biological_process def: "The directed movement of a monoatomic ion into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Monatomic ions (also called simple ions) are ions consisting of exactly one atom." [GOC:ai] subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast synonym: "ion transport" BROAD [] is_a: GO:0008150 ! biological_process [Term] id: GO:0006865 name: amino acid transport namespace: biological_process alt_id: GO:0006866 def: "The directed movement of amino acids, organic acids containing one or more amino substituents, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir subset: goslim_yeast is_a: GO:0008150 ! biological_process [Term] id: GO:0006869 name: lipid transport namespace: biological_process def: "The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent." [ISBN:0198506732] subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0006873 name: intracellular monoatomic ion homeostasis namespace: biological_process def: "A homeostatic process involved in the maintenance of a steady state level of monoatomic ions within a cell. Monatomic ions (also called simple ions) are ions consisting of exactly one atom." [GOC:mah] subset: goslim_yeast synonym: "cellular ion homeostasis" BROAD [] synonym: "cellular monoatomic ion homeostasis" EXACT [] is_a: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24455" xsd:anyURI [Term] id: GO:0006887 name: exocytosis namespace: biological_process alt_id: GO:0016194 alt_id: GO:0016195 def: "A process of secretion by a cell that results in the release of intracellular molecules (e.g. hormones, matrix proteins) contained within a membrane-bounded vesicle. Exocytosis can occur either by full fusion, when the vesicle collapses into the plasma membrane, or by a kiss-and-run mechanism that involves the formation of a transient contact, a pore, between a granule (for exemple of chromaffin cells) and the plasma membrane. The latter process most of the time leads to only partial secretion of the granule content. Exocytosis begins with steps that prepare vesicles for fusion with the membrane (tethering and docking) and ends when molecules are secreted from the cell." [GOC:mah, ISBN:0716731363, PMID:22323285] subset: goslim_yeast synonym: "nonselective vesicle exocytosis" RELATED [] synonym: "vesicle exocytosis" EXACT [] xref: Wikipedia:Exocytosis is_a: GO:0008150 ! biological_process relationship: has_part GO:0016050 ! vesicle organization relationship: has_part GO:0048284 ! organelle fusion relationship: has_part GO:0061025 ! membrane fusion [Term] id: GO:0006897 name: endocytosis namespace: biological_process alt_id: GO:0016193 alt_id: GO:0016196 alt_id: GO:0098701 def: "A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a part of the plasma membrane to form a new membrane-bounded vesicle." [GOC:mah, ISBN:0198506732, ISBN:0716731363, Wikipedia:Endocytosis] subset: goslim_yeast synonym: "endocytic import into cell" EXACT [] synonym: "nonselective vesicle endocytosis" RELATED [] synonym: "plasma membrane invagination" NARROW [] synonym: "vesicle endocytosis" EXACT [] xref: Wikipedia:Endocytosis is_a: GO:0008150 ! biological_process relationship: has_part GO:0010324 ! membrane invagination relationship: has_part GO:0016050 ! vesicle organization property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24907" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25268" xsd:anyURI [Term] id: GO:0006970 name: response to osmotic stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating an increase or decrease in the concentration of solutes outside the organism or cell." [GOC:jl] subset: goslim_yeast synonym: "osmotic response" EXACT [] synonym: "osmotic stress response" EXACT [] is_a: GO:0008150 ! biological_process [Term] id: GO:0006974 name: DNA damage response namespace: biological_process alt_id: GO:0034984 def: "Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism." [GOC:go_curators] subset: goslim_yeast synonym: "cellular DNA damage response" EXACT [] synonym: "cellular response to DNA damage stimulus" EXACT [] synonym: "response to DNA damage stimulus" BROAD [] synonym: "response to genotoxic stress" EXACT [] is_a: GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24775" xsd:anyURI [Term] id: GO:0006979 name: response to oxidative stress namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals." [GOC:jl, PMID:12115731] subset: goslim_yeast is_a: GO:0008150 ! biological_process [Term] id: GO:0006997 name: nucleus organization namespace: biological_process alt_id: GO:0048287 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the nucleus." [GOC:dph, GOC:ems, GOC:jl, GOC:mah] subset: goslim_candida subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast synonym: "nuclear morphology" RELATED [] synonym: "nuclear organisation" EXACT [] synonym: "nuclear organization" EXACT [] synonym: "nuclear organization and biogenesis" RELATED [GOC:mah] synonym: "nucleus organization and biogenesis" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process [Term] id: GO:0007005 name: mitochondrion organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a mitochondrion; includes mitochondrial morphogenesis and distribution, and replication of the mitochondrial genome as well as synthesis of new mitochondrial components." [GOC:dph, GOC:jl, GOC:mah, GOC:sgd_curators, PMID:9786946] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_yeast synonym: "mitochondria organization" EXACT [GOC:mah] synonym: "mitochondrial biogenesis" EXACT [] synonym: "mitochondrial organization" EXACT [] synonym: "mitochondrion biogenesis" EXACT [] synonym: "mitochondrion morphogenesis" RELATED [] synonym: "mitochondrion organisation" EXACT [GOC:mah] synonym: "mitochondrion organization and biogenesis" RELATED [] is_a: GO:0008150 ! biological_process [Term] id: GO:0007010 name: cytoskeleton organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote subset: goslim_yeast synonym: "cytoskeletal organization and biogenesis" RELATED [GOC:mah] synonym: "cytoskeletal regulator activity" RELATED [] synonym: "cytoskeleton organisation" EXACT [] synonym: "cytoskeleton organization and biogenesis" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process [Term] id: GO:0007031 name: