goslim metagenomics.owl
type: Ontology
version IRI: goslim metagenomics.owl
version info: 2026-03-24

definition
type: AnnotationProperty

term tracker item
type: AnnotationProperty
database_cross_reference: IAO:0000233
has_obo_namespace: external
id: term_tracker_item
is class level: true
is metadata tag: true
shorthand: term_tracker_item

has ontology root term
type: AnnotationProperty
database_cross_reference: IAO:0000700
has_obo_namespace: external
id: has_ontology_root_term
is class level: true
is metadata tag: true
shorthand: has_ontology_root_term

term replaced by
type: AnnotationProperty

chebi ph7 3
type: AnnotationProperty
comment: Rhea list of ChEBI terms representing the major species at pH 7.3.
sub property of: subset_property

gocheck do not annotate
type: AnnotationProperty
comment: Term not to be used for direct annotation
sub property of: subset_property

gocheck obsoletion candidate
type: AnnotationProperty
comment: Terms planned for obsoletion
sub property of: subset_property

goslim agr
type: AnnotationProperty
comment: AGR slim
sub property of: subset_property

goslim aspergillus
type: AnnotationProperty
comment: Aspergillus GO slim
sub property of: subset_property

goslim candida
type: AnnotationProperty
comment: Candida GO slim
sub property of: subset_property

goslim chembl
type: AnnotationProperty
comment: ChEMBL protein targets summary
sub property of: subset_property

goslim drosophila
type: AnnotationProperty
comment: Drosophila GO slim
sub property of: subset_property

goslim euk cellular processes ribbon
type: AnnotationProperty
comment: GO ribbon for eukaroytic cellular processes
sub property of: subset_property

goslim flybase ribbon
type: AnnotationProperty
comment: Insecta GO ribbon slim
sub property of: subset_property

goslim generic
type: AnnotationProperty
comment: Generic GO slim
sub property of: subset_property

goslim metagenomics
type: AnnotationProperty
comment: Metagenomics GO slim
sub property of: subset_property

goslim mouse
type: AnnotationProperty
comment: Mouse GO slim
sub property of: subset_property

goslim pir
type: AnnotationProperty
comment: PIR GO slim
sub property of: subset_property

goslim plant
type: AnnotationProperty
comment: Plant GO slim
sub property of: subset_property

goslim plant ribbon
type: AnnotationProperty
comment: Plant GO ribbon
sub property of: subset_property

goslim pombe
type: AnnotationProperty
comment: Fission yeast GO slim
sub property of: subset_property

goslim prokaryote
type: AnnotationProperty
comment: GO subset for prokaryotes
sub property of: subset_property

goslim prokaryote ribbon
type: AnnotationProperty
comment: Prokaryote GO ribbon slim
sub property of: subset_property

goslim synapse
type: AnnotationProperty
comment: synapse GO slim
sub property of: subset_property

goslim virus
type: AnnotationProperty
comment: GO subset for viruses
sub property of: subset_property

goslim yeast
type: AnnotationProperty
comment: Yeast GO slim
sub property of: subset_property

label approved by the SynGO project
type: AnnotationProperty
sub property of: synonym_type_property

Systematic synonym
type: AnnotationProperty
has_scope: has_exact_synonym
sub property of: synonym_type_property

subset_property
type: AnnotationProperty

synonym_type_property
type: AnnotationProperty

consider
type: AnnotationProperty

created by
type: AnnotationProperty

creation date
type: AnnotationProperty

has_alternative_id
type: AnnotationProperty

has_broad_synonym
type: AnnotationProperty

database_cross_reference
type: AnnotationProperty

has_exact_synonym
type: AnnotationProperty

has_narrow_synonym
type: AnnotationProperty

has_obo_format_version
type: AnnotationProperty

has_obo_namespace
type: AnnotationProperty

has_related_synonym
type: AnnotationProperty

has_scope
type: AnnotationProperty

has_synonym_type
type: AnnotationProperty

id
type: AnnotationProperty

in_subset
type: AnnotationProperty

shorthand
type: AnnotationProperty

part of
type: ObjectProperty
inverse of: has part
type: TransitiveProperty
database_cross_reference: BFO:0000050
has_obo_namespace: external
id: part_of
shorthand: part_of

has part
type: ObjectProperty
type: TransitiveProperty
database_cross_reference: BFO:0000051
has_obo_namespace: external
id: has_part
shorthand: has_part

occurs in
type: ObjectProperty
property chain axiom: part of
database_cross_reference: BFO:0000066
has_obo_namespace: external
id: occurs_in
shorthand: occurs_in

starts during
type: ObjectProperty
database_cross_reference: RO:0002091
has_obo_namespace: external
id: starts_during
shorthand: starts_during

happens during
type: ObjectProperty
sub property of: ends during
type: TransitiveProperty
database_cross_reference: RO:0002092
has_obo_namespace: external
id: happens_during
shorthand: happens_during

ends during
type: ObjectProperty
database_cross_reference: RO:0002093
has_obo_namespace: external
id: ends_during
shorthand: ends_during

regulates
type: ObjectProperty
type: TransitiveProperty
database_cross_reference: RO:0002211
has_obo_namespace: external
id: regulates
shorthand: regulates

negatively regulates
type: ObjectProperty
sub property of: regulates
database_cross_reference: RO:0002212
has_obo_namespace: external
id: negatively_regulates
shorthand: negatively_regulates

positively regulates
type: ObjectProperty
sub property of: regulates
property chain axiom: negatively regulates
database_cross_reference: RO:0002213
has_obo_namespace: external
id: positively_regulates
shorthand: positively_regulates

phosphopyruvate hydratase complex
type: Class
subclass of: catalytic complex
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
definition: A multimeric enzyme complex, usually a dimer or an octamer, that catalyzes the conversion of 2-phospho-D-glycerate to phosphoenolpyruvate and water.
has_exact_synonym: enolase complex
has_obo_namespace: cellular_component
id: GO:0000015
in_subset: goslim metagenomics

Axiom
annotated source: phosphopyruvate hydratase complex
annotated property: definition
annotated target: A multimeric enzyme complex, usually a dimer or an octamer, that catalyzes the conversion of 2-phospho-D-glycerate to phosphoenolpyruvate and water.
database_cross_reference: GOC:jl
database_cross_reference: ISBN:0198506732

DNA strand exchange activity
type: Class
subclass of: catalytic activity
subclass of: Restriction
  on property: part of
  some values from: DNA metabolic process
definition: Catalysis of the identification and base-pairing of homologous sequences between single-stranded DNA and double-stranded DNA.
term tracker item: https://github.com/geneontology/go-ontology/issues/20964
database_cross_reference: Reactome:R-HSA-912458
has_exact_synonym: recombinase activity
has_narrow_synonym: strand transferase
has_obo_namespace: molecular_function
has_related_synonym: RecA-family recombinase activity
has_related_synonym: strand exchange activity
id: GO:0000150
in_subset: goslim metagenomics
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'.

Axiom
annotated source: DNA strand exchange activity
annotated property: definition
annotated target: Catalysis of the identification and base-pairing of homologous sequences between single-stranded DNA and double-stranded DNA.
database_cross_reference: GOC:elh

Formation of meiotic heteroduplex
type: Axiom
annotated source: DNA strand exchange activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-912458

phosphorelay signal transduction system
type: Class
subclass of: signal transduction
subclass of: Restriction
  on property: occurs in
  some values from: intracellular anatomical structure
definition: 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.
has_exact_synonym: histidyl-aspartyl phosphorelay
has_obo_namespace: biological_process
id: GO:0000160
in_subset: goslim metagenomics

Axiom
annotated source: phosphorelay signal transduction system
annotated property: definition
annotated target: 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.
database_cross_reference: PMID:9191038

nucleotide binding
type: Class
subclass of: molecular_function
definition: 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.
has_obo_namespace: molecular_function
id: GO:0000166
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: nucleotide binding
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0198547684

molecular_function
type: Class
definition: 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.
has_alternative_id: GO:0005554
has_exact_synonym: molecular function
has_obo_namespace: molecular_function
id: GO:0003674
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast
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.

Axiom
annotated source: molecular_function
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:pdt

nucleic acid binding
type: Class
subclass of: molecular_function
definition: Binding to a nucleic acid.
has_alternative_id: GO:0000496
has_narrow_synonym: base pairing
has_obo_namespace: molecular_function
id: GO:0003676
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: nucleic acid binding
annotated property: definition
annotated target: Binding to a nucleic acid.
database_cross_reference: GOC:jl

DNA-binding transcription factor activity
type: Class
subclass of: molecular_function
subclass of: Restriction
  on property: part of
  some values from: regulation of metabolic process
subclass of: Restriction
  on property: has part
  some values from: nucleic acid binding
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/15704
term tracker item: https://github.com/geneontology/go-ontology/issues/16534
term tracker item: https://github.com/geneontology/go-ontology/issues/20253
created by: krc
creation date: 2010-10-21T04:37:54Z
has_alternative_id: GO:0000130
has_alternative_id: GO:0001071
has_alternative_id: GO:0001130
has_alternative_id: GO:0001131
has_alternative_id: GO:0001151
has_alternative_id: GO:0001199
has_alternative_id: GO:0001204
has_broad_synonym: nucleic acid binding transcription factor activity
has_broad_synonym: transcription factor activity
database_cross_reference: Reactome:R-HSA-163666
has_exact_synonym: DNA binding transcription factor activity
has_exact_synonym: gene-specific transcription factor activity
has_exact_synonym: sequence-specific DNA binding transcription factor activity
has_narrow_synonym: bacterial-type DNA binding transcription factor activity
has_narrow_synonym: bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity
has_narrow_synonym: bacterial-type RNA polymerase transcription enhancer sequence-specific DNA binding transcription factor activity
has_narrow_synonym: bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding
has_narrow_synonym: bacterial-type RNA polymerase transcription factor activity, sequence-specific DNA binding
has_narrow_synonym: metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity
has_narrow_synonym: metal ion regulated sequence-specific DNA binding transcription factor activity
has_narrow_synonym: sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity
has_narrow_synonym: transcription factor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding
has_narrow_synonym: transcription factor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding
has_narrow_synonym: transcription factor activity, bacterial-type RNA polymerase transcription enhancer sequence-specific binding
has_narrow_synonym: transcription factor activity, metal ion regulated sequence-specific DNA binding
has_obo_namespace: molecular_function
id: GO:0003700
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim plant
in_subset: goslim yeast
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.

Axiom
annotated source: DNA-binding transcription factor activity
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:txnOH-2018

Formation of ChREBP:MLX heterodimer
type: Axiom
annotated source: DNA-binding transcription factor activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-163666

structural constituent of ribosome
type: Class
subclass of: molecular_function
subclass of: Restriction
  on property: occurs in
  some values from: intracellular anatomical structure
subclass of: Restriction
  on property: occurs in
  some values from: ribosome
definition: The action of a molecule that contributes to the structural integrity of the ribosome.
has_alternative_id: GO:0003736
has_alternative_id: GO:0003737
has_alternative_id: GO:0003738
has_alternative_id: GO:0003739
has_alternative_id: GO:0003740
has_alternative_id: GO:0003741
has_alternative_id: GO:0003742
has_broad_synonym: ribosomal protein
has_obo_namespace: molecular_function
has_related_synonym: ribosomal RNA
id: GO:0003735
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim yeast
comment: Note that this term may be used to annotate ribosomal RNAs as well as ribosomal proteins.

