format-version: 1.2
data-version: go/releases/2025-03-11/subsets/goslim_metagenomics.owl
subsetdef: chebi_ph7_3 "Rhea list of ChEBI terms representing the major species at pH 7.3."
subsetdef: gocheck_do_not_annotate "Term not to be used for direct annotation"
subsetdef: gocheck_obsoletion_candidate "Terms planned for obsoletion"
subsetdef: goslim_agr "AGR slim"
subsetdef: goslim_aspergillus "Aspergillus GO slim"
subsetdef: goslim_candida "Candida GO slim"
subsetdef: goslim_chembl "ChEMBL protein targets summary"
subsetdef: goslim_drosophila "Drosophila GO slim"
subsetdef: goslim_euk_cellular_processes_ribbon "GO ribbon for eukaroytic cellular processes"
subsetdef: goslim_flybase_ribbon "Insecta GO ribbon slim"
subsetdef: goslim_generic "Generic GO slim"
subsetdef: goslim_metagenomics "Metagenomics GO slim"
subsetdef: goslim_mouse "Mouse GO slim"
subsetdef: goslim_pir "PIR GO slim"
subsetdef: goslim_plant "Plant GO slim"
subsetdef: goslim_plant_ribbon "Plant GO ribbon"
subsetdef: goslim_pombe "Fission yeast GO slim"
subsetdef: goslim_prokaryote "GO subset for prokaryotes"
subsetdef: goslim_prokaryote_ribbon "Prokaryote GO ribbon slim"
subsetdef: goslim_synapse "synapse GO slim"
subsetdef: goslim_virus "GO subset for viruses"
subsetdef: goslim_yeast "Yeast GO slim"
synonymtypedef: syngo_official_label "label approved by the SynGO project"
synonymtypedef: systematic_synonym "Systematic synonym" EXACT
ontology: go/subsets/goslim_metagenomics
property_value: owl:versionInfo "2025-03-11" xsd:string

[Term]
id: GO:0000015
name: phosphopyruvate hydratase complex
namespace: cellular_component
def: "A multimeric enzyme complex, usually a dimer or an octamer, that catalyzes the conversion of 2-phospho-D-glycerate to phosphoenolpyruvate and water." [GOC:jl, ISBN:0198506732]
subset: goslim_metagenomics
synonym: "enolase complex" EXACT []
is_a: GO:1902494 ! catalytic complex
relationship: part_of GO:0005737 ! cytoplasm

[Term]
id: GO:0000150
name: DNA strand exchange activity
namespace: molecular_function
def: "Catalysis of the identification and base-pairing of homologous sequences between single-stranded DNA and double-stranded DNA." [GOC:elh]
comment: 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'.
subset: goslim_metagenomics
synonym: "RecA-family recombinase activity" RELATED []
synonym: "recombinase activity" EXACT []
synonym: "strand exchange activity" RELATED []
synonym: "strand transferase" NARROW []
xref: Reactome:R-HSA-912458 "Formation of meiotic heteroduplex"
is_a: GO:0003824 ! catalytic activity
relationship: part_of GO:0006259 ! DNA metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20964" xsd:anyURI

[Term]
id: GO:0000160
name: phosphorelay signal transduction system
namespace: biological_process
def: "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]
subset: goslim_metagenomics
synonym: "histidyl-aspartyl phosphorelay" EXACT []
is_a: GO:0007165 ! signal transduction
relationship: occurs_in GO:0005622 ! intracellular anatomical structure

[Term]
id: GO:0000166
name: nucleotide binding
namespace: molecular_function
def: "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]
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0003674
name: molecular_function
namespace: molecular_function
alt_id: GO:0005554
def: "A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs." [GOC:pdt]
comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
synonym: "molecular function" EXACT []

[Term]
id: GO:0003676
name: nucleic acid binding
namespace: molecular_function
alt_id: GO:0000496
def: "Binding to a nucleic acid." [GOC:jl]
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
synonym: "base pairing" NARROW []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0003700
name: DNA-binding transcription factor activity
namespace: molecular_function
alt_id: GO:0000130
alt_id: GO:0001071
alt_id: GO:0001130
alt_id: GO:0001131
alt_id: GO:0001151
alt_id: GO:0001199
alt_id: GO:0001204
def: "A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons." [GOC:txnOH-2018]
comment: Usage guidance: Most DNA-binding transcription factors do not have enzymatic activity. The presence of specific DNA-binding domains known to be present in DNA-binding transcription factors (HOX, GATA etc) should be used to help decide whether a protein is a DNA binding transcription factor or a coregulator. If a protein has an enzymatic activity (for example, ubiquitin ligase, histone acetyl transferase) and no known DNA binding domain, consider annotating to GO:0003712 transcription coregulator activity. Special care should be taken with proteins containing zinc fingers, Myb/SANT and ARID domains, since only a subset of proteins containing these domains directly and selectively bind to regulatory DNA motifs in cis-regulatory regions.
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_plant
subset: goslim_yeast
synonym: "bacterial-type DNA binding transcription factor activity" NARROW []
synonym: "bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity" NARROW []
synonym: "bacterial-type RNA polymerase transcription enhancer sequence-specific DNA binding transcription factor activity" NARROW []
synonym: "bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding" NARROW []
synonym: "bacterial-type RNA polymerase transcription factor activity, sequence-specific DNA binding" NARROW []
synonym: "DNA binding transcription factor activity" EXACT []
synonym: "gene-specific transcription factor activity" EXACT []
synonym: "metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" NARROW []
synonym: "metal ion regulated sequence-specific DNA binding transcription factor activity" NARROW []
synonym: "nucleic acid binding transcription factor activity" BROAD []
synonym: "sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity" NARROW []
synonym: "sequence-specific DNA binding transcription factor activity" EXACT []
synonym: "transcription factor activity" BROAD []
synonym: "transcription factor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding" NARROW []
synonym: "transcription factor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding" NARROW []
synonym: "transcription factor activity, bacterial-type RNA polymerase transcription enhancer sequence-specific binding" NARROW []
synonym: "transcription factor activity, metal ion regulated sequence-specific DNA binding" NARROW []
xref: Reactome:R-HSA-163666 "Formation of ChREBP:MLX heterodimer"
is_a: GO:0003674 ! molecular_function
relationship: has_part GO:0003676 ! nucleic acid binding
relationship: part_of GO:0019222 ! regulation of metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15704" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16534" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20253" xsd:anyURI
created_by: krc
creation_date: 2010-10-21T04:37:54Z

[Term]
id: GO:0003735
name: structural constituent of ribosome
namespace: molecular_function
alt_id: GO:0003736
alt_id: GO:0003737
alt_id: GO:0003738
alt_id: GO:0003739
alt_id: GO:0003740
alt_id: GO:0003741
alt_id: GO:0003742
def: "The action of a molecule that contributes to the structural integrity of the ribosome." [GOC:mah]
comment: Note that this term may be used to annotate ribosomal RNAs as well as ribosomal proteins.
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_metagenomics
subset: goslim_yeast
synonym: "ribosomal protein" BROAD []
synonym: "ribosomal RNA" RELATED []
is_a: GO:0003674 ! molecular_function
relationship: occurs_in GO:0005622 ! intracellular anatomical structure
relationship: occurs_in GO:0005840 ! ribosome