peroxisome organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a peroxisome. A peroxisome is a small, membrane-bounded organelle that uses dioxygen (O2) to oxidize organic molecules." [GOC:mah] subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_yeast synonym: "peroxisome organisation" EXACT [] synonym: "peroxisome organization and biogenesis" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process [Term] id: GO:0007033 name: vacuole organization namespace: biological_process alt_id: GO:0044086 def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vacuole." [GOC:mah] subset: goslim_drosophila subset: goslim_pir subset: goslim_yeast synonym: "vacuolar assembly" NARROW [GOC:mah] synonym: "vacuole biogenesis" RELATED [GOC:mah] synonym: "vacuole organisation" EXACT [] synonym: "vacuole organization and biogenesis" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process [Term] id: GO:0007059 name: chromosome segregation namespace: biological_process def: "The process in which genetic material, in the form of chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets. In eukaryotes, chromosome segregation begins with the condensation of chromosomes, includes chromosome separation, and ends when chromosomes have completed movement to the spindle poles." [GOC:jl, GOC:mah, GOC:mtg_cell_cycle, GOC:vw] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote subset: goslim_yeast synonym: "chromosome division" EXACT [] synonym: "chromosome transmission" RELATED [] xref: Wikipedia:Chromosome_segregation is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0007114 name: cell budding namespace: biological_process def: "A form of asexual reproduction, occurring in certain bacteria and fungi (e.g. yeasts) and some primitive animals in which an individual arises from a daughter cell formed by pinching off a part of the parent cell. The budlike outgrowths so formed may sometimes remain attached to the parent cell." [ISBN:0198506732] subset: goslim_candida subset: goslim_yeast synonym: "budding" BROAD [] is_a: GO:0008150 ! biological_process property_value: RO:0002161 NCBITaxon:33208 property_value: RO:0002161 NCBITaxon:4896 [Term] id: GO:0007124 name: pseudohyphal growth namespace: biological_process def: "The process in which cells grow as a chain of physically attached, elongated cells in response to an environmental stimulus or stimuli." [GOC:krc, PMID:11104818, PMID:19347739, PMID:24710476] subset: goslim_candida subset: goslim_yeast is_a: GO:0008150 ! biological_process [Term] id: GO:0008033 name: tRNA processing namespace: biological_process def: "The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group." [GOC:jl, PMID:12533506] subset: goslim_yeast synonym: "tRNA maturation" EXACT [GOC:vw] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0008092 name: cytoskeletal protein binding namespace: molecular_function def: "Binding to a protein component of a cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton)." [GOC:mah] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_prokaryote subset: goslim_yeast is_a: GO:0003674 ! molecular_function [Term] id: GO:0008134 name: transcription factor binding namespace: molecular_function def: "Binding to a transcription factor, a protein required to initiate or regulate transcription." [ISBN:0198506732] comment: Note that this term should not be used for direct annotation. Please consier one of the more specific descendants, GO:0140297 ; DNA-binding transcription factor binding, GO:0140296 ; general transcription initiation factor binding or GO:0001221 ; transcription coregulator binding. subset: gocheck_do_not_annotate subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_yeast synonym: "TF binding" EXACT [] synonym: "transcription regulator binding" RELATED [] is_a: GO:0003674 ! molecular_function property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19354" xsd:anyURI [Term] id: GO:0008135 name: translation factor activity, RNA binding namespace: molecular_function def: "Functions during translation by binding to RNA during polypeptide synthesis at the ribosome." [GOC:ai, GOC:vw] subset: goslim_chembl subset: goslim_plant subset: goslim_yeast synonym: "translation factor activity, nucleic acid binding" BROAD [GOC:mah] is_a: GO:0003674 ! molecular_function relationship: has_part GO:0003723 ! RNA binding relationship: part_of GO:0006417 ! regulation of translation [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 is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. 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 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_candida subset: goslim_chembl 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 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI created_by: jl creation_date: 2012-09-19T15:05:24Z [Term] id: GO:0008168 name: methyltransferase activity namespace: molecular_function alt_id: GO:0004480 def: "Catalysis of the transfer of a methyl group to an acceptor molecule." [ISBN:0198506732] subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "methylase" BROAD [] xref: EC:2.1.1.- xref: Reactome:R-HSA-212269 "DNMT1,3A,3B:PRC2 methylates cytosine and histone H3" xref: Reactome:R-HSA-379387 "COMT transfers Met to DA to form 3MT" xref: Reactome:R-HSA-379464 "COMT transfers Met to DOPAC to form HVA" xref: Reactome:R-HSA-6800149 "N6AMT1:TRMT112 transfers CH3 group from AdoMet to MMAIII" xref: Reactome:R-HSA-71286 "guanidinoacetate + S-adenosylmethionine => creatine + S-adenosylhomocysteine" xref: Reactome:R-HSA-9710490 "The GSDME gene promoter is hypermethylated" is_a: GO:0016740 ! transferase activity [Term] id: GO:0008213 name: protein alkylation namespace: biological_process def: "The addition of an alkyl group to a protein amino acid. Alkyl groups are derived from alkanes by removal of one hydrogen atom." [GOC:ma] subset: gocheck_do_not_annotate subset: goslim_yeast synonym: "protein amino acid alkylation" EXACT [GOC:bf] is_a: GO:0008150 ! biological_process [Term] id: GO:0008233 name: peptidase activity namespace: molecular_function alt_id: GO:0070010 alt_id: GO:0070011 def: "Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid." [GOC:jl, ISBN:0815332181] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_pir subset: goslim_yeast synonym: "hydrolase, acting on peptide bonds" EXACT [] synonym: "peptidase activity, acting on D-amino acid peptides" NARROW [] synonym: "peptidase activity, acting on L-amino acid peptides" NARROW [] synonym: "peptide hydrolase activity" EXACT [] synonym: "protease activity" EXACT [] synonym: "proteinase activity" NARROW [] xref: EC:3.4.