Axiom
annotated source: structural constituent of ribosome
annotated property: definition
annotated target: The action of a molecule that contributes to the structural integrity of the ribosome.
database_cross_reference: GOC:mah

catalytic activity
type: Class
subclass of: molecular_function
definition: 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.
database_cross_reference: Wikipedia:Enzyme
has_exact_synonym: enzyme activity
has_obo_namespace: molecular_function
id: GO:0003824
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote ribbon

Axiom
annotated source: catalytic activity
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:vw
database_cross_reference: ISBN:0198506732

Axiom
annotated source: catalytic activity
annotated property: has_exact_synonym
annotated target: enzyme activity
database_cross_reference: GOC:dph
database_cross_reference: GOC:tb

peroxidase activity
type: Class
subclass of: antioxidant activity
subclass of: oxidoreductase activity
definition: Catalysis of the reaction: a reduced substrate + ROOH = an oxidized substrate + ROH + H2O.
term tracker item: https://github.com/geneontology/go-ontology/issues/23121
term tracker item: https://github.com/geneontology/go-ontology/issues/25776
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
term tracker item: https://github.com/geneontology/go-ontology/issues/31239
has_alternative_id: GO:0016685
has_alternative_id: GO:0016686
has_alternative_id: GO:0016687
has_alternative_id: GO:0016693
database_cross_reference: EC:1.11.1.-
database_cross_reference: KEGG_REACTION:R03532
database_cross_reference: Reactome:R-HSA-1222346
database_cross_reference: Reactome:R-HSA-140359
database_cross_reference: Reactome:R-HSA-2309773
database_cross_reference: Reactome:R-HSA-2559639
database_cross_reference: Reactome:R-HSA-3341296
database_cross_reference: Reactome:R-HSA-5631885
database_cross_reference: Reactome:R-HSA-6789031
database_cross_reference: Reactome:R-HSA-6789126
database_cross_reference: Reactome:R-HSA-8855490
database_cross_reference: Reactome:R-HSA-8933635
database_cross_reference: Wikipedia:Peroxidase
has_exact_synonym: peroxidase reaction
has_narrow_synonym: bacterial catalase-peroxidase activity
has_narrow_synonym: eosinophil peroxidase activity
has_narrow_synonym: extensin peroxidase
has_narrow_synonym: guaiacol peroxidase
has_narrow_synonym: heme peroxidase
has_narrow_synonym: horseradish peroxidase (HRP)
has_narrow_synonym: japanese radish peroxidase
has_narrow_synonym: lactoperoxidase activity
has_narrow_synonym: myeloperoxidase activity
has_narrow_synonym: protoheme peroxidase
has_narrow_synonym: pyrocatechol peroxidase
has_narrow_synonym: scopoletin peroxidase
has_narrow_synonym: secretory plant peroxidase activity
has_narrow_synonym: thiocyanate peroxidase
has_narrow_synonym: verdoperoxidase
has_obo_namespace: molecular_function
has_related_synonym: MPO
has_related_synonym: donor:hydrogen-peroxide oxidoreductase activity
has_related_synonym: oxyperoxidase activity
id: GO:0004601
in_subset: goslim metagenomics

Axiom
annotated source: peroxidase activity
annotated property: definition
annotated target: Catalysis of the reaction: a reduced substrate + ROOH = an oxidized substrate + ROH + H2O.
database_cross_reference: PMID:33992367

AhpC reduces H2O2
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1222346

PGG2 is reduced to PGH2 by PTGS1
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-140359

PGG2 is reduced to PGH2 by PTGS2
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2309773

Collagen type IV sulfilimine cross-linking by peroxidasin
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2559639

GPX7,8 catalyze peroxidation of P4HB (PDI)
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-3341296

PRDX1 overoxidizes
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5631885

Membrane-bound myeloperoxidase (MPO) produces hypochlorous acid (HOCl)
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6789031

Myeloperoxidase (MPO) produces hypochlorous acid (HOCl)
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6789126

Lactoperoxidase (LPO) produces OSCN-
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8855490

Myeloperoxidase (MPO) catalyzes oxidation of nitrite to nitrogen dioxide
type: Axiom
annotated source: peroxidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8933635

transposase activity
type: Class
subclass of: catalytic activity
definition: 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.
has_alternative_id: GO:0004804
has_narrow_synonym: P-element encoded transposase activity
has_obo_namespace: molecular_function
id: GO:0004803
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: transposase activity
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:bm
database_cross_reference: ISBN:0198506732

transporter activity
type: Class
subclass of: molecular_function
definition: Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, accross or in between cells.
term tracker item: https://github.com/geneontology/go-ontology/issues/27621
has_alternative_id: GO:0005478
has_obo_namespace: molecular_function
has_related_synonym: carrier
id: GO:0005215
in_subset: gocheck do not annotate
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
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.

Axiom
annotated source: transporter activity
annotated property: definition
annotated target: Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, accross or in between cells.
database_cross_reference: GOC:ai
database_cross_reference: GOC:dgf

protein binding
type: Class
subclass of: molecular_function
definition: Binding to a protein.
has_alternative_id: GO:0001948
has_alternative_id: GO:0045308
database_cross_reference: Reactome:R-HSA-9866132
has_exact_synonym: protein amino acid binding
has_narrow_synonym: glycoprotein binding
has_obo_namespace: molecular_function
id: GO:0005515
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote ribbon

Axiom
annotated source: protein binding
annotated property: definition
annotated target: Binding to a protein.
database_cross_reference: GOC:curators

Intermediate II binds CYC1, UQCRC1, UQCRC2, UQCRH
type: Axiom
annotated source: protein binding
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9866132

cellular_component
type: Class
definition: 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).
term tracker item: https://github.com/geneontology/go-ontology/issues/17729
has_alternative_id: GO:0008372
database_cross_reference: NIF_Subcellular:sao1337158144
has_exact_synonym: cell or subcellular entity
has_exact_synonym: cellular component
has_obo_namespace: cellular_component
has_related_synonym: subcellular entity
id: GO:0005575
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast
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.

Axiom
annotated source: cellular_component
annotated property: definition
annotated target: 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).
database_cross_reference: GOC:pdt

Axiom
annotated source: cellular_component
annotated property: has_related_synonym
annotated target: subcellular entity
database_cross_reference: NIF_Subcellular:nlx_subcell_100315

extracellular region
type: Class
subclass of: cellular_component
definition: 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.
database_cross_reference: Wikipedia:Extracellular
has_exact_synonym: extracellular
has_obo_namespace: cellular_component
id: GO:0005576
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast
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'.

Axiom
annotated source: extracellular region
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators

cell wall
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: extracellular region
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/21669
database_cross_reference: Wikipedia:Cell_wall
has_obo_namespace: cellular_component
id: GO:0005618
in_subset: gocheck do not annotate
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast
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).

Axiom
annotated source: cell wall
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:giardia
database_cross_reference: ISBN:0198547684
database_cross_reference: PMID:15134259
database_cross_reference: Wikipedia:Microbial_cyst

intracellular anatomical structure
type: Class
subclass of: cellular_component
definition: A component of a cell contained within (but not including) the plasma membrane. In eukaryotes it includes the nucleus and cytoplasm.
term tracker item: https://github.com/geneontology/go-ontology/issues/17776
database_cross_reference: Wikipedia:Intracellular
has_exact_synonym: internal to cell
has_exact_synonym: intracellular
has_exact_synonym: protoplasm
has_obo_namespace: cellular_component
has_related_synonym: nucleocytoplasm
has_related_synonym: protoplast
id: GO:0005622
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim plant

Axiom
annotated source: intracellular anatomical structure
annotated property: definition
annotated target: A component of a cell contained within (but not including) the plasma membrane. In eukaryotes it includes the nucleus and cytoplasm.
database_cross_reference: ISBN:0198506732

Axiom
annotated source: intracellular anatomical structure
annotated property: has_related_synonym
annotated target: nucleocytoplasm
database_cross_reference: GOC:mah

Axiom
annotated source: intracellular anatomical structure
annotated property: has_related_synonym
annotated target: protoplast
database_cross_reference: GOC:mah

nucleus
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: 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.
database_cross_reference: NIF_Subcellular:sao1702920020
database_cross_reference: Wikipedia:Cell_nucleus
has_exact_synonym: cell nucleus
has_narrow_synonym: horsetail nucleus
has_obo_namespace: cellular_component
id: GO:0005634
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast

Axiom
annotated source: nucleus
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators

Axiom
annotated source: nucleus
annotated property: has_narrow_synonym
annotated target: horsetail nucleus
database_cross_reference: GOC:al
database_cross_reference: GOC:mah
database_cross_reference: GOC:vw
database_cross_reference: PMID:15030757

chromosome
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
database_cross_reference: Wikipedia:Chromosome
has_narrow_synonym: interphase chromosome
has_narrow_synonym: prophase chromosome
has_obo_namespace: cellular_component
has_related_synonym: chromatid
id: GO:0005694
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast
comment: Chromosomes include parts that are not part of the chromatin. Examples include the kinetochore.

