pankajrajdeo/go_terms_geneontology.org · Datasets at Hugging Face

GO:0000122

negative regulation of transcription by RNA polymerase II

biological_process

"Any process that stops, prevents, or reduces the frequency, rate or extent of transcription mediated by RNA polymerase II." [GOC:go_curators, GOC:txnOH]

["\"down regulation of global transcription from RNA polymerase II promoter\" RELATED []", "\"down regulation of transcription from RNA polymerase II promoter\" EXACT []", "\"down-regulation of global transcription from RNA polymerase II promoter\" RELATED []", "\"down-regulation of transcription from RNA polymerase II promoter\" EXACT []", "\"downregulation of global transcription from RNA polymerase II promoter\" RELATED []", "\"downregulation of transcription from RNA polymerase II promoter\" EXACT []", "\"inhibition of global transcription from RNA polymerase II promoter\" RELATED []", "\"inhibition of transcription from RNA polymerase II promoter\" EXACT []", "\"negative regulation of gene-specific transcription from RNA polymerase II promoter\" RELATED []", "\"negative regulation of global transcription from Pol II promoter\" RELATED []", "\"negative regulation of transcription from Pol II promoter\" EXACT []", "\"negative regulation of transcription from RNA polymerase II promoter\" EXACT []", "\"negative regulation of transcription from RNA polymerase II promoter, global\" RELATED []"]

["GO:0006357 ! regulation of transcription by RNA polymerase II", "GO:0045892 ! negative regulation of DNA-templated transcription"]

["GO:0010553", "GO:0045816"]

null

negatively_regulates GO:0006366 ! transcription by RNA polymerase II

["GO:0065007 ! biological regulation", "negatively_regulates GO:0006366 ! transcription by RNA polymerase II"]

null

GO:0000123

histone acetyltransferase complex

cellular_component

"A protein complex that possesses histone acetyltransferase activity." [GOC:mah]

"histone acetylase complex" EXACT []

GO:0031248 ! protein acetyltransferase complex

null

Note that this term represents a protein complex, not a function; the activity possessed by this complex is mentioned in the definition for the purpose of describing and distinguishing the complex. The function of this complex is represented by the molecular function term 'histone acetyltransferase activity ; GO:0004402'.

term_tracker_item https://github.com/geneontology/go-ontology/issues/23892 xsd:anyURI

null

part_of GO:0000785 ! chromatin

null

GO:0000124

SAGA complex

cellular_component

"A SAGA-type histone acetyltransferase complex that deubiquitinates H2A and/or H2B. This complex is organized into several functional submodules: a structural core including the activator binding module and consisting of ADA1 or a homolog, members of the SPT and TAF protein families as well as promotor recruitment factor TRRAP/TRA1, a histone acetyltransferase (HAT) module consisting of GCN5/KAT2A or PCAF/KAT2B, ADA2, ADA3/NGG1, and SGF29 or homologues thereof, a histone deubiquitinase (DUB) module consisting of ATXN7/SGF73, ATXN7L3/SGF11, ENY2/SUS1 and USP22/UBP8 or homologues thereof, and in some taxa a splicing module consisting of SF3B3 and SF3B5 or homologues thereof (not in fungi). In budding yeast also contains Spt8 which distinguishes it from SAGA-like (SLIK) complex (GO:0046695)." [PMID:10637607, PMID:17337012, PMID:19056896, PMID:20838651, PMID:33004486]

["\"PCAF complex\" NARROW []", "\"PCAF histone acetylase-associated complex\" NARROW []", "\"Spt-Ada-Gcn5-acetyltransferase complex\" EXACT []", "\"SPT3-TAF9-GCN5 acetylase complex\" RELATED [GOC:rl, PMID:18838386]", "\"SPT3-TAF9-PCAF acetylase complex\" NARROW [PMID:18838386]", "\"STAGA coactivator complex\" RELATED []", "\"STAGA complex\" RELATED [PMID:32616828, PMID:33004486, PMID:34112237]"]

["GO:0070461 ! SAGA-type complex", "GO:1905368 ! peptidase complex"]

["GO:0000125", "GO:0030914"]

null

has_part GO:0071819 ! DUBm complex

null

GO:0000126

transcription factor TFIIIB complex

cellular_component

"A transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIB contains the TATA-binding protein (TBP) and two Pol III-specific proteins, B'' and BRF." [GOC:mah, PMID:11433012]

null

GO:0090576 ! RNA polymerase III transcription regulator complex

null

GO:0000127

transcription factor TFIIIC complex

cellular_component

"A heterotrimeric transcription factor complex that is involved in regulating transcription from RNA polymerase III (Pol III) promoters. TFIIIC contains three conserved subunits that associate with the proximal Pol III promoter element, and additional subunits that associate with sequence elements downstream of the promoter and are more diverged among species. It also functions as a boundary element to partition genome content into distinct domains outside Pol III promoter regions." [GOC:mah, GOC:vw, PMID:11433012, PMID:16751097]

null

GO:0090576 ! RNA polymerase III transcription regulator complex

null

GO:0000128

flocculation

biological_process

"The reversible, non-sexual aggregation of single-celled organisms in suspension to form aggregates of many cells known as flocs." [GOC:jl, GOC:vw, PMID:11472912, PMID:21114594, PMID:8740415]

["\"cell-cell adhesion involved in flocculation\" EXACT []", "\"cell-cell adhesion involved in flocculation via cell wall protein-carbohydrate interaction\" NARROW []", "\"co-flocculation\" NARROW [PMID:10689163]", "\"coflocculation\" NARROW []", "\"coflocculation via lectin-mannose interaction\" NARROW [PMID:11693916]", "\"coflocculation via protein-carbohydrate interaction\" NARROW []", "\"flocculation via cell wall protein-carbohydrate interaction\" RELATED []", "\"flocculation via extracellular polymer\" RELATED []"]

["GO:0051703 ! biological process involved in intraspecies interaction between organisms", "GO:0098610 ! adhesion between unicellular organisms"]

["GO:0000501", "GO:0032128", "GO:0036281", "GO:0036282", "GO:0043689", "GO:0043690"]

The word floc derives from the Latin word floccus, which means a tuft of wool.

["term_tracker_item https://github.com/geneontology/go-ontology/issues/18785 xsd:anyURI", "term_tracker_item https://github.com/geneontology/go-ontology/issues/20192 xsd:anyURI"]

null

Wikipedia:Flocculation

bf

2012-07-11T01:30:40Z

goslim_pir

null

GO:0000131

incipient cellular bud site

cellular_component

"The portion of the budding yeast plasma membrane where a daughter cell will emerge. The yeast marks this spot with bud-site selection proteins before bud emergence occurs. Actin is polarized to this spot just prior to and during bud emergence." [GOC:clt]

null

GO:0030427 ! site of polarized growth

null

["RO:0002161 NCBITaxon:4895", "term_tracker_item https://github.com/geneontology/go-ontology/issues/27422 xsd:anyURI"]

null

GO:0000132

establishment of mitotic spindle orientation

biological_process

"A cell cycle process that sets the alignment of mitotic spindle relative to other cellular structures." [GOC:ems]

["\"establishment of spindle orientation during mitosis\" RELATED [GOC:dph, GOC:tb]", "\"establishment of spindle orientation involved in mitotic cell cycle\" EXACT [GOC:dph, GOC:tb]", "\"mitotic spindle orientation\" EXACT []", "\"orienting of mitotic spindle\" EXACT []"]

["GO:0040001 ! establishment of mitotic spindle localization", "GO:0051294 ! establishment of spindle orientation"]

["GO:0030607", "GO:0030609"]

null

["GO:0051294 ! establishment of spindle orientation", "part_of GO:0000278 ! mitotic cell cycle"]

null

GO:0000133

polarisome

cellular_component

"Protein complex that plays a role in determining cell polarity by directing the localized assembly of actin filaments at polarization sites; in Saccharomyces the polarisome includes Bni1p, Spa2p, Pea2p, and Bud6p." [PMID:14734532, PMID:14998522, PMID:9632790]

null

GO:0032991 ! protein-containing complex

null

goslim_pir

["part_of GO:0005938 ! cell cortex", "part_of GO:0030427 ! site of polarized growth"]

null

GO:0000136

mannan polymerase complex

cellular_component

"A protein complex with alpha-(1->6)-mannosyltransferase activity, located in the cis Golgi membrane; adds mannan to N-linked glycans on proteins." [GOC:mcc, PMID:10037752, PMID:11095735, PMID:18083825]

"alpha-1,6-mannosyltransferase complex" EXACT []

