BiPOm
type: Ontology
comment: BiPOm 1. Copyright of ontology The ontology was created jointly by the BioSys group at the research unit of Applied mathematics and computer science from genomes to the environment (MaIAGE) of the Institut National de la Recherche Agronomique (INRA) France, by the group the Large-scale Heterogeneous DAta and Knowledge (LaHDAK team) of the Laboratoire de recherche en informatique (LRI) of the Université Paris-Sud/CNRS, France and by the Département MMIP AgroParisTech of the INRA, France. INRA, Agroparistech and Université Paris-Sud own the copyright of the ontology BiPOm. 2. License terms The ontology BiPOm is licensed under the Creative Commons Attribution 4.0 Unported (CC BY 4.0) license. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ or send a letter to Creative Commons, 444 Castro Street, Suite 900, Mountain View, California, 94041, USA. 3. Notice This product contains references to classes of the Gene Ontology (GO) (http://geneontology.org/) developed by the Gene Ontology consortium, licensed under the terms Creative Commons Attribution 4.0 Unported license (https://creativecommons.org/licenses/by/4.0/). This product contains references to classes of the Chemical Entities of Biological Interest (ChEBI) (https://www.ebi.ac.uk/chebi/init.do) developed by the ChEBI consortium. This product contains references to classes of the Sequence Ontology (SO) (http://www.sequenceontology.org/) developed by the SO consortium and are freely reusable. This product contains references to classes of the Systems Biology Ontology (SBO) (http://www.ebi.ac.uk/sbo/main/) developed by the SBO consortium, licensed under the terms of Artistic License 2.0 (https://opensource.org/licenses/artistic-license-2.0.php). This product contains references to properties of the Relation Ontology (RO) (http://www.obofoundry.org/ontology/ro.html) developed by the OBO foundry, licensed under the terms Creative Commons Attribution 3.0 Unported License (https://creative…

contributes_to
type: ObjectProperty
domain: contributor entity
range: Activity
property chain axiom: molecular_part_of
property chain axiom: has_function

encoded_by
type: ObjectProperty
inverse of: encodes_for

encodes_for
type: ObjectProperty
sub property of: topObjectProperty
domain: gene
range: simple protein

ends
type: ObjectProperty
sub property of: part_of
sub property of:
  inverse of: has component process
inverse of: ends_with
IAO_0000115: Relation between occurrents, shares an end boundary with.
IAO_0000115: inverse of ends with
has db xref: RO:0002229
has exact synonym: finishes
has OBO namespace: external
id: ends
shorthand: ends

ends_with
type: ObjectProperty
sub property of: has component process
IAO_0000115: x ends with y if and only if x has part y and the time point at which x ends is equivalent to the time point at which y ends. Formally: α(y) > α(x) ∧ ω(y) = ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.
has db xref: RO:0002230
has OBO namespace: external
id: ends_with
shorthand: ends_with
label: ends with

has_function
type: ObjectProperty
domain: active participant
range: mediated activity

has_input
type: ObjectProperty
sub property of: has_participant
sub property of:
  inverse of: participates_in
inverse of: input_of
IAO_0000115: p has direct input c iff c is a participant in p, c is present at the start of p, and the state of c is modified during p.
has db xref: RO:0002233
has OBO namespace: external
id: has_input
shorthand: has_input
label: has input

has_intermediary_process
type: ObjectProperty
sub property of: has component process

has_molecular_part
type: ObjectProperty
sub property of: topObjectProperty
inverse of: molecular_part_of
domain: non-covalent complex
range: chemical

has_output
type: ObjectProperty
sub property of: has_participant
sub property of:
  inverse of: participates_in
inverse of: output_of
IAO_0000115: p has output c iff c is a participant in p, c is present at the end of p, and c is not present at the beginning of p.
has db xref: RO:0002234
has OBO namespace: external
id: has_output
shorthand: has_output
label: has output

has_part
type: ObjectProperty
inverse of: part_of
type: TransitiveProperty
IAO_0000115: a core relation that holds between a whole and its part
has db xref: BFO:0000051
has OBO namespace: external
id: has_part
shorthand: has_part
label: has part

has_participant
type: ObjectProperty
inverse of: participates_in
domain: biological process
range: participant
IAO_0000115: a relation between a process and a continuant, in which the continuant is somehow involved in the process
has db xref: RO:0000057
has OBO namespace: external
id: has_participant
shorthand: has_participant
label: has participant

has component process
type: ObjectProperty
sub property of: has_part
sub property of:
  inverse of: part_of
domain: Pathway
range: biological process
IAO_0000115: w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type.
created by: dos
creation date: 2017-05-24T09:49:21Z
label: has_subprocess

in_complex_with
type: ObjectProperty
sub property of: topObjectProperty
type: SymmetricProperty

input_of
type: ObjectProperty
sub property of: participates_in
sub property of:
  inverse of: has_participant
IAO_0000115: inverse of has input
has db xref: RO:0002352
has OBO namespace: external
id: input_of
shorthand: input_of
label: input of

interacts_with
type: ObjectProperty
type: SymmetricProperty
domain: participant
range: participant
IAO_0000115: A relationship that holds between two entities in which the processes executed by the two entities are causally connected.
IAO_0000116: Considering relabeling as 'pairwise interacts with'
IAO_0000116: This relation and all sub-relations can be applied to either (1) pairs of entities that are interacting at any moment of time (2) populations or species of entity whose members have the disposition to interact (3) classes whose members have the disposition to interact.
IAO_0000117: Chris Mungall
IAO_0000232: Note that this relationship type, and sub-relationship types may be redundant with process terms from other ontologies. For example, the symbiotic relationship hierarchy parallels GO. The relations are provided as a convenient shortcut. Consider using the more expressive processual form to capture your data. In the future, these relations will be linked to their cognate processes through rules.
has exact synonym: in pairwise interaction with
in subset: ro-eco

mediated_by
type: ObjectProperty
sub property of: has_participant
sub property of:
  inverse of: participates_in
inverse of: mediates
domain: biological mediated process
range: active participant
has db xref: GOREL:0001007
has OBO namespace: external
id: mediated_by
shorthand: mediated_by

mediates
type: ObjectProperty
sub property of: participates_in
sub property of:
  inverse of: has_participant

molecular_part_of
type: ObjectProperty

output_of
type: ObjectProperty
sub property of: participates_in
sub property of:
  inverse of: has_participant
IAO_0000115: inverse of has output
has db xref: RO:0002353
has OBO namespace: external
id: output_of
shorthand: output_of
label: output of

part_of
type: ObjectProperty
type: TransitiveProperty
IAO_0000115: a core relation that holds between a part and its whole
has db xref: BFO:0000050
has OBO namespace: external
id: part_of
shorthand: part_of
label: part of

participates_in
type: ObjectProperty
IAO_0000115: a relation between a continuant and a process, in which the continuant is somehow involved in the process
has db xref: RO:0000056
has OBO namespace: external
id: participates_in
shorthand: participates_in
label: participates in

preceded_by
type: ObjectProperty
inverse of: precedes
domain: biological process
range: biological process
IAO_0000115: X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X)
IAO_0000115: x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.
has db xref: BFO:0000062
has exact synonym: is preceded by
has exact synonym: takes place after
has OBO namespace: external
id: preceded_by
shorthand: preceded_by
label: preceded by

precedes
type: ObjectProperty
IAO_0000115: x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.
has db xref: BFO:0000063
has OBO namespace: external
id: precedes
shorthand: precedes

requires
type: ObjectProperty
domain: biological process
range: Activity

starts
type: ObjectProperty
sub property of: part_of
sub property of:
  inverse of: has component process
inverse of: starts_with
IAO_0000115: Relation between occurrents, shares a start boundary with.
IAO_0000115: inverse of starts with
has db xref: RO:0002223
has OBO namespace: external
id: starts
shorthand: starts

starts_with
type: ObjectProperty
sub property of: has component process
IAO_0000115: x starts with y if and only if x has part y and the time point at which x starts is equivalent to the time point at which y starts. Formally: α(y) = α(x) ∧ ω(y) < ω(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.
has db xref: RO:0002224
has OBO namespace: external
id: starts_with
shorthand: starts_with
label: starts with

ATP-dependent chaperone mediated protein complex assembly
type: Class
subclass of: chaperone-mediated protein complex assembly
subclass of: Restriction
  on property: requires
  some values from: ATPase activity
subclass of: Restriction
  on property: has_input
  all values from: Class
    union of: metabolite
    union of: protein
subclass of: Restriction
  on property: has_output
  all values from: Class
    union of: metabolite
    union of: protein complex
is defined by: assembly of proteins in a complex that requires an energy dependent chaperoning activity

ATPase activity
type: Class
subclass of: hydrolase activity
IAO_0000115: Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
has alternative id: GO:0004002
has db xref: EC:3.6.1.3
has db xref: MetaCyc:ADENOSINETRIPHOSPHATASE-RXN
has db xref: RHEA:13068
has db xref: Reactome:REACT_100141
has db xref: Reactome:REACT_108873
has db xref: Reactome:REACT_110992
has db xref: Reactome:REACT_113271
has db xref: Reactome:REACT_18320
has db xref: Reactome:REACT_27184
has db xref: Reactome:REACT_33329
has db xref: Reactome:REACT_79964
has db xref: Reactome:REACT_84196
has db xref: Reactome:REACT_87020
has db xref: Reactome:REACT_89934
has exact synonym: ATP hydrolase activity
has exact synonym: ATP monophosphatase activity
has exact synonym: ATP phosphohydrolase activity
has exact synonym: adenosine 5'-triphosphatase activity
has exact synonym: adenosine triphosphatase activity
has exact synonym: adenosinetriphosphatase activity
has narrow synonym: (Ca2+ + Mg2+)-ATPase
has narrow synonym: HCO3--ATPase
has OBO namespace: molecular_function
has related synonym: SV40 T-antigen
has related synonym: complex V (mitochondrial electron transport)
id: GO:0016887
in subset: goslim chembl
in subset: goslim generic
in subset: goslim yeast
in subset: gosubset prok

Axiom
annotated source: ATPase activity
annotated property: IAO_0000115
annotated target: Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
has db xref: EC:3.6.1.3
has db xref: GOC:jl

Trafficking of GluR2-containing AMPA receptors to synapse, Canis familiaris
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_100141