Axiom
annotated source: chromosome
annotated property: definition
annotated target: A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
database_cross_reference: ISBN:0198547684

extrachromosomal circular DNA
type: Class
subclass of: intracellular anatomical structure
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: Circular DNA structures that are not part of a chromosome.
has_obo_namespace: cellular_component
id: GO:0005727
in_subset: goslim metagenomics

Axiom
annotated source: extrachromosomal circular DNA
annotated property: definition
annotated target: Circular DNA structures that are not part of a chromosome.
database_cross_reference: GOC:ai

cytoplasm
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
term tracker item: https://github.com/geneontology/go-ontology/issues/23023
database_cross_reference: Wikipedia:Cytoplasm
has_obo_namespace: cellular_component
id: GO:0005737
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: cytoplasm
annotated property: definition
annotated target: The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
database_cross_reference: ISBN:0198547684

proteasome core complex
type: Class
subclass of: catalytic complex
subclass of: Restriction
  on property: part of
  some values from: catalytic complex
definition: A multisubunit barrel shaped endoprotease complex, which is the core of the proteasome complex.
has_alternative_id: GO:0000503
has_exact_synonym: macropain
has_narrow_synonym: 20S core complex
has_narrow_synonym: 20S proteasome
has_narrow_synonym: PA28gamma-20S proteasome
has_obo_namespace: cellular_component
id: GO:0005839
in_subset: goslim metagenomics

Axiom
annotated source: proteasome core complex
annotated property: definition
annotated target: A multisubunit barrel shaped endoprotease complex, which is the core of the proteasome complex.
database_cross_reference: GOC:rb
database_cross_reference: PMID:10806206

Axiom
annotated source: proteasome core complex
annotated property: has_narrow_synonym
annotated target: 20S proteasome
database_cross_reference: GOC:cjk

Axiom
annotated source: proteasome core complex
annotated property: has_narrow_synonym
annotated target: PA28gamma-20S proteasome
database_cross_reference: CORUM:194

ribosome
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/17777
has_alternative_id: GO:0033279
database_cross_reference: NIF_Subcellular:sao1429207766
database_cross_reference: Wikipedia:Ribosome
has_narrow_synonym: free ribosome
has_narrow_synonym: membrane bound ribosome
has_obo_namespace: cellular_component
has_related_synonym: ribosomal RNA
id: GO:0005840
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: ribosome
annotated property: definition
annotated target: 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.
database_cross_reference: ISBN:0198506732

Axiom
annotated source: ribosome
annotated property: has_narrow_synonym
annotated target: free ribosome
database_cross_reference: NIF_Subcellular:sao1139385046

Axiom
annotated source: ribosome
annotated property: has_narrow_synonym
annotated target: membrane bound ribosome
database_cross_reference: NIF_Subcellular:sao1291545653

microtubule
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: 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.
database_cross_reference: NIF_Subcellular:sao1846835077
database_cross_reference: Wikipedia:Microtubule
has_exact_synonym: microtubuli
has_exact_synonym: microtubulus
has_narrow_synonym: neurotubule
has_obo_namespace: cellular_component
id: GO:0005874
in_subset: goslim metagenomics

Axiom
annotated source: microtubule
annotated property: definition
annotated target: 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.
database_cross_reference: ISBN:0879693568

Axiom
annotated source: microtubule
annotated property: has_narrow_synonym
annotated target: neurotubule
database_cross_reference: NIF_Subcellular:sao248349196

plasma membrane
type: Class
subclass of: membrane
subclass of: Restriction
  on property: part of
  some values from: cellular_component
definition: The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
has_alternative_id: GO:0005887
has_alternative_id: GO:0005904
has_broad_synonym: juxtamembrane
database_cross_reference: NIF_Subcellular:sao1663586795
database_cross_reference: Wikipedia:Cell_membrane
has_exact_synonym: cell membrane
has_exact_synonym: cellular membrane
has_exact_synonym: cytoplasmic membrane
has_exact_synonym: plasmalemma
has_narrow_synonym: bacterial inner membrane
has_narrow_synonym: inner endospore membrane
has_narrow_synonym: integral component of plasma membrane
has_narrow_synonym: integral to plasma membrane
has_narrow_synonym: plasma membrane lipid bilayer
has_obo_namespace: cellular_component
id: GO:0005886
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: plasma membrane
annotated property: definition
annotated target: The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
database_cross_reference: ISBN:0716731363

Axiom
annotated source: plasma membrane
annotated property: has_exact_synonym
annotated target: cellular membrane
database_cross_reference: NIF_Subcellular:sao6433132645

Axiom
annotated source: plasma membrane
annotated property: has_narrow_synonym
annotated target: plasma membrane lipid bilayer
database_cross_reference: GOC:mah

carbohydrate metabolic process
type: Class
subclass of: metabolic process
definition: The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
term tracker item: https://github.com/geneontology/go-ontology/issues/22880
created by: jl
creation date: 2012-10-23T15:40:34Z
has_alternative_id: GO:0044261
has_alternative_id: GO:0044723
database_cross_reference: Wikipedia:Carbohydrate_metabolism
has_exact_synonym: carbohydrate metabolism
has_obo_namespace: biological_process
id: GO:0005975
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim pombe
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: carbohydrate metabolic process
annotated property: definition
annotated target: The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0198506732

generation of precursor metabolites and energy
type: Class
subclass of: metabolic process
definition: 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.
has_broad_synonym: energy pathways
has_obo_namespace: biological_process
has_related_synonym: intermediary metabolism
has_related_synonym: metabolic energy generation
id: GO:0006091
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim pombe
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: generation of precursor metabolites and energy
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:jl

Axiom
annotated source: generation of precursor metabolites and energy
annotated property: has_related_synonym
annotated target: intermediary metabolism
database_cross_reference: GOC:mah

DNA metabolic process
type: Class
subclass of: metabolic process
definition: 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.
has_alternative_id: GO:0055132
has_exact_synonym: DNA metabolism
has_exact_synonym: cellular DNA metabolism
has_obo_namespace: biological_process
id: GO:0006259
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote ribbon

Axiom
annotated source: DNA metabolic process
annotated property: definition
annotated target: 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.
database_cross_reference: ISBN:0198506732

regulation of DNA repair
type: Class
subclass of: regulation of metabolic process
subclass of: Restriction
  on property: regulates
  some values from: DNA metabolic process
subclass of: Restriction
  on property: regulates
  some values from: response to stress
definition: Any process that modulates the frequency, rate or extent of DNA repair.
has_obo_namespace: biological_process
id: GO:0006282
in_subset: goslim metagenomics

Axiom
annotated source: regulation of DNA repair
annotated property: definition
annotated target: Any process that modulates the frequency, rate or extent of DNA repair.
database_cross_reference: GOC:curators

DNA-templated transcription
type: Class
subclass of: biosynthetic process
subclass of: RNA metabolic process
subclass of: Restriction
  on property: part of
  some values from: biosynthetic process
definition: The synthesis of an RNA transcript from a DNA template.
term tracker item: https://github.com/geneontology/go-ontology/issues/14854
term tracker item: https://github.com/geneontology/go-ontology/issues/16737
term tracker item: https://github.com/geneontology/go-ontology/issues/22258
term tracker item: https://github.com/geneontology/go-ontology/issues/22555
has_alternative_id: GO:0001121
has_alternative_id: GO:0006350
has_alternative_id: GO:0061018
has_alternative_id: GO:0061022
has_broad_synonym: cellular transcription
has_broad_synonym: transcription
database_cross_reference: Reactome:R-HSA-2173793
database_cross_reference: Reactome:R-HSA-74160
database_cross_reference: Wikipedia:Transcription_(genetics)
has_exact_synonym: DNA-dependent transcription
has_exact_synonym: transcription, DNA-dependent
has_exact_synonym: transcription, DNA-templated
has_narrow_synonym: bacterial transcription
has_narrow_synonym: transcription from bacterial-type RNA polymerase promoter
has_obo_namespace: biological_process
id: GO:0006351
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim pombe
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: DNA-templated transcription
annotated property: definition
annotated target: The synthesis of an RNA transcript from a DNA template.
database_cross_reference: GOC:jl
database_cross_reference: GOC:txnOH

Transcriptional activity of SMAD2/SMAD3:SMAD4 heterotrimer
type: Axiom
annotated source: DNA-templated transcription
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2173793

Gene expression (Transcription)
type: Axiom
annotated source: DNA-templated transcription
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-74160

Axiom
annotated source: DNA-templated transcription
annotated property: has_exact_synonym
annotated target: transcription, DNA-dependent
database_cross_reference: GOC:txnOH

translation
type: Class
subclass of: biosynthetic process
subclass of: Restriction
  on property: part of
  some values from: biosynthetic process
subclass of: Restriction
  on property: has part
  some values from: biosynthetic process
subclass of: Restriction
  on property: has part
  some values from: transferase activity
subclass of: Restriction
  on property: has part
  some values from: protein-containing complex assembly
definition: 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.
has_alternative_id: GO:0006416
has_alternative_id: GO:0006453
has_alternative_id: GO:0043037
database_cross_reference: Reactome:R-HSA-72766
database_cross_reference: Wikipedia:Translation_(genetics)
has_exact_synonym: protein translation
has_obo_namespace: biological_process
id: GO:0006412
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: translation
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators

Translation
type: Axiom
annotated source: translation
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-72766

protein folding
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: part of
  some values from: biosynthetic process
definition: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
term tracker item: https://github.com/geneontology/go-ontology/issues/25673
has_alternative_id: GO:0007022
has_alternative_id: GO:0007024
has_alternative_id: GO:0007025
database_cross_reference: Reactome:R-HSA-389960
database_cross_reference: Reactome:R-HSA-390450
database_cross_reference: Reactome:R-HSA-390466
database_cross_reference: Reactome:R-HSA-532668
database_cross_reference: Wikipedia:Protein_folding
has_narrow_synonym: alpha-tubulin folding
has_narrow_synonym: beta-tubulin folding
has_narrow_synonym: chaperonin-mediated tubulin folding
has_obo_namespace: biological_process
has_related_synonym: chaperone activity
has_related_synonym: chaperonin ATPase activity
has_related_synonym: co-chaperone activity
has_related_synonym: co-chaperonin activity
has_related_synonym: glycoprotein-specific chaperone activity
has_related_synonym: non-chaperonin molecular chaperone ATPase activity
has_related_synonym: protein complex assembly, multichaperone pathway
id: GO:0006457
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim pombe
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: protein folding
annotated property: definition
annotated target: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
database_cross_reference: GOC:curators
database_cross_reference: GOC:rb

Formation of tubulin folding intermediates by CCT/TriC
type: Axiom
annotated source: protein folding
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-389960

Folding of actin by CCT/TriC
type: Axiom
annotated source: protein folding
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-390450

Chaperonin-mediated protein folding
type: Axiom
annotated source: protein folding
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-390466

N-glycan trimming in the ER and Calnexin/Calreticulin cycle
type: Axiom
annotated source: protein folding
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-532668

Axiom
annotated source: protein folding
annotated property: has_narrow_synonym
annotated target: alpha-tubulin folding
database_cross_reference: GOC:mah

Axiom
annotated source: protein folding
annotated property: has_narrow_synonym
annotated target: beta-tubulin folding
database_cross_reference: GOC:mah

Axiom
annotated source: protein folding
annotated property: has_narrow_synonym
annotated target: chaperonin-mediated tubulin folding
database_cross_reference: GOC:mah

proteolysis
type: Class
subclass of: metabolic process
definition: The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
database_cross_reference: Wikipedia:Proteolysis
has_exact_synonym: peptidolysis
has_narrow_synonym: ATP-dependent proteolysis
has_obo_namespace: biological_process
id: GO:0006508
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
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.