[Term]
id: GO:0003824
name: catalytic activity
namespace: molecular_function
def: "Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic." [GOC:vw, ISBN:0198506732]
subset: goslim_agr
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote_ribbon
synonym: "enzyme activity" EXACT [GOC:dph, GOC:tb]
xref: Wikipedia:Enzyme
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0004601
name: peroxidase activity
namespace: molecular_function
alt_id: GO:0016685
alt_id: GO:0016686
alt_id: GO:0016687
alt_id: GO:0016693
def: "Catalysis of the reaction: a donor + a peroxide = an oxidized donor + 2 H2O." [GOC:curators]
subset: goslim_metagenomics
synonym: "bacterial catalase-peroxidase activity" NARROW []
synonym: "donor:hydrogen-peroxide oxidoreductase activity" RELATED []
synonym: "eosinophil peroxidase activity" NARROW []
synonym: "extensin peroxidase" NARROW []
synonym: "guaiacol peroxidase" NARROW []
synonym: "heme peroxidase" NARROW []
synonym: "horseradish peroxidase (HRP)" NARROW []
synonym: "japanese radish peroxidase" NARROW []
synonym: "lactoperoxidase activity" NARROW []
synonym: "MPO" RELATED []
synonym: "myeloperoxidase activity" NARROW []
synonym: "oxyperoxidase activity" RELATED []
synonym: "peroxidase reaction" EXACT []
synonym: "protoheme peroxidase" NARROW []
synonym: "pyrocatechol peroxidase" NARROW []
synonym: "scopoletin peroxidase" NARROW []
synonym: "secretory plant peroxidase activity" NARROW []
synonym: "thiocyanate peroxidase" NARROW []
synonym: "verdoperoxidase" NARROW []
xref: EC:1.11.1.-
xref: KEGG_REACTION:R03532
xref: Reactome:R-HSA-1222346 "AhpC reduces H2O2"
xref: Reactome:R-HSA-140359 "PGG2 is reduced to PGH2 by PTGS1"
xref: Reactome:R-HSA-209815 "Tyrosine is monoiodinated"
xref: Reactome:R-HSA-209840 "Two DITs combine to form thyroxine"
xref: Reactome:R-HSA-209925 "DIT and MIT combine to form triiodothyronine"
xref: Reactome:R-HSA-209973 "Tyrosine is diiodinated"
xref: Reactome:R-HSA-2309773 "PGG2 is reduced to PGH2 by PTGS2"
xref: Reactome:R-HSA-2559639 "Collagen type IV sulfilimine cross-linking by peroxidasin"
xref: Reactome:R-HSA-3341296 "GPX7,8 catalyze peroxidation of P4HB (PDI)"
xref: Reactome:R-HSA-350901 "Iodide is organified"
xref: Reactome:R-HSA-5631885 "PRDX1 overoxidizes"
xref: Reactome:R-HSA-6789031 "Membrane-bound myeloperoxidase (MPO) produces hypochlorous acid (HOCl)"
xref: Reactome:R-HSA-6789126 "Myeloperoxidase (MPO) produces hypochlorous acid (HOCl)"
xref: Reactome:R-HSA-8855490 "Lactoperoxidase (LPO) produces OSCN-"
xref: Reactome:R-HSA-8933635 "Myeloperoxidase (MPO) catalyzes oxidation of nitrite to nitrogen dioxide"
xref: Wikipedia:Peroxidase
is_a: GO:0016209 ! antioxidant activity
is_a: GO:0016491 ! oxidoreductase activity
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23121" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25776" xsd:anyURI

[Term]
id: GO:0004803
name: transposase activity
namespace: molecular_function
alt_id: GO:0004804
def: "Catalysis of the transposition of transposable elements or transposons. Transposases are involved in recombination required for transposition and are site-specific for the transposon/transposable element." [GOC:bm, ISBN:0198506732]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "P-element encoded transposase activity" NARROW []
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0005215
name: transporter activity
namespace: molecular_function
alt_id: GO:0005478
def: "Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, accross or in between cells." [GOC:ai, GOC:dgf]
comment: Some transporters, such as certain members of the SLC family, are referred to as 'carriers'; however GO uses carrier with a different meaning: a carrier binds to and transports the substance (see GO:0140104 molecular carrier activity), whereas a transporter forms some pore that allows the passing of molecules.
subset: gocheck_do_not_annotate
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "carrier" RELATED []
is_a: GO:0003674 ! molecular_function
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27621" xsd:anyURI

[Term]
id: GO:0005515
name: protein binding
namespace: molecular_function
alt_id: GO:0001948
alt_id: GO:0045308
def: "Binding to a protein." [GOC:go_curators]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote_ribbon
synonym: "glycoprotein binding" NARROW []
synonym: "protein amino acid binding" EXACT []
xref: Reactome:R-HSA-9866132 "Intermediate II binds CYC1, UQCRC1, UQCRC2, UQCRH"
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0005575
name: cellular_component
namespace: cellular_component
alt_id: GO:0008372
def: "A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex)." [GOC:pdt]
comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for the annotation of gene products whose cellular component is unknown. When this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
synonym: "cell or subcellular entity" EXACT []
synonym: "cellular component" EXACT []
synonym: "subcellular entity" RELATED [NIF_Subcellular:nlx_subcell_100315]
xref: NIF_Subcellular:sao1337158144
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17729" xsd:anyURI

[Term]
id: GO:0005576
name: extracellular region
namespace: cellular_component
def: "The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite." [GOC:go_curators]
comment: Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'.
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "extracellular" EXACT []
xref: Wikipedia:Extracellular
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0005618
name: cell wall
namespace: cellular_component
def: "The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins." [GOC:giardia, ISBN:0198547684, PMID:15134259, Wikipedia:Microbial_cyst]
comment: Not to be used for manual annotation. Please choose a more specific term: for bacteria, annotate to GO:0009274; peptidoglycan-based cell wall, for plants: annotate to GO:0009505 ; plant-type cell wall, for fungi: GO:0009277 ; fungal-type cell wall, and for archae, use GO:0030115 S-layer (see PMID:31214995).
subset: gocheck_do_not_annotate
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
xref: Wikipedia:Cell_wall
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0005575 ! cellular_component
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21669" xsd:anyURI

[Term]
id: GO:0005622
name: intracellular anatomical structure
namespace: cellular_component
def: "A component of a cell contained within (but not including) the plasma membrane. In eukaryotes it includes the nucleus and cytoplasm." [ISBN:0198506732]
subset: gocheck_do_not_annotate
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_plant
synonym: "internal to cell" EXACT []
synonym: "intracellular" EXACT []
synonym: "nucleocytoplasm" RELATED [GOC:mah]
synonym: "protoplasm" EXACT []
synonym: "protoplast" RELATED [GOC:mah]
xref: Wikipedia:Intracellular
is_a: GO:0005575 ! cellular_component
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17776" xsd:anyURI

[Term]
id: GO:0005634
name: nucleus
namespace: cellular_component
def: "A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent." [GOC:go_curators]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "cell nucleus" EXACT []
synonym: "horsetail nucleus" NARROW [GOC:al, GOC:mah, GOC:vw, PMID:15030757]
xref: NIF_Subcellular:sao1702920020
xref: Wikipedia:Cell_nucleus
is_a: GO:0005575 ! cellular_component
relationship: has_part GO:0016020 ! membrane
relationship: part_of GO:0005622 ! intracellular anatomical structure

[Term]
id: GO:0005694
name: chromosome
namespace: cellular_component
def: "A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information." [ISBN:0198547684]
comment: Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore.
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_flybase_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "chromatid" RELATED []
synonym: "interphase chromosome" NARROW []
synonym: "prophase chromosome" NARROW []
xref: Wikipedia:Chromosome
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0005622 ! intracellular anatomical structure

[Term]
id: GO:0005727
name: extrachromosomal circular DNA
namespace: cellular_component
def: "Circular DNA structures that are not part of a chromosome." [GOC:ai]
subset: goslim_metagenomics
is_a: GO:0005622 ! intracellular anatomical structure
relationship: part_of GO:0005622 ! intracellular anatomical structure

[Term]
id: GO:0005737
name: cytoplasm
namespace: cellular_component
def: "The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [ISBN:0198547684]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
xref: Wikipedia:Cytoplasm
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0005622 ! intracellular anatomical structure
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23023" xsd:anyURI

[Term]
id: GO:0005839
name: proteasome core complex
namespace: cellular_component
alt_id: GO:0000503
def: "A multisubunit barrel shaped endoprotease complex, which is the core of the proteasome complex." [GOC:rb, PMID:10806206]
subset: goslim_metagenomics
synonym: "20S core complex" NARROW []
synonym: "20S proteasome" NARROW [GOC:cjk]
synonym: "macropain" EXACT []
synonym: "PA28gamma-20S proteasome" NARROW [CORUM:194]
is_a: GO:1902494 ! catalytic complex
relationship: part_of GO:1902494 ! catalytic complex