-.- xref: Reactome:R-HSA-205112 "gamma-secretase cleaves p75NTR, releasing NRIF and TRAF6" xref: Reactome:R-HSA-3000243 "Unknown lysosomal protease degrades CBLIF:RCbl to release Cbl" xref: Reactome:R-HSA-3000263 "TCN2:RCbl is degraded to release RCbl" xref: Reactome:R-HSA-3065958 "An unknown protease degrades ACACA" xref: Reactome:R-HSA-3065959 "An unknown protease degrades hCBXs" xref: Reactome:R-HSA-3139027 "Maturation of HIV Virion" xref: Reactome:R-HSA-376149 "Proteolytic processing of SLIT" xref: Reactome:R-HSA-4167501 "An unknown protease degrades ACACB" xref: Reactome:R-HSA-448678 "CTSG cleaves CASP1(1-404)" xref: Reactome:R-HSA-5655483 "USP1 autocleavage" xref: Reactome:R-HSA-5684864 "NAPSA, CTSH, PGA3-5 cleave pro-SFTPB" xref: Reactome:R-HSA-5685902 "NAPSA, CTSH, PGA3-5 cleave pro-SFTPC" xref: Reactome:R-HSA-6803060 "DCD(63-110) is processed to DCD(63-109)" is_a: GO:0016787 ! hydrolase activity [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 is_a: GO:0003674 ! molecular_function [Term] id: GO:0008380 name: RNA splicing namespace: biological_process alt_id: GO:0006395 def: "The process of removing sections of the primary RNA transcript to remove sequences not present in the mature form of the RNA and joining the remaining sections to form the mature form of the RNA." [GOC:krc, GOC:mah] subset: goslim_yeast synonym: "pre-mRNA splicing factor activity" RELATED [] xref: Wikipedia:RNA_splicing is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0008643 name: carbohydrate transport namespace: biological_process alt_id: GO:0006861 alt_id: GO:0008644 def: "The directed movement of carbohydrate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carbohydrates are a group of organic compounds based of the general formula Cx(H2O)y." [GOC:ai] subset: goslim_pir subset: goslim_yeast synonym: "sugar transport" NARROW [] is_a: GO:0008150 ! biological_process [Term] id: GO:0009311 name: oligosaccharide metabolic process namespace: biological_process alt_id: GO:0051690 def: "The chemical reactions and pathways involving oligosaccharides, molecules with between two and (about) 20 monosaccharide residues connected by glycosidic linkages." [ISBN:0198506732] subset: goslim_yeast synonym: "multicellular organismal oligosaccharide metabolic process" NARROW [] synonym: "oligosaccharide metabolism" EXACT [] is_a: GO:0005975 ! carbohydrate metabolic process [Term] id: GO:0009408 name: response to heat namespace: biological_process alt_id: GO:0006951 def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism." [GOC:lr] subset: goslim_yeast synonym: "response to heat shock" NARROW [] is_a: GO:0008150 ! biological_process [Term] id: GO:0009451 name: RNA modification namespace: biological_process alt_id: GO:0016547 def: "The covalent alteration of one or more nucleotides within an RNA molecule to produce an RNA molecule with a sequence that differs from that coded genetically." [GOC:go_curators, ISBN:1555811337] comment: The term 'RNA editing' (GO:0016547) was merged into 'RNA modification' (GO:0009451) on the basis of statements in the preface of Modification and Editing of RNA (ISBN:1555811337) that there is no clear distinction between modification and editing. subset: goslim_yeast synonym: "RNA editing" NARROW [GOC:hjd] xref: Wikipedia:RNA_editing is_a: GO:0008150 ! biological_process [Term] id: GO:0010324 name: membrane invagination namespace: biological_process alt_id: GO:1902534 def: "The infolding of a membrane." [GOC:tb] subset: goslim_yeast synonym: "single-organism membrane invagination" RELATED [] is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2013-12-02T13:58:34Z [Term] id: GO:0012505 name: endomembrane system namespace: cellular_component def: "A collection of membranous structures involved in transport within the cell. The main components of the endomembrane system are endoplasmic reticulum, Golgi bodies, vesicles, cell membrane and nuclear envelope. Members of the endomembrane system pass materials through each other or though the use of vesicles." [GOC:lh] subset: goslim_candida subset: goslim_flybase_ribbon subset: goslim_yeast xref: Wikipedia:Endomembrane_system is_a: GO:0005575 ! cellular_component relationship: has_part GO:0005773 ! vacuole relationship: has_part GO:0005886 ! plasma membrane [Term] id: GO:0015031 name: protein transport namespace: biological_process alt_id: GO:0015831 def: "The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_chembl subset: goslim_pir subset: goslim_yeast synonym: "enzyme transport" NARROW [] is_a: GO:0008150 ! biological_process [Term] id: GO:0015931 name: nucleobase-containing compound transport namespace: biological_process def: "The directed movement of nucleobases, nucleosides, nucleotides and nucleic acids, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_pir subset: goslim_yeast synonym: "nucleobase, nucleoside, nucleotide and nucleic acid transport" RELATED [GOC:dph, GOC:tb] is_a: GO:0008150 ! biological_process [Term] id: GO:0016020 name: membrane namespace: cellular_component alt_id: GO:0016021 alt_id: GO:0098589 alt_id: GO:0098805 def: "A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it." [GOC:dos, GOC:mah, ISBN:0815316194] subset: goslim_candida subset: goslim_chembl subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "integral component of membrane" NARROW [] synonym: "integral to membrane" NARROW [] synonym: "membrane region" NARROW [] synonym: "region of membrane" NARROW [] synonym: "transmembrane" RELATED [GOC:mah] synonym: "whole membrane" NARROW [] xref: Wikipedia:Biological_membrane xref: Wikipedia:Transmembrane_protein is_a: GO:0005575 ! cellular_component creation_date: 2014-03-06T11:37:54Z [Term] id: GO:0016050 name: vesicle organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vesicle." [GOC:mah] subset: goslim_pir subset: goslim_yeast