format-version: 1.2 data-version: go/2024-01-04/subsets/goslim_drosophila.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_do_not_manually_annotate "Term not to be used for direct manual annotation" 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_flybase_ribbon "FlyBase Drosophila 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_pombe "Fission yeast GO slim" subsetdef: goslim_prokaryote "GO subset for prokaryotes" 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_drosophila property_value: owl:versionInfo "2024-01-04" xsd:string [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 [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 [] [Term] id: GO:0002520 name: immune system development namespace: biological_process def: "The process whose specific outcome is the progression of an organismal system whose objective is to provide calibrated responses by an organism to a potential internal or invasive threat, over time, from its formation to the mature structure. A system is a regularly interacting or interdependent group of organs or tissues that work together to carry out a given biological process." [GOC:add, GOC:dph] subset: goslim_drosophila [Term] id: GO:0003012 name: muscle system process namespace: biological_process def: "A organ system process carried out at the level of a muscle. Muscle tissue is composed of contractile cells or fibers." [GOC:mtg_cardio] subset: goslim_drosophila subset: goslim_generic synonym: "muscle physiological process" RELATED [] [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_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant subset: goslim_prokaryote subset: goslim_yeast synonym: "microtubule/chromatin interaction" RELATED [] synonym: "plasmid binding" NARROW [] synonym: "structure specific DNA binding" RELATED [] synonym: "structure-specific DNA binding" RELATED [] [Term] id: GO: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 [] [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 [] relationship: has_part GO:0003677 ! DNA binding relationship: part_of GO:0006355 ! regulation of DNA-templated transcription 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:0003712 name: transcription coregulator activity namespace: molecular_function alt_id: GO:0001104 alt_id: GO:0016455 def: "A transcription regulator activity that modulates the transcription of specific gene sets via binding to a DNA-bound DNA-binding transcription factor, either on its own or as part of a complex. Coregulators often act by altering chromatin structure and modifications. For example, one class of transcription coregulators modifies chromatin structure through covalent modification of histones. A second class remodels the conformation of chromatin in an ATP-dependent fashion. A third class modulates interactions of DNA-bound DNA-binding transcription factors with other transcription coregulators." [GOC:txnOH-2018, PMID:10213677, PMID:16858867, PMID:24203923, PMID:25957681, Wikipedia:Transcription_coregulator] comment: Usage guidance: Most transcription coregulators do not bind DNA. Those that do usually bind DNA either in a non-specific or non-direct manner. If a protein binds DNA specifically, consider annotating to GO:0003700 DNA binding transcription factor activity. subset: goslim_drosophila synonym: "RNA polymerase II transcriptional cofactor activity" RELATED [] synonym: "transcription cofactor activity" EXACT [] synonym: "transcriptional co-regulator" EXACT [] is_a: GO:0060090 ! molecular adaptor activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15536" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15665" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15998" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20464" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20862" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20962" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26489" xsd:anyURI created_by: krc creation_date: 2010-11-24T03:02:15Z [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_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant subset: goslim_prokaryote subset: goslim_yeast synonym: "base pairing with RNA" NARROW [] synonym: "poly(A) RNA binding" RELATED [] synonym: "poly(A)-RNA binding" RELATED [] synonym: "poly-A RNA binding" RELATED [] xref: Reactome:R-HSA-203922 "Exportin-5 recognizes 3' overhang of pre-miRNA" [Term] id: GO: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 [] [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: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:0005200 name: structural constituent of cytoskeleton namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of a cytoskeletal structure." [GOC:mah] subset: goslim_drosophila relationship: occurs_in GO:0005856 ! cytoskeleton relationship: part_of GO:0007010 ! cytoskeleton organization [Term] id: GO:0005201 name: extracellular matrix structural constituent namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of the extracellular matrix." [GOC:mah] comment: Extracellular matrix glycoproteins may be annotated to this term. PMID:24443019 subset: goslim_drosophila synonym: "core extracellular matrix" BROAD [] synonym: "core matrisome" BROAD [] synonym: "extracellular matrix glycoprotein" NARROW [] relationship: occurs_in GO:0031012 ! extracellular matrix [Term] id: GO:0005615 name: extracellular space namespace: cellular_component def: "That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid." [ISBN:0198547684] comment: Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism that are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote synonym: "intercellular space" RELATED [] xref: NIF_Subcellular:sao1425028079 [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_flybase_ribbon subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "cell nucleus" EXACT [] synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757] xref: NIF_Subcellular:sao1702920020 xref: Wikipedia:Cell_nucleus [Term] id: GO: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_yeast synonym: "chromatid" RELATED [] synonym: "interphase chromosome" NARROW [] synonym: "prophase chromosome" NARROW [] xref: Wikipedia:Chromosome [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 relationship: part_of GO:0005634 ! nucleus [Term] id: GO:0005739 name: mitochondrion namespace: cellular_component def: "A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration." [GOC:giardia, ISBN:0198506732] comment: Some anaerobic or microaerophilic organisms (e.g. Entamoeba histolytica, Giardia intestinalis and several Microsporidia species) do not have mitochondria, and contain mitochondrion-related organelles (MROs) instead, called mitosomes or hydrogenosomes, very likely derived from mitochondria. To annotate gene products located in these mitochondrial relics in species such as Entamoeba histolytica, Giardia intestinalis or others, please use GO:0032047 'mitosome' or GO:0042566 'hydrogenosome'. (See PMID:24316280 for a list of species currently known to contain mitochondrion-related organelles.) subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "mitochondria" EXACT [] xref: NIF_Subcellular:sao1860313010 xref: Wikipedia:Mitochondrion [Term] id: GO:0005768 name: endosome namespace: cellular_component def: "A vacuole to which materials ingested by endocytosis are delivered." [ISBN:0198506732, PMID:19696797] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant xref: NIF_Subcellular:sao1720343330 xref: Wikipedia:Endosome [Term] id: GO:0005773 name: vacuole namespace: cellular_component def: "A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol." [GOC:mtg_sensu, ISBN:0198506732] subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "vacuolar carboxypeptidase Y" RELATED [] xref: Wikipedia:Vacuole [Term] id: GO:0005777 name: peroxisome namespace: cellular_component alt_id: GO:0019818 def: "A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism." [GOC:pm, PMID:9302272, UniProtKB-KW:KW-0576] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_plant subset: goslim_yeast synonym: "peroxisomal" RELATED [] synonym: "peroxisome vesicle" BROAD [] xref: NIF_Subcellular:sao499555322 xref: Wikipedia:Peroxisome [Term] id: GO:0005783 name: endoplasmic reticulum namespace: cellular_component def: "The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached)." [ISBN:0198506732] subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "ER" EXACT [] xref: NIF_Subcellular:sao1036339110 xref: Wikipedia:Endoplasmic_reticulum [Term] id: GO:0005794 name: Golgi apparatus namespace: cellular_component def: "A membrane-bound cytoplasmic organelle of the endomembrane system that further processes the core oligosaccharides (e.g. N-glycans) added to proteins in the endoplasmic reticulum and packages them into membrane-bound vesicles. The Golgi apparatus operates at the intersection of the secretory, lysosomal, and endocytic