[Term]
id: GO:0005840
name: ribosome
namespace: cellular_component
alt_id: GO:0033279
def: "An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins." [ISBN:0198506732]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "free ribosome" NARROW [NIF_Subcellular:sao1139385046]
synonym: "membrane bound ribosome" NARROW [NIF_Subcellular:sao1291545653]
synonym: "ribosomal RNA" RELATED []
xref: NIF_Subcellular:sao1429207766
xref: Wikipedia:Ribosome
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0005622 ! intracellular anatomical structure

[Term]
id: GO:0005874
name: microtubule
namespace: cellular_component
def: "Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle." [ISBN:0879693568]
subset: goslim_metagenomics
synonym: "microtubuli" EXACT []
synonym: "microtubulus" EXACT []
synonym: "neurotubule" NARROW [NIF_Subcellular:sao248349196]
xref: NIF_Subcellular:sao1846835077
xref: Wikipedia:Microtubule
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0005622 ! intracellular anatomical structure

[Term]
id: GO:0005886
name: plasma membrane
namespace: cellular_component
alt_id: GO:0005887
alt_id: GO:0005904
def: "The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins." [ISBN:0716731363]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "bacterial inner membrane" NARROW []
synonym: "cell membrane" EXACT []
synonym: "cellular membrane" EXACT [NIF_Subcellular:sao6433132645]
synonym: "cytoplasmic membrane" EXACT []
synonym: "inner endospore membrane" NARROW []
synonym: "integral component of plasma membrane" NARROW []
synonym: "integral to plasma membrane" NARROW []
synonym: "juxtamembrane" BROAD []
synonym: "plasma membrane lipid bilayer" NARROW [GOC:mah]
synonym: "plasmalemma" EXACT []
xref: NIF_Subcellular:sao1663586795
xref: Wikipedia:Cell_membrane
is_a: GO:0016020 ! membrane
relationship: part_of GO:0005575 ! cellular_component

[Term]
id: GO:0005975
name: carbohydrate metabolic process
namespace: biological_process
alt_id: GO:0044261
alt_id: GO:0044723
def: "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y." [GOC:mah, ISBN:0198506732]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_yeast
synonym: "carbohydrate metabolism" EXACT []
xref: Reactome:R-HSA-71387 "Metabolism of carbohydrates"
xref: Wikipedia:Carbohydrate_metabolism
is_a: GO:0008152 ! metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22880" xsd:anyURI
created_by: jl
creation_date: 2012-10-23T15:40:34Z

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

[Term]
id: GO:0006259
name: DNA metabolic process
namespace: biological_process
alt_id: GO:0055132
def: "Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides." [ISBN:0198506732]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_flybase_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote_ribbon
synonym: "cellular DNA metabolism" EXACT []
synonym: "DNA metabolism" EXACT []
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0006282
name: regulation of DNA repair
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of DNA repair." [GOC:go_curators]
subset: goslim_metagenomics
is_a: GO:0019222 ! regulation of metabolic process
relationship: regulates GO:0006259 ! DNA metabolic process
relationship: regulates GO:0006950 ! response to stress

[Term]
id: GO:0006351
name: DNA-templated transcription
namespace: biological_process
alt_id: GO:0001121
alt_id: GO:0006350
alt_id: GO:0061018
alt_id: GO:0061022
def: "The synthesis of an RNA transcript from a DNA template." [GOC:jl, GOC:txnOH]
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "bacterial transcription" NARROW []
synonym: "cellular transcription" BROAD []
synonym: "DNA-dependent transcription" EXACT []
synonym: "transcription" BROAD []
synonym: "transcription from bacterial-type RNA polymerase promoter" NARROW []
synonym: "transcription, DNA-dependent" EXACT [GOC:txnOH]
synonym: "transcription, DNA-templated" EXACT []
xref: Reactome:R-HSA-2173793 "Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer"
xref: Reactome:R-HSA-74160 "Gene expression (Transcription)"
xref: Wikipedia:Transcription_(genetics)
is_a: GO:0009058 ! biosynthetic process
is_a: GO:0016070 ! RNA metabolic process
relationship: part_of GO:0009058 ! biosynthetic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/14854" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16737" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22258" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22555" xsd:anyURI

[Term]
id: GO:0006412
name: translation
namespace: biological_process
alt_id: GO:0006416
alt_id: GO:0006453
alt_id: GO:0043037
def: "The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome." [GOC:go_curators]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "protein anabolism" EXACT []
synonym: "protein biosynthesis" EXACT []
synonym: "protein biosynthetic process" EXACT []
synonym: "protein formation" EXACT []
synonym: "protein synthesis" EXACT []
synonym: "protein translation" EXACT []
xref: Reactome:R-HSA-72766 "Translation"
xref: Wikipedia:Translation_(genetics)
is_a: GO:0009058 ! biosynthetic process
relationship: has_part GO:0009058 ! biosynthetic process
relationship: has_part GO:0065003 ! protein-containing complex assembly
relationship: part_of GO:0009058 ! biosynthetic process

[Term]
id: GO:0006457
name: protein folding
namespace: biological_process
alt_id: GO:0007022
alt_id: GO:0007024
alt_id: GO:0007025
def: "The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure." [GOC:go_curators, GOC:rb]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "alpha-tubulin folding" NARROW [GOC:mah]
synonym: "beta-tubulin folding" NARROW [GOC:mah]
synonym: "chaperone activity" RELATED []
synonym: "chaperonin ATPase activity" RELATED []
synonym: "chaperonin-mediated tubulin folding" NARROW [GOC:mah]
synonym: "co-chaperone activity" RELATED []
synonym: "co-chaperonin activity" RELATED []
synonym: "glycoprotein-specific chaperone activity" RELATED []
synonym: "non-chaperonin molecular chaperone ATPase activity" RELATED []
synonym: "protein complex assembly, multichaperone pathway" RELATED []
xref: Reactome:R-HSA-389960 "Formation of tubulin folding intermediates by CCT/TriC"
xref: Reactome:R-HSA-390466 "Chaperonin-mediated protein folding"
xref: Reactome:R-HSA-532668 "N-glycan trimming in the ER and Calnexin/Calreticulin cycle"
xref: Wikipedia:Protein_folding
is_a: GO:0008150 ! biological_process
relationship: part_of GO:0009058 ! biosynthetic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/25673" xsd:anyURI

[Term]
id: GO:0006508
name: proteolysis
namespace: biological_process
def: "The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds." [GOC:bf, GOC:mah]
comment: This term was intentionally placed under 'protein metabolic process ; GO:0019538' rather than 'protein catabolic process ; GO:0030163' to cover all processes centered on breaking peptide bonds, including those involved in protein processing.
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
synonym: "ATP-dependent proteolysis" NARROW [GOC:mah]
synonym: "peptidolysis" EXACT []
xref: Wikipedia:Proteolysis
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0006629
name: lipid metabolic process
namespace: biological_process
def: "The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids." [GOC:ma]
subset: goslim_agr
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_pombe
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
subset: goslim_yeast
synonym: "lipid metabolism" EXACT []
xref: Reactome:R-HSA-556833 "Metabolism of lipids"
xref: Wikipedia:Lipid_metabolism
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0006808
name: regulation of nitrogen utilization
namespace: biological_process
def: "Any process that modulates the frequency, rate or extent of nitrogen utilization." [GOC:go_curators]
subset: goslim_metagenomics
is_a: GO:0008150 ! biological_process
relationship: regulates GO:0008150 ! biological_process

[Term]
id: GO:0006810
name: transport
namespace: biological_process
alt_id: GO:0015457
alt_id: GO:0015460
alt_id: GO:0044765
def: "The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or a transporter complex, a pore or a motor protein." [GOC:dos, GOC:dph, GOC:jl, GOC:mah]
comment: Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport.
subset: gocheck_do_not_annotate
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "single-organism transport" RELATED []
xref: Reactome:R-HSA-382551 "Transport of small molecules"
is_a: GO:0008150 ! biological_process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/20292" xsd:anyURI
created_by: jl
creation_date: 2012-12-13T16:25:32Z

