format-version: 1.2
data_version: 1.1.1543
date: 19:10:2010 16:06
auto-generated-by: OBO-Edit 2.0
saved-by: kchris
synonymtypedef: systematic_synonym "Systematic synonym" EXACT
subsetdef: goslim_candida "Candida GO slim"
subsetdef: goslim_generic "Generic GO slim"
subsetdef: goslim_goa "GOA and proteome slim"
subsetdef: goslim_pir "PIR GO slim"
subsetdef: goslim_plant "Plant GO slim"
subsetdef: goslim_pombe "Fission yeast GO slim"
subsetdef: goslim_yeast "Yeast GO slim"
subsetdef: gosubset_prok "Prokaryotic GO subset"
subsetdef: unvetted "unvetted"
remark: cvs version: $Revision: 1.854 $

[Term]
id: GO:0003674
name: molecular_function
namespace: molecular_function
alt_id: GO:0005554
def: "Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions." [GOC:go_curators]
comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. Note that 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 ND, no data, is used to indicate this.
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "molecular function" EXACT []
synonym: "molecular function unknown" NARROW []

[Term]
id: GO:0003676
name: nucleic acid binding
namespace: molecular_function
def: "Interacting selectively and non-covalently with any nucleic acid." [GOC:jl]
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
is_a: GO:0005488 ! binding

[Term]
id: GO:0003774
name: motor activity
namespace: molecular_function
def: "Catalysis of movement along a polymeric molecule such as a microfilament or microtubule, coupled to the hydrolysis of a nucleoside triphosphate." [GOC:mah, ISBN:0815316194]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
is_a: GO:0016787 ! hydrolase activity

[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." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
synonym: "enzyme activity" EXACT [GOC:dph, GOC:tb]
xref: Wikipedia:Enzyme
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0004386
name: helicase activity
namespace: molecular_function
def: "Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a DNA or RNA helix." [GOC:mah, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
comment: Note that most helicases catalyze processive duplex unwinding.
subset: goslim_candida
subset: goslim_goa
subset: goslim_pir
subset: goslim_yeast
subset: gosubset_prok
xref: Reactome:7001 "helicase activity"
is_a: GO:0016787 ! hydrolase activity

[Term]
id: GO:0004871
name: signal transducer activity
namespace: molecular_function
alt_id: GO:0005062
def: "Mediates the transfer of a signal from the outside to the inside of a cell by means other than the introduction of the signal molecule itself into the cell." [GOC:jl, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
comment: Ligands do NOT have the molecular function 'signal transducer activity'.
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "gp130" NARROW []
synonym: "hematopoietin/interferon-class (D200-domain) cytokine receptor signal transducer activity" NARROW []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0004872
name: receptor activity
namespace: molecular_function
def: "Combining with an extracellular or intracellular messenger to initiate a change in cell activity." [GOC:ceb, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
subset: gosubset_prok
synonym: "receptor guanylate cyclase activity" NARROW []
is_a: GO:0004871 ! signal transducer activity

[Term]
id: GO:0005198
name: structural molecule activity
namespace: molecular_function
def: "The action of a molecule that contributes to the structural integrity of a complex or assembly within or outside a cell." [GOC:mah]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
is_a: GO:0003674 ! molecular_function

[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, or between cells." [GOC:ai, GOC:dgf]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "small-molecule carrier or transporter" RELATED []
xref: Reactome:1391 "transporter activity"
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0005488
name: binding
namespace: molecular_function
def: "The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule." [GOC:ceb, GOC:mah, ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
comment: For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children.
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
synonym: "ligand" NARROW []
xref: Wikipedia:Binding_(molecular)
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0005515
name: protein binding
namespace: molecular_function
alt_id: GO:0045308
def: "Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules)." [GOC:go_curators]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "alpha-2 macroglobulin receptor-associated protein activity" RELATED []
synonym: "protein amino acid binding" EXACT []
synonym: "protein degradation tagging activity" RELATED []
synonym: "protein folding chaperone" NARROW [GOC:dph, GOC:mah, GOC:tb]
synonym: "protein tagging activity" RELATED []
xref: Reactome:6125 "protein binding"
is_a: GO:0005488 ! binding