["GO:0031501 ! mannosyltransferase complex", "GO:0098796 ! membrane protein complex"]

null

term_tracker_item https://github.com/geneontology/go-ontology/issues/19817 xsd:anyURI

null

["part_of GO:0000137 ! Golgi cis cisterna", "part_of GO:0000139 ! Golgi membrane"]

null

GO:0000137

Golgi cis cisterna

cellular_component

"The Golgi cisterna closest to the endoplasmic reticulum; the first processing compartment through which proteins pass after export from the ER." [ISBN:0815316194]

"Golgi apparatus cis cisterna" EXACT []

GO:0031985 ! Golgi cisterna

null

GO:0000138

Golgi trans cisterna

cellular_component

"The Golgi cisterna farthest from the endoplasmic reticulum; the final processing compartment through which proteins pass before exiting the Golgi apparatus; the compartment in which N-linked protein glycosylation is completed." [ISBN:0815316194]

"late Golgi" RELATED [GOC:mah]

GO:0031985 ! Golgi cisterna

null

GO:0000139

Golgi membrane

cellular_component

"The lipid bilayer surrounding any of the compartments of the Golgi apparatus." [GOC:mah]

"Golgi apparatus membrane" EXACT []

GO:0098588 ! bounding membrane of organelle

null

part_of GO:0005794 ! Golgi apparatus

null

GO:0000140

acylglycerone-phosphate reductase activity

molecular_function

"Catalysis of the reaction: 1-palmitoylglycerol-3-phosphate + NADP+ = palmitoylglycerone phosphate + NADPH + H+." [EC:1.1.1.101]

["\"1-acyldihydroxyacetone-phosphate reductase activity\" EXACT []", "\"1-palmitoylglycerol-3-phosphate:NADP+ oxidoreductase activity\" RELATED [EC:1.1.1.101]", "\"acyldihydroxyacetone phosphate reductase activity\" RELATED [EC:1.1.1.101]", "\"palmitoyl dihydroxyacetone phosphate reductase activity\" RELATED [EC:1.1.1.101]", "\"palmitoyl-dihydroxyacetone-phosphate reductase activity\" RELATED [EC:1.1.1.101]", "\"palmitoyldihydroxyacetone-phosphate reductase activity\" RELATED [EC:1.1.1.101]"]

GO:0016616 ! oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor

null

["EC:1.1.1.101", "MetaCyc:ACYLGLYCERONE-PHOSPHATE-REDUCTASE-RXN", "Reactome:R-HSA-75883 \"DHRS7B reduces GO3P to HXDG3P\"", "RHEA:17341"]

null

GO:0000142

cellular bud neck contractile ring

cellular_component

"A contractile ring, i.e. a cytoskeletal structure composed of actin filaments and myosin, that forms beneath the plasma membrane at the mother-bud neck in mitotic cells that divide by budding in preparation for completing cytokinesis. An example of this structure is found in Saccharomyces cerevisiae." [GOC:krc, PMID:16009555]

"neck ring" EXACT []

GO:0110085 ! mitotic actomyosin contractile ring

null

part_of GO:0005935 ! cellular bud neck

["GO:0005826 ! actomyosin contractile ring", "part_of GO:0005935 ! cellular bud neck"]

null

GO:0000144

cellular bud neck septin ring

cellular_component

"A ring-shaped structure that forms at the site of cytokinesis in the bud neck of a budding cell; composed of members of the conserved family of filament forming proteins called septins as well as septin-associated proteins. In S. cerevisiae, this structure forms at the time of bud emergence and the septins show a high rate of exchange." [GOC:krc, PMID:16009555]

null

["GO:0000399 ! cellular bud neck septin structure", "GO:0005940 ! septin ring", "GO:0032161 ! cleavage apparatus septin structure"]

null

["GO:0005940 ! septin ring", "part_of GO:0005935 ! cellular bud neck"]

null

GO:0000145

exocyst

cellular_component

"A protein complex peripherally associated with the plasma membrane that determines where vesicles dock and fuse. At least eight complex components are conserved between yeast and mammals." [GOC:cilia, PMID:15292201, PMID:27243008, PMID:9700152]

["\"exocyst complex\" EXACT []", "\"Sec6/8 complex\" EXACT []"]

GO:0099023 ! vesicle tethering complex

null

Wikipedia:Exocyst

null

part_of GO:0005938 ! cell cortex

null

GO:0000146

microfilament motor activity

molecular_function

"A motor activity that generates movement along a microfilament, driven by ATP hydrolysis." [PMID:29716949]

["\"actin filament motor activity\" EXACT [GOC:dph]", "\"actin-activated ATPase activity\" EXACT []", "\"actin-dependent ATPase activity\" EXACT []", "\"actin-filament motor activity\" EXACT []", "\"muscle motor activity\" NARROW []", "\"myosin ATPase activity\" RELATED []"]

["GO:0003774 ! cytoskeletal motor activity", "GO:0140657 ! ATP-dependent activity"]

GO:0030898

null

term_tracker_item https://github.com/geneontology/go-ontology/issues/20877 xsd:anyURI

null

["EC:5.6.1.8", "Reactome:R-HSA-2316352 \"SLC2A4 (GLUT4) vesicle translocates and docks at the plasma membrane\"", "Reactome:R-HSA-432237 \"Translocation of Aquaporin-2 from intracellular vesicles to the apical plasma membrane\"", "Reactome:R-HSA-9023171 \"Insulin secretory granule translocates across the cortical actin network\""]

null

GO:0000147

actin cortical patch assembly

biological_process

"Assembly of an actin cortical patch, a discrete actin-containing structure found at the plasma membrane of fungal cells." [GOC:mah]

null

["GO:0022607 ! cellular component assembly", "GO:0030866 ! cortical actin cytoskeleton organization", "GO:0044396 ! actin cortical patch organization"]

null

GO:0000148

1,3-beta-D-glucan synthase complex

cellular_component

"A protein complex that catalyzes the transfer of a glucose group from UDP-glucose to a (1->3)-beta-D-glucan chain." [PMID:7983071]

["\"(1->3)-beta-glucan synthase complex\" EXACT [GOC:tb]", "\"1,3-beta-glucan synthase complex\" EXACT [GOC:tb]"]

["GO:0098797 ! plasma membrane protein complex", "GO:1990234 ! transferase complex"]

null

GO:0000149

SNARE binding

molecular_function

"Binding to a SNARE (soluble N-ethylmaleimide-sensitive factor attached protein receptor) protein." [PMID:12642621]

"SNAP receptor binding" EXACT []

GO:0005515 ! protein binding

null

["Reactome:R-HSA-210426 \"Glutamate synaptic vesicle docking and priming\"", "Reactome:R-HSA-210430 \"Release of L-Glutamate at the synapse\"", "Reactome:R-HSA-265166 \"Exocytosis of Insulin\"", "Reactome:R-HSA-372505 \"Acetylcholine synaptic vesicle docking and priming\"", "Reactome:R-HSA-372529 \"Release of acetylcholine at the synapse\"", "Reactome:R-HSA-374899 \"Release of noradrenaline at the synapse\"", "Reactome:R-HSA-374922 \"Noradrenalin synaptic vesicle docking and priming\"", "Reactome:R-HSA-376357 \"Vamp7 associated Lysosome to Plasma membrane transport\"", "Reactome:R-HSA-376364 \"Vamp8 associated secretory vesicle to plasma membrane transport\"", "Reactome:R-HSA-376369 \"Vamp2 associated secretory vesicle to plasma membrane transport\"", "Reactome:R-HSA-380574 \"Dopamine synaptic vesicle docking and priming\"", "Reactome:R-HSA-380869 \"Release of docked dopamine loaded synaptic vesicle\"", "Reactome:R-HSA-380901 \"Release of docked serotonin loaded synaptic vesicle\"", "Reactome:R-HSA-380905 \"Serotonin loaded synaptic vesicle docking and priming\"", "Reactome:R-HSA-888589 \"Release of GABA at the synapse\"", "Reactome:R-HSA-9023173 \"Insulin secretory granule docks at the plasma membrane\"", "Reactome:R-HSA-917744 \"GABA loaded synaptic vesicle Docking and Priming\""]

null

goslim_chembl

null

GO:0000150

DNA strand exchange activity

molecular_function

"Catalysis of the identification and base-pairing of homologous sequences between single-stranded DNA and double-stranded DNA." [GOC:elh]

["\"RecA-family recombinase activity\" RELATED []", "\"recombinase activity\" EXACT []", "\"strand exchange activity\" RELATED []", "\"strand transferase\" NARROW []"]

GO:0140097 ! catalytic activity, acting on DNA

null

Note that this term represents activities that do not break or form phosphodiester bonds, and is therefore not a parent of 'site-specific recombinase activity ; GO:0009009'.