Axiom
annotated source: proteolysis
annotated property: has_narrow_synonym
annotated target: ATP-dependent proteolysis
database_cross_reference: GOC:mah

Axiom
annotated source: proteolysis
annotated property: definition
annotated target: The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
database_cross_reference: GOC:bf
database_cross_reference: GOC:mah

lipid metabolic process
type: Class
subclass of: metabolic process
definition: 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.
database_cross_reference: Reactome:R-HSA-556833
database_cross_reference: Wikipedia:Lipid_metabolism
has_exact_synonym: lipid metabolism
has_obo_namespace: biological_process
id: GO:0006629
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim pombe
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: lipid metabolic process
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:ma

Metabolism of lipids
type: Axiom
annotated source: lipid metabolic process
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-556833

regulation of nitrogen utilization
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: regulates
  some values from: biological_process
definition: Any process that modulates the frequency, rate or extent of nitrogen utilization.
has_obo_namespace: biological_process
id: GO:0006808
in_subset: goslim metagenomics

Axiom
annotated source: regulation of nitrogen utilization
annotated property: definition
annotated target: Any process that modulates the frequency, rate or extent of nitrogen utilization.
database_cross_reference: GOC:curators

transport
type: Class
subclass of: biological_process
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/20292
created by: jl
creation date: 2012-12-13T16:25:32Z
has_alternative_id: GO:0015457
has_alternative_id: GO:0015460
has_alternative_id: GO:0044765
database_cross_reference: Reactome:R-HSA-382551
has_obo_namespace: biological_process
has_related_synonym: single-organism transport
id: GO:0006810
in_subset: gocheck do not annotate
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
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.

Axiom
annotated source: transport
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:dos
database_cross_reference: GOC:dph
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah

Transport of small molecules
type: Axiom
annotated source: transport
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-382551

response to stress
type: Class
subclass of: biological_process
definition: 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).
term tracker item: https://github.com/geneontology/go-ontology/issues/26810
has_obo_namespace: biological_process
has_related_synonym: response to abiotic stress
has_related_synonym: response to biotic stress
id: GO:0006950
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: response to stress
annotated property: definition
annotated target: 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).
database_cross_reference: GOC:mah

cell adhesion
type: Class
subclass of: biological_process
definition: The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
created by: dos
creation date: 2014-04-15T15:59:10Z
has_alternative_id: GO:0098602
database_cross_reference: Wikipedia:Cell_adhesion
has_obo_namespace: biological_process
has_related_synonym: cell adhesion molecule activity
has_related_synonym: single organism cell adhesion
id: GO:0007155
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim pombe
in_subset: goslim prokaryote

Axiom
annotated source: cell adhesion
annotated property: definition
annotated target: The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
database_cross_reference: GOC:hb
database_cross_reference: GOC:pf

signal transduction
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: part of
  some values from: biological_process
subclass of: Restriction
  on property: regulates
  some values from: biological_process
definition: 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.
has_alternative_id: GO:0023014
has_alternative_id: GO:0023015
has_alternative_id: GO:0023016
has_alternative_id: GO:0023033
has_alternative_id: GO:0023045
database_cross_reference: Reactome:R-HSA-212718
database_cross_reference: Wikipedia:Signal_transduction
has_narrow_synonym: signaling cascade
has_narrow_synonym: signalling cascade
has_obo_namespace: biological_process
has_related_synonym: signaling pathway
has_related_synonym: signalling pathway
id: GO:0007165
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon
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.

Axiom
annotated source: signal transduction
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators
database_cross_reference: GOC:mtg_signaling_feb11

EGFR interacts with phospholipase C-gamma
type: Axiom
annotated source: signal transduction
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-212718

transcription factor binding
type: Class
subclass of: protein binding
definition: Binding to a transcription factor, a protein required to initiate or regulate transcription.
term tracker item: https://github.com/geneontology/go-ontology/issues/19354
has_exact_synonym: TF binding
has_obo_namespace: molecular_function
has_related_synonym: transcription regulator binding
id: GO:0008134
in_subset: gocheck do not annotate
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim yeast
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.

Axiom
annotated source: transcription factor binding
annotated property: definition
annotated target: Binding to a transcription factor, a protein required to initiate or regulate transcription.
database_cross_reference: ISBN:0198506732

biological_process
type: Class
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/24968
created by: jl
creation date: 2012-09-19T15:05:24Z
has_alternative_id: GO:0000004
has_alternative_id: GO:0007582
has_alternative_id: GO:0044699
database_cross_reference: Wikipedia:Biological_process
has_exact_synonym: biological process
has_exact_synonym: physiological process
has_obo_namespace: biological_process
has_related_synonym: single organism process
has_related_synonym: single-organism process
id: GO:0008150
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim pombe
in_subset: goslim yeast
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.

Axiom
annotated source: biological_process
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:pdt

metabolic process
type: Class
subclass of: biological_process
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/26424
term tracker item: https://github.com/geneontology/go-ontology/issues/28932
created by: jl
creation date: 2012-10-17T15:46:40Z
has_alternative_id: GO:0044236
has_alternative_id: GO:0044710
database_cross_reference: Reactome:R-HSA-1430728
database_cross_reference: Wikipedia:Metabolism
has_exact_synonym: metabolism
has_obo_namespace: biological_process
id: GO:0008152
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote ribbon
comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions.

Axiom
annotated source: metabolic process
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators
database_cross_reference: ISBN:0198547684

Metabolism
type: Axiom
annotated source: metabolic process
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1430728

bioluminescence
type: Class
subclass of: metabolic process
definition: The production of light by certain enzyme-catalyzed reactions in cells.
database_cross_reference: Wikipedia:Bioluminescence
has_obo_namespace: biological_process
id: GO:0008218
in_subset: goslim chembl
in_subset: goslim metagenomics

Axiom
annotated source: bioluminescence
annotated property: definition
annotated target: The production of light by certain enzyme-catalyzed reactions in cells.
database_cross_reference: ISBN:0198506732

peptidase activity
type: Class
subclass of: hydrolase activity
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
has_alternative_id: GO:0070010
has_alternative_id: GO:0070011
database_cross_reference: EC:3.4.-.-
database_cross_reference: Reactome:R-HSA-205112
database_cross_reference: Reactome:R-HSA-3000243
database_cross_reference: Reactome:R-HSA-3000263
database_cross_reference: Reactome:R-HSA-3065958
database_cross_reference: Reactome:R-HSA-3065959
database_cross_reference: Reactome:R-HSA-3139027
database_cross_reference: Reactome:R-HSA-376149
database_cross_reference: Reactome:R-HSA-4167501
database_cross_reference: Reactome:R-HSA-448678
database_cross_reference: Reactome:R-HSA-5655483
database_cross_reference: Reactome:R-HSA-5684864
database_cross_reference: Reactome:R-HSA-5685902
database_cross_reference: Reactome:R-HSA-6803060
database_cross_reference: Reactome:R-HSA-9935547
has_exact_synonym: hydrolase, acting on peptide bonds
has_exact_synonym: peptide hydrolase activity
has_exact_synonym: protease activity
has_narrow_synonym: peptidase activity, acting on D-amino acid peptides
has_narrow_synonym: peptidase activity, acting on L-amino acid peptides
has_narrow_synonym: proteinase activity
has_obo_namespace: molecular_function
id: GO:0008233
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim yeast

Axiom
annotated source: peptidase activity
annotated property: definition
annotated target: 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.
database_cross_reference: EC:3.4.-.-
database_cross_reference: GOC:jl

gamma-secretase cleaves p75NTR, releasing NRIF and TRAF6
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-205112

Unknown lysosomal protease degrades CBLIF:RCbl to release Cbl
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-3000243

TCN2:RCbl is degraded to release RCbl
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-3000263

An unknown protease degrades ACACA
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-3065958

An unknown protease degrades hCBXs
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-3065959

Maturation of HIV Virion
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-3139027

Proteolytic processing of SLIT
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-376149

An unknown protease degrades ACACB
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-4167501

CTSG cleaves CASP1(1-404)
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-448678

USP1 autocleavage
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5655483

NAPSA, CTSH, PGA3-5 cleave pro-SFTPB
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5684864

NAPSA, CTSH, PGA3-5 cleave pro-SFTPC
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5685902

DCD(63-110) is processed to DCD(63-109)
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6803060

Lysosomal degradation of ubiqutinated CDH1
type: Axiom
annotated source: peptidase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9935547

penicillin binding
type: Class
subclass of: ion binding
definition: Binding to penicillin, an antibiotic that contains the condensed beta-lactamthiazolidine ring system.
has_obo_namespace: molecular_function
id: GO:0008658
in_subset: goslim metagenomics

Axiom
annotated source: penicillin binding
annotated property: definition
annotated target: Binding to penicillin, an antibiotic that contains the condensed beta-lactamthiazolidine ring system.
database_cross_reference: GOC:ai

electron transfer activity
type: Class
subclass of: molecular_function
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/21334
term tracker item: https://github.com/geneontology/go-ontology/issues/26572
has_alternative_id: GO:0009053
has_alternative_id: GO:0009054
database_cross_reference: Reactome:R-HSA-169260
has_narrow_synonym: electron acceptor activity
has_narrow_synonym: electron donor activity
has_obo_namespace: molecular_function
has_related_synonym: electron carrier
has_related_synonym: electron transporter activity
id: GO:0009055
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: electron transfer activity
annotated property: definition
annotated target: 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.
database_cross_reference: Wikipedia:Electron_transfer

Reducing equivalents from beta-oxidation of fatty acids transfer to ETF
type: Axiom
annotated source: electron transfer activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-169260

biosynthetic process
type: Class
subclass of: metabolic process
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/28932
created by: jl
creation date: 2012-10-17T15:52:18Z
has_alternative_id: GO:0044274
has_alternative_id: GO:0044711
has_broad_synonym: formation
database_cross_reference: Wikipedia:Anabolism
has_exact_synonym: anabolism
has_exact_synonym: biosynthesis
has_exact_synonym: synthesis
has_narrow_synonym: multicellular organismal biosynthetic process
has_obo_namespace: biological_process
has_related_synonym: single-organism biosynthetic process
id: GO:0009058
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: biosynthetic process
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators
database_cross_reference: ISBN:0198547684

Gram-negative-bacterium-type cell wall
type: Class
subclass of: cell wall
definition: 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.
has_exact_synonym: 1-2nm peptidoglycan-based cell wall
has_exact_synonym: cell wall inner membrane
has_obo_namespace: cellular_component
id: GO:0009276
in_subset: goslim metagenomics

Axiom
annotated source: Gram-negative-bacterium-type cell wall
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:mlg
database_cross_reference: ISBN:0815108893

bacterial-type flagellum
type: Class
subclass of: cellular_component
definition: A motor complex composed of an extracellular helical protein filament coupled to a rotary motor embedded in the cell envelope.
database_cross_reference: Wikipedia:Flagellum#Bacterial
has_exact_synonym: flagellin-based flagellum
has_obo_namespace: cellular_component
id: GO:0009288
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: bacterial-type flagellum
annotated property: definition
annotated target: A motor complex composed of an extracellular helical protein filament coupled to a rotary motor embedded in the cell envelope.
database_cross_reference: GOC:cilia
database_cross_reference: GOC:jh2
database_cross_reference: GOC:krc
database_cross_reference: GOC:mtg_sensu
database_cross_reference: PMID:7787060
database_cross_reference: Wikipedia:Flagellum#Bacterial

acetyl-CoA carboxylase complex
type: Class
subclass of: catalytic complex
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
definition: 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.
has_exact_synonym: ACCase complex
has_obo_namespace: cellular_component
id: GO:0009317
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: acetyl-CoA carboxylase complex
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah
database_cross_reference: PMID:12121720

beta-galactosidase complex
type: Class
subclass of: catalytic complex
definition: 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.
has_obo_namespace: cellular_component
id: GO:0009341
in_subset: goslim metagenomics

Axiom
annotated source: beta-galactosidase complex
annotated property: definition
annotated target: 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.
database_cross_reference: PMID:15950161

ATP-independent citrate lyase complex
type: Class
subclass of: catalytic complex
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/21028
has_broad_synonym: citrate lyase complex
has_broad_synonym: citrate synthase complex
database_cross_reference: MetaCyc:ACECITLY-CPLX
has_obo_namespace: cellular_component
id: GO:0009346
in_subset: goslim metagenomics
comment: Note that this complex has only been found in bacteria. For eukaryotic cytrate lyases, consider GO:0140615 ; ATP-dependent citrate lyase complex.