synonym: "vesicle organisation" EXACT [] synonym: "vesicle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process [Term] id: GO:0016197 name: endosomal transport namespace: biological_process alt_id: GO:0032439 def: "The directed movement of substances mediated by an endosome, a membrane-bounded organelle that carries materials enclosed in the lumen or located in the endosomal membrane." [ISBN:0198506732] subset: goslim_yeast synonym: "endosome localisation" EXACT [GOC:mah] synonym: "endosome localization" RELATED [] synonym: "endosome transport" RELATED [GOC:bf] is_a: GO:0008150 ! biological_process relationship: occurs_in GO:0005575 ! cellular_component relationship: part_of GO:0008150 ! biological_process [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_metagenomics subset: goslim_plant subset: goslim_plant_ribbon 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:0016740 ! transferase activity [Term] id: GO:0016491 name: oxidoreductase activity namespace: molecular_function def: "Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced." [GOC:go_curators] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote subset: goslim_yeast synonym: "oxidoreductase activity, acting on other substrates" NARROW [] synonym: "redox activity" EXACT [] xref: EC:1.-.-.- xref: Reactome:R-HSA-1614362 "SUMF1 mediates the oxidation of cysteine to formylglycine, producing active arylsulfatases" xref: Reactome:R-HSA-209921 "Monoiodinated tyrosine can be deiodinated" xref: Reactome:R-HSA-209960 "Diiodinated tyrosine can be deiodinated" xref: Reactome:R-HSA-3095889 "MMACHC dealkylates RCbl" xref: Reactome:R-HSA-390425 "FAR1 reduces PalmCoA to HXOL" xref: Reactome:R-HSA-390438 "FAR2 reduces PalmCoA to HXOL" xref: Reactome:R-HSA-5662660 "Dopachrome is transformed to DHICA by DCT" xref: Reactome:R-HSA-8878581 "TYRP1 oxidises DHICA to IQCA" xref: Reactome:R-HSA-8936442 "MARC1,MARC2 reduce N-hydroxylated compounds" xref: Reactome:R-HSA-9020249 "Hydroperoxy reductase reduces 4(S)-Hp-17(S)-HDHA to RvD6" xref: Reactome:R-HSA-9020260 "Hydroperoxy reducatse reduces 7(S)-Hp-17(S)-HDHA to RvD5" xref: Reactome:R-HSA-9024624 "Hydroperoxy reductase reduces 4(S)-Hp-17(R)-HDHA to AT-RvD6" xref: Reactome:R-HSA-9024630 "Hydroperoxy reductase reduces 7(S)-Hp-17(R)-HDHA to AT-RvD5" xref: Reactome:R-HSA-9025007 "Hydroperoxy reductase reduces 7(S),14(S)-diHp-DHA to 7-epi-MaR1" xref: Reactome:R-HSA-9026001 "Hydroperoxy reductase reduces 7,17-diHp-DPAn-3 to RvD5n-3DPA" xref: Reactome:R-HSA-9026917 "Lipoxygenase dehydrogenates 7(S),17(S)-diHp-DHA to 7S(8)-epoxy-17(S)-HDHA" xref: Reactome:R-HSA-9027033 "Hydroperoxy reducatase reduces 14(S)-Hp-DHA to 14(S)-HDHA" xref: Reactome:R-HSA-9693722 "Unknown sepiapterin synthase transforms PTHP to sepiapterin" is_a: GO:0003674 ! molecular_function [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_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote 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-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:0003674 ! molecular_function [Term] id: GO:0016757 name: glycosyltransferase activity namespace: molecular_function alt_id: GO:0016932 def: "Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor)." [GOC:jl, ISBN:0198506732] subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "transferase activity, transferring glycosyl groups" EXACT [] synonym: "transferase activity, transferring other glycosyl groups" NARROW [] synonym: "transglycosidase activity" EXACT [] synonym: "transglycosylase activity" EXACT [] xref: EC:2.4.-.- xref: Reactome:R-HSA-5173005 "B3GALTL transfers glucose to O-fucosyl-proteins" xref: Reactome:R-HSA-6785565 "Defective B3GALTL does not transfer glucose to O-fucosyl-proteins" is_a: GO:0016740 ! transferase activity [Term] id: GO:0016779 name: nucleotidyltransferase activity namespace: molecular_function def: "Catalysis of the transfer of a nucleotidyl group to a reactant." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_yeast xref: EC:2.7.7.- xref: Reactome:R-HSA-6782434 "THG1L transfers GMP to 5' end of tRNA(His)" is_a: GO:0016740 ! transferase activity [Term] id: GO:0016787 name: hydrolase activity namespace: molecular_function def: "Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote subset: goslim_yeast xref: EC:3.-.-.- xref: Reactome:R-HSA-1236938 "Partial proteolysis of antigen in phagolysosomes" xref: Reactome:R-HSA-2029475 "Production of AA by iPLA2 upon FCGR activation" xref: Reactome:R-HSA-5694583 "ABHD4 hydrolyses NAPE" xref: Reactome:R-HSA-5695964 "ABHD14B hydrolyses PNPB" xref: Reactome:R-HSA-6786190 "CMBL hydrolyses OM to OLMS" xref: Reactome:R-HSA-6788295 "HDHD1:Mg2+ dephosphorylates PURIDP" xref: Reactome:R-HSA-8938314 "ENPPs hydrolyse CoA-SH to PPANT, PAP" xref: Reactome:R-HSA-8952137 "Phospholipid phosphatase 6 hydrolyses Presqualene diphosphate to presqualene monophosphate" is_a: GO:0003674 ! molecular_function [Term] id: GO:0016791 name: phosphatase activity namespace: molecular_function alt_id: GO:0003869 alt_id: GO:0016302 def: "Catalysis of the hydrolysis of phosphoric monoesters, releasing phosphate ions." [GOC:curators, GOC:pg] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_yeast synonym: "phosphatase" RELATED [] synonym: "phosphoric monoester hydrolase activity" EXACT [] xref: EC:3.1.3.- xref: Reactome:R-HSA-4419986 "Unknown pPPP phosphatase dephosphorylates pPPP to pPNOL" xref: Reactome:R-HSA-9636457 "SapM dephosphorylates PI3P" xref: Reactome:R-HSA-9837419 "PANK4 hydrolyzes PPANT to pantetheine" is_a: GO:0016787 ! hydrolase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25755" xsd:anyURI [Term] id: GO:0016798 name: hydrolase activity, acting on glycosyl bonds namespace: molecular_function def: "Catalysis of the hydrolysis of any glycosyl bond." [GOC:jl] subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "glycosidase activity" EXACT [] synonym: "glycosylase" NARROW [] synonym: "N-glycosylase" NARROW [] xref: EC:3.2.-.- xref: Reactome:R-HSA-1793176 "DS is cleaved from its proteoglycan" xref: Reactome:R-HSA-2065233 "CS is cleaved from its proteoglycan" is_a: GO:0016787 ! hydrolase activity [Term] id: GO:0016829 name: lyase activity namespace: molecular_function def: "Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring." [ISBN:0198547684] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote subset: goslim_yeast xref: EC:4.