pathways." [ISBN:0198506732] comment: Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon. subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_yeast synonym: "Golgi" BROAD [] synonym: "Golgi complex" EXACT [] synonym: "Golgi ribbon" NARROW [] xref: NIF_Subcellular:sao451912436 xref: Wikipedia:Golgi_apparatus [Term] id: GO:0005829 name: cytosol namespace: cellular_component def: "The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes." [GOC:hjd, GOC:jl] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_plant xref: NIF_Subcellular:sao101633890 xref: Wikipedia:Cytosol [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_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote subset: goslim_yeast xref: Wikipedia:Cytoskeleton [Term] id: GO:0005886 name: plasma membrane namespace: cellular_component alt_id: GO:0005887 alt_id: GO:0005904 def: "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." [ISBN:0716731363] subset: goslim_agr subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_plant subset: goslim_prokaryote subset: goslim_yeast synonym: "bacterial inner membrane" NARROW [] synonym: "cell membrane" EXACT [] synonym: "cellular membrane" EXACT [NIF_Subcellular:sao6433132645] synonym: "cytoplasmic membrane" EXACT [] synonym: "inner endospore membrane" NARROW [] synonym: "integral component of plasma membrane" NARROW [] synonym: "integral to plasma membrane" NARROW [] synonym: "juxtamembrane" BROAD [] synonym: "plasma membrane lipid bilayer" NARROW [GOC:mah] synonym: "plasmalemma" EXACT [] xref: NIF_Subcellular:sao1663586795 xref: Wikipedia:Cell_membrane [Term] id: GO:0005929 name: cilium namespace: cellular_component alt_id: GO:0072372 def: "A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface and of some cytoplasmic parts. Each cilium is largely bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored to a basal body." [GOC:cilia, GOC:curators, GOC:kmv, GOC:vw, ISBN:0198547684, PMID:16824949, PMID:17009929, PMID:20144998] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. In most eukaryotic species, intracellular sub-components of the cilium, such as the ciliary base and rootlet, are located near the plasma membrane. In Diplomonads such as Giardia, instead, the same ciliary parts are located further intracellularly. Also, 'cilium' may be used when axonemal structure and/or motility are unknown, or when axonemal structure is unusual. For all other cases, please refer to children of 'cilium'. Finally, note that any role of ciliary proteins in sensory events should be captured by annotating to relevant biological process terms. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir synonym: "eukaryotic flagellum" EXACT [] synonym: "flagellum" RELATED [] synonym: "microtubule-based flagellum" EXACT [] synonym: "primary cilium" NARROW [] xref: FMA:67181 xref: NIF_Subcellular:sao787716553 xref: Wikipedia:Cilium property_value: RO:0002161 NCBITaxon:3176 property_value: RO:0002161 NCBITaxon:3312 property_value: RO:0002161 NCBITaxon:3378 property_value: RO:0002161 NCBITaxon:3398 property_value: RO:0002161 NCBITaxon:4890 property_value: RO:0002161 NCBITaxon:5782 [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_pombe subset: goslim_prokaryote subset: goslim_yeast synonym: "carbohydrate metabolism" EXACT [] xref: Wikipedia:Carbohydrate_metabolism 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:0006066 name: alcohol metabolic process namespace: biological_process def: "The chemical reactions and pathways involving alcohols, any of a class of compounds containing one or more hydroxyl groups attached to a saturated carbon atom." [ISBN:0198506732] subset: goslim_drosophila subset: goslim_pir synonym: "alcohol metabolism" EXACT [] [Term] id: GO:0006090 name: pyruvate metabolic process namespace: biological_process alt_id: GO:0006087 def: "The chemical reactions and pathways involving pyruvate, 2-oxopropanoate." [GOC:go_curators] subset: goslim_drosophila synonym: "pyruvate dehydrogenase bypass" RELATED [] synonym: "pyruvate metabolism" EXACT [] xref: MetaCyc:P41-PWY xref: Wikipedia:Pyruvic_acid [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_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast synonym: "energy pathways" BROAD [] synonym: "intermediary metabolism" RELATED [GOC:mah] synonym: "metabolic energy generation" RELATED [] [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_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast xref: Wikipedia:DNA_replication 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_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast xref: Wikipedia:DNA_repair is_a: GO:0006950 ! response to stress [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_generic subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast [Term] id: GO:0006351 name: DNA-templated transcription namespace: biological_process alt_id: GO:0001121 alt_id: GO:0006350 alt_id: GO:0061018 alt_id: GO:0061022 def: "The synthesis of an RNA transcript from a DNA template." [GOC:jl, GOC:txnOH] subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote synonym: "bacterial transcription" NARROW [] synonym: "cellular transcription" BROAD [] synonym: "DNA-dependent transcription" EXACT [] synonym: "transcription" BROAD [] synonym: "transcription from bacterial-type RNA polymerase promoter" NARROW [] synonym: "transcription, DNA-dependent" EXACT [GOC:txnOH] synonym: "transcription, DNA-templated" EXACT [] xref: Wikipedia:Transcription_(genetics) property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14854" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16737" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22258" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22555" xsd:anyURI [Term] id: GO:0006355 name: regulation of DNA-templated transcription namespace: biological_process alt_id: GO:0032583 alt_id: GO:0045449 alt_id: GO:0061019 def: "Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription." [GOC:go_curators, GOC:txnOH] subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote synonym: "regulation of cellular transcription, DNA-dependent" EXACT [] synonym: "regulation of gene-specific transcription" RELATED [] synonym: "regulation of transcription, DNA-dependent" EXACT [GOC:txnOH] synonym: "regulation of transcription, DNA-templated" EXACT [] synonym: "transcriptional control" BROAD [] relationship: regulates GO:0006351 ! DNA-templated transcription property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25256" xsd:anyURI [Term] id: GO:0006396 name: RNA processing namespace: biological_process alt_id: GO:0006394 def: "Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules." [GOC:mah] subset: goslim_drosophila subset: goslim_pir xref: Wikipedia:Post-transcriptional_modification [Term] id: GO:0006399 name: tRNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving tRNA, transfer RNA, a class of relatively small RNA molecules responsible for mediating the insertion of amino acids into the sequence of nascent polypeptide chains during protein synthesis. Transfer RNA is characterized by the presence of many unusual minor bases, the function of which has not been completely established." [ISBN:0198506732] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe synonym: "tRNA metabolism" EXACT [] [Term] id: GO:0006403 name: RNA localization namespace: biological_process def: "A process in which RNA is transported to, or maintained in, a specific location." [GOC:ai] subset: goslim_drosophila synonym: "establishment and maintenance of RNA localization" EXACT [] synonym: "RNA localisation" EXACT [GOC:mah] [Term] id: GO:0006412 name: translation namespace: biological_process alt_id: GO:0006416 alt_id: GO:0006453 alt_id: GO:0043037 def: "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome." [GOC:go_curators] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote synonym: "protein anabolism" EXACT [] synonym: "protein biosynthesis" EXACT [] synonym: "protein biosynthetic process" EXACT [] synonym: "protein formation" EXACT [] synonym: "protein synthesis" EXACT [] synonym: "protein translation" EXACT [] xref: Wikipedia:Translation_(genetics) [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_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote 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 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: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 [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_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 [] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17904" xsd:anyURI [Term] id: GO:0006575 name: cellular modified amino acid metabolic process namespace: biological_process def: "The chemical reactions and pathways involving compounds derived from amino acids, organic acids containing one or more amino substituents." [GOC:ai] subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote synonym: "amino