term_tracker_item https://github.com/geneontology/go-ontology/issues/20964 xsd:anyURI

null

Reactome:R-HSA-912458 "Formation of meiotic heteroduplex"

null

goslim_metagenomics

part_of GO:0006310 ! DNA recombination

null

GO:0000151

ubiquitin ligase complex

cellular_component

"A protein complex that includes a ubiquitin-protein ligase and enables ubiquitin protein ligase activity. The complex also contains other proteins that may confer substrate specificity on the complex." [GOC:jh2, PMID:9529603]

null

["GO:0140535 ! intracellular protein-containing complex", "GO:1990234 ! transferase complex"]

null

goslim_pir

null

GO:0000152

nuclear ubiquitin ligase complex

cellular_component

"A ubiquitin ligase complex found in the nucleus." [GOC:mah]

null

["GO:0000151 ! ubiquitin ligase complex", "GO:0140513 ! nuclear protein-containing complex"]

null

["GO:0000151 ! ubiquitin ligase complex", "part_of GO:0005634 ! nucleus"]

null

GO:0000153

cytoplasmic ubiquitin ligase complex

cellular_component

"A ubiquitin ligase complex found in the cytoplasm." [GOC:mah]

null

GO:0000151 ! ubiquitin ligase complex

null

part_of GO:0005737 ! cytoplasm

["GO:0000151 ! ubiquitin ligase complex", "part_of GO:0005737 ! cytoplasm"]

null

GO:0000154

rRNA modification

biological_process

"The covalent alteration of one or more nucleotides within an rRNA molecule to produce an rRNA molecule with a sequence that differs from that coded genetically." [GOC:curators]

"rRNA editing" NARROW [GOC:hjd]

["GO:0006364 ! rRNA processing", "GO:0009451 ! RNA modification"]

GO:0016548

The term 'RNA editing' (GO:0016547) was merged into 'RNA modification' (GO:0009451) on the basis of statements in the preface of Modification and Editing of RNA (ISBN:1555811337) that there is no clear distinction between modification and editing. Parallel changes were made for substrate (e.g. tRNA, rRNA, etc.) specific child terms of 'RNA editing'.

null

GO:0000155

phosphorelay sensor kinase activity

molecular_function

"Catalysis of the phosphorylation of a histidine residue in response to detection of an extracellular signal such as a chemical ligand or change in environment, to initiate a change in cell state or activity. The two-component sensor is a histidine kinase that autophosphorylates a histidine residue in its active site. The phosphate is then transferred to an aspartate residue in a downstream response regulator, to trigger a response." [GOC:bf, GOC:mcc, PMID:10966457, PMID:20223701, PMID:9191038]

["\"two-component sensor activity\" NARROW []", "\"two-component sensor molecule\" NARROW []", "\"two-component system sensor activity\" NARROW []"]

["GO:0004673 ! protein histidine kinase activity", "GO:0140299 ! small molecule sensor activity"]

null

EC:2.7.3.-

null

part_of GO:0000160 ! phosphorelay signal transduction system

null

GO:0000156

phosphorelay response regulator activity

molecular_function

"Responds to a phosphorelay sensor to initiate a change in cell state or activity. The activity of the response regulator is regulated by transfer of a phosphate from a histidine residue in the sensor, to an aspartate residue in the response regulator. Many but not all response regulators act as transcriptional regulators to elicit a response." [GOC:bf, PMID:10966457, PMID:11842140]

"two-component response regulator activity" NARROW []

GO:0060089 ! molecular transducer activity

null

term_tracker_item https://github.com/geneontology/go-ontology/issues/15611 xsd:anyURI

null

part_of GO:0000160 ! phosphorelay signal transduction system

null

GO:0000159

protein phosphatase type 2A complex

cellular_component

"A protein complex that has protein serine/threonine phosphatase activity that is polycation-stimulated (PCS), being directly stimulated by protamine, polylysine, or histone H1; it constitutes a subclass of several enzymes activated by different histones and polylysine, and consists of catalytic, scaffolding, and regulatory subunits. The catalytic and scaffolding subunits form the core enzyme, and the holoenzyme also includes the regulatory subunit." [GOC:mah, ISBN:0198547684, PMID:17245430]

["\"PP2A complex\" EXACT []", "\"PP2A-pi\" NARROW []", "\"PP2a-protector\" NARROW []", "\"protein phosphatase 2 complex\" RELATED [GOC:dph, GOC:rl]"]

GO:0008287 ! protein serine/threonine phosphatase complex

null

GO:0000160

phosphorelay signal transduction system

biological_process

"A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins." [PMID:9191038]

"histidyl-aspartyl phosphorelay" EXACT []

GO:0035556 ! intracellular signal transduction

null

goslim_metagenomics

null

GO:0000161

obsolete osmosensory signaling MAPK cascade

biological_process

"OBSOLETE. A MAPK cascade that starts with the activation of a Ssk2/Win1 family MAP3K, which activates a Pbs2/Wis1 family MAP2K, resulting in the activation of a Hog1/Sty1 family MAPK. Hog1 then translocates from the cytosol into the nucleus where it affects the expression of a large number of genes. This cascade is activated by hyperosmolarity or other abiotic stresses and results in cellular responses such as cell cycle arrest." [PMID:17604854, PMID:32794416, PMID:9561267]

["\"activation of MAPK activity involved in osmosensory signaling pathway\" NARROW []", "\"activation of MAPKK activity during osmolarity sensing\" NARROW []", "\"activation of MAPKK activity involved in osmosensory signaling pathway\" NARROW []", "\"activation of MAPKKK activity during osmolarity sensing\" NARROW []", "\"activation of MAPKKK activity involved in osmosensory signaling pathway\" NARROW []", "\"activation of Pbs2 kinase\" NARROW []", "\"High Osmolarity Glycerol (HOG) MAPK pathway\" NARROW [PMID:20880736]", "\"Hog1 MAPK pathway\" NARROW [PMID:20880736]", "\"Hog1/Sty1 stress-activated MAPK cascade\" NARROW []", "\"inactivation of MAPK activity involved in osmosensory signaling pathway\" NARROW []", "\"MAPK cascade involved in osmosensory signaling pathway\" EXACT []", "\"MAPKKK cascade during osmolarity sensing\" EXACT []", "\"MAPKKK cascade involved in osmosensory signaling pathway\" EXACT [GOC:signaling]", "\"MAPKKK cascade involved in osmosensory signalling pathway\" EXACT [GOC:mah]", "\"osmolarity sensing, activation of MAP kinase kinase activity\" NARROW []", "\"osmolarity sensing, activation of MAP kinase kinase kinase activity\" NARROW []", "\"osmolarity sensing, activation of MAPK activity\" NARROW []", "\"osmolarity sensing, activation of MAPKK activity\" NARROW []", "\"osmolarity sensing, activation of MAPKKK activity\" NARROW []", "\"osmolarity sensing, MAPKKK cascade\" EXACT []", "\"termination of MAPK activity during osmolarity sensing\" NARROW []"]

null

["GO:0000167", "GO:0000168", "GO:0000169", "GO:0000173", "GO:0007233"]

This term was obsoleted because it represents the same process as p38MAPK cascade ; GO:0038066.

["term_tracker_item https://github.com/geneontology/go-ontology/issues/20380 xsd:anyURI", "term_tracker_item https://github.com/geneontology/go-ontology/issues/26610 xsd:anyURI"]

true

GO:0038066

null

GO:0000162

tryptophan biosynthetic process

biological_process

"The chemical reactions and pathways resulting in the formation of tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid; tryptophan is synthesized from chorismate via anthranilate." [GOC:mah, ISBN:0471331309, MetaCyc:TRPSYN-PWY]

["\"aromatic amino acid family biosynthetic process, anthranilate pathway\" EXACT []", "\"tryptophan anabolism\" EXACT []", "\"tryptophan biosynthesis\" EXACT []", "\"tryptophan formation\" EXACT []", "\"tryptophan synthesis\" EXACT []"]

["GO:0006568 ! tryptophan metabolic process", "GO:0009073 ! aromatic amino acid family biosynthetic process", "GO:0046219 ! indolalkylamine biosynthetic process", "GO:1901607 ! alpha-amino acid biosynthetic process"]