Trafficking of GluR2-containing AMPA receptors to synapse, Bos taurus
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_108873

Trafficking of GluR2-containing AMPA receptors to synapse, Danio rerio
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_110992

Trafficking of GluR2-containing AMPA receptors to synapse, Xenopus tropicalis
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_113271

Trafficking of GluR2-containing AMPA receptors to synapse, Homo sapiens
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_18320

ESCRT Disassembly, Homo sapiens
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_27184

Trafficking of GluR2-containing AMPA receptors to synapse, Gallus gallus
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_33329

Trafficking of GluR2-containing AMPA receptors to synapse, Mus musculus
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_79964

Trafficking of GluR2-containing AMPA receptors to synapse, Drosophila melanogaster
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_84196

Trafficking of GluR2-containing AMPA receptors to synapse, Rattus norvegicus
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_87020

Trafficking of GluR2-containing AMPA receptors to synapse, Taeniopygia guttata
type: Axiom
annotated source: ATPase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_89934

Axiom
annotated source: ATPase activity
annotated property: hasExactSynonym
annotated target: ATP hydrolase activity
has db xref: EC:3.6.1.3

Axiom
annotated source: ATPase activity
annotated property: hasExactSynonym
annotated target: ATP monophosphatase activity
has db xref: EC:3.6.1.3

Axiom
annotated source: ATPase activity
annotated property: hasExactSynonym
annotated target: adenosine 5'-triphosphatase activity
has db xref: EC:3.6.1.3

Axiom
annotated source: ATPase activity
annotated property: hasExactSynonym
annotated target: adenosine triphosphatase activity
has db xref: EC:3.6.1.3

Axiom
annotated source: ATPase activity
annotated property: hasNarrowSynonym
annotated target: (Ca2+ + Mg2+)-ATPase
has db xref: EC:3.6.1.3

Axiom
annotated source: ATPase activity
annotated property: hasNarrowSynonym
annotated target: HCO3--ATPase
has db xref: EC:3.6.1.3

Axiom
annotated source: ATPase activity
annotated property: hasRelatedSynonym
annotated target: SV40 T-antigen
has db xref: EC:3.6.1.3

Axiom
annotated source: ATPase activity
annotated property: hasRelatedSynonym
annotated target: complex V (mitochondrial electron transport)
has db xref: EC:3.6.1.3

Activation
type: Class
subclass of: protein modification process
subclass of: Restriction
  on property: has_output
  some values from: active gene product
synonym: PPARgamma activation
synonym: caspase activation
synonym: caspase-3 activation
synonym: mTOR activation

Activity
type: Class
P106: Activity
P108: Activity
P207: C0441655
P322: BRIDG
P325: Any action that can, in the context of a study or a post-marketing investigation, be defined, planned, scheduled or performed. EXAMPLE(S): surgical procedure, laboratory test, administration of a drug.
P366: Activity
P90: General activity
P97: An active process; excludes processes and mechanisms which fulfill biological functions.
code: C43431

apoenzyme
type: Class
subclass of: apoprotein
definition: a protein that combines with a coenzyme to form an active enzyme [http://wordnet.princeton.edu/perl/webwn?s=apoenzyme]

Biochemical Process
type: Class
subclass of: biological process
subclass of: Restriction
  on property: has_participant
  all values from: chemical
P106: Molecular Function
P108: Biochemical Process
P207: C1511130
P366: Biochemical_Process
P97: A linked series of non-equivalent biochemical interactions and enzymatic reactions, and/or a linked series of biochemical processes.
code: C28498

Biochemical Reaction
type: Class
subclass of: Biochemical Process
P106: Molecular Function
P108: Biochemical Reaction
P207: C1511131
P325: In living cells, chemical reactions that help sustain life and allow cells to grow.
P366: Biochemical_Reaction
P90: Biochemical Reactions
P90: Enzymatic Reaction
P97: A chemical process, typically mediated by an enzyme, in which one or more substances (a substrate) are transformed by covalent modification into another substance(s) (a product) or in which the state of a substance is transformed.
code: C19899

ATP Hydrolysis
type: Class
subclass of: Hydrolysis
subclass of: Restriction
  on property: requires
  all values from: ATPase activity
P106: Molecular Function
P108: ATP Hydrolysis
P207: C1510699
P366: ATP_Hydrolysis
P97: ATP Hydrolysis is the cleavage of a high-energy phosphate bond of adenosine triphosphate by the addition of water. The energy derived from hydrolysis of ATP is used to drive metabolic reactions including nucleic acid and protein synthesis, to move molecules against concentration gradients (active transport), and to produce mechanical motion (contraction of microfibrils and microtubules).
code: C19939

Biochemical Pathway
type: Class
subclass of: Pathway
subclass of: Restriction
  on property: has component process
  all values from: Biochemical Process
P106: Functional Concept
P108: Biochemical Pathway
P207: C1706062
P325: A series of actions among molecules in a cell that leads to a certain end point or cell function.
P366: Biochemical_Pathway
P90: Metabolic Network
P90: Pathway
P90: Pathways
P90: molecular pathway
P97: A series of biochemical reactions which occurs in a known sequence and can result in all or part of the initiation, progression or completion of a biological process or function.
code: C20633

Chaperone
type: Class
subclass of: Protein, Organized by Function
P106: Amino Acid, Peptide, or Protein
P108: Chaperone
P207: C0243041
P366: Chaperone
P90: Molecular Chaperone
P97: Cytoplasmic proteins of both prokaryotes and eukaryotes that bind to nascent or unfolded polypeptides and ensure correct folding or transport. Chaperone proteins do not covalently bind to their targets and do not form part of the finished product. Heat-shock proteins are an important sub set of chaperones. Three major families are recognised, the chaperonins (groEL and hsp60), the hsp70 family and the hsp90 family. Outside these major families are other proteins with similar functions including nucleoplasmin, secB and T-cell receptor associated protein.
code: C17764

chemical
type: Class
subclass of: participant
disjoint with: gene
reference: IMR:0000947 chemical

Enzyme
type: Class
subclass of: Protein, Organized by Function
P106: Enzyme
P108: Enzyme
P207: C0014442
P325: A protein that speeds up chemical reactions in the body.
P366: Enzyme
P90: Enzymes
P97: Molecules that catalyze a chemical reaction. They are usually proteins, although catalytic RNA and DNA molecules have been identified.
code: C16554

Gene Product
type: Class
subclass of: chemical
disjoint with: non-gene product
P106: Classification
P108: Gene Product
P207: C1704222
P366: Gene_Product
P90: Genome Encoded Entity
P97: A protein, RNA or a complex that contains proteins and/or RNA.
P98: In NCI Thesaurus: includes Proteins, Functional RNAs, Protein Complexes, and Riboprotein Complexes
code: C26548
label: http://ncicb.nci.nih.gov/xml/owl/EVS/Thesaurus.owl#C26548

Glycoprotein
type: Class
subclass of: conjugated protein
P106: Amino Acid, Peptide, or Protein
P108: Glycoprotein
P207: C0017968
P325: A protein that has sugar molecules attached to it.
P366: Glycoprotein
P368: CHEBI:17089
P97: A conjugated protein having a carbohydrate component.
code: C16642

holoenzyme
type: Class
subclass of: Enzyme
definition: A complete and catalytically active enzyme consisting of all subunits. (i.e. Holoenzyme = Apoenzyme + Cofactor).

Hydrolase
type: Class
subclass of: Enzyme
P106: Amino Acid, Peptide, or Protein
P106: Enzyme
P108: Hydrolase
P207: C0020289
P366: Hydrolase
P90: EC 3
P90: Hydrolases
P97: Enzymes (EC class 3) cleaving substrates with addition of H2O at the point of cleavage; e.g., esterases, phosphatases, nucleases, peptidases. SYN hydrolyzing enzymes.
code: C16701

Isomerase
type: Class
subclass of: Enzyme
P106: Amino Acid, Peptide, or Protein
P106: Enzyme
P108: Isomerase
P207: C0022202
P366: Isomerase
P90: EC 5
P97: An enzyme that transfers functional groups to catalyze the geometric or structural rearrangement of atoms within a given molecule to form an isomer of the original molecule.
code: C16759

Ligase
type: Class
subclass of: Enzyme
P106: Amino Acid, Peptide, or Protein
P106: Enzyme
P108: Ligase
P207: C0023689
P366: Ligase
P90: EC 6
P97: Major class of enzymes that catalyze the linking together of two molecules (EC class 6) for example DNA ligases that link two fragments of DNA by forming a phosphodiester bond.
code: C16796

Lipoprotein
type: Class
subclass of: conjugated protein
P106: Amino Acid, Peptide, or Protein
P108: Lipoprotein
P207: C0023820
P366: Lipoprotein
P368: CHEBI:6495
P97: An important class of serum proteins in which a spherical hydrophobic core of triglycerides or cholesterol esters surrounded by an amphipathic monolayer of phospholipids, cholesterol and apolipoproteins. Classified according to density: chylomicrons, large low density particles, very low density, low density and high density species. Important in lipid transport, especially cholesterol transport in the blood stream. Abnormalities in lipoprotein metabolism have been implicated in certain heart diseases.
code: C20029

Lyase
type: Class
subclass of: Enzyme
P106: Amino Acid, Peptide, or Protein
P106: Enzyme
P108: Lyase
P207: C0024188
P366: Lyase
P90: EC 4
P97: Trivial name applied, together with dehydratase, to certain hydro-lyases (EC class 4.2.1) catalyzing hydration-dehydration.
code: C16804

Metabolic pathway
type: Class
subclass of: Biochemical Pathway
subclass of: metabolic process
subclass of: Restriction
  on property: has component process
  all values from: metabolic process
synonym: CBZ metabolism
synonym: classic metabolic pathway
synonym: metabolic network
synonym: metabolic pathway
synonym: metabolism
synonym: pathway of metabolism
is defined by: The various, enzyme controlled, series of reactions allowing for the conversion of materials, energy availability and biodegradation of xenobiotics. source: PW:PW_0000002

Metabolic reaction
type: Class
subclass of: Biochemical Reaction
subclass of: metabolic process
is defined by: conversion of simple chemical (without loss of matter)