[Term]
id: GO:0005575
name: cellular_component
namespace: cellular_component
alt_id: GO:0008372
def: "The part of a cell or its extracellular environment in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together." [GOC:go_curators]
comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for use for the annotation of gene products whose cellular component is unknown. Note that 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 ND, no data, is used to indicate this.
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "cellular component" EXACT []
synonym: "cellular component unknown" NARROW []
xref: NIF_Subcellular:sao1337158144
disjoint_from: GO:0003674 ! molecular_function

[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 uniformly 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_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "extracellular" EXACT []
xref: Wikipedia:Extracellular
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0005578
name: proteinaceous extracellular matrix
namespace: cellular_component
def: "A layer consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that forms a sheet underlying or overlying cells such as endothelial and epithelial cells. The proteins are secreted by cells in the vicinity. An example of this component is found in Mus musculus." [GOC:mtg_sensu, ISBN:0198547684]
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
relationship: part_of GO:0005576 ! extracellular region
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0005615
name: extracellular space
namespace: cellular_component
def: "That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid." [ISBN:0198547684]
comment: Note that for multicellular organisms, the extracellular space refers to everything outside a cell, but still within the organism (excluding the extracellular matrix). Gene products from a multi-cellular organism are secreted from a cell into the interstitial fluid or blood can therefore be annotated to this term.
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
synonym: "intercellular space" RELATED []
xref: NIF_Subcellular:sao1425028079
relationship: part_of GO:0005576 ! extracellular region
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0005622
name: intracellular
namespace: cellular_component
def: "The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
synonym: "internal to cell" EXACT []
synonym: "nucleocytoplasm" RELATED [GOC:mah]
synonym: "protoplasm" EXACT []
synonym: "protoplast" RELATED [GOC:mah]
xref: Wikipedia:Intracellular
relationship: part_of GO:0005623 ! cell
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0005623
name: cell
namespace: cellular_component
def: "The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope." [GOC:go_curators]
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
subset: gosubset_prok
xref: NIF_Subcellular:sao1813327414
xref: Wikipedia:Cell_(biology)
is_a: GO:0005575 ! cellular_component

[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_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
synonym: "cell nucleus" EXACT []
xref: NIF_Subcellular:sao1702920020
xref: Wikipedia:Cell_nucleus
relationship: part_of GO:0005622 ! intracellular
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0005694
name: chromosome
namespace: cellular_component
def: "A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information." [ISBN:0198547684]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_yeast
subset: gosubset_prok
synonym: "chromatid" RELATED []
synonym: "interphase chromosome" NARROW []
synonym: "prophase chromosome" NARROW []
xref: Wikipedia:Chromosome
relationship: part_of GO:0005622 ! intracellular
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0005737
name: cytoplasm
namespace: cellular_component
def: "All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures." [ISBN:0198547684]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
xref: Wikipedia:Cytoplasm
relationship: part_of GO:0005622 ! intracellular
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0006139
name: nucleobase, nucleoside, nucleotide and nucleic acid metabolic process
namespace: biological_process
alt_id: GO:0055134
def: "Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids." [GOC:ai]
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
synonym: "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolic process" EXACT []
synonym: "cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT []
synonym: "nucleobase, nucleoside, nucleotide and nucleic acid metabolism" EXACT []
is_a: GO:0008152 ! metabolic process
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0006519
name: cellular amino acid and derivative metabolic process
namespace: biological_process
def: "The chemical reactions and pathways involving amino acids, organic acids containing one or more amino substituents, and compounds derived from amino acids, as carried out by individual cells." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "amino acid and derivative metabolism" EXACT [GOC:curators]
xref: Reactome:1006410 "Metabolism of amino acids and derivatives"
xref: Reactome:1024755 "Metabolism of amino acids and derivatives"
xref: Reactome:1051710 "Metabolism of amino acids and derivatives"
xref: Reactome:1076669 "Metabolism of amino acids and derivatives"
xref: Reactome:1097186 "Metabolism of amino acids and derivatives"
xref: Reactome:1116469 "Metabolism of amino acids and derivatives"
xref: Reactome:1140289 "Metabolism of amino acids and derivatives"
xref: Reactome:1170535 "Metabolism of amino acids and derivatives"
xref: Reactome:1192363 "Metabolism of amino acids and derivatives"
xref: Reactome:1206554 "Metabolism of amino acids and derivatives"
xref: Reactome:1221192 "Metabolism of amino acids and derivatives"
xref: Reactome:1239177 "Metabolism of amino acids and derivatives"
xref: Reactome:1246759 "Metabolism of amino acids and derivatives"
xref: Reactome:1252509 "Metabolism of amino acids and derivatives"
xref: Reactome:1258302 "Metabolism of amino acids and derivatives"
xref: Reactome:1262011 "Metabolism of amino acids and derivatives"
xref: Reactome:1264189 "Metabolism of amino acids and derivatives"
xref: Reactome:1265599 "Metabolism of amino acids and derivatives"
xref: Reactome:1266744 "Metabolism of amino acids and derivatives"
xref: Reactome:71291 "Metabolism of amino acids and derivatives"
xref: Reactome:979813 "Metabolism of amino acids and derivatives"
is_a: GO:0008152 ! metabolic process
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0006810
name: transport
namespace: biological_process
alt_id: GO:0015457
alt_id: GO:0015460
def: "The directed movement of substances (such as macromolecules, small molecules, ions) 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 pore." [GOC:dph, GOC:jl, GOC:mah]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_pombe
subset: goslim_yeast
subset: gosubset_prok
synonym: "auxiliary transport protein activity" RELATED [GOC:mah]
synonym: "small molecule transport" NARROW []
synonym: "solute:solute exchange" NARROW []
synonym: "transport accessory protein activity" RELATED [GOC:mah]
is_a: GO:0008150 ! biological_process
relationship: part_of GO:0008150 ! biological_process