[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]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_metagenomics
subset: goslim_plant
subset: goslim_plant_ribbon
synonym: "response to abiotic stress" RELATED []
synonym: "response to biotic stress" RELATED []
is_a: GO:0008150 ! biological_process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26810" xsd:anyURI

[Term]
id: GO:0007155
name: cell adhesion
namespace: biological_process
alt_id: GO:0098602
def: "The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules." [GOC:hb, GOC:pf]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_pombe
subset: goslim_prokaryote
synonym: "cell adhesion molecule activity" RELATED []
synonym: "single organism cell adhesion" RELATED []
xref: Wikipedia:Cell_adhesion
is_a: GO:0008150 ! biological_process
created_by: dos
creation_date: 2014-04-15T15:59:10Z

[Term]
id: GO:0007165
name: signal transduction
namespace: biological_process
alt_id: GO:0023014
alt_id: GO:0023015
alt_id: GO:0023016
alt_id: GO:0023033
alt_id: GO:0023045
def: "The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell." [GOC:go_curators, GOC:mtg_signaling_feb11]
comment: Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not.
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_plant
subset: goslim_plant_ribbon
synonym: "signaling cascade" NARROW []
synonym: "signaling pathway" RELATED []
synonym: "signalling cascade" NARROW []
synonym: "signalling pathway" RELATED []
xref: Reactome:R-HSA-212718 "EGFR interacts with phospholipase C-gamma"
xref: Wikipedia:Signal_transduction
is_a: GO:0008150 ! biological_process
relationship: part_of GO:0008150 ! biological_process
relationship: regulates GO:0008150 ! biological_process

[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 consider one of the more specific descendants, GO:0140297 ; DNA-binding transcription factor binding, GO:0140296 ; general transcription initiation factor binding or GO:0001221 ; transcription coregulator binding.
subset: gocheck_do_not_annotate
subset: goslim_agr
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_metagenomics
subset: goslim_yeast
synonym: "TF binding" EXACT []
synonym: "transcription regulator binding" RELATED []
is_a: GO:0005515 ! protein binding
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19354" xsd:anyURI

[Term]
id: GO:0008150
name: biological_process
namespace: biological_process
alt_id: GO:0000004
alt_id: GO:0007582
alt_id: GO:0044699
def: "A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence." [GOC:pdt]
comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.
subset: goslim_candida
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_pombe
subset: goslim_yeast
synonym: "biological process" EXACT []
synonym: "physiological process" EXACT []
synonym: "single organism process" RELATED []
synonym: "single-organism process" RELATED []
xref: Wikipedia:Biological_process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24968" xsd:anyURI
created_by: jl
creation_date: 2012-09-19T15:05:24Z

[Term]
id: GO:0008152
name: metabolic process
namespace: biological_process
alt_id: GO:0044236
alt_id: GO:0044710
def: "A cellular process consisting of the biochemical pathways by which a living organism transforms chemical substances. This includes including anabolism (biosynthetic process) and catabolism (catabolic process). Metabolic processes includes the transformation of small molecules, as well  macromolecular processes such as DNA repair and replication, protein synthesis and degradation." [GOC:go_curators, ISBN:0198547684]
comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions.
subset: gocheck_do_not_annotate
subset: goslim_chembl
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_prokaryote_ribbon
synonym: "metabolism" EXACT []
xref: Reactome:R-HSA-1430728 "Metabolism"
xref: Wikipedia:Metabolism
is_a: GO:0008150 ! biological_process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28932" xsd:anyURI
created_by: jl
creation_date: 2012-10-17T15:46:40Z

[Term]
id: GO:0008218
name: bioluminescence
namespace: biological_process
def: "The production of light by certain enzyme-catalyzed reactions in cells." [ISBN:0198506732]
subset: goslim_chembl
subset: goslim_metagenomics
xref: Wikipedia:Bioluminescence
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0008233
name: peptidase activity
namespace: molecular_function
alt_id: GO:0070010
alt_id: GO:0070011
def: "Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid." [EC:3.4.-.-, GOC:jl]
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:0008658
name: penicillin binding
namespace: molecular_function
def: "Binding to penicillin, an antibiotic that contains the condensed beta-lactamthiazolidine ring system." [GOC:ai]
subset: goslim_metagenomics
is_a: GO:0043167 ! ion binding

[Term]
id: GO:0009055
name: electron transfer activity
namespace: molecular_function
alt_id: GO:0009053
alt_id: GO:0009054
def: "A molecular function representing the directed movement of electrons from one molecular entity to another, typically mediated by electron carriers or acceptors, resulting in the transfer of energy and/or the reduction-oxidation (redox) transformation of chemical species. This activity is fundamental to various biological processes, including cellular respiration and photosynthesis, as well as numerous enzymatic reactions involved in metabolic pathways." [Wikipedia:Electron_transfer]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "electron acceptor activity" NARROW []
synonym: "electron carrier" RELATED []
synonym: "electron donor activity" NARROW []
synonym: "electron transporter activity" RELATED []
xref: Reactome:R-HSA-169260 "Reducing equivalents from beta-oxidation of fatty acids transfer to ETF"
xref: Reactome:R-HSA-2564826 "4Fe-4S cluster assembles on NUBP2:NUBP1 scaffold"
is_a: GO:0003674 ! molecular_function
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21334" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26572" xsd:anyURI

[Term]
id: GO:0009058
name: biosynthetic process
namespace: biological_process
alt_id: GO:0044274
alt_id: GO:0044711
def: "A cellular process consisting of the biochemical pathways by which a living organism synthesizes chemical substances. This typically represents the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones." [GOC:curators, ISBN:0198547684]
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_plant
subset: goslim_plant_ribbon
synonym: "anabolism" EXACT []
synonym: "biosynthesis" EXACT []
synonym: "formation" BROAD []
synonym: "multicellular organismal biosynthetic process" NARROW []
synonym: "single-organism biosynthetic process" RELATED []
synonym: "synthesis" EXACT []
xref: Wikipedia:Anabolism
is_a: GO:0008152 ! metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28932" xsd:anyURI
created_by: jl
creation_date: 2012-10-17T15:52:18Z

[Term]
id: GO:0009276
name: Gram-negative-bacterium-type cell wall
namespace: cellular_component
def: "The peptidoglycan layer of the Gram-negative cell envelope. In Gram-negative cells the peptidoglycan is relatively thin (1-2nm) and is linked to the outer membrane by lipoproteins. In Gram-negative cells the peptidoglycan is too thin to retain the primary stain in the Gram staining procedure and therefore cells appear red after Gram stain." [GOC:mlg, ISBN:0815108893]
subset: goslim_metagenomics
synonym: "1-2nm peptidoglycan-based cell wall" EXACT []
synonym: "cell wall inner membrane" EXACT []
is_a: GO:0005618 ! cell wall

[Term]
id: GO:0009288
name: bacterial-type flagellum
namespace: cellular_component
def: "A motor complex composed of an extracellular helical protein filament coupled to a rotary motor embedded in the cell envelope." [GOC:cilia, GOC:jh2, GOC:krc, GOC:mtg_sensu, PMID:7787060, Wikipedia:Flagellum#Bacterial]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "flagellin-based flagellum" EXACT []
xref: Wikipedia:Flagellum#Bacterial
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0009317
name: acetyl-CoA carboxylase complex
namespace: cellular_component
def: "A protein complex that catalyzes the first step in long-chain fatty acid biosynthesis. For example, in E. coli the complex is heterohexameric and composed of biotin carbonyl carrier protein, biotin carboxylase and the acetate CoA-transferase complex." [GOC:jl, GOC:mah, PMID:12121720]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "ACCase complex" EXACT []
is_a: GO:1902494 ! catalytic complex
relationship: part_of GO:0005737 ! cytoplasm