Oxidoreductase
type: Class
subclass of: Enzyme
P106: Amino Acid, Peptide, or Protein
P106: Enzyme
P108: Oxidoreductase
P207: C0030016
P366: Oxidoreductase
P90: EC 1
P97: The class of all enzymes catalyzing oxidoreduction reactions (EC class 1). The substrate that is oxidized is regarded as a hydrogen donor. The systematic name is based on donor: acceptor oxidoreductase. The recommended name will be dehydrogenase, wherever this is possible; as an alternative, reductase can be used. Oxidase is only used in cases where O2 is the acceptor. (Enzyme Nomenclature, 1992, p9)
code: C16946

Phosphoprotein
type: Class
subclass of: conjugated protein
P106: Amino Acid, Peptide, or Protein
P108: Phosphoprotein
P207: C0031689
P366: Phosphoprotein
P97: Proteins that contain phosphate groups esterified to serine, threonine or tyrosine. The phosphate group usually regulates protein function.
code: C16982

Protein Complex Subunit
type: Class
subclass of: contributor entity
subclass of: simple protein
P106: Amino Acid, Peptide, or Protein
P108: Protein Complex Subunit
P207: C1335530
P366: Protein_Complex_Subunit
P97: Used for classifying a protein or peptide that does not have a perceptible function before it is assembled into a functional complex.
code: C20184

Protein, Organized by Function
type: Class
subclass of: protein
P106: Classification
P108: Protein, Organized by Function
P207: C0815043
P310: Header_Concept
P366: Protein_Organized_by_Function
P90: Proteins [By Function]
P97: Organizing term for the Proteins tree
code: C20027

Transferase
type: Class
subclass of: Enzyme
P106: Amino Acid, Peptide, or Protein
P106: Enzyme
P108: Transferase
P207: C0040676
P366: Transferase
P90: EC 2
P97: Transferases are enzymes transferring a group, for example, the methyl group or a glycosyl group, from one compound (generally regarded as donor) to another compound (generally regarded as acceptor). The classification is based on the scheme "donor: acceptor group transferase". (EC 2 class)
code: C17210

acceptor
type: Class
subclass of: Gene Product
IAO_0000115: A molecular entity that can accept an electron, a pair of electrons, an atom or a group from another molecular entity.
has alternative id: CHEBI:13699
has alternative id: CHEBI:2377
has db xref: KEGG:C00028
has db xref: KEGG:C16722
has exact synonym: Acceptor
has exact synonym: acceptor
has OBO namespace: chebi_ontology
has related synonym: A
has related synonym: Akzeptor
has related synonym: Hydrogen-acceptor
has related synonym: Oxidized donor
has related synonym: accepteur
id: CHEBI:15339
in subset: 3 STAR

Axiom
annotated source: acceptor
annotated property: hasExactSynonym
annotated target: Acceptor
has db xref: KEGG_COMPOUND

Axiom
annotated source: acceptor
annotated property: hasExactSynonym
annotated target: acceptor
has db xref: UniProt

Axiom
annotated source: acceptor
annotated property: hasRelatedSynonym
annotated target: A
has db xref: KEGG_COMPOUND

Axiom
annotated source: acceptor
annotated property: hasRelatedSynonym
annotated target: Akzeptor
has db xref: ChEBI

Axiom
annotated source: acceptor
annotated property: hasRelatedSynonym
annotated target: Hydrogen-acceptor
has db xref: KEGG_COMPOUND

Axiom
annotated source: acceptor
annotated property: hasRelatedSynonym
annotated target: Oxidized donor
has db xref: KEGG_COMPOUND

Axiom
annotated source: acceptor
annotated property: hasRelatedSynonym
annotated target: accepteur
has db xref: ChEBI

active participant
type: Class
subclass of: participant
is defined by: entity enabling a process to occur

active enzyme
type: Class
equivalent class: Class
  intersection of: Enzyme
  intersection of: active gene product
subclass of: Enzyme
subclass of: active gene product
is defined by: enzyme enabling a biological process to occur

active gene product
type: Class
equivalent class: Class
  intersection of: Gene Product
  intersection of: active participant
subclass of: Gene Product
subclass of: active participant
is defined by: molecule encoded by a gene and enabling a biological process to occur

addition of a chemical group
type: Class
subclass of: post-translational protein modification
subclass of: Restriction
  on property: has_output
  some values from: conjugated protein
def: Covalent reaction that results in the addition of a chemical group on a molecule.
comment: Added on September 13 2006 by Nicolas Le Novere based on Patika ontology.

Axiom
annotated source: addition of a chemical group
annotated property: def
annotated target: Covalent reaction that results in the addition of a chemical group on a molecule.
xref: NR

apoprotein
type: Class
subclass of: protein
IAO_0000115: An apoprotein is a protein devoid of its characteristic prosthetic group or metal.
has db xref: KEGG:C16240
has exact synonym: apoprotein
has OBO namespace: chebi_ontology
has related synonym: apoproteins
id: CHEBI:13850
in subset: 3 STAR

Axiom
annotated source: apoprotein
annotated property: hasExactSynonym
annotated target: apoprotein
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: apoprotein
annotated property: hasExactSynonym
annotated target: apoprotein
has db xref: UniProt

Axiom
annotated source: apoprotein
annotated property: hasRelatedSynonym
annotated target: apoproteins
has db xref: ChEBI

binding
type: Class
subclass of: spontaneous activity
IAO_0000115: The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule.
has db xref: Wikipedia:Binding_(molecular)
has narrow synonym: ligand
has OBO namespace: molecular_function
id: GO:0005488
in subset: gocheck do not manually annotate
in subset: goslim pir
in subset: goslim plant
in subset: gosubset prok
comment: Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children.

Axiom
annotated source: binding
annotated property: IAO_0000115
annotated target: The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule.
has db xref: GOC:ceb
has db xref: GOC:mah
has db xref: ISBN:0198506732

biological mediated process
type: Class
subclass of: biological process
subclass of: Restriction
  on property: requires
  some values from: mediated activity
subclass of: Restriction
  on property: mediated_by
  min qualified cardinality: 1
  on class: active participant
disjoint with: biological spontaneous process
definition: biological process that needs some cellular machinery to occur

biological mediated reaction
type: Class
subclass of: biological mediated process
subclass of: Restriction
  on property: mediated_by
  max qualified cardinality: 1
  on class: active participant
is defined by: biological reaction that needs some cellular machinery to occur

biological process
type: Class
subclass of: Restriction
  on property: has_participant
  all values from: participant
subclass of: Restriction
  on property: has_input
  min qualified cardinality: 1
  on class: participant
subclass of: Restriction
  on property: has_output
  min qualified cardinality: 1
  on class: participant
IAO_0000115: Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
has alternative id: GO:0000004
has alternative id: GO:0007582
has db xref: Wikipedia:Biological_process
has exact synonym: biological_process
has exact synonym: physiological process
has OBO namespace: biological_process
id: GO:0008150
in subset: goslim aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim generic
in subset: goslim metagenomics
in subset: goslim pir
in subset: goslim plant
in subset: goslim pombe
in subset: goslim yeast
in subset: gosubset prok
comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. Note that when this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this.

Axiom
annotated source: biological process
annotated property: IAO_0000115
annotated target: Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
has db xref: GOC:go_curators
has db xref: GOC:isa_complete

biological spontaneous process
type: Class
subclass of: biological process
subclass of: Restriction
  on property: requires
  all values from: spontaneous activity
synonym: non-mediated process
definition: biological process occurring independent of catalyst (non-mediated process)

carbamoylated protein
type: Class
subclass of: conjugated protein
is defined by: protein composed of a homocitrulline

catalyst
type: Class
subclass of: Gene Product
IAO_0000115: A substance that increases the rate of a reaction without modifying the overall standard Gibbs energy change in the reaction.
has exact synonym: catalyst
has OBO namespace: chebi_ontology
has related synonym: Katalysator
has related synonym: catalizador
has related synonym: catalyseur
id: CHEBI:35223
in subset: 3 STAR

Axiom
annotated source: catalyst
annotated property: hasExactSynonym
annotated target: catalyst
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: catalyst
annotated property: hasRelatedSynonym
annotated target: Katalysator
has db xref: ChEBI

Axiom
annotated source: catalyst
annotated property: hasRelatedSynonym
annotated target: catalizador
has db xref: ChEBI

Axiom
annotated source: catalyst
annotated property: hasRelatedSynonym
annotated target: catalyseur
has db xref: ChEBI

catalytic activity
type: Class
subclass of: mediated activity
IAO_0000115: 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.
has db xref: 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 metagenomics
in subset: goslim pir
in subset: goslim plant
in subset: gosubset prok

Axiom
annotated source: catalytic activity
annotated property: IAO_0000115
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.
has db xref: GOC:vw
has db xref: ISBN:0198506732

Axiom
annotated source: catalytic activity
annotated property: hasExactSynonym
annotated target: enzyme activity
has db xref: GOC:dph
has db xref: GOC:tb

cellular protein modification process
type: Class
subclass of: Biochemical Reaction
subclass of: protein modification process
IAO_0000115: The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications) occurring at the level of an individual cell. Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
has broad synonym: protein modification process
has OBO namespace: biological_process
has related synonym: process resulting in protein modification
has related synonym: protein tagging activity
id: GO:0006464
in subset: goslim aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim generic
in subset: goslim pir
in subset: goslim plant
in subset: gosubset prok

Axiom
annotated source: cellular protein modification process
annotated property: IAO_0000115
annotated target: The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications) occurring at the level of an individual cell. Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
has db xref: GOC:go_curators

Axiom
annotated source: cellular protein modification process
annotated property: hasBroadSynonym
annotated target: protein modification process
has db xref: GOC:bf
has db xref: GOC:jl

chaperone-mediated protein complex assembly
type: Class
subclass of: chaperone-mediated protein modification reaction
subclass of: protein complex assembly
subclass of: Restriction
  on property: requires
  some values from: protein complex assembly chaperoning
subclass of: Restriction
  on property: mediated_by
  all values from: companion-chaperone
IAO_0000115: The aggregation, arrangement and bonding together of a set of components to form a protein complex, mediated by chaperone molecules that do not form part of the finished complex.
has alternative id: GO:0034619
has exact synonym: cellular chaperone-mediated protein complex assembly
has exact synonym: protein complex assembly, multichaperone pathway
has OBO namespace: biological_process
has related synonym: chaperone activity
id: GO:0051131
in subset: gosubset prok