acid derivative metabolic process" EXACT [] synonym: "cellular amino acid derivative metabolic process" EXACT [] synonym: "cellular amino acid derivative metabolism" EXACT [] synonym: "cellular modified amino acid metabolism" EXACT [GOC:mah] synonym: "modified amino acid metabolic process" EXACT [GOC:mah] synonym: "modified amino acid metabolism" EXACT [GOC:mah] [Term] id: GO:0006595 name: polyamine metabolic process namespace: biological_process def: "The chemical reactions and pathways involving polyamines, any organic compound containing two or more amino groups." [ISBN:0198506732] subset: goslim_drosophila synonym: "polyamine metabolism" EXACT [] [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_generic subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_pombe subset: goslim_prokaryote subset: goslim_yeast synonym: "lipid metabolism" EXACT [] xref: Wikipedia:Lipid_metabolism [Term] id: GO:0006744 name: ubiquinone biosynthetic process namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of ubiquinone, a lipid-soluble electron-transporting coenzyme." [GOC:mah] subset: goslim_drosophila subset: goslim_pombe synonym: "coenzyme Q biosynthesis" EXACT [] synonym: "coenzyme Q biosynthetic process" EXACT [] synonym: "coenzyme Q10 biosynthesis" NARROW [] synonym: "coenzyme Q10 biosynthetic process" NARROW [] synonym: "coenzyme Q6 biosynthesis" NARROW [] synonym: "coenzyme Q6 biosynthetic process" NARROW [] synonym: "coenzyme Q8 biosynthesis" NARROW [] synonym: "coenzyme Q8 biosynthetic process" NARROW [] synonym: "coenzyme Q9 biosynthesis" NARROW [] synonym: "coenzyme Q9 biosynthetic process" NARROW [] synonym: "ubiquinone anabolism" EXACT [] synonym: "ubiquinone biosynthesis" EXACT [] synonym: "ubiquinone formation" EXACT [] synonym: "ubiquinone synthesis" EXACT [] xref: MetaCyc:UBISYN-PWY [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 [] [Term] id: GO:0006790 name: sulfur compound metabolic process namespace: biological_process def: "The chemical reactions and pathways involving the nonmetallic element sulfur or compounds that contain sulfur, such as the amino acids methionine and cysteine or the tripeptide glutathione." [GOC:ai] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote synonym: "sulfur metabolism" EXACT [] synonym: "sulphur metabolic process" EXACT [] synonym: "sulphur metabolism" EXACT [] xref: Wikipedia:Sulfur_metabolism [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 [] [Term] id: GO:0006839 name: mitochondrial transport namespace: biological_process def: "Transport of substances into, out of or within a mitochondrion." [GOC:ai] subset: goslim_drosophila property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22316" xsd:anyURI [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 [Term] id: GO:0006913 name: nucleocytoplasmic transport namespace: biological_process alt_id: GO:0000063 def: "The directed movement of molecules between the nucleus and the cytoplasm." [GOC:go_curators] comment: Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane, and is not traversed. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe synonym: "nucleocytoplasmic shuttling" NARROW [] [Term] id: GO:0006914 name: autophagy namespace: biological_process alt_id: GO:0016238 def: "The cellular catabolic process in which cells digest cellular materials, such as organelles and other macromolecular constituents, or non-self materials such as intracellular pathogens. Autophagy serves to provide essential nutrients under conditions of cellular stress; or can remodel intracellular structures during cell differentiation." [GOC:autophagy, ISBN:0198547684, PMID:11099404, PMID:29455577, PMID:9412464] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe xref: Wikipedia:Autophagy_(cellular) property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25541#issuecomment-1740659745" xsd:anyURI [Term] id: GO:0006950 name: response to 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 disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." [GOC:mah] 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_manually_annotate subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant synonym: "response to abiotic stress" RELATED [] synonym: "response to biotic stress" RELATED [] [Term] id: GO:0006955 name: immune response namespace: biological_process def: "Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat." [GO_REF:0000022, GOC:add] subset: goslim_drosophila [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] [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 organisation" EXACT [GOC:mah] synonym: "mitochondrion organization and biogenesis" RELATED [] [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] [Term] id: GO:0007018 name: microtubule-based movement namespace: biological_process def: "A microtubule-based process that results in the movement of organelles, other microtubules, or other cellular components. Examples include motor-driven movement along microtubules and movement driven by polymerization or depolymerization of microtubules." [GOC:cjm, ISBN:0815316194] subset: goslim_drosophila subset: goslim_generic [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] [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] [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 [Term] id: GO:0007155 name: cell adhesion namespace: biological_process alt_id: GO:0098602 def: "The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules." [GOC:hb, GOC:pf] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote synonym: "cell adhesion molecule activity" RELATED [] synonym: "single organism cell adhesion" RELATED [] xref: Wikipedia:Cell_adhesion created_by: dos creation_date: 2014-04-15T15:59:10Z [Term] id: GO:0007163 name: establishment or maintenance of cell polarity namespace: biological_process alt_id: GO:0030012 alt_id: GO:0030467 def: "Any cellular process that results in the specification, formation or maintenance of anisotropic intracellular organization or cell growth patterns." [GOC:mah] subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote synonym: "cell polarity" RELATED [GOC:mah, GOC:vw] synonym: "establishment and/or maintenance of cell polarity" RELATED [] synonym: "establishment and/or maintenance of cell polarization" RELATED [] [Term] id: GO:0007166 name: cell surface receptor signaling pathway namespace: biological_process def: "The series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription." [GOC:bf, GOC:mah, GOC:pr, GOC:signaling] subset: goslim_drosophila synonym: "cell surface receptor linked signal transduction" EXACT [] synonym: "cell surface receptor linked signaling pathway" EXACT [GOC:bf] synonym: "cell surface receptor linked signalling pathway" EXACT [GOC:mah] [Term] id: GO:0007186 name: G protein-coupled receptor signaling pathway namespace: biological_process alt_id: GO:0038042 def: "The series of molecular signals initiated by a ligand binding to its receptor, in which the activated receptor promotes the exchange of GDP for GTP on the alpha-subunit of an associated heterotrimeric G-protein complex. The GTP-bound activated alpha-G-protein then dissociates from the beta- and gamma-subunits to further transmit the signal within the cell. The pathway begins with receptor-ligand interaction, and ends with regulation of a downstream cellular process. The pathway can start from the plasma membrane, Golgi or nuclear membrane." [GOC:bf, GOC:mah, PMID:16902576, PMID:24568158, Wikipedia:G_protein-coupled_receptor] subset: goslim_drosophila synonym: "dimeric G-protein coupled receptor signaling pathway" NARROW [] synonym: "dimeric G-protein coupled receptor signalling pathway" NARROW [GOC:mah] synonym: "G protein coupled receptor protein signaling pathway" EXACT [] synonym: "G protein coupled receptor protein signalling pathway" EXACT [] synonym: "G-protein coupled receptor protein signal transduction" EXACT [] synonym: "G-protein coupled receptor protein signaling pathway" EXACT [GOC:bf] synonym: "G-protein coupled receptor signaling pathway via GPCR dimer" NARROW [GOC:bf] synonym: "G-protein coupled receptor signalling pathway" EXACT [] synonym: "G-protein-coupled receptor protein signalling pathway" EXACT [] synonym: "GPCR signaling pathway" EXACT [] synonym: "GPCR signalling pathway" EXACT [] [Term] id: GO:0007369 name: gastrulation namespace: biological_process def: "A complex and coordinated series of cellular movements that occurs at the end of cleavage during embryonic development of most animals. The details of gastrulation vary from species to species, but usually result in the formation of the three primary germ layers, ectoderm, mesoderm and endoderm." [GOC:curators, ISBN:9780878933846] subset: goslim_drosophila xref: Wikipedia:Gastrulation [Term] id: GO:0007389 name: pattern specification process namespace: biological_process def: "Any developmental process that results in the creation of defined areas