[Term]
id: GO:0009341
name: beta-galactosidase complex
namespace: cellular_component
def: "A protein complex that possesses beta-galactosidase activity, i.e. catalyzes the hydrolysis of terminal non-reducing beta-D-galactose residues in beta-D-galactosides. In E. coli, the complex is a homotetramer; dimeric and hexameric beta-galactosidase complexes have been observed in other species." [PMID:15950161]
subset: goslim_metagenomics
is_a: GO:1902494 ! catalytic complex

[Term]
id: GO:0009346
name: ATP-independent citrate lyase complex
namespace: cellular_component
def: "Citrate lyase is a multienzyme complex with three constituents: the alpha subunit, citrate-ACP transferase; the beta subunit, citryl-ACP lyase; and the gamma subunit, an acyl-carrier protein which also carries the prosthetic group components. All three subunits are required for citrate lyase enzyme activity. This enzyme has only been found in bacteria." [PMID:32302313]
comment: Note that this complex has only been found in bacteria. For eukaryotic cytrate lyases, consider GO:0140615 ; ATP-dependent citrate lyase complex.
subset: goslim_metagenomics
synonym: "citrate lyase complex" BROAD []
synonym: "citrate synthase complex" BROAD []
xref: MetaCyc:ACECITLY-CPLX
is_a: GO:1902494 ! catalytic complex
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21028" xsd:anyURI

[Term]
id: GO:0009349
name: riboflavin synthase complex
namespace: cellular_component
def: "An flavoprotein that catalyzes the reaction the breakdown of dimethyl(ribityl)lumazine to form riboflavin and ribitylamino-amino-dihydroxypyrimidine." [PMID:18298940]
subset: goslim_metagenomics
is_a: GO:1902494 ! catalytic complex

[Term]
id: GO:0009372
name: quorum sensing
namespace: biological_process
alt_id: GO:0010699
alt_id: GO:0060247
def: "The cell-cell signaling process in which single-celled organisms carry out coordinated responses by monitoring their own population density, and often also that of other microbes, by producing small, diffusible, signal molecules, detecting the concentration of these molecules, and triggering a signal transduction pathway when a certain threshold is reached. Quorum sensing can occur amongst microbial communities in the environment or within host organisms." [GOC:krc, GOC:mlg, PMID:10607620, PMID:15716452, PMID:16497924, PMID:16630813, PMID:8288518]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "cell-cell signaling involved in quorum sensing" RELATED []
synonym: "detection of cell density by secreted molecule" RELATED []
synonym: "quorum sensing system" EXACT []
xref: Wikipedia:Quorum_sensing
is_a: GO:0009607 ! response to biotic stimulus
relationship: regulates GO:0008150 ! biological_process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/17730" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/18018" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/18061" xsd:anyURI

[Term]
id: GO:0009403
name: toxin biosynthetic process
namespace: biological_process
def: "The chemical reactions and pathways resulting in the formation of toxin, a poisonous compound (typically a protein) that is produced by cells or organisms and that can cause disease when introduced into the body or tissues of an organism." [GOC:go_curators]
subset: goslim_metagenomics
synonym: "toxin anabolism" EXACT []
synonym: "toxin biosynthesis" EXACT []
synonym: "toxin formation" EXACT []
synonym: "toxin synthesis" EXACT []
is_a: GO:0009058 ! biosynthetic process

[Term]
id: GO:0009579
name: thylakoid
namespace: cellular_component
def: "A membranous cellular structure that bears the photosynthetic pigments in plants, algae, and cyanobacteria. In cyanobacteria thylakoids are of various shapes and are attached to, or continuous with, the plasma membrane. In eukaryotes they are flattened, membrane-bounded disk-like structures located in the chloroplasts; in the chloroplasts of higher plants the thylakoids form dense stacks called grana. Isolated thylakoid preparations can carry out photosynthetic electron transport and the associated phosphorylation." [GOC:ds, GOC:mtg_sensu, ISBN:0198506732]
comment: A thylakoid is not considered an organelle, but some thylakoids are part of organelles.
subset: goslim_chembl
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "photosynthetic membrane" RELATED []
xref: Wikipedia:Thylakoid
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0005622 ! intracellular anatomical structure
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/13958" xsd:anyURI

[Term]
id: GO:0009607
name: response to biotic 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 a biotic stimulus, a stimulus caused or produced by a living organism." [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_annotate
subset: goslim_metagenomics
subset: goslim_plant
synonym: "response to biotic stress" NARROW []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0009628
name: response to abiotic 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 abiotic (not derived from living organisms) 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_annotate
subset: goslim_metagenomics
subset: goslim_plant
synonym: "response to abiotic stress" NARROW []
is_a: GO:0008150 ! biological_process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/16572" xsd:anyURI

[Term]
id: GO:0015948
name: methanogenesis
namespace: biological_process
def: "The chemical reactions and pathways resulting in the formation of methane, a colorless, odorless, flammable gas with the formula CH4. It is the simplest of the alkanes." [GOC:ai]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "methane biosynthesis" EXACT []
synonym: "methane biosynthetic process" EXACT []
xref: UM-BBD_pathwayID:meth
xref: Wikipedia:Methanogenesis
is_a: GO:0006091 ! generation of precursor metabolites and energy
is_a: GO:0009058 ! biosynthetic process

[Term]
id: GO:0015979
name: photosynthesis
namespace: biological_process
def: "The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds." [ISBN:0198547684]
subset: goslim_chembl
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
xref: Wikipedia:Photosynthesis
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0016020
name: membrane
namespace: cellular_component
alt_id: GO:0016021
alt_id: GO:0098589
alt_id: GO:0098805
def: "A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it." [GOC:dos, GOC:mah, ISBN:0815316194]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_flybase_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
synonym: "integral component of membrane" NARROW []
synonym: "integral to membrane" NARROW []
synonym: "membrane region" NARROW []
synonym: "region of membrane" NARROW []
synonym: "transmembrane" RELATED [GOC:mah]
synonym: "whole membrane" NARROW []
xref: Wikipedia:Biological_membrane
xref: Wikipedia:Transmembrane_protein
is_a: GO:0005575 ! cellular_component
creation_date: 2014-03-06T11:37:54Z

[Term]
id: GO:0016032
name: viral process
namespace: biological_process
alt_id: GO:0022415
def: "A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle." [GOC:bf, GOC:jl, GOC:mah]
comment: See also the biological process terms 'viral infectious cycle ; GO:0019058' and 'lysogeny ; GO:0030069'.
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_virus
synonym: "viral infection" RELATED []
synonym: "virulence" RELATED []
synonym: "virus process" EXACT [GOC:bf, GOC:jl]
xref: Reactome:R-HSA-162906 "HIV Infection"
xref: Wikipedia:Viral_life_cycle
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0016070
name: RNA metabolic process
namespace: biological_process
def: "The cellular chemical reactions and pathways involving RNA, ribonucleic acid, one of the two main type of nucleic acid, consisting of a long, unbranched macromolecule formed from ribonucleotides joined in 3',5'-phosphodiester linkage." [ISBN:0198506732]
subset: goslim_agr
subset: goslim_candida
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_prokaryote
synonym: "RNA metabolism" EXACT []
xref: Reactome:R-HSA-8953854 "Metabolism of RNA"
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0016209
name: antioxidant activity
namespace: molecular_function
def: "Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage." [ISBN:0198506732]
subset: goslim_euk_cellular_processes_ribbon
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_plant_ribbon
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
is_a: GO:0003674 ! molecular_function
relationship: part_of GO:0042221 ! response to chemical

[Term]
id: GO:0016226
name: iron-sulfur cluster assembly
namespace: biological_process
def: "The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster." [GOC:jl, GOC:mah, GOC:pde, GOC:vw]
subset: goslim_metagenomics
subset: goslim_pombe
synonym: "iron-sulfur cluster biosynthesis" RELATED []
synonym: "iron-sulphur cluster assembly" EXACT []
xref: Reactome:R-HSA-1362409 "Mitochondrial iron-sulfur cluster biogenesis"
xref: Reactome:R-HSA-2564830 "Cytosolic iron-sulfur cluster assembly"
is_a: GO:0071840 ! cellular component organization or biogenesis
relationship: part_of GO:0071840 ! cellular component organization or biogenesis