Axiom
annotated source: ATP-independent citrate lyase complex
annotated property: definition
annotated target: 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.
database_cross_reference: PMID:32302313

riboflavin synthase complex
type: Class
subclass of: catalytic complex
definition: An flavoprotein that catalyzes the reaction the breakdown of dimethyl(ribityl)lumazine to form riboflavin and ribitylamino-amino-dihydroxypyrimidine.
has_obo_namespace: cellular_component
id: GO:0009349
in_subset: goslim metagenomics

Axiom
annotated source: riboflavin synthase complex
annotated property: definition
annotated target: An flavoprotein that catalyzes the reaction the breakdown of dimethyl(ribityl)lumazine to form riboflavin and ribitylamino-amino-dihydroxypyrimidine.
database_cross_reference: PMID:18298940

quorum sensing
type: Class
subclass of: response to biotic stimulus
subclass of: Restriction
  on property: regulates
  some values from: biological_process
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/17730
term tracker item: https://github.com/geneontology/go-ontology/issues/18018
term tracker item: https://github.com/geneontology/go-ontology/issues/18061
has_alternative_id: GO:0010699
has_alternative_id: GO:0060247
database_cross_reference: Wikipedia:Quorum_sensing
has_exact_synonym: quorum sensing system
has_obo_namespace: biological_process
has_related_synonym: cell-cell signaling involved in quorum sensing
has_related_synonym: detection of cell density by secreted molecule
id: GO:0009372
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: quorum sensing
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:krc
database_cross_reference: GOC:mlg
database_cross_reference: PMID:10607620
database_cross_reference: PMID:15716452
database_cross_reference: PMID:16497924
database_cross_reference: PMID:16630813
database_cross_reference: PMID:8288518

toxin biosynthetic process
type: Class
subclass of: biosynthetic process
definition: 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.
has_exact_synonym: toxin anabolism
has_exact_synonym: toxin biosynthesis
has_exact_synonym: toxin formation
has_exact_synonym: toxin synthesis
has_obo_namespace: biological_process
id: GO:0009403
in_subset: goslim metagenomics

Axiom
annotated source: toxin biosynthetic process
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators

thylakoid
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/13958
database_cross_reference: Wikipedia:Thylakoid
has_obo_namespace: cellular_component
has_related_synonym: photosynthetic membrane
id: GO:0009579
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
comment: A thylakoid is not considered an organelle, but some thylakoids are part of organelles.

Axiom
annotated source: thylakoid
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:ds
database_cross_reference: GOC:mtg_sensu
database_cross_reference: ISBN:0198506732

response to biotic stimulus
type: Class
subclass of: biological_process
definition: 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.
has_narrow_synonym: response to biotic stress
has_obo_namespace: biological_process
id: GO:0009607
in_subset: gocheck do not annotate
in_subset: goslim metagenomics
in_subset: goslim plant
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.

Axiom
annotated source: response to biotic stimulus
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:hb

response to abiotic stimulus
type: Class
subclass of: biological_process
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/16572
has_narrow_synonym: response to abiotic stress
has_obo_namespace: biological_process
id: GO:0009628
in_subset: gocheck do not annotate
in_subset: goslim metagenomics
in_subset: goslim plant
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.

Axiom
annotated source: response to abiotic stimulus
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:hb

methanogenesis
type: Class
subclass of: generation of precursor metabolites and energy
subclass of: biosynthetic process
definition: 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.
database_cross_reference: UM-BBD_pathwayID:meth
database_cross_reference: Wikipedia:Methanogenesis
has_exact_synonym: methane biosynthesis
has_exact_synonym: methane biosynthetic process
has_obo_namespace: biological_process
id: GO:0015948
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: methanogenesis
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:ai

photosynthesis
type: Class
subclass of: metabolic process
definition: 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.
database_cross_reference: Wikipedia:Photosynthesis
has_obo_namespace: biological_process
id: GO:0015979
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: photosynthesis
annotated property: definition
annotated target: 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.
database_cross_reference: ISBN:0198547684

membrane
type: Class
subclass of: cellular_component
definition: A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
creation date: 2014-03-06T11:37:54Z
has_alternative_id: GO:0016021
has_alternative_id: GO:0098589
has_alternative_id: GO:0098805
database_cross_reference: Wikipedia:Biological_membrane
database_cross_reference: Wikipedia:Transmembrane_protein
has_narrow_synonym: integral component of membrane
has_narrow_synonym: integral to membrane
has_narrow_synonym: membrane region
has_narrow_synonym: region of membrane
has_narrow_synonym: whole membrane
has_obo_namespace: cellular_component
has_related_synonym: transmembrane
id: GO:0016020
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast

Axiom
annotated source: membrane
annotated property: definition
annotated target: A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
database_cross_reference: GOC:dos
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0815316194

Axiom
annotated source: membrane
annotated property: has_related_synonym
annotated target: transmembrane
database_cross_reference: GOC:mah

viral process
type: Class
subclass of: biological_process
definition: 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.
has_alternative_id: GO:0022415
database_cross_reference: Reactome:R-HSA-162906
database_cross_reference: Wikipedia:Viral_life_cycle
has_exact_synonym: virus process
has_obo_namespace: biological_process
has_related_synonym: viral infection
has_related_synonym: virulence
id: GO:0016032
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim virus
comment: See also the biological process terms 'viral infectious cycle ; GO:0019058' and 'lysogeny ; GO:0030069'.

Axiom
annotated source: viral process
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:bf
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah

HIV Infection
type: Axiom
annotated source: viral process
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-162906

Axiom
annotated source: viral process
annotated property: has_exact_synonym
annotated target: virus process
database_cross_reference: GOC:bf
database_cross_reference: GOC:jl

RNA metabolic process
type: Class
subclass of: metabolic process
definition: 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.
database_cross_reference: Reactome:R-HSA-8953854
has_exact_synonym: RNA metabolism
has_obo_namespace: biological_process
id: GO:0016070
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim euk cellular processes ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim prokaryote

Axiom
annotated source: RNA metabolic process
annotated property: definition
annotated target: 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.
database_cross_reference: ISBN:0198506732

Metabolism of RNA
type: Axiom
annotated source: RNA metabolic process
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8953854

antioxidant activity
type: Class
subclass of: molecular_function
subclass of: Restriction
  on property: part of
  some values from: response to chemical
definition: 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.
has_obo_namespace: molecular_function
id: GO:0016209
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: antioxidant activity
annotated property: definition
annotated target: 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.
database_cross_reference: ISBN:0198506732

iron-sulfur cluster assembly
type: Class
subclass of: cellular component organization or biogenesis
subclass of: Restriction
  on property: part of
  some values from: cellular component organization or biogenesis
definition: The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.
database_cross_reference: Reactome:R-HSA-1362409
database_cross_reference: Reactome:R-HSA-2564830
has_exact_synonym: iron-sulphur cluster assembly
has_obo_namespace: biological_process
has_related_synonym: iron-sulfur cluster biosynthesis
id: GO:0016226
in_subset: goslim metagenomics
in_subset: goslim pombe

Axiom
annotated source: iron-sulfur cluster assembly
annotated property: definition
annotated target: The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah
database_cross_reference: GOC:pde
database_cross_reference: GOC:vw

Mitochondrial iron-sulfur cluster biogenesis
type: Axiom
annotated source: iron-sulfur cluster assembly
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1362409

Cytosolic iron-sulfur cluster assembly
type: Axiom
annotated source: iron-sulfur cluster assembly
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2564830

kinase activity
type: Class
subclass of: transferase activity
definition: Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
database_cross_reference: Reactome:R-HSA-6788855
database_cross_reference: Reactome:R-HSA-6788867
has_exact_synonym: phosphokinase activity
has_obo_namespace: molecular_function
id: GO:0016301
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast
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.

Axiom
annotated source: kinase activity
annotated property: definition
annotated target: Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
database_cross_reference: ISBN:0198506732

FN3KRP phosphorylates PsiAm, RibAm
type: Axiom
annotated source: kinase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6788855

FN3K phosphorylates ketosamines
type: Axiom
annotated source: kinase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6788867

phosphorylation
type: Class
subclass of: metabolic process
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/26424
database_cross_reference: Wikipedia:Phosphorylation
has_obo_namespace: biological_process
id: GO:0016310
in_subset: gocheck obsoletion candidate
in_subset: goslim chembl
in_subset: goslim metagenomics

Axiom
annotated source: phosphorylation
annotated property: definition
annotated target: 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.
database_cross_reference: ISBN:0198506732

proton-transporting two-sector ATPase complex
type: Class
subclass of: membrane protein complex
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/15936
term tracker item: https://github.com/geneontology/go-ontology/issues/28017
has_exact_synonym: hydrogen-transporting two-sector ATPase complex
has_obo_namespace: cellular_component
has_related_synonym: vacuolar hydrogen-transporting ATPase
id: GO:0016469
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: proton-transporting two-sector ATPase complex
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0716743663
database_cross_reference: PMID:16691483

oxidoreductase activity
type: Class
subclass of: catalytic activity
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:1.-.-.-
database_cross_reference: Reactome:R-HSA-1614362
database_cross_reference: Reactome:R-HSA-2161612
database_cross_reference: Reactome:R-HSA-265296
database_cross_reference: Reactome:R-HSA-266051
database_cross_reference: Reactome:R-HSA-390425
database_cross_reference: Reactome:R-HSA-390438
database_cross_reference: Reactome:R-HSA-8936442
database_cross_reference: Reactome:R-HSA-9020249
database_cross_reference: Reactome:R-HSA-9020260
database_cross_reference: Reactome:R-HSA-9024624
database_cross_reference: Reactome:R-HSA-9024630
database_cross_reference: Reactome:R-HSA-9025007
database_cross_reference: Reactome:R-HSA-9026001
database_cross_reference: Reactome:R-HSA-9026917
database_cross_reference: Reactome:R-HSA-9027033
database_cross_reference: Reactome:R-HSA-9693722
database_cross_reference: Reactome:R-HSA-9759549
has_exact_synonym: redox activity
has_narrow_synonym: oxidoreductase activity, acting on other substrates
has_obo_namespace: molecular_function
id: GO:0016491
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: oxidoreductase activity
annotated property: definition
annotated target: 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.
database_cross_reference: EC:1.-.-.-