or spaces within an organism to which cells respond and eventually are instructed to differentiate." [GOC:go_curators, GOC:isa_complete, ISBN:0521436125] subset: goslim_drosophila synonym: "pattern biosynthesis" RELATED [] synonym: "pattern formation" RELATED [] [Term] id: GO:0007399 name: nervous system development namespace: biological_process def: "The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state." [GOC:dgh] subset: goslim_drosophila synonym: "pan-neural process" RELATED [] [Term] id: GO:0007423 name: sensory organ development namespace: biological_process def: "The process whose specific outcome is the progression of sensory organs over time, from its formation to the mature structure." [GOC:go_curators] subset: goslim_drosophila synonym: "sense organ development" EXACT [GOC:dph] [Term] id: GO:0007431 name: salivary gland development namespace: biological_process def: "The process whose specific outcome is the progression of the salivary gland over time, from its formation to the mature structure. Salivary glands include any of the saliva-secreting exocrine glands of the oral cavity." [GOC:jid, UBERON:0001044] subset: goslim_drosophila [Term] id: GO:0007498 name: mesoderm development namespace: biological_process def: "The process whose specific outcome is the progression of the mesoderm over time, from its formation to the mature structure. The mesoderm is the middle germ layer that develops into muscle, bone, cartilage, blood and connective tissue." [GOC:dph, GOC:tb] subset: goslim_drosophila [Term] id: GO:0007600 name: sensory perception namespace: biological_process def: "The series of events required for an organism to receive a sensory stimulus, convert it to a molecular signal, and recognize and characterize the signal. This is a neurological process." [GOC:ai, GOC:dph] subset: goslim_drosophila xref: Wikipedia:Perception [Term] id: GO:0007623 name: circadian rhythm namespace: biological_process alt_id: GO:0050895 def: "Any biological process in an organism that recurs with a regularity of approximately 24 hours." [GOC:bf, GOC:go_curators] subset: goslim_drosophila subset: goslim_plant synonym: "circadian process" EXACT [] synonym: "circadian response" RELATED [] synonym: "response to circadian rhythm" RELATED [] xref: Wikipedia:Circadian_rhythm [Term] id: GO:0007626 name: locomotory behavior namespace: biological_process def: "The specific movement from place to place of an organism in response to external or internal stimuli. Locomotion of a whole organism in a manner dependent upon some combination of that organism's internal state and external conditions." [GOC:dph] subset: goslim_drosophila synonym: "behavior via locomotion" EXACT [] synonym: "locomotion in response to stimulus" EXACT [] synonym: "locomotory behavioral response to stimulus" EXACT [] synonym: "locomotory behaviour" EXACT [] synonym: "locomotory behavioural response to stimulus" EXACT [] [Term] id: GO:0008061 name: chitin binding namespace: molecular_function def: "Binding to chitin, a linear polysaccharide consisting of beta-(1->4)-linked N-acetyl-D-glucosamine residues." [GOC:jl, ISBN:0198506732] subset: goslim_drosophila [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 [Term] id: GO:0008104 name: protein localization namespace: biological_process alt_id: GO:0008105 alt_id: GO:0016249 alt_id: GO:0034613 def: "Any process in which a protein is transported to, or maintained in, a specific location." [GOC:ai] subset: goslim_drosophila synonym: "asymmetric protein localisation" RELATED [GOC:mah] synonym: "asymmetric protein localization" RELATED [] synonym: "cellular protein localisation" EXACT [GOC:mah] synonym: "cellular protein localization" EXACT [] synonym: "channel localizer activity" NARROW [GOC:mah] synonym: "establishment and maintenance of asymmetric protein localization" RELATED [] synonym: "establishment and maintenance of protein localization" RELATED [] synonym: "protein localisation" EXACT [GOC:mah] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI [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 [] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19354" xsd:anyURI [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: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:0008283 name: cell population proliferation namespace: biological_process def: "The multiplication or reproduction of cells, resulting in the expansion of a cell population." [GOC:mah, GOC:mb] comment: This term was moved out from being a child of 'cellular process' because it is a cell population-level process, and cellular processes are restricted to those processes that involve individual cells. Also note that this term is intended to be used for the proliferation of cells within a multicellular organism, not for the expansion of a population of single-celled organisms. subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir synonym: "cell proliferation" RELATED [] property_value: RO:0002161 NCBITaxon:4751 [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_flybase_ribbon subset: goslim_generic subset: goslim_mouse subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote subset: goslim_yeast [Term] id: GO:0009100 name: glycoprotein metabolic process namespace: biological_process def: "The chemical reactions and pathways involving glycoproteins, a protein that contains covalently bound glycose (i.e. monosaccharide) residues; the glycose occurs most commonly as oligosaccharide or fairly small polysaccharide but occasionally as monosaccharide." [GOC:go_curators, ISBN:0198506732] subset: goslim_drosophila synonym: "glycoprotein metabolism" EXACT [] [Term] id: GO:0009605 name: response to external stimulus 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 an external stimulus." [GOC:hb] 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_manually_annotate subset: goslim_drosophila subset: goslim_plant synonym: "response to environmental stimulus" EXACT [] [Term] id: GO:0010256 name: endomembrane system 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 the endomembrane system." [GOC:mah, GOC:sm] subset: goslim_drosophila synonym: "endomembrane organization" EXACT [] synonym: "endomembrane system organisation" EXACT [GOC:mah] [Term] id: GO:0010586 name: miRNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving miRNA, microRNA, a class of single-stranded RNA molecules of about 21-23 nucleotides in length, which regulates gene expression." [PMID:17993620] subset: goslim_drosophila synonym: "microRNA metabolic process" EXACT [] [Term] id: GO:0012501 name: programmed cell death namespace: biological_process alt_id: GO:0016244 def: "A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell." [GOC:lr, GOC:mtg_apoptosis] comment: Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children. subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant subset: goslim_prokaryote synonym: "caspase-independent apoptosis" RELATED [] synonym: "caspase-independent cell death" NARROW [] synonym: "non-apoptotic programmed cell death" NARROW [] synonym: "nonapoptotic programmed cell death" NARROW [] synonym: "PCD" RELATED [] synonym: "RCD" RELATED [] synonym: "regulated cell death" BROAD [] xref: Wikipedia:Programmed_cell_death property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24835" xsd:anyURI [Term] id: GO:0016049 name: cell growth namespace: biological_process alt_id: GO:0048591 def: "The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present." [GOC:ai] subset: gocheck_do_not_annotate subset: goslim_drosophila subset: goslim_pir subset: goslim_plant synonym: "cell expansion" RELATED [] synonym: "cellular growth" EXACT [] synonym: "growth of cell" EXACT [] synonym: "metabolic process resulting in cell growth" RELATED [] synonym: "metabolism resulting in cell growth" RELATED [] synonym: "non-developmental cell growth" RELATED [GOC:mah] synonym: "non-developmental growth of a unicellular organism" RELATED [GOC:mah] [Term] id: GO:0016071 name: mRNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes." [ISBN:0198506732] subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote synonym: "mRNA metabolism" EXACT [] [Term] id: GO:0016072 name: rRNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving rRNA, ribosomal RNA, a structural constituent of ribosomes." [ISBN:0198506732] subset: goslim_drosophila synonym: "rRNA metabolism" EXACT [] [Term] id: GO:0016073 name: snRNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving snRNA, small nuclear RNA, any of various low-molecular-mass RNA molecules found in the eukaryotic nucleus as components of the small nuclear ribonucleoprotein." [ISBN:0198506732] subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe synonym: "snRNA metabolism" EXACT [] [Term] id: GO:0016074 name: sno(s)RNA metabolic process namespace: biological_process def: "The chemical reactions and pathways involving snoRNA, small nucleolar RNA, any of a