GO:0009096

null

MetaCyc:TRPSYN-PWY

null

GO:0000164

protein phosphatase type 1 complex

cellular_component

"A protein complex that possesses magnesium-dependent protein serine/threonine phosphatase (AMD phosphatase) activity, and consists of a catalytic subunit and one or more regulatory subunits that dictates the phosphatase's substrate specificity, function, and activity." [GOC:mah, GOC:ssd]

null

GO:0008287 ! protein serine/threonine phosphatase complex

null

part_of GO:0005737 ! cytoplasm

null

GO:0000165

MAPK cascade

biological_process

"An intracellular protein kinase cascade containing at least a MAP kinase (MAPK). It starts with the activation of a MAP3K, and the consecutive activation of a MPK2K and a MAPK. The cascade can also contain an additional tier: the upstream MAP4K. The kinases in each tier phosphorylate and activate the kinase in the downstream tier to transmit a signal within a cell." [PMID:20811974, PMID:9561267]

["\"ERK/MAPK cascade\" NARROW []", "\"MAP kinase cascade\" EXACT []", "\"MAP kinase kinase kinase cascade\" EXACT []", "\"MAPK signal transduction\" EXACT [GOC:signaling]", "\"MAPK signaling\" RELATED []", "\"MAPK signalling\" RELATED []", "\"MAPKKK cascade\" EXACT []", "\"MAPKKK cascade during sporulation\" NARROW []", "\"mitogen-activated protein kinase cascade\" EXACT [GOC:bf]"]

GO:0141124 ! intracellular signaling cassette

GO:0007255

MAPK cascades lie downstream of many cell surface receptors and cooperate in transmitting various extracellular signals to the nucleus. One way by which the specificity of each cascade is regulated is through the existence of several distinct components in each tier of the different cascades. The cascades are typically named according to the component in the MAPK tier.

term_tracker_item https://github.com/geneontology/go-ontology/issues/26806 xsd:anyURI

null

["Wikipedia:MAPK_cascade", "Wikipedia:Mitogen-activated_protein_kinase"]

null

GO:0000166

nucleotide binding

molecular_function

"Binding to a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose." [GOC:mah, ISBN:0198547684]

null

["GO:1901265 ! nucleoside phosphate binding", "GO:1901363 ! heterocyclic compound binding"]

null

["goslim_chembl", "goslim_metagenomics", "goslim_pir", "goslim_plant"]

null

GO:0000170

sphingosine hydroxylase activity

molecular_function

"Catalysis of the hydroxylation of sphingolipid long chain bases." [PMID:9556590]

null

GO:0016491 ! oxidoreductase activity

null

Reactome:R-HSA-428260 "DEGS2 oxygenates dihydroceramide"

null

GO:0000171

ribonuclease MRP activity

molecular_function

"Catalysis of the site-specific cleavage of RNA by a catalytic RNA-mediated mechanism; substrates include the A3 site in the ITS1 of pre-rRNA." [PMID:17881380]

"RNase MRP" EXACT []

GO:0004521 ! RNA endonuclease activity

null

term_tracker_item https://github.com/geneontology/go-ontology/issues/22261 xsd:anyURI

null

Wikipedia:RNase_MRP

null

GO:0000172

ribonuclease MRP complex

cellular_component

"A ribonucleoprotein complex that contains an RNA molecule of the snoRNA family, and cleaves the rRNA precursor as part of rRNA transcript processing. It also has other roles: In S. cerevisiae it is involved in cell cycle-regulated degradation of daughter cell-specific mRNAs, while in mammalian cells it also enters the mitochondria and processes RNAs to create RNA primers for DNA replication." [GOC:sgd_curators, PMID:10690410, PMID:14729943, PMID:7510714]

["\"ribonuclease mitochondrial RNA processing complex\" EXACT []", "\"RNase MRP complex\" EXACT []"]

["GO:0005732 ! sno(s)RNA-containing ribonucleoprotein complex", "GO:1902555 ! endoribonuclease complex"]

null

GO:0000174

obsolete inactivation of MAPK (mating sensu Saccharomyces)

biological_process

"OBSOLETE. Downregulation of MAP kinase activity in the context of transduction of mating pheromone signal, as described for Saccharomyces." [PMID:9561267]

"inactivation of MAPK (mating sensu Saccharomyces)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

GO:0000750

null

GO:0000175

3'-5'-RNA exonuclease activity

molecular_function

"Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule." [GOC:mah, ISBN:0198547684]

["\"3'-5' exoribonuclease activity\" EXACT []", "\"3'-5'-exoribonuclease activity\" EXACT []"]

["GO:0008408 ! 3'-5' exonuclease activity", "GO:0016896 ! RNA exonuclease activity, producing 5'-phosphomonoesters"]

null

["EC:3.1.13.-", "Reactome:R-HSA-430028 \"Exosome Complex hydrolyzes mRNA by 3' to 5' exoribonuclease digestion\"", "Reactome:R-HSA-6791222 \"21S pre-rRNA is nucleolytically processed at site E (site2a) to yield 18SE pre-rRNA\"", "Reactome:R-HSA-6791227 \"47S pre-rRNA is nucleolytically processed at A' (01,A1), site A0, and site 02 (site 6) to yield 45S pre-rRNA\"", "Reactome:R-HSA-9682603 \"nsp14 acts as a 3'-to-5' exonuclease to remove misincorporated nucleotides from nascent RNA\"", "Reactome:R-HSA-9694632 \"nsp14 acts as a 3'-to-5' exonuclease to remove misincorporated nucleotides from nascent RNA\"", "Reactome:R-HSA-9822437 \"DIS3L2 hydrolyzes uridylated mRNA\"", "Reactome:R-HSA-9836585 \"SUPV3L1:PNPT1 hydrolyzes mitochondrial RNA to yield 4-5 nucleotide oligoribonucleotides\"", "Reactome:R-HSA-9836822 \"REXO2 hydrolyzes 4-5 nucleotide RNAs to ribonucleotides\""]

null

GO:0000176

nuclear exosome (RNase complex)

cellular_component

"A ribonuclease complex that has 3-prime to 5-prime processive and distributive hydrolytic exoribonuclease activity and endoribonuclease activity, producing 5-prime-phosphomonoesters. Participates in a multitude of cellular RNA processing and degradation events preventing nuclear export and/or translation of aberrant RNAs. Restricted to processing linear and circular single-stranded RNAs (ssRNA) only. RNAs with complex secondary structures may have to be unwound or pre-processed by co-factors prior to entering the complex, esp if the 3-prime end is structured." [PMID:17174896, PMID:20531386, PMID:26726035]

["\"eukaryotic exosome multienzyme ribonuclease complex\" EXACT []", "\"nuclear exosome (ribonuclease complex)\" EXACT []", "\"nuclear exosome multienzyme ribonuclease complex\" EXACT []"]

["GO:0000178 ! exosome (RNase complex)", "GO:0140513 ! nuclear protein-containing complex"]

null

part_of GO:0031981 ! nuclear lumen

["GO:0000178 ! exosome (RNase complex)", "part_of GO:0005634 ! nucleus"]

null

GO:0000177

cytoplasmic exosome (RNase complex)

cellular_component

"A ribonuclease complex that has 3-prime to 5-prime processive hydrolytic exoribonuclease activity producing 5-prime-phosphomonoesters. Participates in a multitude of cellular RNA processing and degradation events preventing nuclear export and/or translation of aberrant RNAs. Restricted to processing linear and circular single-stranded RNAs (ssRNA) only. RNAs with complex secondary structures may have to be unwound or pre-processed by co-factors prior to entering the complex, esp if the 3-prime end is structured." [PMID:17174896, PMID:20531386, PMID:26726035]

["\"cytoplasmic exosome (ribonuclease complex)\" EXACT []", "\"cytoplasmic exosome multienzyme ribonuclease complex\" EXACT []", "\"prokaryotic exosome multienzyme ribonuclease complex\" EXACT []"]

GO:0000178 ! exosome (RNase complex)

null

part_of GO:0005737 ! cytoplasm

["GO:0000178 ! exosome (RNase complex)", "part_of GO:0005737 ! cytoplasm"]

null

GO:0000178

exosome (RNase complex)

cellular_component

"A ribonuclease complex that has 3-prime to 5-prime exoribonuclease activity and possibly endoribonuclease activity, producing 5-prime-phosphomonoesters. Participates in a multitude of cellular RNA processing and degradation events preventing nuclear export and/or translation of aberrant RNAs. Restricted to processing linear and circular single-stranded RNAs (ssRNA) only. RNAs with complex secondary structures may have to be unwound or pre-processed by co-factors prior to entering the complex, esp if the 3-prime end is structured." [PMID:17174896, PMID:20531386, PMID:26726035]

["\"exosome (ribonucleasease complex)\" EXACT []", "\"exosome multienzyme ribonuclease complex\" EXACT []"]

GO:1905354 ! exoribonuclease complex

null

Note that this term should not be confused with 'exosome' used in the context of vesicles released from multivesicular bodies.