[Term]
id: GO:0016301
name: kinase activity
namespace: molecular_function
def: "Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule." [ISBN:0198506732]
comment: Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term.
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_metagenomics
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "phosphokinase activity" EXACT []
xref: Reactome:R-HSA-6788855 "FN3KRP phosphorylates PsiAm, RibAm"
xref: Reactome:R-HSA-6788867 "FN3K phosphorylates ketosamines"
is_a: GO:0016740 ! transferase activity

[Term]
id: GO:0016310
name: phosphorylation
namespace: biological_process
def: "The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide." [ISBN:0198506732]
subset: gocheck_obsoletion_candidate
subset: goslim_chembl
subset: goslim_metagenomics
xref: Wikipedia:Phosphorylation
is_a: GO:0008152 ! metabolic process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI

[Term]
id: GO:0016469
name: proton-transporting two-sector ATPase complex
namespace: cellular_component
def: "A large protein complex that catalyzes the synthesis or hydrolysis of ATP by a rotational mechanism, coupled to the transport of protons across a membrane. The complex comprises a membrane sector (F0, V0, or A0) that carries out proton transport and a cytoplasmic compartment sector (F1, V1, or A1) that catalyzes ATP synthesis or hydrolysis. Two major types have been characterized: V-type ATPases couple ATP hydrolysis to the transport of protons across a concentration gradient, whereas F-type ATPases, also known as ATP synthases, normally run in the reverse direction to utilize energy from a proton concentration or electrochemical gradient to synthesize ATP. A third type, A-type ATPases have been found in archaea, and are closely related to eukaryotic V-type ATPases but are reversible." [GOC:mah, ISBN:0716743663, PMID:16691483]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "hydrogen-transporting two-sector ATPase complex" EXACT []
synonym: "vacuolar hydrogen-transporting ATPase" RELATED []
is_a: GO:0098796 ! membrane protein complex
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/15936" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/28017" xsd:anyURI

[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." [EC:1.-.-.-]
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-2161612 "PGH2 is reduced to PGF2a by FAM213B"
xref: Reactome:R-HSA-265296 "Arachidonate is oxidised to 5S-HpETE by ALOX5"
xref: Reactome:R-HSA-266051 "5S-HpETE is dehydrated to LTA4 by ALOX5"
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 reductase 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"
xref: Reactome:R-HSA-9759549 "Cob(I)alamin bound to MMACHC is oxidized to cob(II)alamin"
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016597
name: amino acid binding
namespace: molecular_function
def: "Binding to an amino acid, organic acids containing one or more amino substituents." [GOC:ai]
subset: goslim_metagenomics
subset: goslim_pir
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0016740
name: transferase activity
namespace: molecular_function
def: "Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [EC:2.-.-.-]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_prokaryote
subset: goslim_yeast
xref: EC:2.-.-.-
xref: Reactome:R-HSA-1483089 "PE is converted to PS by PTDSS2"
xref: Reactome:R-HSA-1483186 "PC is converted to PS by PTDSS1"
xref: Reactome:R-HSA-5668414 "TRAF2 ubiquitinates cIAP1,2 in cIAP1,2:TRAF1:TRAF2:TRAF3:NIK"
xref: Reactome:R-HSA-8868783 "TSR3 transfers aminocarboxypropyl group from S-adenosylmethionine to N(1)-methylpseudouridine-1248 of 18SE rRNA yielding N(1)-methyl-N(3)-aminocarboxypropylpseudouridine-1248"
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016779
name: nucleotidyltransferase activity
namespace: molecular_function
def: "Catalysis of the transfer of a nucleotidyl group from one compound (donor) to another (acceptor)." [EC:2.7.7.-]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_metagenomics
subset: goslim_yeast
xref: EC:2.7.7.-
xref: Reactome:R-HSA-6782434 "THG1L transfers GMP to 5' end of tRNA(His)"
is_a: GO:0016740 ! transferase activity

[Term]
id: GO:0016787
name: hydrolase activity
namespace: molecular_function
def: "Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc." [ISBN:0198506732]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_plant
subset: goslim_prokaryote
subset: goslim_yeast
xref: EC:3.-.-.-
xref: Reactome:R-HSA-1236938 "Partial proteolysis of antigen in phagolysosomes"
xref: Reactome:R-HSA-2029475 "Production of AA by iPLA2 upon FCGR activation"
xref: Reactome:R-HSA-5694583 "ABHD4 hydrolyses NAPE"
xref: Reactome:R-HSA-5695964 "ABHD14B hydrolyses PNPB"
xref: Reactome:R-HSA-6786190 "CMBL hydrolyses OM to OLMS"
xref: Reactome:R-HSA-6788295 "HDHD1:Mg2+ dephosphorylates PURIDP"
xref: Reactome:R-HSA-8938314 "ENPPs hydrolyse CoA-SH to PPANT, PAP"
xref: Reactome:R-HSA-8952137 "Phospholipid phosphatase 6 hydrolyses Presqualene diphosphate to presqualene monophosphate"
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016791
name: phosphatase activity
namespace: molecular_function
alt_id: GO:0003869
alt_id: GO:0016302
def: "Catalysis of the hydrolysis of a phosphoric monoester, releasing a 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: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." [EC:4.-.-.-]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_prokaryote
subset: goslim_yeast
xref: EC:4.-.-.-
xref: Reactome:R-HSA-5696408 "PXLP-K278-PHYKPL tetramer hydrolyses 5PHL"
xref: Reactome:R-HSA-6782895 "TYW1:FMN:4Fe-4S  transforms 1-methylguanosine yielding yW-187 (4-demethylwyosine) at nucleotide 37 of tRNA(Phe)"
is_a: GO:0003824 ! catalytic activity

[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-2161666 "PGA2 is isomerised to PGC2"
xref: Reactome:R-HSA-2161735 "PGC2 is isomerised to PGB2"
xref: Reactome:R-HSA-6787623 "TSTA3 dimer epimerises GDP-DHDMan to GDP-KDGal"
is_a: GO:0003824 ! catalytic activity

[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." [EC:6.-.-.-]
subset: goslim_candida
subset: goslim_chembl
subset: goslim_drosophila
subset: goslim_generic
subset: goslim_metagenomics
subset: goslim_mouse
subset: goslim_pir
subset: goslim_prokaryote
subset: goslim_yeast
synonym: "synthetase activity" EXACT [GOC:jh2]
xref: EC:6.-.-.-
is_a: GO:0003824 ! catalytic activity
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19380" xsd:anyURI

[Term]
id: GO:0017000
name: antibiotic biosynthetic process
namespace: biological_process
def: "The chemical reactions and pathways resulting in the formation of an antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms." [GOC:go_curators]
subset: goslim_metagenomics
synonym: "antibiotic anabolism" EXACT []
synonym: "antibiotic biosynthesis" EXACT []
synonym: "antibiotic formation" EXACT []
synonym: "antibiotic synthesis" EXACT []
is_a: GO:0009058 ! biosynthetic process

[Term]
id: GO:0017004
name: cytochrome complex assembly
namespace: biological_process
def: "The aggregation, arrangement and bonding together of a cytochrome complex. A cytochrome complex is a protein complex in which at least one of the proteins is a cytochrome, i.e. a heme-containing protein involved in catalysis of redox reactions." [GOC:jl, GOC:mah]
subset: goslim_metagenomics
synonym: "cytochrome biogenesis" BROAD []
is_a: GO:0065003 ! protein-containing complex assembly