class of small RNAs that are associated with the eukaryotic nucleus as components of small nucleolar ribonucleoproteins. They participate in the processing or modifications of many RNAs, mostly ribosomal RNAs (rRNAs) though snoRNAs are also known to target other classes of RNA, including spliceosomal RNAs, tRNAs, and mRNAs via a stretch of sequence that is complementary to a sequence in the targeted RNA." [GOC:krc] subset: goslim_drosophila subset: goslim_pombe synonym: "box C/D sRNA metabolic process" NARROW [] synonym: "snoRNA metabolism" NARROW [] [Term] id: GO:0016192 name: vesicle-mediated transport namespace: biological_process alt_id: GO:0006899 def: "A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane." [GOC:ai, GOC:mah, ISBN:08789310662000] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe synonym: "nonselective vesicle transport" NARROW [] synonym: "protein sorting along secretory pathway" RELATED [] synonym: "vesicle trafficking" RELATED [] synonym: "vesicle transport" EXACT [] synonym: "vesicular transport" EXACT [GOC:mah] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25421" xsd:anyURI [Term] id: GO:0016298 name: lipase activity namespace: molecular_function def: "Catalysis of the hydrolysis of a lipid or phospholipid." [GOC:mah, ISBN:0198506732] subset: goslim_chembl subset: goslim_drosophila xref: Reactome:R-HSA-163402 "diacylglycerol + H2O -> 2-acylglycerol + fatty acid" xref: Reactome:R-HSA-163432 "cholesterol ester + H2O -> cholesterol + fatty acid" is_a: GO:0016787 ! hydrolase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21843" xsd:anyURI [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_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" [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" [Term] id: GO:0016746 name: acyltransferase activity namespace: molecular_function alt_id: GO:0008415 def: "Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor)." [GOC:jl, ISBN:0198506732] subset: goslim_chembl subset: goslim_drosophila synonym: "transferase activity, transferring acyl groups" EXACT [] xref: EC:2.3.-.- xref: Reactome:R-HSA-159431 "Cytosolic chenodeoxycholoyl-CoA or choloyl-CoA are conjugated with glycine or taurine" xref: Reactome:R-HSA-192312 "Choloyl CoA reacts with glycine or taurine to form glycocholate or taurocholate" xref: Reactome:R-HSA-193491 "Chenodeoxycholoyl CoA reacts with glycine or taurine to form glycochenodeoxycholate or taurochenodeoxycholate" xref: Reactome:R-HSA-6792572 "LIPT1 transfers lipoyl group from lipoyl-GCSH to DHs" xref: Reactome:R-HSA-8858298 "HRASLS transfer acyl group from PC to PE to form NAPE" is_a: GO:0016740 ! transferase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20486" xsd:anyURI [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:0016765 name: transferase activity, transferring alkyl or aryl (other than methyl) groups namespace: molecular_function alt_id: GO:0016766 def: "Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor)." [GOC:jl, ISBN:0198506732] subset: goslim_chembl subset: goslim_drosophila synonym: "transferase activity, transferring alkyl or aryl groups, other than methyl groups" EXACT [] xref: EC:2.5.1.- xref: Reactome:R-HSA-3159253 "MMAB adenosylates cob(I)alamin" xref: Reactome:R-HSA-4419978 "DHDDS:NUS1 elongates E,E-FPP with (n)IPPP to form pPPP" xref: Reactome:R-HSA-4755545 "Defective DHDDS does not elongate E,E-FPP" xref: Reactome:R-HSA-6782893 "TRMT12 transforms yW-187 yielding yW-86 at nucleotide 37 of tRNA(Phe)" is_a: GO:0016740 ! transferase activity [Term] id: GO:0016773 name: phosphotransferase activity, alcohol group as acceptor namespace: molecular_function def: "Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to an alcohol group (acceptor)." [GOC:jl] subset: goslim_drosophila xref: EC:2.7.1.- xref: Reactome:R-HSA-2161193 "abacavir + AMP => abacavir monophosphate + adenosine" 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" [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 inorganic phosphate." [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:0016810 name: hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds namespace: molecular_function def: "Catalysis of the hydrolysis of any carbon-nitrogen bond, C-N, with the exception of peptide bonds." [GOC:jl] subset: goslim_chembl subset: goslim_drosophila synonym: "hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in other compounds" NARROW [] xref: EC:3.5.-.- xref: Reactome:R-HSA-6803753 "NAAA hydrolyses NAEs to FAs and ethanolamine" 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)" [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" [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.-.-.- property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19380" xsd:anyURI [Term] id: GO:0019787 name: ubiquitin-like protein transferase activity namespace: molecular_function alt_id: GO:0008639 alt_id: GO:0008640 def: "Catalysis of the transfer of a ubiquitin-like from one protein to another via the reaction X-ULP + Y = Y-ULP + X, where both X-ULP and Y-ULP are covalent linkages. ULP represents a ubiquitin-like protein." [GOC:mah, GOC:rn, PMID:10806345, PMID:10884686] subset: goslim_drosophila subset: goslim_pir synonym: "E2" BROAD [] synonym: "E3" RELATED [GOC:dph] synonym: "small conjugating protein ligase activity" NARROW [GOC:dph] synonym: "small conjugating protein transferase activity" EXACT [GOC:dph] synonym: "small protein conjugating enzyme activity" NARROW [] synonym: "ubiquitin-like conjugating enzyme activity" NARROW [] synonym: "ubiquitin-like-protein ligase activity" NARROW [] xref: Reactome:R-HSA-5678490 "ATG16L1 complex transfers LC3 from ATG3 to PE" xref: Reactome:R-HSA-688137 "RIP2 is K63 polyubiquitinated" is_a: GO:0016746 ! acyltransferase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24697" xsd:anyURI [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" relationship: part_of GO:0055085 ! transmembrane transport [Term] id: GO:0030054 name: cell junction namespace: cellular_component def: "A cellular component that forms a specialized region of connection between two or more cells, or between a cell and the extracellular matrix, or between two membrane-bound components of a cell, such as flagella." [GOC:aruk, GOC:bc, GOC:mah, http://www.vivo.colostate.edu/hbooks/cmb/cells/pmemb/junctions_a.html, ISBN:0198506732, PMID:26820516, PMID:28096264] subset: goslim_agr subset: goslim_drosophila subset: goslim_flybase_ribbon xref: Wikipedia:Cell_junction property_value: RO:0002161 NCBITaxon:4751 [Term] id: GO:0030135 name: coated vesicle namespace: cellular_component alt_id: GO:0005909 def: "Small membrane-bounded organelle formed by pinching off of a coated region of membrane. Some coats are made of clathrin, whereas others are made from other proteins." [ISBN:0815316194] subset: goslim_drosophila xref: NIF_Subcellular:sao1985096626 [Term] id: GO:0030154 name: cell differentiation namespace: biological_process def: "The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." [ISBN:0198506732] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_mouse subset: goslim_plant xref: Wikipedia:Cellular_differentiation property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24390" xsd:anyURI [Term] id: GO:0030163 name: protein catabolic process namespace: biological_process alt_id: GO:0044254 alt_id: GO:0044257 def: "The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds." [GOC:mah] comment: This term refers to the breakdown of mature proteins. For cleavage events involved in generating a mature protein from a precursor, consider instead the term 'protein maturation ; GO:0051604' and its children. subset: goslim_candida subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe subset: goslim_prokaryote synonym: "cellular protein breakdown" EXACT [] synonym: "cellular protein catabolic process" EXACT [] synonym: "cellular protein catabolism" EXACT [] synonym: "cellular protein degradation" EXACT [] synonym: "multicellular organismal protein catabolic process" NARROW [] synonym: "pheromone catabolic process" RELATED [] synonym: "pheromone catabolism" RELATED [] synonym: "protein breakdown" EXACT [] synonym: "protein catabolism" EXACT [] synonym: "protein degradation" EXACT [] xref: Wikipedia:Protein_catabolism property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23112" xsd:anyURI [Term] id: GO:0030198 name: extracellular matrix 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 an extracellular matrix." [GOC:mah] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic synonym: "extracellular matrix organisation" EXACT [] synonym: "extracellular matrix organization and biogenesis" RELATED [GOC:mah] [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_yeast synonym: "catalytic regulator activity" EXACT [GOC:dph] synonym: "enzyme modulator" EXACT [] synonym: "metalloenzyme regulator activity" NARROW [] [Term] id: GO:0030246 name: carbohydrate binding namespace: molecular_function alt_id: GO:0005529 def: "Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates." [GOC:mah] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_pir subset: goslim_plant synonym: "selectin" RELATED [] synonym: "sugar binding" EXACT [] [Term] id: GO:0030312 name: external encapsulating structure namespace: cellular_component def: "A structure that lies outside the plasma membrane and surrounds the entire cell or cells. This does not include the periplasmic space." [GOC:go_curators] comment: The outer membrane (of gram negative bacteria) or cell wall (of yeast or Gram positive bacteria) are defined as parts of this structure, see 'external encapsulating structure part'. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_plant [Term] id: GO:0030705 name: cytoskeleton-dependent intracellular transport namespace: biological_process def: "The directed movement of substances along cytoskeletal fibers such as microfilaments or microtubules within a cell." [GOC:mah] subset: goslim_chembl subset: goslim_drosophila [Term] id: GO:0031012 name: extracellular matrix namespace: cellular_component alt_id: GO:0005578 def: "A structure lying external to one or more cells, which provides structural support, biochemical or biomechanical cues for cells or tissues." [GOC:BHF, GOC:mah, GOC:rph, NIF_Subcellular:nlx_subcell_20090513, PMID:21123617, PMID:28089324] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote synonym: "matrisome" NARROW [] synonym: "proteinaceous extracellular matrix" EXACT [] xref: NIF_Subcellular:nlx_subcell_20090513 xref: Wikipedia:Extracellular_matrix is_a: GO:0030312 ! external encapsulating structure [Term] id: GO:0031047 name: regulatory ncRNA-mediated gene silencing namespace: biological_process def: "A process in which an regulatory non-coding RNA molecule reduces expression of target genes. This can occur pre-transcriptionally by assembly of heterochromatin and prevention of transcription or co- or post-transcriptionally by targeting RNAs for degradation or by interfering with splicing or translation. This process starts once the inhibitory RNA molecule has been transcribed, and includes processing of the RNA such as cleavage, modifications, transport from the nucleus to the cytoplasm, loading onto the RISC complex, and the effect on transcription or translation." [PMID:15020054] subset: goslim_drosophila subset: goslim_generic synonym: "gene silencing by RNA" RELATED [] synonym: "RNA-dependent gene silencing" EXACT [] synonym: "RNA-mediated gene silencing" RELATED [] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22202" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22635" xsd:anyURI [Term] id: GO:0031386 name: protein tag activity namespace: molecular_function def: "A molecular function exhibited by a protein that is covalently attached (AKA tagged or conjugated) to another protein where it acts as a marker, recognized by the cellular apparatus to target the tagged protein for some cellular process such as modification, sequestration, transport or degradation." [GOC:dos, PMID:19028679, PMID:20054389, PMID:6305978] comment: Use this term to annotate conjugated tags, not for conjugating enzymes. At the time of writing, all known gene products with this activity are ubiquitin-like, either based on overall sequence similarity or the presence of common motifs and structures. subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote synonym: "covalent modifier" BROAD [GOC:vw] synonym: "protein tag" EXACT [] synonym: "protein tagging activity" RELATED [] synonym: "ubiquitin" RELATED [] synonym: "ubiquitin-like protein modifier" EXACT [] [Term] id: GO:0032504 name: multicellular organism reproduction namespace: biological_process def: "The biological process in which new individuals are produced by one or two multicellular organisms. The new individuals inherit some proportion of their genetic material from the parent or parents." [GOC:isa_complete, GOC:jid] subset: goslim_drosophila [Term] id: GO:0034587 name: piRNA processing namespace: biological_process alt_id: GO:1990511 def: "A process leading to the generation of a functional piRNA. piRNAs (Piwi-associated RNAs) are a class of 24- to 30-nucleotide RNAs derived from repeat or complex DNA sequence elements and processed by a Dicer-independent mechanism." [GOC:kmv, PMID:23329111, PMID:24696457, PMID:34724117] subset: goslim_drosophila synonym: "piRNA biogenesis" EXACT [] synonym: "piRNA biosynthetic process" RELATED [] synonym: "piRNA metabolic process" RELATED [] synonym: "piRNA metabolism" RELATED [] synonym: "PIWI-associated RNA biogenesis" EXACT [] synonym: "Piwi-associated RNA biosynthetic process" RELATED [] synonym: "Piwi-associated RNA metabolic process" RELATED [] synonym: "PIWI-associated RNA processing" EXACT [] is_a: GO:0006396 ! RNA processing relationship: part_of GO:0031047 ! regulatory ncRNA-mediated gene silencing property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23135" xsd:anyURI [Term] id: GO:0035556 name: intracellular signal transduction namespace: biological_process alt_id: GO:0007242 alt_id: GO:0007243 alt_id: GO:0023013 alt_id: GO:0023034 def: "The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell." [GOC:bf, GOC:jl, GOC:signaling, ISBN:3527303782] subset: goslim_drosophila synonym: "intracellular signal transduction pathway" NARROW [] synonym: "intracellular signaling cascade" RELATED [GOC:signaling] synonym: "intracellular signaling pathway" RELATED [] synonym: "signal transmission via intracellular cascade" NARROW [] created_by: bf creation_date: 2010-05-14T01:14:37Z [Term] id: GO:0038023 name: signaling receptor activity namespace: molecular_function alt_id: GO:0004872 alt_id: GO:0019041 def: "Receiving a signal and transmitting it in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response." [GOC:bf, GOC:signaling] subset: goslim_agr subset: goslim_chembl subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_metagenomics subset: goslim_mouse subset: goslim_pir subset: goslim_plant synonym: "receptor activity" BROAD [] synonym: "receptor activity involved in signal transduction" EXACT [GOC:bf] synonym: "signalling receptor activity" EXACT [] created_by: bf creation_date: 2011-08-01T02:45:27Z [Term] id: GO:0038024 name: cargo receptor activity namespace: molecular_function def: "Binding specifically to a substance (cargo) to deliver it to a transport vesicle. Cargo receptors span a membrane (either the plasma membrane or a vesicle membrane), binding simultaneously to cargo molecules and coat adaptors, to efficiently recruit soluble proteins to nascent vesicles." [PMID:15239958, PMID:27903609] comment: Notes: (1) this term and its child terms are intended for receptors that bind to and internalize molecules by receptor-mediated endocytosis. For receptors that are coupled to a signal transduction pathway, consider instead the term 'signaling receptor activity ; GO:0038023' and its children. (2) Cargo receptors transport substances by vesicular transport, not by transmembrane transport. For transmembrane transporters, consider instead the term 'transmembrane transporter activity ; GO:0022857. subset: goslim_drosophila subset: goslim_generic synonym: "endocytic receptor activity" NARROW [GOC:signaling, ISBN:0123645387, PMID:12671190] synonym: "receptor activity" BROAD [] synonym: "receptor activity involved in receptor-mediated endocytosis" NARROW [GOC:bf] synonym: "transport receptor activity" BROAD [GOC:signaling] xref: Reactome:R-HSA-3000103 "CUBN:AMN binds CBLIF:RCbl" xref: Reactome:R-HSA-3000112 "CD320-mediated TCN2:RCbl uptake and delivery to lysosome" xref: Reactome:R-HSA-3000122 "CD320 binds extracellular TCN2:RCbl" xref: Reactome:R-HSA-3000137 "CUBN:AMN-mediated CBLIF:RCbl uptake and delivery to lysosome" xref: Reactome:R-HSA-350168 "LRP2-mediated uptake of extracellular CUBN:GC:25(OH)D" xref: Reactome:R-HSA-9759202 "LRP2-mediated TCN2:RCbl uptake and delivery to lysosome" xref: Reactome:R-HSA-9759209 "LRP2 binds extracellular TCN2:RCbl" relationship: has_part GO:0060090 ! molecular adaptor activity relationship: part_of GO:0016192 ! vesicle-mediated transport created_by: bf creation_date: 2011-08-01T02:50:45Z [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_manually_annotate subset: goslim_candida subset: goslim_drosophila subset: goslim_metagenomics subset: goslim_plant subset: goslim_yeast synonym: "response to chemical stimulus" EXACT [GOC:dos] synonym: "response to chemical substance" EXACT [] [Term] id: GO:0042254 name: ribosome biogenesis namespace: biological_process alt_id: GO:0007046 def: "A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits; includes transport to the sites of protein synthesis." [GOC:ma, PMID:26404467, Wikipedia:Ribosome_biogenesis] subset: goslim_candida subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote synonym: "ribosome biogenesis and assembly" EXACT [] [Term] id: GO:0042302 name: structural constituent of cuticle namespace: molecular_function def: "The action of a molecule that contributes to the structural integrity of a cuticle." [GOC:jl] subset: goslim_drosophila [Term] id: GO:0042303 name: molting cycle namespace: biological_process def: "The periodic casting off and regeneration of an outer covering of cuticle, feathers, hair, horns, skin, etc." [GOC:jl, ISBN:0198506732] subset: goslim_drosophila subset: goslim_pir [Term] id: GO:0042335 name: cuticle development namespace: biological_process def: "The chemical reactions and pathways resulting in the formation of a cuticle, the outer layer of some animals and plants, which acts to prevent water loss." [ISBN:0192800825] subset: goslim_drosophila synonym: "cuticle anabolism" EXACT [] synonym: "cuticle biosynthesis" EXACT [] synonym: "cuticle biosynthetic process" EXACT [] synonym: "cuticle formation" EXACT [] synonym: "cuticle synthesis" EXACT [] [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 [] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23106" xsd:anyURI [Term] id: GO:0042440 name: pigment metabolic process namespace: biological_process def: "The chemical reactions and pathways involving pigment, any general or particular coloring matter in living organisms, e.g. melanin." [GOC:jl, ISBN:0198506732] subset: goslim_drosophila subset: goslim_pir synonym: "pigment metabolism" EXACT [] [Term] id: GO:0044183 name: protein folding chaperone namespace: molecular_function def: "Binding to a protein or a protein-containing complex to assist the protein folding process." [GOC:mtg_cambridge_2009] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote synonym: "chaperone activity" BROAD [] synonym: "protein binding involved in protein folding" EXACT [] xref: Reactome:R-HSA-9018785 "RHOBTB2 binds GTP" relationship: has_part GO:0051082 ! unfolded protein binding relationship: part_of GO:0006457 ! protein folding created_by: jl creation_date: 2009-09-25T11:33:48Z [Term] id: GO:0044703 name: multi-organism reproductive process namespace: biological_process def: "A biological process that directly contributes to the process of producing new individuals, involving another organism." [GOC:jl] subset: goslim_drosophila created_by: jl creation_date: 2012-09-19T15:56:30Z [Term] id: GO:0044782 name: cilium 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 cilium, a specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole." [GOC:cilia, GOC:jl] comment: Note that we deem cilium and microtubule-based flagellum to be equivalent. subset: goslim_drosophila subset: goslim_generic synonym: "microtubule-based flagellum organization" EXACT [] created_by: jl creation_date: 2013-03-27T15:09:58Z [Term] id: GO:0045182 name: translation regulator activity namespace: molecular_function def: "Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome." [GOC:ai] subset: goslim_candida subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_plant subset: goslim_prokaryote synonym: "translation factor activity" EXACT [] [Term] id: GO:0045202 name: synapse namespace: cellular_component def: "The junction between an axon of one neuron and a dendrite of another neuron, a muscle fiber or a glial cell. As the axon approaches the synapse it enlarges into a specialized structure, the presynaptic terminal bouton, which contains mitochondria and synaptic vesicles. At the tip of the terminal bouton is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic terminal bouton secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane." [GOC:aruk, ISBN:0198506732, PMID:24619342, PMID:29383328, PMID:31998110] subset: goslim_agr subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_mouse subset: goslim_pir subset: goslim_synapse synonym: "electrotonic synapse" RELATED [NIF_Subcellular:sao1311109124] synonym: "mixed synapse" NARROW [NIF_Subcellular:sao1506103497] synonym: "synaptic junction" EXACT [] xref: NIF_Subcellular:sao914572699 xref: Wikipedia:Chemical_synapse is_a: GO:0030054 ! cell junction [Term] id: GO:0045454 name: cell redox homeostasis namespace: biological_process alt_id: GO:0030503 alt_id: GO:0045867 alt_id: GO:0045868 def: "Any process that maintains the redox environment of a cell or compartment within a cell." [GOC:ai, GOC:dph, GOC:tb] subset: goslim_drosophila subset: goslim_metagenomics synonym: "regulation of cell redox homeostasis" RELATED [] synonym: "regulation of redox homeostasis" BROAD [] xref: Wikipedia:Redox property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24135" xsd:anyURI [Term] id: GO:0046872 name: metal ion binding namespace: molecular_function def: "Binding to a metal ion." [GOC:ai] subset: goslim_agr subset: goslim_drosophila subset: goslim_flybase_ribbon subset: goslim_metagenomics synonym: "heavy metal binding" NARROW [] synonym: "metal binding" EXACT [] [Term] id: GO:0048018 name: receptor ligand activity namespace: molecular_function alt_id: GO:0071884 def: "The activity of a gene product that interacts with a receptor to effect a change in the activity of the receptor. Ligands may be produced by the same, or different, cell that expresses the receptor. Ligands may diffuse extracellularly from their point of origin to the receiving cell, or remain attached to an adjacent cell surface (e.g. Notch ligands)." [GOC:kv, GOC:molecular_function_refactoring, GOC:pdt] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic synonym: "receptor agonist activity" BROAD [GOC:molecular_function_refactoring] synonym: "signaling molecule" EXACT [] synonym: "signaling receptor ligand activity" EXACT [] synonym: "vitamin D receptor activator activity" NARROW [] relationship: positively_regulates GO:0038023 ! signaling receptor activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14220" xsd:anyURI created_by: mah creation_date: 2010-09-13T04:51:59Z [Term] id: GO:0048870 name: cell motility namespace: biological_process def: "Any process involved in the controlled self-propelled movement of a cell that results in translocation of the cell from one place to another." [GOC:dgh, GOC:dph, GOC:isa_complete, GOC:mlg] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote synonym: "cell locomotion" EXACT [] synonym: "cell movement" RELATED [] synonym: "movement of a cell" EXACT [] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19809" xsd:anyURI [Term] id: GO:0048878 name: chemical homeostasis namespace: biological_process def: "Any biological process involved in the maintenance of an internal steady state of a chemical." [GOC:isa_complete] subset: goslim_drosophila [Term] id: GO:0050808 name: synapse 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 synapse, the junction between a neuron and a target (neuron, muscle, or secretory cell)." [GOC:ai, GOC:pr] subset: goslim_drosophila subset: goslim_synapse synonym: "synapse development" RELATED [GOC:aruk] synonym: "synapse morphogenesis" RELATED [GOC:BHF] synonym: "synapse organisation" EXACT [] synonym: "synapse organization and biogenesis" RELATED [GOC:mah] [Term] id: GO:0050890 name: cognition namespace: biological_process def: "The operation of the mind by which an organism becomes aware of objects of thought or perception; it includes the mental activities associated with thinking, learning, and memory." [ISBN:0721619908] subset: goslim_drosophila xref: Wikipedia:Cognition [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" property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21436" xsd:anyURI [Term] id: GO:0051276 name: chromosome organization namespace: biological_process alt_id: GO:0006323 alt_id: GO:0007001 alt_id: GO:0051277 def: "A process that is carried out at the cellular level that results in the assembly, arrangement of constituent parts, or disassembly of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information. This term covers covalent modifications at the molecular level as well as spatial relationships among the major components of a chromosome." [GOC:ai, GOC:dph, GOC:jl, GOC:mah] subset: goslim_chembl subset: goslim_drosophila subset: goslim_pir synonym: "chromosome organisation" EXACT [] synonym: "chromosome organization and biogenesis" RELATED [GOC:mah] synonym: "DNA condensation" EXACT [] synonym: "DNA packaging" NARROW [] synonym: "maintenance of genome integrity" RELATED [] synonym: "nuclear genome maintenance" RELATED [] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22811" xsd:anyURI property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/4585" xsd:anyURI [Term] id: GO:0051301 name: cell division namespace: biological_process def: "The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells." [GOC:di, GOC:go_curators, GOC:pr] comment: Note that this term differs from 'cytokinesis ; GO:0000910' in that cytokinesis does not include nuclear division. subset: goslim_chembl subset: goslim_drosophila subset: goslim_pir xref: Wikipedia:Cell_division [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 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24599" 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 [Term] id: GO:0052689 name: carboxylic ester hydrolase activity namespace: molecular_function alt_id: GO:0004091 alt_id: GO:0004302 alt_id: GO:0004759 alt_id: GO:0016789 def: "Catalysis of the hydrolysis of a carboxylic ester bond." [GOC:curators] subset: goslim_drosophila synonym: "carboxylate esterase activity" RELATED [] synonym: "carboxylic esterase activity" RELATED [] synonym: "hydrolase activity acting on ester bonds" RELATED [EC:3.1.1.