[Term]
id: GO:0006928
name: cellular component movement
namespace: biological_process
def: "The directed, self-propelled movement of a cellular component without the involvement of an external agent such as a transporter or a pore." [GOC:dgh, GOC:dph, GOC:jl, GOC:mlg]
comment: Note that in GO cellular components include whole cells (cell is_a cellular component).
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
synonym: "cell movement" RELATED []
synonym: "cellular component motion" EXACT [GOC:dph, GOC:jl]
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0006944
name: cellular membrane fusion
namespace: biological_process
def: "The cellular process that joins two lipid bilayers to form a single membrane." [GOC:mah]
subset: goslim_goa
xref: Wikipedia:Lipid_bilayer_fusion
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0007154
name: cell communication
namespace: biological_process
def: "Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment." [GOC:mah]
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
xref: Wikipedia:Cell_signaling
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0007275
name: multicellular organismal development
namespace: biological_process
def: "The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult)." [GOC:dph, GOC:ems, GOC:isa_complete, GOC:tb]
comment: Note that this term was 'developmental process'.
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
is_a: GO:0032501 ! multicellular organismal process

[Term]
id: GO:0007610
name: behavior
namespace: biological_process
def: "The specific actions or reactions of an organism in response to external or internal stimuli. Patterned activity of a whole organism in a manner dependent upon some combination of that organism's internal state and external conditions." [GOC:ems, ISBN:0395448956]
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
subset: gosubset_prok
synonym: "behavioral response to stimulus" EXACT []
synonym: "behaviour" EXACT []
synonym: "behavioural response to stimulus" EXACT []
xref: Wikipedia:Behavior
is_a: GO:0050896 ! response to stimulus

[Term]
id: GO:0008150
name: biological_process
namespace: biological_process
alt_id: GO:0000004
alt_id: GO:0007582
def: "Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end." [GOC:go_curators, GOC:isa_complete]
comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. Note that 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 ND, no data, is used to indicate this.
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "biological process" EXACT []
synonym: "biological process unknown" NARROW []
synonym: "physiological process" EXACT []
xref: Wikipedia:Biological_process
disjoint_from: GO:0005575 ! cellular_component

[Term]
id: GO:0008152
name: metabolic process
namespace: biological_process
def: "The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and 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: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
synonym: "metabolic process resulting in cell growth" NARROW []
synonym: "metabolism" EXACT []
synonym: "metabolism resulting in cell growth" NARROW []
xref: Wikipedia:Metabolism
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0008219
name: cell death
namespace: biological_process
def: "A biological process that results in permanent cessation of all vital functions of a cell." [GOC:mah]
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
subset: gosubset_prok
synonym: "necrosis" RELATED []
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0008565
name: protein transporter activity
namespace: molecular_function
alt_id: GO:0015463
def: "Enables the directed movement of proteins into, out of or within a cell, or between cells." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_goa
subset: gosubset_prok
synonym: "enzyme transporter activity" NARROW []
synonym: "holin" RELATED []
synonym: "protein carrier activity" EXACT []
synonym: "protein transport chaperone" NARROW [GOC:dph, GOC:mah, GOC:tb]
synonym: "secretin" RELATED []
is_a: GO:0005215 ! transporter activity