SUMF1 mediates the oxidation of cysteine to formylglycine, producing active arylsulfatases
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1614362

PGH2 is reduced to PGF2a by FAM213B
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2161612

Arachidonate is oxidised to 5S-HpETE by ALOX5
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-265296

5S-HpETE is dehydrated to LTA4 by ALOX5
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-266051

FAR1 reduces PalmCoA to HXOL
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-390425

FAR2 reduces PalmCoA to HXOL
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-390438

MARC1,MARC2 reduce N-hydroxylated compounds
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8936442

Hydroperoxy reductase reduces 4(S)-Hp-17(S)-HDHA to RvD6
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9020249

Hydroperoxy reductase reduces 7(S)-Hp-17(S)-HDHA to RvD5
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9020260

Hydroperoxy reductase reduces 4(S)-Hp-17(R)-HDHA to AT-RvD6
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9024624

Hydroperoxy reductase reduces 7(S)-Hp-17(R)-HDHA to AT-RvD5
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9024630

Hydroperoxy reductase reduces 7(S),14(S)-diHp-DHA to 7-epi-MaR1
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9025007

Hydroperoxy reductase reduces 7,17-diHp-DPAn-3 to RvD5n-3DPA
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9026001

Lipoxygenase dehydrogenates 7(S),17(S)-diHp-DHA to 7S(8)-epoxy-17(S)-HDHA
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9026917

Hydroperoxy reducatase reduces 14(S)-Hp-DHA to 14(S)-HDHA
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9027033

Unknown sepiapterin synthase transforms PTHP to sepiapterin
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9693722

Cob(I)alamin bound to MMACHC is oxidized to cob(II)alamin
type: Axiom
annotated source: oxidoreductase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9759549

amino acid binding
type: Class
subclass of: molecular_function
definition: Binding to an amino acid, organic acids containing one or more amino substituents.
has_obo_namespace: molecular_function
id: GO:0016597
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: amino acid binding
annotated property: definition
annotated target: Binding to an amino acid, organic acids containing one or more amino substituents.
database_cross_reference: GOC:ai

transferase activity
type: Class
subclass of: catalytic activity
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:2.-.-.-
database_cross_reference: Reactome:R-HSA-1483089
database_cross_reference: Reactome:R-HSA-1483186
database_cross_reference: Reactome:R-HSA-5333607
database_cross_reference: Reactome:R-HSA-5668414
database_cross_reference: Reactome:R-HSA-8868783
has_obo_namespace: molecular_function
id: GO:0016740
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: transferase activity
annotated property: definition
annotated target: 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.
database_cross_reference: EC:2.-.-.-

PE is converted to PS by PTDSS2
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1483089

PC is converted to PS by PTDSS1
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1483186

GSSeH combines with bGalNAc derivative to form GSSebGalNac
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5333607

TRAF2 ubiquitinates cIAP1,2 in cIAP1,2:TRAF1:TRAF2:TRAF3:NIK
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5668414

TSR3 transfers aminocarboxypropyl group from S-adenosylmethionine to N(1)-methylpseudouridine-1248 of 18SE rRNA yielding N(1)-methyl-N(3)-aminocarboxypropylpseudouridine-1248
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8868783

nucleotidyltransferase activity
type: Class
subclass of: transferase activity
definition: Catalysis of the transfer of a nucleotidyl group from one compound (donor) to another (acceptor).
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:2.7.7.-
database_cross_reference: Reactome:R-HSA-6782434
has_obo_namespace: molecular_function
id: GO:0016779
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim yeast

Axiom
annotated source: nucleotidyltransferase activity
annotated property: definition
annotated target: Catalysis of the transfer of a nucleotidyl group from one compound (donor) to another (acceptor).
database_cross_reference: EC:2.7.7.-

THG1L transfers GMP to 5' end of tRNA(His)
type: Axiom
annotated source: nucleotidyltransferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6782434

hydrolase activity
type: Class
subclass of: catalytic activity
definition: Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:3.-.-.-
database_cross_reference: Reactome:R-HSA-1236938
database_cross_reference: Reactome:R-HSA-2029475
database_cross_reference: Reactome:R-HSA-5694583
database_cross_reference: Reactome:R-HSA-5695964
database_cross_reference: Reactome:R-HSA-6786190
database_cross_reference: Reactome:R-HSA-6788295
database_cross_reference: Reactome:R-HSA-8938314
database_cross_reference: Reactome:R-HSA-8952137
database_cross_reference: Reactome:R-HSA-9942295
has_obo_namespace: molecular_function
id: GO:0016787
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: hydrolase activity
annotated property: definition
annotated target: Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
database_cross_reference: ISBN:0198506732

Partial proteolysis of antigen in phagolysosomes
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1236938

Production of AA by iPLA2 upon FCGR activation
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2029475

ABHD4 hydrolyses NAPE
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5694583

ABHD14B hydrolyses PNPB
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5695964

CMBL hydrolyses OM to OLMS
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6786190

HDHD1:Mg2+ dephosphorylates PURIDP
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6788295

ENPPs hydrolyse CoA-SH to PPANT, PAP
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8938314

Phospholipid phosphatase 6 hydrolyses Presqualene diphosphate to presqualene monophosphate
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8952137

QNG1 hydrolyzes queuosine 5'-monophosphate yielding queuine and ribose 5'-monophosphate
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9942295

phosphatase activity
type: Class
subclass of: hydrolase activity
definition: Catalysis of the hydrolysis of a phosphoric monoester, releasing a phosphate.
term tracker item: https://github.com/geneontology/go-ontology/issues/25755
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
has_alternative_id: GO:0003869
has_alternative_id: GO:0016302
database_cross_reference: EC:3.1.3.-
database_cross_reference: Reactome:R-HSA-4419986
database_cross_reference: Reactome:R-HSA-9636457
database_cross_reference: Reactome:R-HSA-9837419
database_cross_reference: Reactome:R-HSA-9940993
has_exact_synonym: phosphoric monoester hydrolase activity
has_obo_namespace: molecular_function
has_related_synonym: phosphatase
id: GO:0016791
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim yeast

Axiom
annotated source: phosphatase activity
annotated property: definition
annotated target: Catalysis of the hydrolysis of a phosphoric monoester, releasing a phosphate.
database_cross_reference: GOC:curators
database_cross_reference: GOC:pg

Unknown pPPP phosphatase dephosphorylates pPPP to pPNOL
type: Axiom
annotated source: phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-4419986

SapM dephosphorylates PI3P
type: Axiom
annotated source: phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9636457

PANK4 hydrolyzes PPANT to pantetheine
type: Axiom
annotated source: phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9837419

PXYLP1 dephosphorylates Xyl moiety
type: Axiom
annotated source: phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9940993

lyase activity
type: Class
subclass of: catalytic activity
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:4.-.-.-
database_cross_reference: Reactome:R-HSA-5696408
database_cross_reference: Reactome:R-HSA-6782895
has_obo_namespace: molecular_function
id: GO:0016829
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: lyase activity
annotated property: definition
annotated target: 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.
database_cross_reference: EC:4.-.-.-

PXLP-K278-PHYKPL tetramer hydrolyses 5PHL
type: Axiom
annotated source: lyase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5696408

TYW1:FMN:4Fe-4S transforms 1-methylguanosine yielding yW-187 (4-demethylwyosine) at nucleotide 37 of tRNA(Phe)
type: Axiom
annotated source: lyase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6782895

isomerase activity
type: Class
subclass of: catalytic activity
definition: Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:5.-.-.-
database_cross_reference: Reactome:R-HSA-2161666
database_cross_reference: Reactome:R-HSA-2161735
database_cross_reference: Reactome:R-HSA-6787623
has_narrow_synonym: other isomerase activity
has_obo_namespace: molecular_function
id: GO:0016853
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: isomerase activity
annotated property: definition
annotated target: Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
database_cross_reference: ISBN:0198506732

PGA2 is isomerised to PGC2
type: Axiom
annotated source: isomerase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2161666

PGC2 is isomerised to PGB2
type: Axiom
annotated source: isomerase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2161735

GFUS dimer epimerises GDP-DHDMan to GDP-KDGal
type: Axiom
annotated source: isomerase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6787623

ligase activity
type: Class
subclass of: catalytic activity
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/19380
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:6.-.-.-
has_exact_synonym: synthetase activity
has_obo_namespace: molecular_function
id: GO:0016874
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: ligase activity
annotated property: definition
annotated target: 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.
database_cross_reference: EC:6.-.-.-

Axiom
annotated source: ligase activity
annotated property: has_exact_synonym
annotated target: synthetase activity
database_cross_reference: GOC:jh2

antibiotic biosynthetic process
type: Class
subclass of: biosynthetic process
definition: 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.
has_exact_synonym: antibiotic anabolism
has_exact_synonym: antibiotic biosynthesis
has_exact_synonym: antibiotic formation
has_exact_synonym: antibiotic synthesis
has_obo_namespace: biological_process
id: GO:0017000
in_subset: goslim metagenomics

Axiom
annotated source: antibiotic biosynthetic process
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators

cytochrome complex assembly
type: Class
subclass of: protein-containing complex assembly
definition: 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.
has_broad_synonym: cytochrome biogenesis
has_obo_namespace: biological_process
id: GO:0017004
in_subset: goslim metagenomics

Axiom
annotated source: cytochrome complex assembly
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah

ribonucleoside triphosphate phosphatase activity
type: Class
subclass of: hydrolase activity
definition: Catalysis of the reaction: a ribonucleoside triphosphate + H2O = a ribonucleoside diphosphate + H+ + phosphate.
term tracker item: https://github.com/geneontology/go-ontology/issues/21232
term tracker item: https://github.com/geneontology/go-ontology/issues/23401
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
has_broad_synonym: apyrase activity
has_broad_synonym: nucleoside 5-triphosphatase activity
has_broad_synonym: nucleoside triphosphatase activity
has_broad_synonym: nucleoside triphosphate hydrolase activity
has_broad_synonym: nucleoside triphosphate phosphatase activity
has_broad_synonym: nucleoside-triphosphatase activity
database_cross_reference: EC:3.6.1.15
database_cross_reference: MetaCyc:NUCLEOSIDE-TRIPHOSPHATASE-RXN
database_cross_reference: RHEA:23680
database_cross_reference: RHEA:64900
database_cross_reference: RHEA:65580
database_cross_reference: Reactome:R-HSA-8850846
database_cross_reference: Reactome:R-HSA-8851089
database_cross_reference: Reactome:R-HSA-8851110
database_cross_reference: Reactome:R-HSA-8851234
database_cross_reference: Reactome:R-HSA-8851494
database_cross_reference: Reactome:R-HSA-8851538
has_exact_synonym: NTPase activity
has_obo_namespace: molecular_function
has_related_synonym: nucleoside triphosphate phosphohydrolase activity
has_related_synonym: nucleoside-5-triphosphate phosphohydrolase activity
id: GO:0017111
in_subset: goslim chembl
in_subset: goslim metagenomics
narrow match: http://rdf.rhea-db.org/64900
narrow match: http://rdf.rhea-db.org/65580