[Term]
id: GO:0017111
name: ribonucleoside triphosphate phosphatase activity
namespace: molecular_function
def: "Catalysis of the reaction: a ribonucleoside triphosphate + H2O = a ribonucleoside diphosphate + H+ + phosphate." [RHEA:23680]
subset: goslim_chembl
subset: goslim_metagenomics
synonym: "apyrase activity" BROAD []
synonym: "NTPase activity" EXACT []
synonym: "nucleoside 5-triphosphatase activity" BROAD [EC:3.6.1.15]
synonym: "nucleoside triphosphatase activity" BROAD []
synonym: "nucleoside triphosphate hydrolase activity" BROAD []
synonym: "nucleoside triphosphate phosphatase activity" BROAD []
synonym: "nucleoside triphosphate phosphohydrolase activity" RELATED []
synonym: "nucleoside-5-triphosphate phosphohydrolase activity" RELATED []
synonym: "nucleoside-triphosphatase activity" BROAD []
xref: EC:3.6.1.15
xref: MetaCyc:NUCLEOSIDE-TRIPHOSPHATASE-RXN
xref: Reactome:R-HSA-8850846 "NTPDase1 hydrolyzes nucleoside triphosphates"
xref: Reactome:R-HSA-8851089 "NTPDase2 hydrolyzes nucleoside triphosphates"
xref: Reactome:R-HSA-8851110 "NTPDase3 hydrolyzes nucleoside triphosphates"
xref: Reactome:R-HSA-8851234 "NTPDase4 hydrolyzes nucleoside triphosphates"
xref: Reactome:R-HSA-8851494 "NTPDase7 hydrolyzes nucleoside triphosphates"
xref: Reactome:R-HSA-8851538 "NTPDase8 hydrolyzes nucleoside triphosphates"
xref: RHEA:23680
is_a: GO:0016787 ! hydrolase activity
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/21232" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/23401" xsd:anyURI

[Term]
id: GO:0019222
name: regulation of metabolic process
namespace: biological_process
alt_id: GO:0044246
def: "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism." [GOC:go_curators]
subset: goslim_metagenomics
synonym: "regulation of metabolism" EXACT []
synonym: "regulation of multicellular organismal metabolic process" NARROW []
synonym: "regulation of organismal metabolic process" NARROW [GOC:tb]
xref: Reactome:R-HSA-1989781 "PPARA activates gene expression"
is_a: GO:0008150 ! biological_process
relationship: regulates GO:0008152 ! metabolic process

[Term]
id: GO:0019842
name: vitamin binding
namespace: molecular_function
def: "Binding to a vitamin, one of 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." [GOC:ai]
subset: goslim_metagenomics
subset: goslim_pir
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0019867
name: outer membrane
namespace: cellular_component
def: "The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites." [GOC:go_curators]
subset: goslim_metagenomics
is_a: GO:0016020 ! membrane

[Term]
id: GO:0019898
name: extrinsic component of membrane
namespace: cellular_component
alt_id: GO:0030396
def: "The component of a membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region." [GOC:dos, GOC:jl, GOC:mah]
comment: Note that proteins extrinsic to membranes can be removed by treatments that do not disrupt the membrane, such as salt solutions.
subset: goslim_metagenomics
synonym: "extrinsic to membrane" EXACT []
synonym: "peripheral membrane protein" EXACT []
xref: Wikipedia:Peripheral_membrane_protein
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0016020 ! membrane

[Term]
id: GO:0030170
name: pyridoxal phosphate binding
namespace: molecular_function
def: "Binding to pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6." [GOC:mah, ISBN:0198506732]
subset: goslim_metagenomics
is_a: GO:0019842 ! vitamin binding
is_a: GO:0043167 ! ion binding

[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
subset: goslim_plant_ribbon
synonym: "selectin" RELATED []
synonym: "sugar binding" EXACT []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0033202
name: DNA helicase complex
namespace: cellular_component
def: "A protein complex that possesses DNA helicase activity." [GOC:mah]
subset: goslim_metagenomics
subset: goslim_pir
is_a: GO:1902494 ! catalytic complex

[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
subset: goslim_plant_ribbon
synonym: "receptor activity" BROAD []
synonym: "receptor activity involved in signal transduction" EXACT [GOC:bf]
synonym: "signalling receptor activity" EXACT []
is_a: GO:0003674 ! molecular_function
created_by: bf
creation_date: 2011-08-01T02:45:27Z

[Term]
id: GO:0042221
name: response to chemical
namespace: biological_process
def: "Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus." [GOC:jl]
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.
subset: gocheck_do_not_annotate
subset: goslim_candida
subset: goslim_drosophila
subset: goslim_metagenomics
subset: goslim_plant
subset: goslim_plant_ribbon
subset: goslim_yeast
synonym: "response to chemical stimulus" EXACT [GOC:dos]
synonym: "response to chemical substance" EXACT []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0042575
name: DNA polymerase complex
namespace: cellular_component
def: "A protein complex that possesses DNA polymerase activity and is involved in template directed synthesis of DNA." [GOC:jl, PMID:12045093]
subset: goslim_metagenomics
subset: goslim_pir
is_a: GO:1902494 ! catalytic complex

[Term]
id: GO:0042597
name: periplasmic space
namespace: cellular_component
alt_id: GO:0005620
def: "The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria)." [GOC:go_curators, GOC:md]
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_prokaryote
subset: goslim_prokaryote_ribbon
synonym: "periplasm" EXACT []
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0042910
name: xenobiotic transmembrane transporter activity
namespace: molecular_function
alt_id: GO:0015238
alt_id: GO:0015239
alt_id: GO:0015559
alt_id: GO:0015564
alt_id: GO:0090484
def: "Enables the directed movement of a xenobiotic from one side of a membrane to the other. A xenobiotic is a compound foreign to the organism exposed to it. It may be synthesized by another organism (like ampicilin) or it can be a synthetic chemical." [GOC:go_curators, GOC:krc]
subset: goslim_metagenomics
synonym: "drug transmembrane transporter activity" RELATED []
synonym: "drug transporter activity" RELATED []
synonym: "multidrug efflux pump activity" RELATED []
synonym: "multidrug transporter activity" RELATED []
synonym: "multidrug, alkane resistant pump activity" RELATED []
synonym: "xenobiotic transporter activity" RELATED []
xref: Reactome:R-HSA-5625574 "Defective SLC22A18 does not exchange extracellular organic cations for cytosolic H+"
xref: Reactome:R-HSA-597628 "SLC22A18 exchanges extracellular organic cations for cytosolic H+"
is_a: GO:0005215 ! transporter activity
relationship: part_of GO:0006810 ! transport
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19460" xsd:anyURI

[Term]
id: GO:0043167
name: ion binding
namespace: molecular_function
def: "Binding to an ion, a charged atoms or groups of atoms." [GOC:jl]
subset: gocheck_do_not_annotate
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
subset: goslim_yeast
synonym: "atom binding" RELATED []
is_a: GO:0003674 ! molecular_function
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26424" xsd:anyURI

[Term]
id: GO:0043190
name: ATP-binding cassette (ABC) transporter complex
namespace: cellular_component
alt_id: GO:0043191
alt_id: GO:0043192
def: "A complex for the transport of metabolites into and out of the cell, typically comprised of four domains; two membrane-associated domains and two ATP-binding domains at the intracellular face of the membrane, that form a central pore through the plasma membrane. Each of the four core domains may be encoded as a separate polypeptide or the domains can be fused in any one of a number of ways into multidomain polypeptides. In Bacteria and Archaebacteria, ABC transporters also include substrate binding proteins to bind substrate external to the cytoplasm and deliver it to the transporter." [GOC:jl, GOC:mtg_sensu, PMID:11421269, PMID:15111107]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "ABC-type efflux permease complex" NARROW []
synonym: "ABC-type efflux porter complex" NARROW []
synonym: "ABC-type uptake permease complex" NARROW []
synonym: "mating pheromone exporter" NARROW []
is_a: GO:0098796 ! membrane protein complex
relationship: part_of GO:0005886 ! plasma membrane