[Term]
id: GO:0008907
name: integrase activity
namespace: molecular_function
def: "Catalysis of the integration of lambdoid phage DNA during establishment, probably by forming a transient DNA-protein link." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0009055
name: electron carrier activity
namespace: molecular_function
alt_id: GO:0009053
alt_id: GO:0009054
def: "Any molecular entity that serves as an electron acceptor and electron donor in an electron transport system." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
synonym: "2Fe-2S electron transfer carrier" NARROW []
synonym: "3Fe-4S/4Fe-4S electron transfer carrier" NARROW []
synonym: "adrenodoxin-type ferredoxin" NARROW []
synonym: "amicyanin" NARROW []
synonym: "azurin" NARROW []
synonym: "bacterial-type ferredoxin" NARROW []
synonym: "chloroplast-type ferredoxin" NARROW []
synonym: "copper electron carrier" NARROW []
synonym: "dicluster bacterial-type ferredoxin" NARROW []
synonym: "electron acceptor activity" NARROW []
synonym: "electron carrier, chlorophyll electron transport system" RELATED []
synonym: "electron donor activity" NARROW []
synonym: "electron transfer flavoprotein" NARROW []
synonym: "electron transfer flavoprotein, group I" NARROW []
synonym: "electron transfer flavoprotein, group II" NARROW []
synonym: "electron transporter activity" EXACT []
synonym: "high-potential iron-sulfur carrier" NARROW []
synonym: "iron-sulfur electron transfer carrier" NARROW []
synonym: "monocluster bacterial-type ferredoxin" NARROW []
synonym: "mononuclear iron electron carrier" NARROW []
synonym: "polyferredoxin" NARROW []
synonym: "redox-active disulfide bond electron carrier" NARROW []
synonym: "rubredoxin" NARROW []
synonym: "small blue copper electron carrier" NARROW []
synonym: "thioredoxin-like 2Fe-2S ferredoxin" NARROW []
xref: Reactome:20046 "electron carrier activity"
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0009056
name: catabolic process
namespace: biological_process
def: "The chemical reactions and pathways resulting in the breakdown of substances, including the breakdown of carbon compounds with the liberation of energy for use by the cell or organism." [ISBN:0198547684]
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
subset: gosubset_prok
synonym: "breakdown" EXACT []
synonym: "catabolism" EXACT []
synonym: "degradation" EXACT []
xref: Wikipedia:Catabolism
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0009058
name: biosynthetic process
namespace: biological_process
def: "The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones." [GOC:curators, ISBN:0198547684]
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
subset: gosubset_prok
synonym: "anabolism" EXACT []
synonym: "biosynthesis" EXACT []
synonym: "formation" EXACT []
synonym: "synthesis" EXACT []
xref: Wikipedia:Anabolism
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0009405
name: pathogenesis
namespace: biological_process
def: "The set of specific processes that generate the ability of an organism to cause disease in another." [GOC:go_curators]
comment: Note that this term should not be used to annotate gene products that are involved in the host response to pathogenesis. It should only be used to annotate those gene products involved in the generation of pathogenesis by the pathogen itself.
subset: goslim_candida
subset: goslim_goa
subset: gosubset_prok
synonym: "channel-forming toxin activity" RELATED []
synonym: "cytotoxin activity" RELATED []
synonym: "endotoxin activity" RELATED []
synonym: "enterotoxin activity" RELATED []
synonym: "exotoxin activity" RELATED []
synonym: "lipoprotein toxin" RELATED []
synonym: "neurotoxin activity" RELATED []
synonym: "pore-forming toxin activity" RELATED []
synonym: "toxin activity" RELATED []
synonym: "virulence" RELATED []
is_a: GO:0051704 ! multi-organism process

[Term]
id: GO:0009986
name: cell surface
namespace: cellular_component
alt_id: GO:0009928
alt_id: GO:0009929
def: "The external part of the cell wall and/or plasma membrane." [GOC:jl, GOC:mtg_sensu, GOC:sm]
comment: Note that this term is intended to annotate gene products that are attached (integrated or loosely bound) to the plasma membrane or cell wall.
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
synonym: "cell associated" EXACT []
synonym: "cell bound" EXACT []
relationship: part_of GO:0005623 ! cell
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0009987
name: cellular process
namespace: biological_process
alt_id: GO:0008151
alt_id: GO:0050875
def: "Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level." [GOC:go_curators, GOC:isa_complete]
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
synonym: "cell growth and/or maintenance" NARROW []
synonym: "cell physiology" EXACT []
synonym: "cellular physiological process" EXACT []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0015075
name: ion transmembrane transporter activity
namespace: molecular_function
def: "Catalysis of the transfer of an ion from one side of a membrane to the other." [GOC:dgf, GOC:mtg_transport, ISBN:0815340729]
subset: goslim_goa
subset: gosubset_prok
synonym: "ion transporter activity" EXACT []
is_a: GO:0005215 ! transporter activity