Axiom
annotated source: chaperone-mediated protein complex assembly
annotated property: IAO_0000115
annotated target: The aggregation, arrangement and bonding together of a set of components to form a protein complex, mediated by chaperone molecules that do not form part of the finished complex.
has db xref: GOC:ai

chaperone-mediated protein complex assembly independent of cofactor
type: Class
subclass of: chaperone-mediated protein complex assembly
subclass of: Restriction
  on property: has_output
  all values from: protein complex
subclass of: Restriction
  on property: has_output
  max qualified cardinality: 1
  on class: participant
is defined by: assembly of proteins in a complex that requires a chaperoning activity but no cofactor

chaperone-mediated protein modification reaction
type: Class
subclass of: biological mediated reaction
subclass of: Restriction
  on property: mediated_by
  all values from: Chaperone
is defined by: modification of a protein that requires a chaperone activity

chelator
type: Class
subclass of: ligand
IAO_0000115: A ligand with two or more separate binding sites that can bind to a single metallic central atom, forming a chelate.
has alternative id: CHEBI:23090
has alternative id: CHEBI:3585
has alternative id: CHEBI:6789
has db xref: KEGG:C00917
has db xref: KEGG:C02169
has OBO namespace: chebi_ontology
has related synonym: Chelating agent
has related synonym: Metal chelator
has related synonym: chelating agents
has related synonym: chelators
has related synonym: complexon
id: CHEBI:38161
in subset: 3 STAR

Axiom
annotated source: chelator
annotated property: hasRelatedSynonym
annotated target: Chelating agent
has db xref: KEGG_COMPOUND

Axiom
annotated source: chelator
annotated property: hasRelatedSynonym
annotated target: Metal chelator
has db xref: KEGG_COMPOUND

Axiom
annotated source: chelator
annotated property: hasRelatedSynonym
annotated target: chelating agents
has db xref: ChEBI

Axiom
annotated source: chelator
annotated property: hasRelatedSynonym
annotated target: chelators
has db xref: ChEBI

Axiom
annotated source: chelator
annotated property: hasRelatedSynonym
annotated target: complexon
has db xref: ChEBI

co-enzyme recruitment
type: Class
subclass of: spontaneous cofactor recruitment
subclass of: Restriction
  on property: has_input
  all values from: Class
    union of: apoenzyme
    union of: coenzyme
subclass of: Restriction
  on property: has_output
  all values from: holoenzyme
is defined by: recruitment of an organic molecule as a cofactor

coenzyme
type: Class
subclass of: cofactor
IAO_0000115: A low-molecular-weight, non-protein organic compound participating in enzymatic reactions as dissociable acceptor or donor of chemical groups or electrons.
has exact synonym: coenzyme
has OBO namespace: chebi_ontology
has related synonym: coenzymes
id: CHEBI:23354
in subset: 3 STAR

Axiom
annotated source: coenzyme
annotated property: hasExactSynonym
annotated target: coenzyme
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: coenzyme
annotated property: hasRelatedSynonym
annotated target: coenzymes
has db xref: ChEBI

cofactor
type: Class
subclass of: contributor entity
subclass of: non-gene product
IAO_0000115: An organic molecule or ion (usually a metal ion) that is required by an enzyme for its activity. It may be attached either loosely (coenzyme) or tightly (prosthetic group).
has db xref: Wikipedia:Cofactor_(biochemistry)
has exact synonym: cofactor
has exact synonym: cofactors
has OBO namespace: chebi_ontology
id: CHEBI:23357
in subset: 3 STAR

Axiom
annotated source: cofactor
annotated property: hasExactSynonym
annotated target: cofactors
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: cofactor
annotated property: hasExactSynonym
annotated target: cofactor
has db xref: IUPAC

cofactor removal
type: Class
subclass of: protein complex disassembly
is defined by: dissociation of a cofactor

companion-chaperone
type: Class
subclass of: Chaperone
definition: Chaperone involved in recruitment of protein complex units and the assembly of the complex

conjugated protein
type: Class
subclass of: protein
IAO_0000115: Conjugated protein is a protein that contains a non-peptide component, usually in stoichiometric proportion.
has db xref: COMe:PRX000001
has exact synonym: conjugated proteins
has OBO namespace: chebi_ontology
has related synonym: complex protein
id: CHEBI:33837
in subset: 3 STAR

Axiom
annotated source: conjugated protein
annotated property: hasExactSynonym
annotated target: conjugated proteins
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: conjugated protein
annotated property: hasRelatedSynonym
annotated target: complex protein
has db xref: COMe

contributor entity
type: Class
subclass of: participant
is defined by: Part of a complex that mediates a process

donor
type: Class
subclass of: Gene Product
IAO_0000115: A molecular entity that can transfer ("donate") an electron, a pair of electrons, an atom or a group to another molecular entity.
has alternative id: CHEBI:14202
has alternative id: CHEBI:4697
has db xref: KEGG:C01351
has exact synonym: Donor
has exact synonym: donor
has OBO namespace: chebi_ontology
has related synonym: Donator
has related synonym: donneur
id: CHEBI:17891
in subset: 3 STAR

Axiom
annotated source: donor
annotated property: hasExactSynonym
annotated target: Donor
has db xref: KEGG_COMPOUND

Axiom
annotated source: donor
annotated property: hasExactSynonym
annotated target: donor
has db xref: UniProt

Axiom
annotated source: donor
annotated property: hasRelatedSynonym
annotated target: Donator
has db xref: ChEBI

Axiom
annotated source: donor
annotated property: hasRelatedSynonym
annotated target: donneur
has db xref: ChEBI

effector
type: Class
subclass of: non-gene product
IAO_0000115: A small molecule which increases (activator) or decreases (inhibitor) the activity of an (allosteric) enzyme by binding to the enzyme at the regulatory site (which is different from the substrate-binding catalytic site).
has db xref: Wikipedia:Effector_(biology)
has exact synonym: effector
has OBO namespace: chebi_ontology
has related synonym: enzyme modulator
id: CHEBI:35224
in subset: 3 STAR

Axiom
annotated source: effector
annotated property: hasExactSynonym
annotated target: effector
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: effector
annotated property: hasRelatedSynonym
annotated target: enzyme modulator
has db xref: ChEBI

enzymatic cofactor removal
type: Class
subclass of: cofactor removal
subclass of: enzymatic reaction
is defined by: dissociation of a cofactor that was associated to an enzyme

enzymatic metabolic reaction
type: Class
subclass of: Metabolic reaction
subclass of: enzymatic reaction
subclass of: Restriction
  on property: has_input
  all values from: substrate
subclass of: Restriction
  on property: has_output
  all values from: product
definition: Metabolic reaction mediated by one catalyst

enzymatic post-translational protein modification
type: Class
subclass of: post-translational protein modification
subclass of: enzymatic reaction
is defined by: Post-translational modification of a protein that requires a enzymatic activity

gene
type: Class
subclass of: participant
IAO_0000115: A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions.
has db xref: http://en.wikipedia.org/wiki/Gene
has OBO namespace: sequence
id: SO:0000704
in subset: SOFA
comment: This term is mapped to MGED. Do not obsolete without consulting MGED ontology. A gene may be considered as a unit of inheritance.

Axiom
annotated source: gene
annotated property: IAO_0000115
annotated target: A region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions, transcribed regions and/or other functional sequence regions.
has db xref: SO:immuno_workshop

wiki
type: Axiom
annotated source: gene
annotated property: hasDbXref
annotated target: http://en.wikipedia.org/wiki/Gene

homodimer
type: Class
subclass of: protein complex
def: A macromolecular complex composed of precisely two identical monomeric units, which are usually non-covalently bound.
comment: created in response to SF req #101

Axiom
annotated source: homodimer
annotated property: def
annotated target: A macromolecular complex composed of precisely two identical monomeric units, which are usually non-covalently bound.
xref: NR

homomultimerisation
type: Class
subclass of: protein complex assembly
subclass of: Restriction
  on property: has_input
  all values from: Protein Complex Subunit
subclass of: Restriction
  on property: has_output
  all values from: protein complex
subclass of: Restriction
  on property: has_input
  max qualified cardinality: 1
  on class: participant
is defined by: multimerisation of identical entities

hydrolase activity
type: Class
subclass of: catalytic activity
IAO_0000115: Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
has db xref: EC:3
has db xref: Reactome:REACT_110436
has db xref: Reactome:REACT_111159
has db xref: Reactome:REACT_15331
has db xref: Reactome:REACT_83734
has db xref: Reactome:REACT_84047
has db xref: Reactome:REACT_87959
has db xref: Reactome:REACT_88159
has db xref: Reactome:REACT_90118
has db xref: Reactome:REACT_91045
has db xref: Reactome:REACT_98572
has OBO namespace: molecular_function
id: GO:0016787
in subset: goslim aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim metagenomics
in subset: goslim mouse
in subset: goslim pir
in subset: goslim plant
in subset: goslim yeast
in subset: gosubset prok

Axiom
annotated source: hydrolase activity
annotated property: IAO_0000115
annotated target: Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
has db xref: ISBN:0198506732

Hydrolysis of phosphatidylcholine, Bos taurus
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_110436

Partial proteolysis of antigen in phagolysosomes, Homo sapiens
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_111159

Hydrolysis of phosphatidylcholine, Homo sapiens
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_15331

Hydrolysis of phosphatidylcholine, Danio rerio
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_83734

Hydrolysis of phosphatidylcholine, Xenopus tropicalis
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_84047

Hydrolysis of phosphatidylcholine, Gallus gallus
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_87959

Hydrolysis of phosphatidylcholine, Canis familiaris
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_88159

Hydrolysis of phosphatidylcholine, Mus musculus
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_90118

Hydrolysis of phosphatidylcholine, Taeniopygia guttata
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_91045

Hydrolysis of phosphatidylcholine, Rattus norvegicus
type: Axiom
annotated source: hydrolase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_98572

ion
type: Class
subclass of: non-gene product
IAO_0000115: A molecular entity having a net electric charge.
has exact synonym: Ion
has exact synonym: ion
has OBO namespace: chebi_ontology
has related synonym: Ionen
has related synonym: iones
has related synonym: ions
id: CHEBI:24870
in subset: 3 STAR