Axiom
annotated source: ribonucleoside triphosphate phosphatase activity
annotated property: definition
annotated target: Catalysis of the reaction: a ribonucleoside triphosphate + H2O = a ribonucleoside diphosphate + H+ + phosphate.
database_cross_reference: RHEA:23680

Axiom
annotated source: ribonucleoside triphosphate phosphatase activity
annotated property: has_broad_synonym
annotated target: nucleoside 5-triphosphatase activity
database_cross_reference: EC:3.6.1.15

NTPDase1 hydrolyzes nucleoside triphosphates
type: Axiom
annotated source: ribonucleoside triphosphate phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8850846

NTPDase2 hydrolyzes nucleoside triphosphates
type: Axiom
annotated source: ribonucleoside triphosphate phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8851089

NTPDase3 hydrolyzes nucleoside triphosphates
type: Axiom
annotated source: ribonucleoside triphosphate phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8851110

NTPDase4 hydrolyzes nucleoside triphosphates
type: Axiom
annotated source: ribonucleoside triphosphate phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8851234

NTPDase7 hydrolyzes nucleoside triphosphates
type: Axiom
annotated source: ribonucleoside triphosphate phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8851494

NTPDase8 hydrolyzes nucleoside triphosphates
type: Axiom
annotated source: ribonucleoside triphosphate phosphatase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8851538

regulation of metabolic process
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: regulates
  some values from: metabolic process
definition: Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism.
has_alternative_id: GO:0044246
database_cross_reference: Reactome:R-HSA-1989781
has_exact_synonym: regulation of metabolism
has_narrow_synonym: regulation of multicellular organismal metabolic process
has_narrow_synonym: regulation of organismal metabolic process
has_obo_namespace: biological_process
id: GO:0019222
in_subset: gocheck do not annotate
in_subset: goslim metagenomics

Axiom
annotated source: regulation of metabolic process
annotated property: definition
annotated target: Any process that modulates the frequency, rate or extent of the chemical reactions and pathways within a cell or an organism.
database_cross_reference: GOC:curators

PPARA activates gene expression
type: Axiom
annotated source: regulation of metabolic process
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1989781

Axiom
annotated source: regulation of metabolic process
annotated property: has_narrow_synonym
annotated target: regulation of organismal metabolic process
database_cross_reference: GOC:tb

vitamin binding
type: Class
subclass of: molecular_function
definition: 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.
has_obo_namespace: molecular_function
id: GO:0019842
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: vitamin binding
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:ai

outer membrane
type: Class
subclass of: membrane
definition: The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites.
has_obo_namespace: cellular_component
id: GO:0019867
in_subset: goslim metagenomics

Axiom
annotated source: outer membrane
annotated property: definition
annotated target: The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites.
database_cross_reference: GOC:curators

extrinsic component of membrane
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: membrane
definition: 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.
has_alternative_id: GO:0030396
database_cross_reference: Wikipedia:Peripheral_membrane_protein
has_exact_synonym: extrinsic to membrane
has_exact_synonym: peripheral membrane protein
has_obo_namespace: cellular_component
id: GO:0019898
in_subset: goslim metagenomics
comment: Note that proteins extrinsic to membranes can be removed by treatments that do not disrupt the membrane, such as salt solutions.

Axiom
annotated source: extrinsic component of membrane
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:dos
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah

pyridoxal phosphate binding
type: Class
subclass of: vitamin binding
subclass of: ion binding
definition: Binding to pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
has_obo_namespace: molecular_function
id: GO:0030170
in_subset: goslim metagenomics

Axiom
annotated source: pyridoxal phosphate binding
annotated property: definition
annotated target: Binding to pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0198506732

carbohydrate binding
type: Class
subclass of: molecular_function
definition: 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.
has_alternative_id: GO:0005529
has_exact_synonym: sugar binding
has_obo_namespace: molecular_function
has_related_synonym: selectin
id: GO:0030246
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: carbohydrate binding
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:mah

DNA helicase complex
type: Class
subclass of: catalytic complex
definition: A protein complex that possesses DNA helicase activity.
has_obo_namespace: cellular_component
id: GO:0033202
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: DNA helicase complex
annotated property: definition
annotated target: A protein complex that possesses DNA helicase activity.
database_cross_reference: GOC:mah

signaling receptor activity
type: Class
subclass of: molecular_function
definition: 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.
created by: bf
creation date: 2011-08-01T02:45:27Z
has_alternative_id: GO:0004872
has_alternative_id: GO:0019041
has_broad_synonym: receptor activity
has_exact_synonym: receptor activity involved in signal transduction
has_exact_synonym: signalling receptor activity
has_obo_namespace: molecular_function
id: GO:0038023
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: signaling receptor activity
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:bf
database_cross_reference: GOC:signaling

Axiom
annotated source: signaling receptor activity
annotated property: has_exact_synonym
annotated target: receptor activity involved in signal transduction
database_cross_reference: GOC:bf

response to chemical
type: Class
subclass of: biological_process
definition: 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.
has_exact_synonym: response to chemical stimulus
has_exact_synonym: response to chemical substance
has_obo_namespace: biological_process
id: GO:0042221
in_subset: gocheck do not annotate
in_subset: goslim candida
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast
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.

Axiom
annotated source: response to chemical
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:jl

Axiom
annotated source: response to chemical
annotated property: has_exact_synonym
annotated target: response to chemical stimulus
database_cross_reference: GOC:dos

DNA polymerase complex
type: Class
subclass of: catalytic complex
definition: A protein complex that possesses DNA polymerase activity and is involved in template directed synthesis of DNA.
has_obo_namespace: cellular_component
id: GO:0042575
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: DNA polymerase complex
annotated property: definition
annotated target: A protein complex that possesses DNA polymerase activity and is involved in template directed synthesis of DNA.
database_cross_reference: GOC:jl
database_cross_reference: PMID:12045093

periplasmic space
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: extracellular region
definition: The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).
term tracker item: https://github.com/geneontology/go-ontology/issues/31720
has_alternative_id: GO:0005620
has_exact_synonym: periplasm
has_obo_namespace: cellular_component
id: GO:0042597
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: periplasmic space
annotated property: definition
annotated target: The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).
database_cross_reference: GOC:curators
database_cross_reference: GOC:md

xenobiotic transmembrane transporter activity
type: Class
subclass of: transporter activity
subclass of: Restriction
  on property: part of
  some values from: transport
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/19460
has_alternative_id: GO:0015238
has_alternative_id: GO:0015239
has_alternative_id: GO:0015559
has_alternative_id: GO:0015564
has_alternative_id: GO:0090484
database_cross_reference: Reactome:R-HSA-5625574
database_cross_reference: Reactome:R-HSA-597628
database_cross_reference: Reactome:R-HSA-9911512
database_cross_reference: Reactome:R-HSA-9911517
database_cross_reference: Reactome:R-HSA-9913106
database_cross_reference: Reactome:R-HSA-9913128
database_cross_reference: Reactome:R-HSA-9913437
database_cross_reference: Reactome:R-HSA-9913672
database_cross_reference: Reactome:R-HSA-9914089
database_cross_reference: Reactome:R-HSA-9931163
database_cross_reference: Reactome:R-HSA-9931565
has_obo_namespace: molecular_function
has_related_synonym: drug transmembrane transporter activity
has_related_synonym: drug transporter activity
has_related_synonym: multidrug efflux pump activity
has_related_synonym: multidrug transporter activity
has_related_synonym: multidrug, alkane resistant pump activity
has_related_synonym: xenobiotic transporter activity
id: GO:0042910
in_subset: goslim metagenomics

Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:curators
database_cross_reference: GOC:krc

Defective SLC22A18 does not exchange extracellular organic cations for cytosolic H+
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5625574

SLC22A18 exchanges extracellular organic cations for cytosolic H+
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-597628

AcrA:AcrB:TolC transports antibiotics from the cytosol to the periplasm
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9911512

MdfA transports tetracyclines from the cytosol to the periplasmic space
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9911517

TetB exports tetracyclines
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9913106

TetA exports tetracyclines
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9913128

Pef exports fluoroquinolones
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9913437

OqxA exports fluoroquinolones
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9913672

MdtE:MdtF:TolC exports beta-lactams to the periplasm
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9914089

Gdx dimer exports cationic aromatics to periplasm
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9931163

EmrE dimer exports xenobiotics to periplasm
type: Axiom
annotated source: xenobiotic transmembrane transporter activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9931565

ion binding
type: Class
subclass of: molecular_function
definition: Binding to an ion, a charged atoms or groups of atoms.
term tracker item: https://github.com/geneontology/go-ontology/issues/26424
has_obo_namespace: molecular_function
has_related_synonym: atom binding
id: GO:0043167
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim yeast

Axiom
annotated source: ion binding
annotated property: definition
annotated target: Binding to an ion, a charged atoms or groups of atoms.
database_cross_reference: GOC:jl

ATP-binding cassette (ABC) transporter complex
type: Class
subclass of: membrane protein complex
subclass of: Restriction
  on property: part of
  some values from: plasma membrane
definition: 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.
has_alternative_id: GO:0043191
has_alternative_id: GO:0043192
has_narrow_synonym: ABC-type efflux permease complex
has_narrow_synonym: ABC-type efflux porter complex
has_narrow_synonym: ABC-type uptake permease complex
has_narrow_synonym: mating pheromone exporter
has_obo_namespace: cellular_component
id: GO:0043190
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: ATP-binding cassette (ABC) transporter complex
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:jl
database_cross_reference: GOC:mtg_sensu
database_cross_reference: PMID:11421269
database_cross_reference: PMID:15111107

sporulation
type: Class
subclass of: biological_process
definition: 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.
database_cross_reference: Wikipedia:Spore
has_obo_namespace: biological_process
id: GO:0043934
in_subset: goslim metagenomics
in_subset: goslim yeast

Axiom
annotated source: sporulation
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:pamgo_curators

small molecule metabolic process
type: Class
subclass of: metabolic process
definition: The chemical reactions and pathways involving small molecules, any low molecular weight, monomeric, non-encoded molecule.
term tracker item: https://github.com/geneontology/go-ontology/issues/31485
created by: jl
creation date: 2010-01-26T12:05:20Z
has_exact_synonym: small molecule metabolism
has_obo_namespace: biological_process
id: GO:0044281
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
comment: Small molecules in GO include monosaccharides but exclude disaccharides and polysaccharides.