[Term]
id: GO:0015267
name: channel activity
namespace: molecular_function
alt_id: GO:0015249
alt_id: GO:0015268
def: "Catalysis of energy-independent facilitated diffusion, mediated by passage of a solute through a transmembrane aqueous pore or channel. Stereospecificity is not exhibited but this transport may be specific for a particular molecular species or class of molecules." [GOC:mtg_transport, ISBN:0815340729, TC:1.-.-.-.-]
subset: goslim_goa
subset: gosubset_prok
synonym: "alpha-type channel activity" RELATED []
synonym: "channel-forming toxin activity" RELATED []
synonym: "channel/pore class transporter activity" EXACT []
synonym: "nonselective channel activity" EXACT []
synonym: "pore activity" BROAD []
synonym: "pore class transporter activity" RELATED []
xref: TC:1
is_a: GO:0005215 ! transporter activity

[Term]
id: GO:0016020
name: membrane
namespace: cellular_component
def: "Double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins." [GOC:mah, ISBN:0815316194]
subset: goslim_candida
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
xref: Wikipedia:Biological_membrane
relationship: part_of GO:0005623 ! cell
is_a: GO:0005575 ! cellular_component

[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 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
is_a: GO:0003674 ! molecular_function

[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 "Oxford Dictionary of Biochemistry and Molecular Biology"]
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_generic
subset: goslim_goa
subset: goslim_plant
subset: gosubset_prok
synonym: "phosphokinase activity" EXACT []
xref: Reactome:1423 "kinase activity"
is_a: GO:0016740 ! transferase activity

[Term]
id: GO:0016491
name: oxidoreductase activity
namespace: molecular_function
def: "Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced." [GOC:go_curators]
comment: Note that enzymes of class EC:1.97.-.- should also be annotated to this term.
subset: goslim_candida
subset: goslim_goa
subset: goslim_pir
subset: goslim_yeast
subset: gosubset_prok
synonym: "oxidoreductase activity, acting on other substrates" NARROW []
synonym: "redox activity" EXACT []
xref: EC:1
xref: Reactome:95 "oxidoreductase activity"
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016740
name: transferase activity
namespace: molecular_function
def: "Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
xref: EC:2
is_a: GO:0003824 ! catalytic 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. Hydrolase is the systematic name for any enzyme of EC class 3." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
xref: EC:3
xref: Reactome:450 "hydrolase activity"
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016829
name: lyase activity
namespace: molecular_function
def: "Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring." [EC:4.-.-.-, ISBN:0198547684]
comment: Note that enzymes of class EC:4.99.-.- should also be annotated to this term.
subset: goslim_candida
subset: goslim_goa
subset: goslim_pir
subset: goslim_yeast
subset: gosubset_prok
synonym: "other lyase activity" NARROW []
xref: EC:4
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 "Oxford Dictionary of Biochemistry and Molecular Biology"]
comment: Note that enzymes of class EC:5.99.-.- should also be annotated to this term.
subset: goslim_candida
subset: goslim_goa
subset: goslim_pir
subset: goslim_yeast
subset: gosubset_prok
synonym: "other isomerase activity" NARROW []
xref: EC:5
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0016874
name: ligase activity
namespace: molecular_function
def: "Catalysis of the ligation of two substances with concomitant breaking of a diphosphate linkage, usually in a nucleoside triphosphate. Ligase is the systematic name for any enzyme of EC class 6." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_candida
subset: goslim_goa
subset: goslim_pir
subset: goslim_yeast
subset: gosubset_prok
xref: EC:6
is_a: GO:0003824 ! catalytic activity