Axiom
annotated source: ion
annotated property: hasExactSynonym
annotated target: Ion
has db xref: ChEBI

Axiom
annotated source: ion
annotated property: hasExactSynonym
annotated target: ion
has db xref: ChEBI

Axiom
annotated source: ion
annotated property: hasExactSynonym
annotated target: ion
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: ion
annotated property: hasRelatedSynonym
annotated target: Ionen
has db xref: ChEBI

Axiom
annotated source: ion
annotated property: hasRelatedSynonym
annotated target: iones
has db xref: ChEBI

Axiom
annotated source: ion
annotated property: hasRelatedSynonym
annotated target: ions
has db xref: ChEBI

ion binding
type: Class
subclass of: binding
IAO_0000115: Interacting selectively and non-covalently with ions, charged atoms or groups of atoms.
has OBO namespace: molecular_function
has related synonym: atom binding
id: GO:0043167
in subset: goslim chembl
in subset: goslim generic
in subset: goslim metagenomics
in subset: goslim pir
in subset: goslim yeast
in subset: gosubset prok

Axiom
annotated source: ion binding
annotated property: IAO_0000115
annotated target: Interacting selectively and non-covalently with ions, charged atoms or groups of atoms.
has db xref: GOC:jl

isomerase activity
type: Class
subclass of: catalytic activity
IAO_0000115: Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
has db xref: EC:5
has narrow synonym: other isomerase activity
has OBO namespace: molecular_function
id: GO:0016853
in subset: goslim aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim generic
in subset: goslim metagenomics
in subset: goslim pir
in subset: goslim yeast
in subset: gosubset prok
comment: Note that enzymes of class EC:5.99.-.- should also be annotated to this term.

Axiom
annotated source: isomerase activity
annotated property: IAO_0000115
annotated target: Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
has db xref: ISBN:0198506732

ligand
type: Class
subclass of: non-gene product
IAO_0000115: Any molecule or ion capable of binding to a central metal atom to form coordination complexes.
has db xref: Wikipedia:Ligand
has OBO namespace: chebi_ontology
has related synonym: ligands
id: CHEBI:52214
in subset: 3 STAR

Axiom
annotated source: ligand
annotated property: hasRelatedSynonym
annotated target: ligands
has db xref: ChEBI

ligase activity
type: Class
subclass of: catalytic activity
IAO_0000115: Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
has db xref: EC:6
has db xref: Reactome:REACT_115603
has db xref: Reactome:REACT_116018
has exact synonym: synthetase activity
has OBO namespace: molecular_function
id: GO:0016874
in subset: goslim aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim generic
in subset: goslim metagenomics
in subset: goslim mouse
in subset: goslim pir
in subset: goslim yeast
in subset: gosubset prok

Axiom
annotated source: ligase activity
annotated property: IAO_0000115
annotated target: Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
has db xref: EC:6
has db xref: GOC:mah

Ligation of DNA at sites of patch replacement, Gallus gallus
type: Axiom
annotated source: ligase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_115603

Ligation of newly synthesized repair patch to incised DNA in GG-NER, Gallus gallus
type: Axiom
annotated source: ligase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_116018

Axiom
annotated source: ligase activity
annotated property: hasExactSynonym
annotated target: synthetase activity
has db xref: GOC:jh2

lyase activity
type: Class
subclass of: catalytic activity
IAO_0000115: 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.
has db xref: EC:4
has narrow synonym: other lyase activity
has OBO namespace: molecular_function
id: GO:0016829
in subset: goslim aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim generic
in subset: goslim metagenomics
in subset: goslim pir
in subset: goslim yeast
in subset: gosubset prok
comment: Note that enzymes of class EC:4.99.-.- should also be annotated to this term.

Axiom
annotated source: lyase activity
annotated property: IAO_0000115
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.
has db xref: EC:4.-.-.-
has db xref: ISBN:0198547684

mediated addition of a chemical group
type: Class
subclass of: addition of a chemical group
subclass of: enzymatic post-translational protein modification
subclass of: Restriction
  on property: has_input
  all values from: Class
    union of: metabolite
    union of: protein
subclass of: Restriction
  on property: has_output
  all values from: Class
    union of: conjugated protein
    union of: metabolite
is defined by: addition of a chemical group that do require other factors

metabolic hydrolysis
type: Class
subclass of: enzymatic metabolic reaction
subclass of: Hydrolysis
is defined by: loss of a chemical bond in a metabolite that is mediated by water

metabolic isomerization
type: Class
subclass of: enzymatic metabolic reaction
subclass of: Isomerization
is defined by: modification of the arrangements of the atoms of a metabolite

metabolic ligation
type: Class
subclass of: enzymatic metabolic reaction
subclass of: Ligation
is defined by: addition o a covalent bound between two metabolites

metabolic lyase process
type: Class
subclass of: enzymatic metabolic reaction
subclass of: Lyase process
is defined by: modification of chemical bonds of a metablite throught an elimination reaction

metabolic oxido-reduction
type: Class
subclass of: enzymatic metabolic reaction
subclass of: Oxidation/Reduction
is defined by: metabolic reaction consisting in an electron transfer

metabolic process
type: Class
subclass of: Biochemical Process
subclass of: Restriction
  on property: has_input
  all values from: metabolite
subclass of: Restriction
  on property: has_output
  all values from: metabolite
disjoint with: protein modification process
IAO_0000115: The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
has db xref: Wikipedia:Metabolism
has exact synonym: metabolism
has narrow synonym: metabolic process resulting in cell growth
has narrow synonym: metabolism resulting in cell growth
has OBO namespace: biological_process
id: GO:0008152
in subset: gocheck do not manually annotate
in subset: goslim chembl
in subset: goslim metagenomics
in subset: goslim pir
in subset: goslim plant
in subset: gosubset prok
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: IAO_0000115
annotated target: The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
has db xref: GOC:go_curators
has db xref: ISBN:0198547684

metabolic transference
type: Class
subclass of: enzymatic metabolic reaction
subclass of: Transference
is defined by: rupture of a metabolite that is linked to a new molecule

metabolite
type: Class
subclass of: non-gene product
IAO_0000115: Any intermediate or product resulting from metabolism. The term 'metabolite' subsumes the classes commonly known as primary and secondary metabolites.
has alternative id: CHEBI:26619
has alternative id: CHEBI:35220
has exact synonym: metabolite
has OBO namespace: chebi_ontology
has related synonym: metabolites
has related synonym: primary metabolites
has related synonym: secondary metabolites
id: CHEBI:25212
in subset: 3 STAR

Axiom
annotated source: metabolite
annotated property: hasExactSynonym
annotated target: metabolite
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: metabolite
annotated property: hasRelatedSynonym
annotated target: metabolites
has db xref: ChEBI

Axiom
annotated source: metabolite
annotated property: hasRelatedSynonym
annotated target: primary metabolites
has db xref: ChEBI

Axiom
annotated source: metabolite
annotated property: hasRelatedSynonym
annotated target: secondary metabolites
has db xref: ChEBI

metabolite binding
type: Class
subclass of: binding
is defined by: Metabolite interacting non-covalently with metabolites.

metalloprotein
type: Class
subclass of: conjugated protein
has db xref: COMe:PRX000002
has exact synonym: metalloprotein
has OBO namespace: chebi_ontology
has related synonym: metalloproteine
has related synonym: metalloproteins
id: CHEBI:35134
in subset: 3 STAR

Axiom
annotated source: metalloprotein
annotated property: hasExactSynonym
annotated target: metalloprotein
has db xref: COMe

Axiom
annotated source: metalloprotein
annotated property: hasRelatedSynonym
annotated target: metalloproteine
has db xref: ChEBI

Axiom
annotated source: metalloprotein
annotated property: hasRelatedSynonym
annotated target: metalloproteins
has db xref: ChEBI

molecular entity
type: Class
subclass of: chemical
IAO_0000115: Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity.
has exact synonym: molecular entity
has OBO namespace: chebi_ontology
has related synonym: entidad molecular
has related synonym: entidades moleculares
has related synonym: entite moleculaire
has related synonym: molecular entities
has related synonym: molekulare Entitaet
id: CHEBI:23367
in subset: 3 STAR

Axiom
annotated source: molecular entity
annotated property: hasExactSynonym
annotated target: molecular entity
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: molecular entity
annotated property: hasRelatedSynonym
annotated target: entidad molecular
has db xref: IUPAC

Axiom
annotated source: molecular entity
annotated property: hasRelatedSynonym
annotated target: entidades moleculares
has db xref: IUPAC

Axiom
annotated source: molecular entity
annotated property: hasRelatedSynonym
annotated target: entite moleculaire
has db xref: IUPAC

Axiom
annotated source: molecular entity
annotated property: hasRelatedSynonym
annotated target: molecular entities
has db xref: IUPAC

Axiom
annotated source: molecular entity
annotated property: hasRelatedSynonym
annotated target: molekulare Entitaet
has db xref: ChEBI

mediated activity
type: Class
subclass of: Activity
disjoint with: spontaneous activity
definition: Elemental activities that needs a mediator to occur, such as catalysis or chaperoning. A given process may require one or more molecular functions.

Axiom
annotated source: mediated activity
annotated property: definition
annotated target: Elemental activities that needs a mediator to occur, such as catalysis or chaperoning. A given process may require one or more molecular functions.
has db xref: GOC:go_curators

multimer of simple chemicals
type: Class
subclass of: non-covalent complex
def: Non-covalent association between several simple chemicals

Axiom
annotated source: multimer of simple chemicals
annotated property: def
annotated target: Non-covalent association between several simple chemicals
xref: NR

non-covalent complex
type: Class
subclass of: chemical
def: Entity composed of several independant components that are not linked by covalent bonds.
comment: Created on November 10 2006 by Nicolas Le Novere.