-.-.- xref: Reactome:R-HSA-5696408 "PXLP-K278-PHYKPL tetramer hydrolyses 5PHL" xref: Reactome:R-HSA-6782895 "TYW1:FMN:4Fe-4S transforms 1-methylguanosine yielding yW-187 (4-demethylwyosine) at nucleotide 37 of tRNA(Phe)" is_a: GO:0003674 ! molecular_function [Term] id: GO:0016853 name: isomerase activity namespace: molecular_function def: "Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5." [ISBN:0198506732] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_prokaryote subset: goslim_yeast synonym: "other isomerase activity" NARROW [] xref: EC:5.-.-.- xref: Reactome:R-HSA-6787623 "TSTA3 dimer epimerises GDP-DHDMan to GDP-KDGal" is_a: GO:0003674 ! molecular_function [Term] id: GO:0016874 name: ligase activity namespace: molecular_function def: "Catalysis of the joining of two molecules, or two groups within a single molecule, using the energy from the hydrolysis of ATP, a similar triphosphate, or a pH gradient." [GOC:mah] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_prokaryote subset: goslim_yeast synonym: "synthetase activity" EXACT [GOC:jh2] xref: EC:6.-.-.- is_a: GO:0003674 ! molecular_function property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19380" xsd:anyURI [Term] id: GO:0018193 name: peptidyl-amino acid modification namespace: biological_process def: "The alteration of an amino acid residue in a peptide." [GOC:mah] subset: gocheck_do_not_annotate subset: goslim_yeast is_a: GO:0008150 ! biological_process [Term] id: GO:0019843 name: rRNA binding namespace: molecular_function alt_id: GO:0000944 def: "Binding to a ribosomal RNA." [GOC:jl] subset: goslim_chembl subset: goslim_yeast synonym: "base pairing with rRNA" NARROW [] is_a: GO:0003723 ! RNA binding [Term] id: GO:0019899 name: enzyme binding namespace: molecular_function def: "Binding to an enzyme, a protein with catalytic activity." [GOC:jl] subset: goslim_chembl subset: goslim_yeast is_a: GO:0003674 ! molecular_function [Term] id: GO:0022857 name: transmembrane transporter activity namespace: molecular_function alt_id: GO:0005386 alt_id: GO:0015563 alt_id: GO:0015646 alt_id: GO:0022891 alt_id: GO:0022892 def: "Enables the transfer of a substance, usually a specific substance or a group of related substances, from one side of a membrane to the other." [GOC:jid, GOC:mtg_transport, ISBN:0815340729] subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "substrate-specific transmembrane transporter activity" RELATED [] synonym: "substrate-specific transporter activity" RELATED [] synonym: "uptake permease activity" RELATED [] synonym: "uptake transmembrane transporter activity" RELATED [] xref: Reactome:R-HSA-1236947 "Egress of internalized antigen to the cytosol via sec61" xref: Reactome:R-HSA-429036 "SLC2A9 transports Fru, Glc, urate" xref: Reactome:R-HSA-434650 "MATEs mediate extrusion of xenobiotics" xref: Reactome:R-HSA-5638209 "Defective SLC2A9 does not transport Fru, Glc, urate" xref: Reactome:R-HSA-5671707 "Fe3+ dissociates from SLC22A17:LCN2:2,5DHBA" xref: Reactome:R-HSA-6784434 "An unknown carrier transports cytosolic glyoxylate to the peroxisome" xref: Reactome:R-HSA-6784436 "An unknown carrier transports mitochondrial glyoxylate to the cytosol" is_a: GO:0003674 ! molecular_function relationship: part_of GO:0055085 ! transmembrane transport [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 [] is_a: GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process created_by: jl creation_date: 2010-02-16T09:30:50Z [Term] id: GO:0030234 name: enzyme regulator activity namespace: molecular_function alt_id: GO:0010576 def: "Binds to and modulates the activity of an enzyme." [GOC:dph, GOC:mah, GOC:tb] comment: This term should only be used in cases when the regulator directly interacts with the enzyme. subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_plant_ribbon subset: goslim_yeast synonym: "catalytic regulator activity" EXACT [GOC:dph] synonym: "enzyme modulator" EXACT [] synonym: "metalloenzyme regulator activity" NARROW [] is_a: GO:0003674 ! molecular_function relationship: has_part GO:0003674 ! molecular_function [Term] id: GO:0030427 name: site of polarized growth namespace: cellular_component alt_id: GO:0000134 alt_id: GO:0030483 def: "Any part of a cell where non-isotropic growth takes place." [GOC:mah] subset: goslim_candida subset: goslim_pir subset: goslim_yeast is_a: GO:0005575 ! cellular_component [Term] id: GO:0030533 name: triplet codon-amino acid adaptor activity namespace: molecular_function def: "The codon binding activity of a tRNA that positions an activated amino acid, mediating its insertion at the correct point in the sequence of a nascent polypeptide chain during protein synthesis." [GOC:hjd, GOC:mtg_MIT_16mar07, ISBN:0198506732] comment: Note that this term can be used in place of the obsolete term 'transfer RNA ; GO:0005563'. subset: goslim_candida subset: goslim_chembl subset: goslim_yeast synonym: "transfer RNA" RELATED [] synonym: "tRNA" RELATED [] is_a: GO:0003729 ! mRNA binding relationship: has_part GO:0003674 ! molecular_function relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0030555 name: RNA modification guide activity namespace: molecular_function def: "Specifies the site of a posttranscriptional modification in an RNA molecule by base pairing with a short sequence around the target residue." [GOC:mah, PMID:12457565] comment: Note that this term describes the activity of a nucleic acid, usually RNA, gene product that interacts with other RNA molecules via base pairing; it should not be used to annotate proteins. subset: goslim_yeast is_a: GO:0003723 ! RNA binding [Term] id: GO:0030674 name: protein-macromolecule adaptor activity namespace: molecular_function def: "The binding activity of a protein that brings together two or more macromolecules in contact, permitting those molecules to function in a coordinated way. The adaptor can bring together two proteins, or a protein and another macromolecule such as a lipid or a nucleic acid." [GOC:bf, GOC:mah, GOC:vw] subset: goslim_chembl subset: goslim_yeast synonym: "protein