null

goslim_pir

part_of GO:0005622 ! intracellular anatomical structure

null

GO:0000179

rRNA (adenine-N6,N6-)-dimethyltransferase activity

molecular_function

"Catalysis of the dimethylation of two adjacent adenine residues in a rRNA, using S-adenosyl-L-methionine as a methyl donor." [ISBN:1555811337, PMID:10690410]

["\"18S rRNA dimethylase activity\" EXACT []", "\"dimethyladenosine transferase activity\" EXACT []", "\"S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase activity\" EXACT []"]

["GO:0008170 ! N-methyltransferase activity", "GO:0016433 ! rRNA (adenine) methyltransferase activity"]

GO:0043790

null

term_tracker_item https://github.com/geneontology/go-ontology/issues/14459 xsd:anyURI

null

["Reactome:R-HSA-6790994 \"DIMT1 dimethylates adenosine-1850,1851 of 18S rRNA yielding 6-dimethyladenosine-1850,1851\"", "Reactome:R-HSA-6793066 \"TFB1M dimethylates adenosine-936 and adenosine-937 of 12S rRNA yielding 6-dimethyladenosine-936 and 6-dimethyladenosine-937\""]

null

GO:0000180

obsolete cytosolic large ribosomal subunit

cellular_component

"OBSOLETE. (Was not defined before being made obsolete)." [GOC:ai]

"cytosolic large ribosomal subunit" EXACT []

null

This term was made obsolete because more specific children exist.

null

true

null

GO:0022625

null

GO:0000181

obsolete cytosolic small ribosomal subunit

cellular_component

"OBSOLETE. (Was not defined before being made obsolete)." [GOC:ai]

"cytosolic small ribosomal subunit" EXACT []

null

This term was made obsolete because more specific children exist.

null

true

null

GO:0022627

null

GO:0000182

rDNA binding

molecular_function

"Binding to a DNA sequence encoding a ribosomal RNA." [GOC:mah]

"ribosomal DNA binding" EXACT []

GO:1990837 ! sequence-specific double-stranded DNA binding

null

GO:0000183

rDNA heterochromatin formation

biological_process

"The formation of heterochromatin at ribosomal DNA, characterized by the modified histone H3K9me3." [PMID:10219245]

["\"chromatin silencing at rDNA\" RELATED []", "\"chromatin silencing at ribosomal DNA\" BROAD []", "\"heterochromatic silencing at rDNA\" BROAD []", "\"rDNA chromatin silencing\" BROAD [GOC:mah]", "\"rDNA heterochromatin assembly\" EXACT []"]

GO:0140718 ! facultative heterochromatin formation

null

["term_tracker_item https://github.com/geneontology/go-ontology/issues/19238 xsd:anyURI", "term_tracker_item https://github.com/geneontology/go-ontology/issues/23553 xsd:anyURI"]

null

part_of GO:1990700 ! nucleolar chromatin organization

null

GO:0000184

nuclear-transcribed mRNA catabolic process, nonsense-mediated decay

biological_process

"The nonsense-mediated decay pathway for nuclear-transcribed mRNAs degrades mRNAs in which an amino-acid codon has changed to a nonsense codon; this prevents the translation of such mRNAs into truncated, and potentially harmful, proteins." [GOC:krc, GOC:ma, PMID:10025395]

["\"mRNA breakdown, nonsense-mediated decay\" EXACT []", "\"mRNA catabolic process, nonsense-mediated\" EXACT []", "\"mRNA catabolism, nonsense-mediated\" EXACT []", "\"mRNA degradation, nonsense-mediated decay\" EXACT []", "\"nonsense-mediated mRNA decay\" EXACT []", "\"nuclear mRNA catabolic process, nonsense-mediated decay\" EXACT []"]

GO:0000956 ! nuclear-transcribed mRNA catabolic process

null

["Wikipedia:Nonsense-mediated_decay", "Wikipedia:Nonsense-mediated_mRNA_decay"]

null

GO:0000185

obsolete activation of MAPKKK activity

biological_process

"OBSOLETE. Any process that initiates the activity of the inactive enzyme MAP kinase kinase kinase (MAPKKK)." [PMID:9561267]

["\"activation of MAP kinase kinase kinase\" EXACT []", "\"activation of MAP3K activity\" EXACT [GOC:bf]", "\"activation of MAPKKK activity during sporulation\" NARROW []", "\"positive regulation of MAP kinase kinase kinase activity\" BROAD []", "\"positive regulation of MAPKKK activity\" BROAD []"]

null

This term was obsoleted because it represents a molecular function.

term_tracker_item https://github.com/geneontology/go-ontology/issues/21307 xsd:anyURI

true

null

["GO:0000165", "GO:0043539"]

null

GO:0000186

obsolete activation of MAPKK activity

biological_process

"OBSOLETE. The initiation of the activity of the inactive enzyme MAP kinase kinase (MAPKK)." [PMID:9561267]

["\"activation of MAP kinase kinase activity\" EXACT []", "\"activation of MAP/ERK kinase kinase\" EXACT []", "\"activation of MAP2K activity\" EXACT [GOC:bf]", "\"activation of MAPKK activity during sporulation\" NARROW []", "\"positive regulation of MAPKK activity\" BROAD []"]

null

This term was obsoleted because it represents a molecular function.

term_tracker_item https://github.com/geneontology/go-ontology/issues/21307 xsd:anyURI

true

null

["GO:0000165", "GO:0043539"]

null

GO:0000187

obsolete activation of MAPK activity

biological_process

"OBSOLETE. The initiation of the activity of the inactive enzyme MAP kinase (MAPK)." [PMID:9561267]

["\"activation of MAP kinase\" EXACT []", "\"activation of MAPK activity during sporulation\" NARROW []", "\"MAPK activation\" EXACT []"]

null

This term was obsoleted because it represents a molecular function.

term_tracker_item https://github.com/geneontology/go-ontology/issues/21307 xsd:anyURI

true

null

["GO:0000165", "GO:0043539"]

null

GO:0000188

obsolete inactivation of MAPK activity

biological_process

"OBSOLETE. Any process that terminates the activity of the active enzyme MAP kinase." [PMID:9561267]

["\"inactivation of MAPK during sporulation\" NARROW []", "\"termination of MAPK activity\" EXACT []"]

null

This term was obsoleted because it represents a molecular function.

term_tracker_item https://github.com/geneontology/go-ontology/issues/21308 xsd:anyURI

true

null

["GO:0000165", "GO:0043539"]

null

GO:0000189

obsolete MAPK import into nucleus

biological_process

"OBSOLETE. The directed movement of a MAP kinase to the nucleus upon activation." [PMID:9561267]

"nuclear translocation of MAPK" NARROW [GOC:mah]

null

The reason for obsoletion is that all proteins are imported into the nucleus via the same mechanism, so the import of individual proteins should be captured with extensions or by GO-CAM models.

null

true

null

GO:0006606

null

GO:0000190

obsolete MAPKKK cascade (pseudohyphal growth)

biological_process

"OBSOLETE. MAPKKK cascade involved in transduction of signal promoting pseudohyphal or invasive growth." [PMID:9561267]

"MAPKKK cascade (pseudohyphal growth)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000191

obsolete activation of MAPKKK (pseudohyphal growth)

biological_process

"OBSOLETE. Upregulation of MAPKKK activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267]

"activation of MAPKKK (pseudohyphal growth)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000192

obsolete activation of MAPKK (pseudohyphal growth)

biological_process

"OBSOLETE. Upregulation of a MAP kinase kinase in the context of regulating pseudohyphal or invasive growth." [PMID:9561267]

"activation of MAPKK (pseudohyphal growth)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000193

obsolete activation of MAPK (pseudohyphal growth)

biological_process

"OBSOLETE. Upregulation of MAP kinase activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267]

"activation of MAPK (pseudohyphal growth)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000194

obsolete inactivation of MAPK (pseudohyphal growth)

biological_process

"OBSOLETE. Downregulation of MAP kinase activity in the context of regulating pseudohyphal or invasive growth." [PMID:9561267]

"inactivation of MAPK (pseudohyphal growth)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000195

obsolete nuclear translocation of MAPK (pseudohyphal growth)

biological_process

"OBSOLETE. Movement of a MAP kinase to the nucleus in the context of regulating pseudohyphal or invasive growth." [PMID:9561267]

"nuclear translocation of MAPK (pseudohyphal growth)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000196

cell wall integrity MAPK cascade

biological_process

"A MAPK cascade containing at least the SLT2 (S.cerevisiae)/Pmk1 (S.pombe) MAP kinase. It starts with the activation of an upstream MAP4K, and continues with the consecutive activation of a MAP3K and a MAP2K. The upstream MAP4K is activated following the detection of stretching of the plasma membrane or alterations of its connections to the cell wall by membrane sensors." [PMID:15944456, PMID:17604854, PMID:22174182, PMID:26945038, PMID:9561267]