Axiom
annotated source: non-covalent complex
annotated property: def
annotated target: Entity composed of several independant components that are not linked by covalent bonds.
xref: NR

non-gene product
type: Class
subclass of: chemical
definition: Chemical independent to genetic attribute, that is unrecognizable from a species to another.

oxidoreductase activity
type: Class
subclass of: catalytic activity
IAO_0000115: 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.
has db xref: EC:1
has db xref: Reactome:REACT_102858
has db xref: Reactome:REACT_102973
has db xref: Reactome:REACT_103874
has db xref: Reactome:REACT_104604
has db xref: Reactome:REACT_105062
has db xref: Reactome:REACT_105121
has db xref: Reactome:REACT_106088
has db xref: Reactome:REACT_106276
has db xref: Reactome:REACT_107002
has db xref: Reactome:REACT_107467
has db xref: Reactome:REACT_108745
has db xref: Reactome:REACT_109500
has db xref: Reactome:REACT_110582
has db xref: Reactome:REACT_115316
has db xref: Reactome:REACT_15389
has db xref: Reactome:REACT_15410
has db xref: Reactome:REACT_17006
has db xref: Reactome:REACT_17042
has db xref: Reactome:REACT_29212
has db xref: Reactome:REACT_30160
has db xref: Reactome:REACT_31762
has db xref: Reactome:REACT_32960
has db xref: Reactome:REACT_34705
has db xref: Reactome:REACT_44470
has db xref: Reactome:REACT_78923
has db xref: Reactome:REACT_84842
has db xref: Reactome:REACT_86178
has db xref: Reactome:REACT_88304
has db xref: Reactome:REACT_89057
has db xref: Reactome:REACT_90394
has db xref: Reactome:REACT_91638
has db xref: Reactome:REACT_91952
has db xref: Reactome:REACT_92075
has db xref: Reactome:REACT_92434
has db xref: Reactome:REACT_93539
has db xref: Reactome:REACT_93974
has db xref: Reactome:REACT_95169
has db xref: Reactome:REACT_95558
has db xref: Reactome:REACT_95573
has db xref: Reactome:REACT_97234
has db xref: Reactome:REACT_97568
has db xref: Reactome:REACT_97851
has db xref: Reactome:REACT_98022
has db xref: Reactome:REACT_99085
has db xref: Reactome:REACT_99794
has db xref: Reactome:REACT_99989
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 aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim generic
in subset: goslim metagenomics
in subset: goslim mouse
in subset: goslim pir
in subset: goslim yeast
in subset: gosubset prok
comment: Note that enzymes of class EC:1.97.-.- should also be annotated to this term.

Axiom
annotated source: oxidoreductase activity
annotated property: IAO_0000115
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.
has db xref: GOC:go_curators

Diiodinated tyrosine can be deiodinated, Mus musculus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_102858

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Canis familiaris
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_102973

Monoiodinated tyrosine can be deiodinated, Canis familiaris
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_103874

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Danio rerio
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_104604

Monoiodinated tyrosine can be deiodinated, Danio rerio
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_105062

Monoiodinated tyrosine can be deiodinated, Caenorhabditis elegans
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_105121

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Rattus norvegicus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_106088

Monoiodinated tyrosine can be deiodinated, Rattus norvegicus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_106276

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Sus scrofa
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_107002

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Rattus norvegicus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_107467

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Taeniopygia guttata
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_108745

Monoiodinated tyrosine can be deiodinated, Bos taurus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_109500

Diiodinated tyrosine can be deiodinated, Rattus norvegicus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_110582

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Drosophila melanogaster
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_115316

Monoiodinated tyrosine can be deiodinated, Homo sapiens
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_15389

Diiodinated tyrosine can be deiodinated, Homo sapiens
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_15410

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Homo sapiens
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_17006

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Homo sapiens
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_17042

Diiodinated tyrosine can be deiodinated, Canis familiaris
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_29212

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Mus musculus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_30160

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Gallus gallus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_31762

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Bos taurus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_32960

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Mus musculus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_34705

Monoiodinated tyrosine can be deiodinated, Mus musculus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_44470

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Taeniopygia guttata
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_78923

Diiodinated tyrosine can be deiodinated, Gallus gallus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_84842

Monoiodinated tyrosine can be deiodinated, Xenopus tropicalis
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_86178

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Bos taurus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_88304

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Gallus gallus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_89057

Diiodinated tyrosine can be deiodinated, Xenopus tropicalis
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_90394

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Arabidopsis thaliana
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_91638

Monoiodinated tyrosine can be deiodinated, Gallus gallus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_91952

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Xenopus tropicalis
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_92075

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Canis familiaris
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_92434

Diiodinated tyrosine can be deiodinated, Drosophila melanogaster
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_93539

Diiodinated tyrosine can be deiodinated, Taeniopygia guttata
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_93974

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR2], Danio rerio
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_95169

Monoiodinated tyrosine can be deiodinated, Sus scrofa
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_95558

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Caenorhabditis elegans
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_95573

Diiodinated tyrosine can be deiodinated, Caenorhabditis elegans
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_97234

Diiodinated tyrosine can be deiodinated, Sus scrofa
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_97568

Diiodinated tyrosine can be deiodinated, Bos taurus
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_97851

Monoiodinated tyrosine can be deiodinated, Drosophila melanogaster
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_98022

palmitoyl-CoA + 2 NADPH + 2 H+ => hexadecanol + 2 NADP+ [FAR1], Oryza sativa
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_99085

Diiodinated tyrosine can be deiodinated, Danio rerio
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_99794

Monoiodinated tyrosine can be deiodinated, Taeniopygia guttata
type: Axiom
annotated source: oxidoreductase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_99989

participant
type: Class
definition: Something who takes part in a process (input,output or mediator)

post-translational protein modification
type: Class
subclass of: Biochemical Reaction
subclass of: cellular protein modification process
subclass of: protein modification process
subclass of: Restriction
  on property: has_output
  some values from: protein
IAO_0000115: The process of covalently altering one or more amino acids in a protein after the protein has been completely translated and released from the ribosome.
has db xref: Reactome:REACT_100887
has db xref: Reactome:REACT_101114
has db xref: Reactome:REACT_103281
has db xref: Reactome:REACT_103494
has db xref: Reactome:REACT_104966
has db xref: Reactome:REACT_105450
has db xref: Reactome:REACT_1069
has db xref: Reactome:REACT_109761
has db xref: Reactome:REACT_113592
has db xref: Reactome:REACT_22161
has db xref: Reactome:REACT_29658
has db xref: Reactome:REACT_31587
has db xref: Reactome:REACT_31741
has db xref: Reactome:REACT_33179
has db xref: Reactome:REACT_33269
has db xref: Reactome:REACT_33662
has db xref: Reactome:REACT_34647
has db xref: Reactome:REACT_78360
has db xref: Reactome:REACT_78573
has db xref: Reactome:REACT_81500
has db xref: Reactome:REACT_81635
has db xref: Reactome:REACT_82133
has db xref: Reactome:REACT_82385
has db xref: Reactome:REACT_83056
has db xref: Reactome:REACT_83451
has db xref: Reactome:REACT_83761
has db xref: Reactome:REACT_85268
has db xref: Reactome:REACT_87023
has db xref: Reactome:REACT_88089
has db xref: Reactome:REACT_88325
has db xref: Reactome:REACT_89018
has db xref: Reactome:REACT_91093
has db xref: Reactome:REACT_91222
has db xref: Reactome:REACT_91597
has db xref: Reactome:REACT_96864
has db xref: Wikipedia:Posttranslational_modification
has exact synonym: PTM
has exact synonym: post-translational amino acid modification
has exact synonym: post-translational modification
has exact synonym: posttranslational amino acid modification
has exact synonym: posttranslational modification
has exact synonym: posttranslational protein modification
has OBO namespace: biological_process
id: GO:0043687
in subset: gosubset prok
comment: This term should only be used to annotate a protein modification process that occurs after the protein has been released from the ribosome, and is therefore strictly post-translational. Modification of a free protein (one not attached to a ribosome) and modification of a C-terminal residue are post-translational processes. Some protein modifications occur while the protein is still in the ribosome but before translation has been completed; these modification processes are considered co-translational and should not be annotated using this term.

Axiom
annotated source: post-translational protein modification
annotated property: IAO_0000115
annotated target: The process of covalently altering one or more amino acids in a protein after the protein has been completely translated and released from the ribosome.
has db xref: GOC:jsg

Post-translational protein modification, Canis familiaris
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_100887

Post-translational protein modification, Arabidopsis thaliana
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_101114

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Saccharomyces cerevisiae
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_103281

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Schizosaccharomyces pombe
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_103494

Post-translational protein modification, Saccharomyces cerevisiae
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_104966

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Danio rerio
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_105450

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Homo sapiens
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_1069

Post-translational protein modification, Gallus gallus
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_109761

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Caenorhabditis elegans
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_113592

Post-translational protein modification, Homo sapiens
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_22161

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Gallus gallus
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_29658

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Drosophila melanogaster
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_31587

Post-translational protein modification, Dictyostelium discoideum
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_31741

Post-translational protein modification, Danio rerio
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_33179

Post-translational protein modification, Taeniopygia guttata
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_33269

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Oryza sativa
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_33662

Post-translational protein modification, Xenopus tropicalis
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_34647

Post-translational protein modification, Sus scrofa
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_78360

Post-translational protein modification, Caenorhabditis elegans
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_78573

Post-translational protein modification, Schizosaccharomyces pombe
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_81500

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Mus musculus
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_81635

Post-translational protein modification, Bos taurus
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_82133

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Xenopus tropicalis
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_82385

Post-translational protein modification, Plasmodium falciparum
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_83056

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Taeniopygia guttata
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_83451

Post-translational protein modification, Drosophila melanogaster
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_83761

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Sus scrofa
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_85268

Post-translational protein modification, Mus musculus
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_87023

Post-translational protein modification, Rattus norvegicus
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_88089

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Canis familiaris
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_88325

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Rattus norvegicus
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_89018

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Bos taurus
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_91093

Post-translational protein modification, Oryza sativa
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_91222

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Arabidopsis thaliana
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_91597

PTM: gamma carboxylation, hypusine formation and arylsulfatase activation, Dictyostelium discoideum
type: Axiom
annotated source: post-translational protein modification
annotated property: hasDbXref
annotated target: Reactome:REACT_96864

product
type: Class
subclass of: non-gene product
def: Substance that is produced in a reaction. In a chemical\nequation the Products are the elements or compounds on the right hand side\nof the reaction equation. A product can be produced and consumed by the\nsame reaction, its global quantity remaining unchanged.