binding, bridging" EXACT [] synonym: "protein recruiting activity" RELATED [] synonym: "protein-protein adaptor" NARROW [] is_a: GO:0003674 ! molecular_function relationship: has_part GO:0003674 ! molecular_function property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/18655" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19409" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22925" xsd:anyURI [Term] id: GO:0031399 name: regulation of protein modification process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the covalent alteration of one or more amino acid residues within a protein." [GOC:mah, GOC:tb] subset: goslim_yeast is_a: GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process [Term] id: GO:0031410 name: cytoplasmic vesicle namespace: cellular_component alt_id: GO:0016023 def: "A vesicle found in the cytoplasm of a cell." [GOC:ai, GOC:mah, GOC:vesicles] subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_generic subset: goslim_mouse subset: goslim_yeast synonym: "cytoplasmic membrane bounded vesicle" RELATED [] synonym: "cytoplasmic membrane-enclosed vesicle" RELATED [] synonym: "cytoplasmic, membrane-bounded vesicle" RELATED [] xref: NIF_Subcellular:sao180601769 is_a: GO:0005575 ! cellular_component relationship: has_part GO:0016020 ! membrane relationship: part_of GO:0005737 ! cytoplasm [Term] id: GO:0032182 name: ubiquitin-like protein binding namespace: molecular_function def: "Binding to a small conjugating protein such as ubiquitin or a ubiquitin-like protein." [GOC:mah] subset: goslim_chembl subset: goslim_yeast synonym: "small conjugating protein binding" EXACT [GOC:dph] is_a: GO:0003674 ! molecular_function [Term] id: GO:0032196 name: transposition namespace: biological_process def: "Any process involved in mediating the movement of discrete segments of DNA between nonhomologous sites. For elements that are transcribed as the first step of transposition, the process starts with the transcription of the transposable element, its translation and maturation, and ending with integration into DNA. For elements that are cut out, the process starts with the excision of the donor DNA and integrated into another site." [ISBN:1555812090, PMID:14682279, PMID:25893143] subset: goslim_candida subset: goslim_chembl subset: goslim_pir subset: goslim_yeast xref: Wikipedia:Transposon is_a: GO:0008150 ! biological_process [Term] id: GO:0032200 name: telomere organization namespace: biological_process def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of telomeres, terminal regions of a linear chromosome that include the telomeric DNA repeats and associated proteins." [GOC:dph, GOC:jl, GOC:mah] subset: goslim_generic subset: goslim_pombe subset: goslim_yeast synonym: "chromosome organization, telomeric" EXACT [] synonym: "organization of chromosome, telomeric region" EXACT [] synonym: "telomere organisation" EXACT [GOC:mah] synonym: "telomere organization and biogenesis" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process [Term] id: GO:0032543 name: mitochondrial translation namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a protein in a mitochondrion. This is a ribosome-mediated process in which the information in messenger RNA (mRNA) is used to specify the sequence of amino acids in the protein; the mitochondrion has its own ribosomes and transfer RNAs, and uses a genetic code that differs from the nuclear code." [GOC:go_curators] subset: goslim_yeast synonym: "mitochondrial protein anabolism" EXACT [] synonym: "mitochondrial protein biosynthesis" EXACT [] synonym: "mitochondrial protein formation" EXACT [] synonym: "mitochondrial protein synthesis" EXACT [] synonym: "mitochondrial protein translation" EXACT [] is_a: GO:0008150 ! biological_process relationship: has_part GO:0006414 ! translational elongation relationship: occurs_in GO:0005739 ! mitochondrion relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0032787 name: monocarboxylic acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving monocarboxylic acids, any organic acid containing one carboxyl (COOH) group or anion (COO-)." [GOC:vk] subset: goslim_yeast synonym: "monocarboxylate metabolic process" EXACT [] synonym: "monocarboxylic acid metabolism" EXACT [] is_a: GO:0008150 ! biological_process [Term] id: GO:0033043 name: regulation of organelle organization namespace: biological_process def: "Any process that modulates the frequency, rate or extent of a process involved in the formation, arrangement of constituent parts, or disassembly of an organelle." [GOC:mah] subset: goslim_yeast synonym: "regulation of organelle organisation" EXACT [GOC:mah] synonym: "regulation of organelle organization and biogenesis" RELATED [GOC:mah] is_a: GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process [Term] id: GO:0042221 name: response to chemical namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:jl] comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC. subset: gocheck_do_not_annotate subset: goslim_candida subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant subset: goslim_plant_ribbon subset: goslim_yeast synonym: "response to chemical stimulus" EXACT [GOC:dos] synonym: "response to chemical substance" EXACT [] is_a: GO:0008150 ! biological_process [Term] id: GO:0042255 name: ribosome assembly namespace: biological_process alt_id: GO:0042257 def: "The aggregation, arrangement and bonding together of the mature ribosome and of its subunits." [GOC:ma, PMID:30467428] subset: goslim_yeast synonym: "ribosomal subunit assembly" NARROW [GOC:mah, GOC:vw] is_a: GO:0070925 ! organelle assembly [Term] id: GO:0042273 name: ribosomal large subunit biogenesis namespace: biological_process def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a large ribosomal subunit; includes transport to the sites of protein synthesis." [GOC:jl] subset: goslim_yeast synonym: "ribosomal large subunit biogenesis and assembly" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0042274 name: ribosomal small subunit biogenesis namespace: biological_process def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a small ribosomal subunit; includes transport to the sites of protein synthesis." [GOC:jl] subset: goslim_yeast