["\"cell integrity MAPK pathway\" EXACT [GOC:vw, PMID:23934882]", "\"cell wall biogenesis, MAPKKK cascade\" EXACT []", "\"CWI pathway\" RELATED []", "\"MAPK cascade involved in cell wall biogenesis\" NARROW [GOC:vw]", "\"MAPK cascade involved in cell wall organization or biogenesis\" EXACT []", "\"MAPKKK cascade involved in cell wall biogenesis\" EXACT [GOC:signaling]", "\"Mpk1 cascade\" NARROW [PMID:10523653]", "\"Pmk1 MAPK cell integrity signaling\" NARROW [PMID:20032302]", "\"Pmk1 mitogen-activated protein kinase (MAPK) cell integrity pathway\" NARROW [PMID:23934882]", "\"PMK1-MAPK signal transduction pathway\" NARROW [PMID:23454094]", "\"Slt2 cascade\" NARROW [PMID:10523653]"]

GO:0051403 ! stress-activated MAPK cascade

null

term_tracker_item https://github.com/geneontology/go-ontology/issues/26610 xsd:anyURI

null

part_of GO:0071554 ! cell wall organization or biogenesis

["GO:0051403 ! stress-activated MAPK cascade", "part_of GO:0071554 ! cell wall organization or biogenesis"]

null

GO:0000197

obsolete activation of MAPKKK activity involved in cell wall organization or biogenesis

biological_process

"OBSOLETE. Any process that initiates the activity of the inactive enzyme MAP kinase kinase kinase in the context of cell wall organization or biogenesis." [PMID:9561267]

["\"activation of MAP kinase kinase kinase activity during cell wall biogenesis\" EXACT []", "\"activation of MAPKKK activity involved in cell wall biogenesis\" RELATED []", "\"activation of MAPKKK activity involved in cell wall integrity\" EXACT [GOC:dgf]", "\"cell wall biogenesis, activation of MAP kinase kinase kinase activity\" EXACT []", "\"cell wall biogenesis, activation of MAPKKK activity\" EXACT []"]

null

This term was obsoleted because it represents a GO-CAM model.

term_tracker_item https://github.com/geneontology/go-ontology/issues/20242 xsd:anyURI

true

null

["GO:0000165", "GO:0043539"]

null

GO:0000198

obsolete activation of MAPKK activity involved in cell wall organization or biogenesis

biological_process

"OBSOLETE. Any process that initiates the activity of the inactive enzyme MAP kinase kinase in the context of cell wall organization or biogenesis." [PMID:9561267]

["\"activation of MAP kinase kinase activity during cell wall biogenesis\" EXACT []", "\"activation of MAPKK activity involved in cell wall biogenesis\" RELATED []", "\"activation of MAPKK activity involved in cell wall integrity\" EXACT [GOC:dgf]", "\"cell wall biogenesis, activation of MAP kinase kinase activity\" EXACT []", "\"cell wall biogenesis, activation of MAPKK activity\" EXACT []"]

null

This term was obsoleted because it represents a GO-CAM model.

term_tracker_item https://github.com/geneontology/go-ontology/issues/20242 xsd:anyURI

true

null

GO:0000199

obsolete activation of MAPK activity involved in cell wall organization or biogenesis

biological_process

"OBSOLETE. Any process that initiates the activity of the inactive enzyme MAP kinase in the context of cell wall biogenesis, the assembly and arrangement of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells." [PMID:9561267]

["\"activation of MAPK activity involved in cell wall biogenesis\" NARROW []", "\"activation of MAPK activity involved in cell wall integrity\" EXACT [GOC:dgf]", "\"cell wall biogenesis, activation of MAPK activity\" EXACT []"]

null

This term was obsoleted because it represents a GO-CAM model.

term_tracker_item https://github.com/geneontology/go-ontology/issues/20242 xsd:anyURI

true

null

GO:0000200

obsolete inactivation of MAPK activity involved in cell wall organization or biogenesis

biological_process

"OBSOLETE. Any process that terminates the activity of the active enzyme MAP kinase in the context of cell wall organization or biogenesis." [PMID:9561267]

["\"cell wall biogenesis, inactivation of MAPK activity\" EXACT []", "\"cell wall biogenesis, termination of MAPK activity\" EXACT []", "\"inactivation of MAPK activity involved in cell wall integrity\" EXACT [GOC:dgf]", "\"inactivation of MAPK activity involved in cell wall organization or biogenesis\" RELATED []", "\"termination of MAPK activity during cell wall biogenesis\" EXACT []"]

null

This term was obsoleted because it represents a GO-CAM model.

term_tracker_item https://github.com/geneontology/go-ontology/issues/20242 xsd:anyURI

true

null

GO:0000201

obsolete MAPK import into nucleus involved in cell wall organization or biogenesis

biological_process

"OBSOLETE. The directed movement of a MAP kinase to the nucleus that occurs in the context of cell wall organization or biogenesis." [PMID:9561267]

["\"cell wall biogenesis, MAPK import into nucleus\" EXACT [GOC:mah]", "\"cell wall biogenesis, nuclear translocation of MAPK\" NARROW [GOC:mah]", "\"MAPK import into nucleus involved in cell wall biogenesis\" NARROW [GOC:vw]", "\"MAPK import into nucleus involved in cell wall integrity\" EXACT [GOC:dgf, GOC:mah]", "\"nuclear translocation of MAPK involved in cell wall biogenesis\" NARROW [GOC:mah]", "\"nuclear translocation of MAPK involved in cell wall integrity\" NARROW [GOC:dgf, GOC:mah]"]

null

The reason for obsoletion is that this term represents a GO-CAM model.

null

true

null

GO:0006606

null

GO:0000202

obsolete MAPKKK cascade during sporulation (sensu Saccharomyces)

biological_process

"OBSOLETE. MAPKKK cascade involved in transduction of signal promoting sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267]

"MAPKKK cascade during sporulation (sensu Saccharomyces)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000203

obsolete activation of MAPKKK during sporulation (sensu Saccharomyces)

biological_process

"OBSOLETE. Upregulation of MAPKKK activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267]

"activation of MAPKKK during sporulation (sensu Saccharomyces)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000204

obsolete activation of MAPKK during sporulation (sensu Saccharomyces)

biological_process

"OBSOLETE. Upregulation of a MAP kinase kinase in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267]

"activation of MAPKK during sporulation (sensu Saccharomyces)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000205

obsolete activation of MAPK during sporulation (sensu Saccharomyces)

biological_process

"OBSOLETE. Upregulation of MAP kinase activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267]

"activation of MAPK during sporulation (sensu Saccharomyces)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000206

obsolete inactivation of MAPK during sporulation (sensu Saccharomyces)

biological_process

"OBSOLETE. Downregulation of MAP kinase activity in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267]

"inactivation of MAPK during sporulation (sensu Saccharomyces)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000207

obsolete nuclear translocation of MAPK during sporulation (sensu Saccharomyces)

biological_process

"OBSOLETE. Movement of a MAP kinase to the nucleus in the context of sporulation. As in, but not restricted to, the taxon Saccharomyces (Saccharomyces, ncbi_taxonomy_id:4930)." [PMID:9561267]

"nuclear translocation of MAPK during sporulation (sensu Saccharomyces)" EXACT []

null

This term was made obsolete because it is a gene product specific term.

null

true

null

GO:0000208

obsolete MAPK import into nucleus involved in osmosensory signaling pathway

biological_process

"OBSOLETE. The directed movement of a MAP kinase to the nucleus during osmolarity sensing." [PMID:9561267]

["\"MAPK import into nucleus during osmolarity sensing\" EXACT [GOC:mah]", "\"MAPK import into nucleus involved in osmosensory signalling pathway\" EXACT [GOC:mah]", "\"nuclear translocation of MAPK during osmolarity sensing\" EXACT []", "\"nuclear translocation of MAPK involved in osmosensory signaling pathway\" NARROW [GOC:mah]", "\"nuclear translocation of MAPK involved in osmosensory signalling pathway\" NARROW [GOC:mah]", "\"osmolarity sensing, MAPK import into nucleus\" EXACT [GOC:mah]", "\"osmolarity sensing, nuclear translocation of MAPK\" NARROW [GOC:mah]"]

null

The reason for obsoletion is that this term represents a GO-CAM model.

null

true

null

GO:0006606

null

GO:0000209

protein polyubiquitination

biological_process

"Addition of multiple ubiquitin groups to a protein, forming a ubiquitin chain." [ISBN:0815316194]