Axiom
annotated source: product
annotated property: def
annotated target: Substance that is produced in a reaction. In a chemical\nequation the Products are the elements or compounds on the right hand side\nof the reaction equation. A product can be produced and consumed by the\nsame reaction, its global quantity remaining unchanged.
xref: NR

prosthetic group
type: Class
subclass of: cofactor
IAO_0000115: A tightly bound, specific nonpolypeptide unit in a protein determining and involved in its biological activity.
has exact synonym: prosthetic group
has OBO namespace: chebi_ontology
has related synonym: groupe prosthetique
has related synonym: prosthetic groups
id: CHEBI:26348
in subset: 3 STAR

Axiom
annotated source: prosthetic group
annotated property: hasExactSynonym
annotated target: prosthetic group
has db xref: IUPAC
has synonym type: IUPAC NAME

Axiom
annotated source: prosthetic group
annotated property: hasRelatedSynonym
annotated target: groupe prosthetique
has db xref: IUPAC

Axiom
annotated source: prosthetic group
annotated property: hasRelatedSynonym
annotated target: prosthetic groups
has db xref: ChEBI

protein
type: Class
subclass of: Gene Product
IAO_0000115: A biological macromolecule minimally consisting of one polypeptide chain synthesized at the ribosome.
has alternative id: CHEBI:13677
has alternative id: CHEBI:14911
has exact synonym: proteins
has OBO namespace: chebi_ontology
id: CHEBI:36080
in subset: 3 STAR

Axiom
annotated source: protein
annotated property: hasExactSynonym
annotated target: proteins
has db xref: IUPAC
has synonym type: IUPAC NAME

protein-cofactor complex
type: Class
subclass of: protein complex
subclass of: Restriction
  on property: has_molecular_part
  some values from: cofactor
is defined by: a complex involving a protein and a cofactor

protein activation cascade
type: Class
subclass of: protein modification pathway
subclass of: Restriction
  on property: ends_with
  some values from: Activation
IAO_0000115: A response to a stimulus that consists of a sequential series of modifications to a set of proteins where the product of one reaction acts catalytically in the following reaction. The magnitude of the response is typically amplified at each successive step in the cascade. Modifications typically include proteolysis or covalent modification, and may also include binding events.
created by: midori
creation date: 2010-11-22T02:54:18Z
has exact synonym: protein activation pathway
has exact synonym: protein activitory cascade
has OBO namespace: biological_process
id: GO:0072376

Axiom
annotated source: protein activation cascade
annotated property: IAO_0000115
annotated target: A response to a stimulus that consists of a sequential series of modifications to a set of proteins where the product of one reaction acts catalytically in the following reaction. The magnitude of the response is typically amplified at each successive step in the cascade. Modifications typically include proteolysis or covalent modification, and may also include binding events.
has db xref: GOC:add
has db xref: GOC:mah
has db xref: GOC:pde

Axiom
annotated source: protein activation cascade
annotated property: hasExactSynonym
annotated target: protein activation pathway
has db xref: GOC:add

Axiom
annotated source: protein activation cascade
annotated property: hasExactSynonym
annotated target: protein activitory cascade
has db xref: GOC:add

protein binding
type: Class
subclass of: binding
IAO_0000115: Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
has alternative id: GO:0045308
has db xref: Reactome:REACT_100287
has db xref: Reactome:REACT_101129
has db xref: Reactome:REACT_102084
has db xref: Reactome:REACT_102457
has db xref: Reactome:REACT_103972
has db xref: Reactome:REACT_104029
has db xref: Reactome:REACT_104599
has db xref: Reactome:REACT_105776
has db xref: Reactome:REACT_105895
has db xref: Reactome:REACT_106168
has db xref: Reactome:REACT_106189
has db xref: Reactome:REACT_107402
has db xref: Reactome:REACT_108283
has db xref: Reactome:REACT_109392
has db xref: Reactome:REACT_110419
has db xref: Reactome:REACT_110570
has db xref: Reactome:REACT_15321
has db xref: Reactome:REACT_15325
has db xref: Reactome:REACT_15355
has db xref: Reactome:REACT_15417
has db xref: Reactome:REACT_15419
has db xref: Reactome:REACT_15506
has db xref: Reactome:REACT_15541
has db xref: Reactome:REACT_20509
has db xref: Reactome:REACT_20539
has db xref: Reactome:REACT_28794
has db xref: Reactome:REACT_30571
has db xref: Reactome:REACT_30672
has db xref: Reactome:REACT_31305
has db xref: Reactome:REACT_31537
has db xref: Reactome:REACT_31641
has db xref: Reactome:REACT_31648
has db xref: Reactome:REACT_32973
has db xref: Reactome:REACT_33135
has db xref: Reactome:REACT_34719
has db xref: Reactome:REACT_6923
has db xref: Reactome:REACT_6945
has db xref: Reactome:REACT_78382
has db xref: Reactome:REACT_78466
has db xref: Reactome:REACT_79634
has db xref: Reactome:REACT_80470
has db xref: Reactome:REACT_80778
has db xref: Reactome:REACT_83147
has db xref: Reactome:REACT_83165
has db xref: Reactome:REACT_83532
has db xref: Reactome:REACT_85250
has db xref: Reactome:REACT_85858
has db xref: Reactome:REACT_85975
has db xref: Reactome:REACT_87187
has db xref: Reactome:REACT_87374
has db xref: Reactome:REACT_87652
has db xref: Reactome:REACT_88068
has db xref: Reactome:REACT_88138
has db xref: Reactome:REACT_88223
has db xref: Reactome:REACT_89261
has db xref: Reactome:REACT_90027
has db xref: Reactome:REACT_90105
has db xref: Reactome:REACT_90666
has db xref: Reactome:REACT_91560
has db xref: Reactome:REACT_92029
has db xref: Reactome:REACT_93175
has db xref: Reactome:REACT_93938
has db xref: Reactome:REACT_94522
has db xref: Reactome:REACT_94808
has db xref: Reactome:REACT_95241
has db xref: Reactome:REACT_95561
has db xref: Reactome:REACT_95647
has db xref: Reactome:REACT_96236
has db xref: Reactome:REACT_96264
has db xref: Reactome:REACT_98028
has db xref: Reactome:REACT_98807
has exact synonym: protein amino acid binding
has narrow synonym: protein folding chaperone
has OBO namespace: molecular_function
has related synonym: alpha-2 macroglobulin receptor-associated protein activity
has related synonym: protein degradation tagging activity

Axiom
annotated source: protein binding
annotated property: IAO_0000115
annotated target: Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
has db xref: GOC:go_curators

Formation of the IGF:IGFBP-4 Complex, Canis familiaris
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_100287

Formation of the IGF:IGFBP-3:ALS Complex, Rattus norvegicus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_101129

Formation of the IGF:IGFBP-5:ALS Complex, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_102084

An anchoring protein, SARA, recruits SMAD2/3, Canis familiaris
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_102457

Type II receptor recruits type I receptor, Xenopus tropicalis
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_103972

Formation of the IGF:IGFBP-6 Complex, Bos taurus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_104029

Type II receptor recruits type I receptor, Sus scrofa
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_104599

Formation of the IGF:IGFBP-3:ALS Complex, Danio rerio
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_105776

Formation of the IGF:IGFBP-4 Complex, Bos taurus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_105895

Formation of the IGF:IGFBP-2 Complex, Bos taurus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_106168

Formation of the IGF:IGFBP-5:ALS Complex, Gallus gallus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_106189

Formation of the IGF:IGFBP-4 Complex, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_107402

Formation of the IGF:IGFBP-4 Complex, Xenopus tropicalis
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_108283

Formation of the IGF:IGFBP-3:ALS Complex, Gallus gallus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_109392

Type II receptor recruits type I receptor, Bos taurus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_110419

Formation of the IGF:IGFBP-3:ALS Complex, Sus scrofa
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_110570

Formation of the IGF:IGFBP-1 Complex, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_15321

Formation of the IGF:IGFBP-4 Complex, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_15325

Formation of the IGF:IGFBP-5:ALS Complex, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_15355

Formation of the IGF:IGFBP-3:ALS Complex, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_15417

Formation of the IGF:IGFBP-2 Complex, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_15419

Formation of the IGF:IGFBP-6 Complex, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_15506

Traversal of the cortical actin network and docking at plasma membrane, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_15541

Exocytosis of Insulin, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_20509

Traversal of the cortical actin network., Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_20539

Formation of the IGF:IGFBP-4 Complex, Sus scrofa
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_28794

Formation of the IGF:IGFBP-6 Complex, Danio rerio
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_30571

Formation of the IGF:IGFBP-2 Complex, Taeniopygia guttata
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_30672

Formation of the IGF:IGFBP-3:ALS Complex, Taeniopygia guttata
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_31305

Formation of the IGF:IGFBP-6 Complex, Rattus norvegicus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_31537

Type II receptor recruits type I receptor, Danio rerio
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_31641

An anchoring protein, SARA, recruits SMAD2/3, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_31648

Formation of the IGF:IGFBP-1 Complex, Canis familiaris
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_32973

An anchoring protein, SARA, recruits SMAD2/3, Rattus norvegicus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_33135

Formation of the IGF:IGFBP-1 Complex, Danio rerio
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_34719

An anchoring protein, SARA, recruits SMAD2/3, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_6923

Type II receptor recruits type I receptor, Homo sapiens
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_6945

Formation of the IGF:IGFBP-1 Complex, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_78382

Formation of the IGF:IGFBP-6 Complex, Canis familiaris
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_78466

Formation of the IGF:IGFBP-5:ALS Complex, Canis familiaris
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_79634

Formation of the IGF:IGFBP-1 Complex, Rattus norvegicus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_80470

Type II receptor recruits type I receptor, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_80778

Type II receptor recruits type I receptor, Rattus norvegicus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_83147

Formation of the IGF:IGFBP-5:ALS Complex, Sus scrofa
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_83165

Formation of the IGF:IGFBP-2 Complex, Xenopus tropicalis
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_83532

Formation of the IGF:IGFBP-2 Complex, Canis familiaris
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_85250

Formation of the IGF:IGFBP-2 Complex, Gallus gallus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_85858

An anchoring protein, SARA, recruits SMAD2/3, Danio rerio
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_85975

An anchoring protein, SARA, recruits SMAD2/3, Xenopus tropicalis
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_87187

Formation of the IGF:IGFBP-6 Complex, Sus scrofa
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_87374

Formation of the IGF:IGFBP-5:ALS Complex, Bos taurus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_87652