synonym: "ribosomal small subunit biogenesis and assembly" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0042393 name: histone binding namespace: molecular_function def: "Binding to a histone, any of a group of water-soluble proteins found in association with the DNA of eukaryotic or archaeal chromosomes. They are involved in the condensation and coiling of chromosomes during cell division and have also been implicated in gene regulation and DNA replication. They may be chemically modified (methylated, acetlyated and others) to regulate gene transcription." [GOC:jl, PMID:16209651, PMID:30212449, PMID:9305837] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote subset: goslim_yeast synonym: "histone-specific chaperone activity" RELATED [] is_a: GO:0003674 ! molecular_function property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23106" xsd:anyURI [Term] id: GO:0042594 name: response to starvation namespace: biological_process def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a starvation stimulus, deprivation of nourishment." [GOC:go_curators] subset: goslim_yeast is_a: GO:0008150 ! biological_process [Term] id: GO:0043144 name: sno(s)RNA processing namespace: biological_process def: "Any process involved in the conversion of a primary snoRNA family RNA transcript into a mature snoRNA (eukaryota) or sRNA (archaea)." [GOC:go_curators, GOC:krc, PMID:12773397] subset: goslim_yeast is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20416" xsd:anyURI [Term] id: GO:0043167 name: ion binding namespace: molecular_function def: "Binding to an ion, a charged atoms or groups of atoms." [GOC:jl] subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_metagenomics subset: goslim_pir subset: goslim_yeast synonym: "atom binding" RELATED [] is_a: GO:0003674 ! molecular_function property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI [Term] id: GO:0043543 name: protein acylation namespace: biological_process def: "The addition of an acyl group, any group or radical of the form RCO- where R is an organic group, to a protein amino acid." [GOC:jl] subset: gocheck_do_not_annotate subset: goslim_yeast synonym: "protein amino acid acylation" EXACT [GOC:bf] is_a: GO:0008150 ! biological_process [Term] id: GO:0043934 name: sporulation namespace: biological_process def: "The process whose specific outcome is the progression of a spore over time, from its initiation to the mature structure. A spore is a structure that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction." [GOC:pamgo_curators] subset: goslim_metagenomics subset: goslim_yeast xref: Wikipedia:Spore is_a: GO:0008150 ! biological_process [Term] id: GO:0045333 name: cellular respiration namespace: biological_process def: "The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which either requires oxygen (aerobic respiration) or does not (anaerobic respiration)." [GOC:das, ISBN:0140513590, ISBN:0198506732] subset: goslim_candida subset: goslim_pir subset: goslim_yeast synonym: "oxidative metabolic process" EXACT [] synonym: "oxidative metabolism" EXACT [] synonym: "respiration" BROAD [] xref: Wikipedia:Cellular_respiration is_a: GO:0006091 ! generation of precursor metabolites and energy [Term] id: GO:0048193 name: Golgi vesicle transport namespace: biological_process def: "The directed movement of substances into, out of or within the Golgi apparatus, mediated by vesicles." [GOC:jid, ISBN:0716731363, PMID:10219233] subset: goslim_yeast synonym: "Golgi-derived vesicle transport" RELATED [] is_a: GO:0008150 ! biological_process [Term] id: GO:0048284 name: organelle fusion namespace: biological_process def: "The creation of a single organelle from two or more organelles." [GOC:jid] subset: goslim_pir subset: goslim_yeast is_a: GO:0008150 ! biological_process [Term] id: GO:0048285 name: organelle fission namespace: biological_process def: "The creation of two or more organelles by division of one organelle." [GOC:jid] subset: goslim_pir subset: goslim_yeast is_a: GO:0008150 ! biological_process [Term] id: GO:0048308 name: organelle inheritance namespace: biological_process def: "The partitioning of organelles between daughter cells at cell division." [GOC:jid] subset: goslim_pir subset: goslim_yeast is_a: GO:0008150 ! biological_process [Term] id: GO:0051049 name: regulation of transport namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore." [GOC:ai] subset: goslim_yeast is_a: GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process [Term] id: GO:0051052 name: regulation of DNA metabolic process namespace: biological_process def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving DNA." [GOC:ai] subset: goslim_yeast synonym: "regulation of DNA metabolism" EXACT [] is_a: GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process [Term] id: GO:0051082 name: unfolded protein binding namespace: molecular_function def: "Binding to an unfolded protein." [GOC:ai] subset: goslim_chembl subset: goslim_drosophila subset: goslim_yeast synonym: "chaperone activity" BROAD [] xref: Reactome:R-HSA-9683772 "Trimmed spike protein binds to calnexin" xref: Reactome:R-HSA-9694337 "Trimmed spike protein binds to calnexin" is_a: GO:0003674 ! molecular_function property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21436" xsd:anyURI [Term] id: GO:0051169 name: nuclear transport namespace: biological_process def: "The directed movement of substances into, out of, or within the nucleus." [GOC:ai] subset: goslim_yeast synonym: "nucleus transport" EXACT [] xref: Wikipedia:Nuclear_transport is_a: GO:0008150 ! biological_process relationship: occurs_in GO:0005575 ! cellular_component relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0051321 name: meiotic cell cycle namespace: biological_process alt_id: GO:0007126 def: "Progression through the phases of the meiotic cell cycle, in which canonically a cell replicates to produce four offspring with half the chromosomal content of the progenitor cell via two nuclear divisions." [GOC:ai] comment: Note that this term should not be confused with 'GO:0140013 ; meiotic nuclear division'. 