[Term]
id: GO:0030154
name: cell differentiation
namespace: biological_process
def: "The process whereby relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology"]
subset: goslim_generic
subset: goslim_goa
subset: goslim_plant
subset: gosubset_prok
xref: Wikipedia:Cellular_differentiation
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0030234
name: enzyme regulator activity
namespace: molecular_function
def: "Modulates the activity of an enzyme." [GOC:mah]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "catalytic regulator activity" EXACT [GOC:dph]
synonym: "enzyme modulator" EXACT []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0030312
name: external encapsulating structure
namespace: cellular_component
def: "A structure that lies outside the plasma membrane and surrounds the entire cell." [GOC:go_curators]
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: gosubset_prok
relationship: part_of GO:0005623 ! cell
is_a: GO:0005575 ! cellular_component

[Term]
id: GO:0030528
name: transcription regulator activity
namespace: molecular_function
def: "Plays a role in regulating transcription; may bind a promoter or enhancer DNA sequence or interact with a DNA-binding transcription factor." [GOC:mah]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "transcriptional regulator activity" EXACT []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0032501
name: multicellular organismal process
namespace: biological_process
alt_id: GO:0050874
def: "Any biological process, occurring at the level of a multicellular organism, pertinent to its function." [GOC:curators, GOC:dph, GOC:isa_complete, GOC:tb]
subset: goslim_goa
subset: goslim_pir
synonym: "organismal physiological process" EXACT []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0043062
name: extracellular structure organization
namespace: biological_process
def: "A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of structures in 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, and also covers the host cell environment outside an intracellular parasite." [GOC:ai, GOC:dph, GOC:jl, GOC:mah]
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
synonym: "extracellular structure organisation" EXACT [GOC:curators]
synonym: "extracellular structure organization and biogenesis" EXACT [GOC:dph, GOC:jl, GOC:mah]
is_a: GO:0009987 ! cellular process

[Term]
id: GO:0043170
name: macromolecule metabolic process
namespace: biological_process
alt_id: GO:0043283
def: "The chemical reactions and pathways involving macromolecules, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass." [CHEBI:33694, GOC:mah]
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
synonym: "biopolymer metabolic process" EXACT [GOC:mtg_chebi_dec09]
synonym: "macromolecule metabolism" EXACT []
is_a: GO:0008152 ! metabolic process

[Term]
id: GO:0045182
name: translation regulator activity
namespace: molecular_function
def: "Any molecular function involved in the initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome." [GOC:ai]
subset: goslim_candida
subset: goslim_generic
subset: goslim_goa
subset: goslim_pir
subset: goslim_plant
subset: goslim_yeast
subset: gosubset_prok
synonym: "translation factor activity" EXACT []
is_a: GO:0003674 ! molecular_function

[Term]
id: GO:0046903
name: secretion
namespace: biological_process
def: "The controlled release of a substance by a cell, a group of cells, or a tissue." [GOC:ai]
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
is_a: GO:0006810 ! transport

[Term]
id: GO:0050789
name: regulation of biological process
namespace: biological_process
alt_id: GO:0050791
def: "Any process that modulates the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule." [GOC:ai, GOC:go_curators]
subset: goslim_generic
subset: goslim_goa
subset: gosubset_prok
synonym: "regulation of physiological process" EXACT []
is_a: GO:0008150 ! biological_process
relationship: regulates GO:0008150 ! biological_process

[Term]
id: GO:0050896
name: response to stimulus
namespace: biological_process
alt_id: GO:0051869
def: "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus." [GOC:ai]
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
synonym: "physiological response to stimulus" EXACT []
is_a: GO:0008150 ! biological_process

[Term]
id: GO:0051704
name: multi-organism process
namespace: biological_process
alt_id: GO:0051706
def: "Any process by which an organism has an effect on another organism of the same or different species." [GOC:ai]
subset: goslim_goa
subset: goslim_pir
subset: gosubset_prok
synonym: "interaction between organisms" EXACT []
synonym: "physiological interaction between organisms" EXACT []
synonym: "physiological interaction with other organism" EXACT []
is_a: GO:0008150 ! biological_process

[Typedef]
id: has_part
name: has_part
namespace: gene_ontology
xref: OBO_REL:has_part
is_transitive: true

[Typedef]
id: negatively_regulates
name: negatively_regulates
namespace: gene_ontology

[Typedef]
id: part_of
name: part_of
namespace: gene_ontology
xref: OBO_REL:part_of
is_transitive: true

[Typedef]
id: positively_regulates
name: positively_regulates
namespace: gene_ontology

[Typedef]
id: regulates
name: regulates
namespace: gene_ontology