["\"polyubiquitin\" RELATED []", "\"protein polyubiquitinylation\" EXACT []", "\"protein polyubiquitylation\" EXACT []"]

GO:0016567 ! protein ubiquitination

null

GO:0000210

NAD+ diphosphatase activity

molecular_function

"Catalysis of the reaction: NAD+ + H2O = AMP + NMN." [RHEA:11800]

["\"NAD diphosphatase activity\" BROAD []", "\"NAD pyrophosphatase activity\" BROAD []", "\"NAD(+) pyrophosphatase activity\" EXACT []", "\"NAD+ phosphohydrolase activity\" EXACT []", "\"NAD+ pyrophosphatase activity\" EXACT []", "\"NADP pyrophosphatase activity\" RELATED [EC:3.6.1.22]", "\"nicotinamide adenine dinucleotide pyrophosphatase activity\" RELATED [EC:3.6.1.22]"]

GO:0004551 ! dinucleotide phosphatase activity

null

term_tracker_item https://github.com/geneontology/go-ontology/issues/19775 xsd:anyURI

null

["EC:3.6.1.22", "MetaCyc:NADPYROPHOSPHAT-RXN", "RHEA:11800"]

null

GO:0000211

obsolete protein degradation tagging activity

molecular_function

"OBSOLETE. Covalent addition of polyubiquitin to another protein, targeting the tagged protein for destruction." [GOC:cl, ISBN:0815316194]

"protein degradation tagging activity" EXACT []

null

This term was made obsolete because it represents a biological process and a molecular function.

null

true

null

["GO:0005515", "GO:0019941"]

null

GO:0000212

meiotic spindle organization

biological_process

"A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the microtubule spindle during a meiotic cell cycle." [GOC:go_curators, GOC:mah]

["\"meiotic spindle organisation\" EXACT []", "\"meiotic spindle organization and biogenesis\" RELATED [GOC:mah]", "\"meiotic spindle stabilization\" RELATED []", "\"spindle organization during meiosis\" EXACT [GOC:mah]"]

["GO:0007051 ! spindle organization", "GO:1903046 ! meiotic cell cycle process"]

GO:0043147

null

["GO:0007051 ! spindle organization", "part_of GO:0051321 ! meiotic cell cycle"]

null

GO:0000213

tRNA-intron endonuclease activity

molecular_function

"Catalysis of the endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxyl and 2',3'-cyclic phosphate termini, and specifically removing the intron." [EC:4.6.1.16]

["\"tRNA splicing endonuclease activity\" RELATED [EC:4.6.1.16]", "\"tRNA-intron endoribonuclease activity\" EXACT []"]

["GO:0004549 ! tRNA-specific ribonuclease activity", "GO:0016892 ! RNA endonuclease activity, producing 3'-phosphomonoesters"]

null

["EC:4.6.1.16", "MetaCyc:3.1.27.9-RXN"]

null

GO:0000214

tRNA-intron endonuclease complex

cellular_component

"A protein complex that catalyzes the endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxyl and 2',3'-cyclic phosphate termini, and specifically removing the intron." [PMID:22391451]

["\"SEN complex\" EXACT [GOC:se, PMID:22391451]", "\"tRNA splicing endonuclease complex\" EXACT [GOC:se, PMID:22391451]"]

["GO:0140513 ! nuclear protein-containing complex", "GO:1902555 ! endoribonuclease complex"]

null

GO:0000215

tRNA 2'-phosphotransferase activity

molecular_function

"Catalysis of the reaction: 2'-phospho-[ligated tRNA] + NAD+ = mature tRNA + ADP ribose 1'',2''-phosphate + nicotinamide + H2O. This reaction is the transfer of the splice junction 2-phosphate from ligated tRNA to NAD+ to produce ADP-ribose 1'-2' cyclic phosphate." [EC:2.7.1.160, PMID:9148937]

["\"2'-phospho-[ligated tRNA]:NAD+ phosphotransferase activity\" RELATED [EC:2.7.1.160]", "\"2'-phospho-tRNA:NAD+ phosphotransferase activity\" RELATED [EC:2.7.1.160]", "\"2'-phosphotransferase activity\" BROAD []", "\"Tpt1\" RELATED [EC:2.7.1.160]", "\"Tpt1p\" RELATED [EC:2.7.1.160]", "\"yeast 2'-phosphotransferase activity\" NARROW [EC:2.7.1.160]"]

["GO:0016773 ! phosphotransferase activity, alcohol group as acceptor", "GO:0140101 ! catalytic activity, acting on a tRNA"]

GO:0008665

null

["EC:2.7.1.160", "MetaCyc:2.7.1.160-RXN", "RHEA:23324"]

null

goslim_chembl

null

GO:0000216

obsolete M/G1 transition of mitotic cell cycle

biological_process

"OBSOLETE. Progression from M phase to G1 phase of the mitotic cell cycle." [GOC:mah, GOC:mtg_cell_cycle]

"M/G1 transition of mitotic cell cycle" EXACT []

null

This term was made obsolete because it does not refer to a real biological process.

null

true

null

GO:0000217

DNA secondary structure binding

molecular_function

"Binding to a DNA secondary structure element such as a four-way junction, a bubble, a loop, Y-form DNA, or a double-strand/single-strand junction." [GOC:krc]

null

GO:0003677 ! DNA binding

null

GO:0000219

obsolete vacuolar hydrogen-transporting ATPase

cellular_component

"OBSOLETE. (Was not defined before being made obsolete)." [GOC:go_curators]

["\"V-ATPase\" EXACT []", "\"vacuolar hydrogen-transporting ATPase\" EXACT []"]

null

This term was made obsolete because more specific terms were created.

null

true

null

GO:0016469

null

GO:0000220

vacuolar proton-transporting V-type ATPase, V0 domain

cellular_component

"The V0 domain of a proton-transporting V-type ATPase found in the vacuolar membrane." [GOC:mah, PMID:16449553]

"vacuolar hydrogen ion-transporting ATPase V0 domain" EXACT []

GO:0033179 ! proton-transporting V-type ATPase, V0 domain

null

Note that this domain often consists of five subunits, although in some mammalian tissues it may have an additional subunit.

null

part_of GO:0016471 ! vacuolar proton-transporting V-type ATPase complex

["GO:0033179 ! proton-transporting V-type ATPase, V0 domain", "part_of GO:0005774 ! vacuolar membrane"]

null

GO:0000221

vacuolar proton-transporting V-type ATPase, V1 domain

cellular_component

"The V1 domain of a proton-transporting V-type ATPase found in the vacuolar membrane." [GOC:mah, PMID:16449553]

"vacuolar hydrogen ion-transporting ATPase V1 domain" EXACT []

GO:0033180 ! proton-transporting V-type ATPase, V1 domain

null

Note that this domain generally consists of eight subunits.

null

part_of GO:0016471 ! vacuolar proton-transporting V-type ATPase complex

["GO:0033180 ! proton-transporting V-type ATPase, V1 domain", "part_of GO:0005773 ! vacuole"]

null

GO:0000222

plasma membrane proton-transporting V-type ATPase, V0 domain

cellular_component

"The V0 domain of a proton-transporting V-type ATPase found in the plasma membrane." [GOC:mah]

"plasma membrane hydrogen ion-transporting ATPase V0 domain" EXACT []

["GO:0033179 ! proton-transporting V-type ATPase, V0 domain", "GO:0098797 ! plasma membrane protein complex"]

null

part_of GO:0033181 ! plasma membrane proton-transporting V-type ATPase complex

["GO:0033179 ! proton-transporting V-type ATPase, V0 domain", "part_of GO:0005886 ! plasma membrane"]

null

GO:0000223

plasma membrane proton-transporting V-type ATPase, V1 domain

cellular_component

"The V1 domain of a proton-transporting V-type ATPase found in the plasma membrane." [GOC:mah]

"plasma membrane hydrogen ion-transporting ATPase V1 domain" EXACT []

["GO:0033180 ! proton-transporting V-type ATPase, V1 domain", "GO:0098797 ! plasma membrane protein complex"]

null

part_of GO:0033181 ! plasma membrane proton-transporting V-type ATPase complex

["GO:0033180 ! proton-transporting V-type ATPase, V1 domain", "part_of GO:0005886 ! plasma membrane"]

null

GO:0000224

peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity

molecular_function

"Catalysis of the reaction: 4-N-(N-acetyl-D-glucosaminyl)-protein + H2O = N-acetyl-beta-D-glucosaminylamine + peptide L-aspartate. This reaction is the hydrolysis of an N4-(acetyl-beta-D-glucosaminyl)asparagine residue in which the N-acetyl-D-glucosamine residue may be further glycosylated, to yield a (substituted) N-acetyl-beta-D-glucosaminylamine and the peptide containing an aspartic residue." [EC:3.5.1.52]