Axiom
annotated source: small molecule metabolic process
annotated property: definition
annotated target: The chemical reactions and pathways involving small molecules, any low molecular weight, monomeric, non-encoded molecule.
database_cross_reference: GOC:curators
database_cross_reference: GOC:pde
database_cross_reference: GOC:vw

virion component
type: Class
subclass of: cellular_component
definition: Any constituent part of a virion, a complete fully infectious extracellular virus particle.
has_alternative_id: GO:0019012
database_cross_reference: Wikipedia:Virus
has_exact_synonym: virion part
has_obo_namespace: cellular_component
has_related_synonym: complete virus particle
has_related_synonym: virion
id: GO:0044423
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: virion component
annotated property: definition
annotated target: Any constituent part of a virion, a complete fully infectious extracellular virus particle.
database_cross_reference: GOC:jl

cell redox homeostasis
type: Class
subclass of: biological_process
definition: Any process that maintains the redox environment of a cell or compartment within a cell.
term tracker item: https://github.com/geneontology/go-ontology/issues/24135
term tracker item: https://github.com/geneontology/go-ontology/issues/30181
has_alternative_id: GO:0030503
has_alternative_id: GO:0045867
has_alternative_id: GO:0045868
has_broad_synonym: regulation of redox homeostasis
database_cross_reference: Reactome:R-HSA-1222541
database_cross_reference: Reactome:R-HSA-1222556
database_cross_reference: Wikipedia:Redox
has_obo_namespace: biological_process
has_related_synonym: regulation of cell redox homeostasis
id: GO:0045454
in_subset: goslim drosophila
in_subset: goslim metagenomics

Axiom
annotated source: cell redox homeostasis
annotated property: definition
annotated target: Any process that maintains the redox environment of a cell or compartment within a cell.
database_cross_reference: GOC:ai
database_cross_reference: GOC:dph
database_cross_reference: GOC:tb
database_cross_reference: PMID:38689066

Cell redox homeostasis
type: Axiom
annotated source: cell redox homeostasis
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1222541

ROS and RNS production in phagocytes
type: Axiom
annotated source: cell redox homeostasis
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1222556

symbiont entry into host cell
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: part of
  some values from: viral process
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/26670
has_alternative_id: GO:0019063
database_cross_reference: Reactome:R-HSA-168270
database_cross_reference: Reactome:R-HSA-8876384
database_cross_reference: VZ:936
has_narrow_synonym: entry of virus into host cell
has_narrow_synonym: phage translocation
has_narrow_synonym: viral entry into host cell
has_narrow_synonym: viral penetration
has_narrow_synonym: virion penetration
has_narrow_synonym: virion penetration into host cell
has_narrow_synonym: virus entry into host cell
has_obo_namespace: biological_process
id: GO:0046718
in_subset: goslim metagenomics
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.

Axiom
annotated source: symbiont entry into host cell
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:jl

Fusion and Uncoating of the Influenza Virion
type: Axiom
annotated source: symbiont entry into host cell
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-168270

Listeria monocytogenes entry into host cells
type: Axiom
annotated source: symbiont entry into host cell
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8876384

Virus entry
type: Axiom
annotated source: symbiont entry into host cell
annotated property: database_cross_reference
annotated target: VZ:936

metal ion binding
type: Class
subclass of: ion binding
definition: Binding to a metal ion.
has_exact_synonym: metal binding
has_narrow_synonym: heavy metal binding
has_obo_namespace: molecular_function
id: GO:0046872
in_subset: goslim agr
in_subset: goslim drosophila
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics

Axiom
annotated source: metal ion binding
annotated property: definition
annotated target: Binding to a metal ion.
database_cross_reference: GOC:ai

tetrapyrrole binding
type: Class
subclass of: molecular_function
definition: Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position.
has_narrow_synonym: porphyrin binding
has_obo_namespace: molecular_function
id: GO:0046906
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: tetrapyrrole binding
annotated property: definition
annotated target: Binding to a tetrapyrrole, a compound containing four pyrrole nuclei variously substituted and linked to each other through carbons at the alpha position.
database_cross_reference: GOC:curators
database_cross_reference: ISBN:0198506732

signal recognition particle
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
definition: A complex of protein and RNA which facilitates translocation of proteins across membranes.
database_cross_reference: Wikipedia:Signal_recognition_particle
has_obo_namespace: cellular_component
id: GO:0048500
in_subset: goslim metagenomics
in_subset: goslim pir

Axiom
annotated source: signal recognition particle
annotated property: definition
annotated target: A complex of protein and RNA which facilitates translocation of proteins across membranes.
database_cross_reference: GOC:mlg

iron-sulfur cluster binding
type: Class
subclass of: molecular_function
definition: Binding to an iron-sulfur cluster, a combination of iron and sulfur atoms.
database_cross_reference: Reactome:R-HSA-5690873
has_exact_synonym: Fe/S binding
has_exact_synonym: iron sulfur cluster binding
has_exact_synonym: iron sulphur cluster binding
has_exact_synonym: iron-sulphur cluster binding
has_obo_namespace: molecular_function
id: GO:0051536
in_subset: goslim metagenomics

Axiom
annotated source: iron-sulfur cluster binding
annotated property: definition
annotated target: Binding to an iron-sulfur cluster, a combination of iron and sulfur atoms.
database_cross_reference: GOC:ai

ACO1 binds 4Fe-4S
type: Axiom
annotated source: iron-sulfur cluster binding
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5690873

protein-containing complex assembly
type: Class
subclass of: cellular component organization or biogenesis
subclass of: Restriction
  on property: part of
  some values from: cellular component organization or biogenesis
definition: The aggregation, arrangement and bonding together of a set of macromolecules to form a protein-containing complex.
term tracker item: https://github.com/geneontology/go-ontology/issues/22580
has_alternative_id: GO:0006461
has_alternative_id: GO:0034622
has_alternative_id: GO:0043623
has_exact_synonym: cellular protein complex assembly
has_obo_namespace: biological_process
has_related_synonym: cellular macromolecule complex assembly
has_related_synonym: cellular protein-containing complex assembly
has_related_synonym: chaperone activity
has_related_synonym: macromolecular complex assembly
has_related_synonym: macromolecule complex assembly
has_related_synonym: protein complex assembly
has_related_synonym: protein complex formation
id: GO:0065003
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim pombe
in_subset: goslim prokaryote

Axiom
annotated source: protein-containing complex assembly
annotated property: definition
annotated target: The aggregation, arrangement and bonding together of a set of macromolecules to form a protein-containing complex.
database_cross_reference: GOC:jl

DNA conformation change
type: Class
subclass of: cellular component organization or biogenesis
definition: 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.
created by: mah
creation date: 2009-11-09T11:36:34Z
has_exact_synonym: DNA conformation modification
has_obo_namespace: biological_process
id: GO:0071103
in_subset: goslim metagenomics

Axiom
annotated source: DNA conformation change
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:mah

Axiom
annotated source: DNA conformation change
annotated property: has_exact_synonym
annotated target: DNA conformation modification
database_cross_reference: GOC:mah

cellular component organization or biogenesis
type: Class
subclass of: biological_process
definition: A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.
term tracker item: https://github.com/geneontology/go-ontology/issues/27189
created by: mah
creation date: 2010-09-10T01:39:16Z
has_alternative_id: GO:0071841
has_exact_synonym: cellular component organisation or biogenesis
has_exact_synonym: cellular component organisation or biogenesis at cellular level
has_exact_synonym: cellular component organization or biogenesis at cellular level
has_obo_namespace: biological_process
id: GO:0071840
in_subset: gocheck do not annotate
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
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.

Axiom
annotated source: cellular component organization or biogenesis
annotated property: definition
annotated target: A process that results in the biosynthesis of constituent macromolecules, assembly, arrangement of constituent parts, or disassembly of a cellular component.
database_cross_reference: GOC:mah

Axiom
annotated source: cellular component organization or biogenesis
annotated property: has_exact_synonym
annotated target: cellular component organisation or biogenesis
database_cross_reference: GOC:mah

Axiom
annotated source: cellular component organization or biogenesis
annotated property: has_exact_synonym
annotated target: cellular component organisation or biogenesis at cellular level
database_cross_reference: GOC:mah

bacterial-type flagellum-dependent cell motility
type: Class
subclass of: biological_process
definition: 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.
created by: mah
creation date: 2010-10-21T12:00:53Z
has_exact_synonym: flagellin-based flagellar cell motility
has_obo_namespace: biological_process
has_related_synonym: bacterial-type flagellar cell motility
id: GO:0071973
in_subset: goslim metagenomics

Axiom
annotated source: bacterial-type flagellum-dependent cell motility
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:cilia
database_cross_reference: GOC:krc
database_cross_reference: GOC:mah

Axiom
annotated source: bacterial-type flagellum-dependent cell motility
annotated property: has_exact_synonym
annotated target: flagellin-based flagellar cell motility
database_cross_reference: GOC:mah

membrane protein complex
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: membrane
definition: Any protein complex that is part of a membrane.
has_obo_namespace: cellular_component
id: GO:0098796
in_subset: goslim metagenomics

Axiom
annotated source: membrane protein complex
annotated property: definition
annotated target: Any protein complex that is part of a membrane.
database_cross_reference: GOC:dos

catalytic complex
type: Class
subclass of: cellular_component
definition: A protein complex which is capable of catalytic activity.
term tracker item: https://github.com/geneontology/go-ontology/issues/19980
created by: bhm
creation date: 2013-11-13T16:18:47Z
has_exact_synonym: enzyme complex
has_obo_namespace: cellular_component
id: GO:1902494
in_subset: goslim metagenomics

Axiom
annotated source: catalytic complex
annotated property: definition
annotated target: A protein complex which is capable of catalytic activity.
database_cross_reference: GOC:TermGenie
database_cross_reference: GOC:bhm
database_cross_reference: PMID:8077207

Axiom
annotated source: catalytic complex
annotated property: has_exact_synonym
annotated target: enzyme complex
database_cross_reference: GOC:bhm
database_cross_reference: GOC:jl

molybdopterin synthase complex
type: Class
subclass of: catalytic complex
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
definition: 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.
term tracker item: https://github.com/geneontology/go-ontology/issues/27655
term tracker item: https://github.com/geneontology/go-ontology/issues/27852
created by: pr
creation date: 2013-07-11T08:32:29Z
has_exact_synonym: MPT synthase complex
has_exact_synonym: molybdopterin converting factor complex
has_obo_namespace: cellular_component
has_related_synonym: molybdopterin cofactor (Moco) biosynthesis sulfurtransferase complex
id: GO:1990140
in_subset: goslim metagenomics

Axiom
annotated source: molybdopterin synthase complex
annotated property: definition
annotated target: 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.
database_cross_reference: GOC:bhm
database_cross_reference: PMID:11135669
database_cross_reference: PMID:16669776

oxidoreductase complex
type: Class
subclass of: catalytic complex
definition: Any protein complex that possesses oxidoreductase activity.
created by: bhm
creation date: 2013-10-07T08:24:47Z
has_exact_synonym: oxidation-reduction complex
has_exact_synonym: redox complex
has_obo_namespace: cellular_component
id: GO:1990204
in_subset: goslim metagenomics

Axiom
annotated source: oxidoreductase complex
annotated property: definition
annotated target: Any protein complex that possesses oxidoreductase activity.
database_cross_reference: GOC:bhm
database_cross_reference: PMID:18982432