'GO:0051321 ; meiotic cell cycle represents the entire mitotic cell cycle, while 'GO:0140013 meiotic nuclear division' specifically represents the actual nuclear division step of the mitotic cell cycle. subset: goslim_drosophila subset: goslim_yeast synonym: "meiosis" RELATED [] xref: Wikipedia:Meiosis is_a: GO:0008150 ! biological_process relationship: has_part GO:0048285 ! organelle fission relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24599" xsd:anyURI [Term] id: GO:0051603 name: proteolysis involved in protein catabolic process namespace: biological_process def: "The hydrolysis of a peptide bond or bonds within a protein as part of the chemical reactions and pathways resulting in the breakdown of a protein by individual cells." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_yeast synonym: "peptidolysis during cellular protein catabolic process" RELATED [] synonym: "peptidolysis during cellular protein catabolism" RELATED [] synonym: "peptidolysis involved in cellular protein catabolic process" EXACT [] synonym: "peptidolysis involved in cellular protein catabolism" EXACT [] synonym: "proteolysis during cellular protein catabolic process" RELATED [] synonym: "proteolysis during cellular protein catabolism" RELATED [] synonym: "proteolysis involved in cellular protein catabolic process" EXACT [] is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI [Term] id: GO:0051604 name: protein maturation namespace: biological_process def: "Any process leading to the attainment of the full functional capacity of a protein." [GOC:ai] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process [Term] id: GO:0051726 name: regulation of cell cycle namespace: biological_process alt_id: GO:0000074 alt_id: GO:0007050 alt_id: GO:0071156 alt_id: GO:0071157 alt_id: GO:0071158 alt_id: GO:0071850 def: "Any process that modulates the rate or extent of progression through the cell cycle." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_yeast synonym: "arrest of mitotic cell cycle progression" NARROW [GOC:mah] synonym: "cell cycle arrest" NARROW [] synonym: "cell cycle modulation" EXACT [] synonym: "cell cycle regulation" EXACT [] synonym: "cell cycle regulator" RELATED [] synonym: "control of cell cycle progression" EXACT [] synonym: "mitotic cell cycle arrest" NARROW [] synonym: "modulation of cell cycle progression" EXACT [] synonym: "negative regulation of cell cycle arrest" NARROW [] synonym: "positive regulation of cell cycle arrest" NARROW [] synonym: "regulation of cell cycle arrest" NARROW [] synonym: "regulation of cell cycle progression" EXACT [] synonym: "regulation of progression through cell cycle" EXACT [] synonym: "tumor suppressor" RELATED [] is_a: GO:0008150 ! biological_process relationship: regulates GO:0008150 ! biological_process [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 [] is_a: GO:0008150 ! biological_process created_by: tb creation_date: 2015-10-21T13:22:47Z [Term] id: GO:0055086 name: nucleobase-containing small molecule metabolic process namespace: biological_process def: "The cellular chemical reactions and pathways involving a nucleobase-containing small molecule: a nucleobase, a nucleoside, or a nucleotide." [GOC:vw] subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast synonym: "nucleobase, nucleoside and nucleotide metabolic process" RELATED [] synonym: "nucleobase, nucleoside and nucleotide metabolism" EXACT [] is_a: GO:0008150 ! biological_process [Term] id: GO:0061025 name: membrane fusion namespace: biological_process alt_id: GO:0006944 alt_id: GO:0044801 def: "The membrane organization process that joins two lipid bilayers to form a single membrane." [GOC:dph, GOC:tb] subset: goslim_yeast synonym: "cellular membrane fusion" EXACT [] synonym: "single-organism membrane fusion" RELATED [] xref: Wikipedia:Lipid_bilayer_fusion is_a: GO:0008150 ! biological_process created_by: jl creation_date: 2010-02-08T02:48:06Z [Term] id: GO:0070647 name: protein modification by small protein conjugation or removal namespace: biological_process def: "A protein modification process in which one or more groups of a small protein, such as ubiquitin or a ubiquitin-like protein, are covalently attached to or removed from a target protein." [GOC:mah] subset: goslim_drosophila subset: goslim_pombe subset: goslim_yeast is_a: GO:0008150 ! biological_process created_by: mah creation_date: 2009-05-11T02:54:03Z [Term] id: GO:0070925 name: organelle assembly namespace: biological_process def: "The aggregation, arrangement and bonding together of a set of components to form an organelle. An organelle is an organized structure of distinctive morphology and function. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane." [GOC:mah] subset: goslim_yeast is_a: GO:0008150 ! biological_process relationship: part_of GO:0008150 ! biological_process created_by: mah creation_date: 2009-09-15T03:00:51Z [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 [] is_a: GO:0008150 ! biological_process created_by: mah creation_date: 2010-01-13T03:19:38Z [Term] id: GO:0140657 name: ATP-dependent activity namespace: molecular_function def: "A molecular function characterized by the coupling of ATP hydrolysis to other steps of a reaction mechanism to make the reaction energetically favorable, for example to catalyze a reaction or drive transport against a concentration gradient." [PMID:24878343, PMID:25750732, PMID:32933017, PMID:33818025, PMID:33873056, PMID:33988324] comment: Note that this term represents a grouping class that includes all proteins that use ATP hydrolysis to drive a reaction; it is not meant to capture the ATP hydrolysis reaction itself. To annotate ATP hydrolysis, please use 'ATP hydrolysis activity ; GO:0016887'. subset: gocheck_do_not_annotate subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote subset: goslim_yeast synonym: "ATP hydrolysis-dependent activity" EXACT [] synonym: "ATPase activity" EXACT [] synonym: "ATPase activity, coupled" EXACT [] synonym: "ATPase-dependent activity" EXACT [] is_a: GO:0003674 ! molecular_function relationship: has_part GO:0016787 ! hydrolase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21612" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22371" xsd:anyURI created_by: pg creation_date: 2021-06-15T07:35:06Z [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