["\"glycopeptidase activity\" BROAD [EC:3.5.1.52]", "\"glycopeptide N-glycosidase activity\" BROAD [EC:3.5.1.52]", "\"jack-bean glycopeptidase\" NARROW [EC:3.5.1.52]", "\"N-glycanase activity\" RELATED [EC:3.5.1.52]", "\"N-linked-glycopeptide-(N-acetyl-beta-D-glucosaminyl)-L-asparagine amidohydrolase activity\" RELATED [EC:3.5.1.52]", "\"N-oligosaccharide glycopeptidase activity\" RELATED [EC:3.5.1.52]", "\"peptide:N-glycanase\" RELATED []", "\"PNGase\" EXACT []", "\"PNGase A\" RELATED [EC:3.5.1.52]", "\"PNGase F\" RELATED [EC:3.5.1.52]"]

GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides

null

["EC:3.5.1.52", "MetaCyc:3.5.1.52-RXN", "Reactome:R-HSA-8850594 \"Deglycosylation complex hydrolyses N-glycans from unfolded glycoproteins\""]

null

GO:0000225

N-acetylglucosaminylphosphatidylinositol deacetylase activity

molecular_function

"Catalysis of the reaction: N-acetyl-D-glucosaminylphosphatidylinositol + H2O = D-glucosaminylphosphatidylinositol + acetate. This reaction is the second step of the biosynthesis of glycosylphosphatidylinositol (GPI), used to anchor various eukaryotic proteins to the cell-surface membrane." [EC:3.5.1.89]

["\"6-(N-acetyl-alpha-D-glucosaminyl)-1-phosphatidyl-1D-myo-inositol acetylhydrolase activity\" RELATED [EC:3.5.1.89]", "\"acetylglucosaminylphosphatidylinositol deacetylase activity\" RELATED [EC:3.5.1.89]", "\"GlcNAc-PI de-N-acetylase activity\" RELATED [EC:3.5.1.89]", "\"GlcNAc-PI deacetylase activity\" RELATED [EC:3.5.1.89]", "\"N-acetyl-D-glucosaminylphosphatidylinositol acetylhydrolase activity\" RELATED [EC:3.5.1.89]", "\"N-acetylglucosaminylphosphatidylinositol de-N-acetylase activity\" RELATED [EC:3.5.1.89]"]

["GO:0016811 ! hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides", "GO:0019213 ! deacetylase activity"]

null

Note that this function was formerly EC:3.1.1.69.

null

["EC:3.5.1.89", "MetaCyc:3.1.1.69-RXN", "Reactome:R-HSA-162857 \"N-acetylglucosaminyl-PI + H2O -> glucosaminyl-PI + acetate\"", "RHEA:11660"]

null

GO:0000226

microtubule cytoskeleton organization

biological_process

"A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising microtubules and their associated proteins." [GOC:mah]

["\"microtubule cytoskeleton organisation\" EXACT [GOC:mah]", "\"microtubule cytoskeleton organization and biogenesis\" RELATED [GOC:mah]"]

["GO:0007010 ! cytoskeleton organization", "GO:0007017 ! microtubule-based process"]

null

["term_tracker_item https://github.com/geneontology/go-ontology/issues/23114 xsd:anyURI", "term_tracker_item https://github.com/geneontology/go-ontology/issues/23195 xsd:anyURI"]

null

goslim_pombe

null

GO:0000227

oxaloacetate secondary active transmembrane transporter activity

molecular_function

"Enables the transfer of oxaloacetate from one side of a membrane to the other, up its concentration gradient. The transporter binds the solute and undergoes a series of conformational changes. Transport works equally well in either direction and is driven by a chemiosmotic source of energy. Secondary active transporters include symporters and antiporters." [GOC:mtg_transport]

"oxaloacetate carrier activity" RELATED []

["GO:0015131 ! oxaloacetate transmembrane transporter activity", "GO:0015291 ! secondary active transmembrane transporter activity"]

null

GO:0000228

nuclear chromosome

cellular_component

"A chromosome that encodes the nuclear genome and is found in the nucleus of a eukaryotic cell during the cell cycle phases when the nucleus is intact." [GOC:dph, GOC:mah]

"nuclear interphase chromosome" NARROW []

GO:0005694 ! chromosome

null

["goslim_chembl", "goslim_generic"]

part_of GO:0031981 ! nuclear lumen

["GO:0005694 ! chromosome", "part_of GO:0005634 ! nucleus"]

null

GO:0000229

obsolete cytoplasmic chromosome

cellular_component

"OBSOLETE. A chromosome found in the cytoplasm." [GOC:mah]

"cytoplasmic interphase chromosome" NARROW []

null

This term was obsoleted because it is an unnecessary grouping class.

term_tracker_item https://github.com/geneontology/go-ontology/issues/22177 xsd:anyURI

true

GO:0005694

null

GO:0000230

obsolete nuclear mitotic chromosome

cellular_component

"OBSOLETE. A chromosome found in the nucleus during mitosis." [GOC:mah]

"nuclear mitotic chromosome" EXACT []

null

This term was made obsolete because it is based on a temporal division of the cell cycle.

null

true

null

GO:0000794

null

GO:0000231

obsolete cytoplasmic mitotic chromosome

cellular_component

"OBSOLETE. A chromosome found in the cytoplasm during mitosis." [GOC:mah]

"cytoplasmic mitotic chromosome" EXACT []

null

This term was made obsolete because it is based on a temporal division of the cell cycle.

null

true

null

GO:0000793

null

GO:0000232

obsolete nuclear interphase chromosome

cellular_component

"OBSOLETE. A chromosome found in the nucleus during interphase." [GOC:mah]

"nuclear interphase chromosome" EXACT []

null

This term was made obsolete because it is based on a temporal division of the cell cycle.

null

true

null

GO:0000228

null

GO:0000233

obsolete cytoplasmic interphase chromosome

cellular_component

"OBSOLETE. A chromosome found in the cytoplasm during interphase." [GOC:mah]

"cytoplasmic interphase chromosome" EXACT []

null

This term was made obsolete because it is based on a temporal division of the cell cycle.

null

true

null

GO:0005694

null

GO:0000234

phosphoethanolamine N-methyltransferase activity

molecular_function

"Catalysis of the reaction: S-adenosyl-L-methionine + ethanolamine phosphate = S-adenosyl-L-homocysteine + N-methylethanolamine phosphate." [EC:2.1.1.103]

["\"phosphoethanolamine methyltransferase activity\" RELATED [EC:2.1.1.103]", "\"S-adenosyl-L-methionine:ethanolamine-phosphate N-methyltransferase activity\" RELATED [EC:2.1.1.103]"]

["GO:0008170 ! N-methyltransferase activity", "GO:0008757 ! S-adenosylmethionine-dependent methyltransferase activity"]

null

["EC:2.1.1.103", "KEGG_REACTION:R02037", "MetaCyc:2.1.1.103-RXN", "RHEA:20365"]

null

GO:0000235

astral microtubule

cellular_component

"Any of the spindle microtubules that radiate in all directions from the spindle poles and are thought to contribute to the forces that separate the poles and position them in relation to the rest of the cell." [ISBN:0815316194]

null

["GO:0005876 ! spindle microtubule", "GO:0005881 ! cytoplasmic microtubule"]

null

part_of GO:0005818 ! aster

["GO:0005876 ! spindle microtubule", "part_of GO:0005818 ! aster"]

null

GO:0000236

mitotic prometaphase

biological_process

"The cell cycle phase in higher eukaryotes which follows mitotic prophase and during which the nuclear envelope is disrupted and breaks into membrane vesicles, and the spindle microtubules enter the nuclear region. Kinetochores mature on each centromere and attach to some of the spindle microtubules. Kinetochore microtubules begin the process of aligning chromosomes in one plane halfway between the poles." [GOC:mtg_cell_cycle]

null

GO:0000087 ! mitotic M phase

null

Note that this term should not be used for direct annotation. If you are trying to make an annotation to x phase, it is likely that the correct annotation is 'regulation of x/y phase transition' or to a process which occurs during the reported phase (i.e mitotic DNA replication for mitotic S-phase). To capture the phase when a specific location or process is observed, the phase term can be used in an annotation extension (PMID:24885854) applied to a cellular component term (with the relation exists_during) or a biological process term (with the relation happens_during).

term_tracker_item https://github.com/geneontology/go-ontology/issues/24374 xsd:anyURI

null

gocheck_do_not_annotate

null