[Term]
id: GO:0043934
name: sporulation
namespace: biological_process
def: "The process whose specific outcome is the progression of a spore over time, from its initiation to the mature structure. A spore is a structure that can be used for dissemination, for survival of adverse conditions because of its heat and desiccation resistance, and/or for reproduction." [GOC:pamgo_curators]
subset: goslim_metagenomics
subset: goslim_yeast
xref: Wikipedia:Spore
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0044281
name: small molecule metabolic process
namespace: biological_process
def: "The chemical reactions and pathways involving small molecules, any low molecular weight, monomeric, non-encoded molecule." [GOC:curators, GOC:pde, GOC:vw]
comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides.
subset: goslim_chembl
subset: goslim_flybase_ribbon
subset: goslim_metagenomics
synonym: "small molecule metabolism" EXACT []
is_a: GO:0008152 ! metabolic process
created_by: jl
creation_date: 2010-01-26T12:05:20Z

[Term]
id: GO:0044423
name: virion component
namespace: cellular_component
alt_id: GO:0019012
def: "Any constituent part of a virion, a complete fully infectious extracellular virus particle." [GOC:jl]
subset: goslim_chembl
subset: goslim_metagenomics
subset: goslim_pir
synonym: "complete virus particle" RELATED []
synonym: "virion" RELATED []
synonym: "virion part" EXACT []
xref: Wikipedia:Virus
is_a: GO:0005575 ! cellular_component

[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: Reactome:R-HSA-1222541 "Cell redox homeostasis"
xref: Reactome:R-HSA-1222556 "ROS and RNS production in phagocytes"
xref: Wikipedia:Redox
is_a: GO:0008150 ! biological_process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/24135" xsd:anyURI

[Term]
id: GO:0046718
name: symbiont entry into host cell
namespace: biological_process
alt_id: GO:0019063
def: "The process by which a symbiont breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the symbiont or its genome is released into the host cell." [GOC:jl]
comment: Viral attachment to the host cell is not part of viral entry in GO because virus attachment does not always lead to viral entry: attachment can also result in the virion being carried by the host cell to another location.
subset: goslim_metagenomics
synonym: "entry of virus into host cell" NARROW []
synonym: "phage translocation" NARROW []
synonym: "viral entry into host cell" NARROW []
synonym: "viral penetration" NARROW []
synonym: "virion penetration" NARROW []
synonym: "virion penetration into host cell" NARROW []
synonym: "virus entry into host cell" NARROW []
xref: Reactome:R-HSA-168270 "Fusion and Uncoating of the Influenza Virion"
xref: Reactome:R-HSA-8876384 "Listeria monocytogenes entry into host cells"
xref: VZ:936 "Virus entry"
is_a: GO:0008150 ! biological_process
relationship: part_of GO:0016032 ! viral process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/26670" 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 []
is_a: GO:0043167 ! ion binding

[Term]
id: GO:0046906
name: tetrapyrrole binding
namespace: molecular_function
def: "Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position." [GOC:curators, ISBN:0198506732]
subset: goslim_metagenomics
subset: goslim_pir
synonym: "porphyrin binding" NARROW []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0048500
name: signal recognition particle
namespace: cellular_component
def: "A complex of protein and RNA which facilitates translocation of proteins across membranes." [GOC:mlg]
subset: goslim_metagenomics
subset: goslim_pir
xref: Wikipedia:Signal_recognition_particle
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0005737 ! cytoplasm

[Term]
id: GO:0051536
name: iron-sulfur cluster binding
namespace: molecular_function
def: "Binding to an iron-sulfur cluster, a combination of iron and sulfur atoms." [GOC:ai]
subset: goslim_metagenomics
synonym: "Fe/S binding" EXACT []
synonym: "iron sulfur cluster binding" EXACT []
synonym: "iron sulphur cluster binding" EXACT []
synonym: "iron-sulphur cluster binding" EXACT []
xref: Reactome:R-HSA-5690873 "ACO1 binds 4Fe-4S"
is_a: GO:0003674 ! molecular_function

[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 []
is_a: GO:0071840 ! cellular component organization or biogenesis
relationship: part_of GO:0071840 ! cellular component organization or biogenesis
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/22580" xsd:anyURI

[Term]
id: GO:0071103
name: DNA conformation change
namespace: biological_process
def: "A cellular process that results in a change in the spatial configuration of a DNA molecule. A conformation change can bend DNA, or alter the, twist, writhe, or linking number of a DNA molecule." [GOC:mah]
subset: goslim_metagenomics
synonym: "DNA conformation modification" EXACT [GOC:mah]
is_a: GO:0071840 ! cellular component organization or biogenesis
created_by: mah
creation_date: 2009-11-09T11:36:34Z

[Term]
id: GO:0071840
name: cellular component organization or biogenesis
namespace: biological_process
alt_id: GO:0071841
def: "A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component." [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_annotate
subset: goslim_flybase_ribbon
subset: goslim_metagenomics
synonym: "cellular component organisation or biogenesis" EXACT [GOC:mah]
synonym: "cellular component organisation or biogenesis at cellular level" EXACT [GOC:mah]
synonym: "cellular component organization or biogenesis at cellular level" EXACT []
is_a: GO:0008150 ! biological_process
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27189" xsd:anyURI
created_by: mah
creation_date: 2010-09-10T01:39:16Z

[Term]
id: GO:0071973
name: bacterial-type flagellum-dependent cell motility
namespace: biological_process
def: "Cell motility due to the motion of one or more bacterial-type flagella. A bacterial-type flagellum is a motor complex composed of an extracellular helical protein filament coupled to a rotary motor embedded in the cell envelope." [GOC:cilia, GOC:krc, GOC:mah]
subset: goslim_metagenomics
synonym: "bacterial-type flagellar cell motility" RELATED []
synonym: "flagellin-based flagellar cell motility" EXACT [GOC:mah]
is_a: GO:0008150 ! biological_process
created_by: mah
creation_date: 2010-10-21T12:00:53Z

[Term]
id: GO:0098796
name: membrane protein complex
namespace: cellular_component
def: "Any protein complex that is part of a membrane." [GOC:dos]
subset: goslim_metagenomics
is_a: GO:0005575 ! cellular_component
relationship: part_of GO:0016020 ! membrane

[Term]
id: GO:1902494
name: catalytic complex
namespace: cellular_component
def: "A protein complex which is capable of catalytic activity." [GOC:bhm, GOC:TermGenie, PMID:8077207]
subset: goslim_metagenomics
synonym: "enzyme complex" EXACT [GOC:bhm, GOC:jl]
is_a: GO:0005575 ! cellular_component
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/19980" xsd:anyURI
created_by: bhm
creation_date: 2013-11-13T16:18:47Z

[Term]
id: GO:1990140
name: molybdopterin synthase complex
namespace: cellular_component
def: "A heterotetrameric protein complex that catalyses sulfur transfer from the sulfur carrier subunit of molybdopterin synthase to precursor Z to synthesize molybdopterin as part of molybdopterin cofactor (Moco) biosynthesis. In E. coli the subunits are MoaE and MoaD; in human, MOCS2B and MOCS2A. Moco biosynthesis and its constituent molecules are evolutionarily conserved." [GOC:bhm, PMID:11135669, PMID:16669776]
subset: goslim_metagenomics
synonym: "molybdopterin cofactor (Moco) biosynthesis sulfurtransferase complex" RELATED []
synonym: "molybdopterin converting factor complex" EXACT []
synonym: "MPT synthase complex" EXACT []
is_a: GO:1902494 ! catalytic complex
relationship: part_of GO:0005737 ! cytoplasm
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27655" xsd:anyURI
property_value: term_tracker_item "https://github.com/geneontology/go-ontology/issues/27852" xsd:anyURI
created_by: pr
creation_date: 2013-07-11T08:32:29Z

[Term]
id: GO:1990204
name: oxidoreductase complex
namespace: cellular_component
def: "Any protein complex that possesses oxidoreductase activity." [GOC:bhm, PMID:18982432]
subset: goslim_metagenomics
synonym: "oxidation-reduction complex" EXACT []
synonym: "redox complex" EXACT []
is_a: GO:1902494 ! catalytic complex
created_by: bhm
creation_date: 2013-10-07T08:24:47Z

[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