-] xref: EC:3.1.1.- xref: KEGG_REACTION:R00630 xref: Reactome:R-HSA-5693691 "CES1 trimer.CES2 hydrolyse COCN to BEG" xref: Reactome:R-HSA-8937442 "CES3 hydrolyses CHEST to CHOL and LCFA(-)" xref: Reactome:R-HSA-9749792 "CES1,CES2 hydrolyze ASA- to ST" xref: UM-BBD_reactionID:r1025 is_a: GO:0016787 ! hydrolase activity property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24654" xsd:anyURI [Term] id: GO:0055085 name: transmembrane transport namespace: biological_process alt_id: GO:0090662 def: "The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other." [GOC:dph, GOC:jid] comment: Transmembrane transport is the transport of a solute across a lipid bilayer. Note that transport through the nuclear pore complex is not transmembrane because the nuclear membrane is a double membrane and is not traversed. For transport through the nuclear pore, consider instead the term 'nucleocytoplasmic transport ; GO:0006913' and its children. Note also that this term is not intended for use in annotating lateral movement within membranes. subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pombe subset: goslim_yeast synonym: "ATP hydrolysis coupled transmembrane transport" NARROW [] synonym: "membrane transport" EXACT [] 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 [] [Term] id: GO:0060090 name: molecular adaptor activity namespace: molecular_function alt_id: GO:0032947 def: "The binding activity of a molecule that brings together two or more molecules through a selective, non-covalent, often stoichiometric interaction, permitting those molecules to function in a coordinated way." [GOC:mtg_MIT_16mar07, GOC:vw] subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_prokaryote synonym: "binding, bridging" EXACT [] synonym: "protein complex scaffold activity" RELATED [] synonym: "protein-containing complex scaffold activity" RELATED [] [Term] id: GO:0060429 name: epithelium development namespace: biological_process def: "The process whose specific outcome is the progression of an epithelium over time, from its formation to the mature structure. An epithelium is a tissue that covers the internal or external surfaces of an anatomical structure." [GOC:dph, GOC:mtg_lung] subset: goslim_drosophila [Term] id: GO:0060541 name: respiratory system development namespace: biological_process def: "The progression of the respiratory system over time from its formation to its mature structure. The respiratory system carries out respiratory gaseous exchange." [GOC:dph] subset: goslim_drosophila created_by: dph creation_date: 2009-04-10T08:55:42Z [Term] id: GO:0061024 name: membrane organization namespace: biological_process alt_id: GO:0016044 alt_id: GO:0044802 def: "A process which results in the assembly, arrangement of constituent parts, or disassembly of a membrane. A membrane is a double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins." [GOC:dph, GOC:tb] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote synonym: "cellular membrane organisation" EXACT [] synonym: "cellular membrane organization" EXACT [] synonym: "membrane organisation" EXACT [GOC:mah] synonym: "membrane organization and biogenesis" RELATED [GOC:mah] synonym: "single-organism membrane organization" RELATED [] created_by: jl creation_date: 2010-02-08T02:43:11Z [Term] id: GO:0061061 name: muscle structure development namespace: biological_process def: "The progression of a muscle structure over time, from its formation to its mature state. Muscle structures are contractile cells, tissues or organs that are found in multicellular organisms." [GOC:dph] subset: goslim_drosophila created_by: dph creation_date: 2010-03-09T08:55:14Z [Term] id: GO:0065003 name: protein-containing complex assembly namespace: biological_process alt_id: GO:0006461 alt_id: GO:0034622 alt_id: GO:0043623 def: "The aggregation, arrangement and bonding together of a set of macromolecules to form a protein-containing complex." [GOC:jl] subset: goslim_chembl subset: goslim_drosophila subset: goslim_generic subset: goslim_metagenomics subset: goslim_pir subset: goslim_pombe subset: goslim_prokaryote synonym: "cellular macromolecule complex assembly" RELATED [] synonym: "cellular protein complex assembly" EXACT [] synonym: "cellular protein-containing complex assembly" RELATED [] synonym: "chaperone activity" RELATED [] synonym: "macromolecular complex assembly" RELATED [] synonym: "macromolecule complex assembly" RELATED [] synonym: "protein complex assembly" RELATED [] synonym: "protein complex formation" RELATED [] property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22580" xsd:anyURI [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 created_by: mah creation_date: 2009-05-11T02:54:03Z [Term] id: GO:0072359 name: circulatory system development namespace: biological_process alt_id: GO:0072358 def: "The process whose specific outcome is the progression of the circulatory system over time, from its formation to the mature structure. The circulatory system is the organ system that passes nutrients (such as amino acids and electrolytes), gases, hormones, blood cells, etc. to and from cells in the body to help fight diseases and help stabilize body temperature and pH to maintain homeostasis." [GOC:mah, UBERON:0001009] subset: goslim_drosophila synonym: "cardiovascular system development" NARROW [] created_by: mah creation_date: 2010-11-16T11:27:39Z [Term] id: GO:0099503 name: secretory vesicle namespace: cellular_component def: "A cytoplasmic, membrane bound vesicle that is capable of fusing to the plasma membrane to release its contents into the extracellular space." [GOC:dos] subset: goslim_drosophila [Term] id: GO:0099536 name: synaptic signaling namespace: biological_process def: "Cell-cell signaling to, from or within a synapse." [GOC:dos] subset: goslim_drosophila subset: goslim_synapse relationship: occurs_in GO:0045202 ! synapse [Term] id: GO:0140223 name: general transcription initiation factor activity namespace: molecular_function def: "A molecular function required for core promoter activity that mediates the assembly of the RNA polymerase holoenzyme at promoter DNA to form the pre-initiation complex (PIC). General transcription factors (GTFs) bind to and open promoter DNA, initiate RNA synthesis and stimulate the escape of the polymerase from the promoter. Not all subunits of the general transcription factor are necessarily present at all promoters to initiate transcription. GTFs act at each promoter, although the exact subunit composition at individual promoters may vary." [GOC:txnOH-2018] comment: Usage guidance: The distinction between general transcription factors and DNA-binding transcription factors is that the latter modulate the selection of which genes are expressed under specific conditions, while general transcription factors are the constitutive machinery required for transcription initiation. subset: goslim_drosophila subset: goslim_generic synonym: "basal transcription factor activity" EXACT [] synonym: "general transcription factor activity" EXACT [] synonym: "GTF activity" EXACT [] relationship: part_of GO:0006351 ! DNA-templated transcription property_value: RO:0002161 NCBITaxon:2 property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI created_by: pg creation_date: 2018-05-24T07:51:23Z [Term] id: GO:0140299 name: small molecule sensor activity namespace: molecular_function def: "Binding to a small molecule and eliciting a change in the protein's activity in response to the intracellular level of that small molecule." [PMID:26328879] subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote synonym: "small molecular sensor activity" EXACT [] synonym: "small molecule sensing activity" EXACT [] created_by: pg creation_date: 2018-12-10T14:30:28Z [Term] id: GO:0140313 name: molecular sequestering activity namespace: molecular_function def: "Binding to a specific molecule to prevent it from interacting with other partners or to inhibit its localization to the area of the cell or complex where it is active." [PMID:13130076] subset: goslim_drosophila subset: goslim_generic subset: goslim_prokaryote xref: Reactome:R-HSA-3245898 "TCN1 binds correnoids in the circulation" created_by: pg creation_date: 2019-03-28T10:00:25Z [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 [] 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