Formation of the IGF:IGFBP-3:ALS Complex, Canis familiaris
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_88068

Formation of the IGF:IGFBP-5:ALS Complex, Danio rerio
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_88138

Formation of the IGF:IGFBP-1 Complex, Sus scrofa
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_88223

Formation of the IGF:IGFBP-4 Complex, Taeniopygia guttata
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_89261

Formation of the IGF:IGFBP-2 Complex, Rattus norvegicus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_90027

Formation of the IGF:IGFBP-1 Complex, Xenopus tropicalis
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_90105

An anchoring protein, SARA, recruits SMAD2/3, Sus scrofa
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_90666

Type II receptor recruits type I receptor, Canis familiaris
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_91560

Formation of the IGF:IGFBP-4 Complex, Rattus norvegicus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_92029

Formation of the IGF:IGFBP-1 Complex, Gallus gallus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_93175

Formation of the IGF:IGFBP-5:ALS Complex, Rattus norvegicus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_93938

Formation of the IGF:IGFBP-5:ALS Complex, Taeniopygia guttata
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_94522

Formation of the IGF:IGFBP-6 Complex, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_94808

Formation of the IGF:IGFBP-3:ALS Complex, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_95241

Formation of the IGF:IGFBP-5:ALS Complex, Xenopus tropicalis
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_95561

Formation of the IGF:IGFBP-3:ALS Complex, Bos taurus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_95647

Formation of the IGF:IGFBP-2 Complex, Mus musculus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_96236

Formation of the IGF:IGFBP-2 Complex, Danio rerio
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_96264

Formation of the IGF:IGFBP-1 Complex, Taeniopygia guttata
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_98028

An anchoring protein, SARA, recruits SMAD2/3, Bos taurus
type: Axiom
annotated source: protein binding
annotated property: hasDbXref
annotated target: Reactome:REACT_98807

Axiom
annotated source: protein binding
annotated property: hasNarrowSynonym
annotated target: protein folding chaperone
has db xref: GOC:dph
has db xref: GOC:mah
has db xref: GOC:tb

protein carbamoylation
type: Class
subclass of: cellular protein modification process
subclass of: spontaneous addition of a chemical group
subclass of: Restriction
  on property: has_input
  all values from: Class
    union of: prosthetic group
    union of: protein
subclass of: Restriction
  on property: has_output
  all values from: Class
    union of: carbamoylated protein
    union of: metabolite
IAO_0000115: The addition of a carbamoyl group to a protein amino acid. A carbamoyl group is the acyl group -CO-NH2.
has exact synonym: protein amino acid carbamoylation
has OBO namespace: biological_process
id: GO:0046944
in subset: gosubset prok

Axiom
annotated source: protein carbamoylation
annotated property: IAO_0000115
annotated target: The addition of a carbamoyl group to a protein amino acid. A carbamoyl group is the acyl group -CO-NH2.
has db xref: GOC:ai

Axiom
annotated source: protein carbamoylation
annotated property: hasExactSynonym
annotated target: protein amino acid carbamoylation
has db xref: GOC:bf

protein chaperoning activity
type: Class
subclass of: mediated activity
is defined by: activity of a process that assists the maturation of a protein

protein complex
type: Class
subclass of: non-covalent complex
subclass of: protein
subclass of: Restriction
  on property: has_molecular_part
  some values from: Protein Complex Subunit
disjoint with: simple protein
IAO_0000115: A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
has db xref: Wikipedia:Protein_complex
has exact synonym: protein-protein complex
has OBO namespace: cellular_component
id: GO:0043234
in subset: goslim chembl
in subset: goslim generic
in subset: goslim pir
in subset: gosubset prok
comment: A protein complex in this context is meant as a stable set of interacting proteins which can be co-purified by an acceptable method, and where the complex has been shown to exist as an isolated, functional unit in vivo. Acceptable experimental methods include stringent protein purification followed by detection of protein interaction. The following methods should be considered non-acceptable: simple immunoprecipitation, pull-down experiments from cell extracts without further purification, colocalization and 2-hybrid screening. Interactions that should not be captured as protein complexes include: 1) enzyme/substrate, receptor/ligand or any similar transient interactions, unless these are a critical part of the complex assembly or are required e.g. for the receptor to be functional; 2) proteins associated in a pull-down/co-immunoprecipitation assay with no functional link or any evidence that this is a defined biological entity rather than a loose-affinity complex; 3) any complex where the only evidence is based on genetic interaction data; 4) partial complexes, where some subunits (e.g. transmembrane ones) cannot be expressed as recombinant proteins and are excluded from experiments (in this case, independent evidence is necessary to find out the composition of the full complex, if known). Interactions that may be captured as protein complexes include: 1) enzyme/substrate or receptor/ligand if the complex can only assemble and become functional in the presence of both classes of subunits; 2) complexes where one of the members has not been shown to be physically linked to the other(s), but is a homologue of, and has the same functionality as, a protein that has been experimentally demonstrated to form a complex with the other member(s); 3) complexes whose existence is accepted based on localization and pharmacological studies, but for which experimental evidence is not yet available for the complex as a whole.

Axiom
annotated source: protein complex
annotated property: IAO_0000115
annotated target: A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
has db xref: GOC:go_curators
has db xref: http://www.ebi.ac.uk/intact/complex/documentation/

protein complex assembly
type: Class
subclass of: protein complex subunit organization
subclass of: non-covalent binding
subclass of: Restriction
  on property: has_output
  max qualified cardinality: 1
  on class: protein complex
IAO_0000115: The aggregation, arrangement and bonding together of a set of components to form a protein complex.
has exact synonym: protein complex formation
has OBO namespace: biological_process
has related synonym: chaperone activity
id: GO:0006461
in subset: goslim chembl
in subset: goslim generic
in subset: goslim pombe
in subset: gosubset prok

Axiom
annotated source: protein complex assembly
annotated property: IAO_0000115
annotated target: The aggregation, arrangement and bonding together of a set of components to form a protein complex.
has db xref: GOC:ai

protein complex assembly chaperoning
type: Class
subclass of: protein chaperoning activity
is defined by: activity of a process that assists complex formation of proteins by other proteins

protein complex binding
type: Class
subclass of: protein binding
IAO_0000115: Interacting selectively and non-covalently with any protein complex (a complex of two or more proteins that may include other nonprotein molecules).
has OBO namespace: molecular_function
id: GO:0032403
in subset: goslim chembl

Axiom
annotated source: protein complex binding
annotated property: IAO_0000115
annotated target: Interacting selectively and non-covalently with any protein complex (a complex of two or more proteins that may include other nonprotein molecules).
has db xref: GOC:mah

protein complex disassembly
type: Class
subclass of: protein complex subunit organization
subclass of: dissociation
subclass of: Restriction
  on property: has_input
  some values from: protein complex
IAO_0000115: The disaggregation of a protein complex into its constituent components. Protein complexes may have other associated non-protein prosthetic groups, such as nucleic acids, metal ions or carbohydrate groups.
has OBO namespace: biological_process
id: GO:0043241
in subset: gosubset prok

Axiom
annotated source: protein complex disassembly
annotated property: IAO_0000115
annotated target: The disaggregation of a protein complex into its constituent components. Protein complexes may have other associated non-protein prosthetic groups, such as nucleic acids, metal ions or carbohydrate groups.
has db xref: GOC:jl

protein complex subunit organization
type: Class
subclass of: post-translational protein modification
IAO_0000115: Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein complex.
created by: midori
creation date: 2010-09-08T10:01:42Z
has exact synonym: protein complex subunit organisation
has OBO namespace: biological_process
id: GO:0071822

Axiom
annotated source: protein complex subunit organization
annotated property: IAO_0000115
annotated target: Any process in which macromolecules aggregate, disaggregate, or are modified, resulting in the formation, disassembly, or alteration of a protein complex.
has db xref: GOC:mah

Axiom
annotated source: protein complex subunit organization
annotated property: hasExactSynonym
annotated target: protein complex subunit organisation
has db xref: GOC:mah

protein disulfide
type: Class
subclass of: protein
has alternative id: CHEBI:14941
has alternative id: CHEBI:14952
has alternative id: CHEBI:8565
has db xref: KEGG:C02582
has exact synonym: Protein disulfide
has OBO namespace: chebi_ontology
has related synonym: 0
has related synonym: C7H9N3O3S2R2
has related synonym: [protein]-disulfide
has related synonym: protein disulfides
id: CHEBI:16249
in subset: 3 STAR

Axiom
annotated source: protein disulfide
annotated property: hasExactSynonym
annotated target: Protein disulfide
has db xref: KEGG_COMPOUND

Axiom
annotated source: protein disulfide
annotated property: hasRelatedSynonym
annotated target: 0
has db xref: ChEBI
has synonym type: CHARGE

Axiom
annotated source: protein disulfide
annotated property: hasRelatedSynonym
annotated target: C7H9N3O3S2R2
has db xref: KEGG_COMPOUND
has synonym type: FORMULA

Axiom
annotated source: protein disulfide
annotated property: hasRelatedSynonym
annotated target: [protein]-disulfide
has db xref: UniProt

Axiom
annotated source: protein disulfide
annotated property: hasRelatedSynonym
annotated target: protein disulfides
has db xref: ChEBI

protein dithiol
type: Class
subclass of: conjugated protein
has alternative id: CHEBI:14942
has alternative id: CHEBI:14953
has alternative id: CHEBI:8566
has db xref: KEGG:C02315
has exact synonym: Protein dithiol
has OBO namespace: chebi_ontology
has related synonym: 0
has related synonym: C7H11N3O3S2R2
has related synonym: [protein]-dithiol
has related synonym: protein dithiols
id: CHEBI:17999
in subset: 3 STAR

Axiom
annotated source: protein dithiol
annotated property: hasExactSynonym
annotated target: Protein dithiol
has db xref: KEGG_COMPOUND

Axiom
annotated source: protein dithiol
annotated property: hasRelatedSynonym
annotated target: 0
has db xref: ChEBI
has synonym type: CHARGE

Axiom
annotated source: protein dithiol
annotated property: hasRelatedSynonym
annotated target: C7H11N3O3S2R2
has db xref: KEGG_COMPOUND
has synonym type: FORMULA

Axiom
annotated source: protein dithiol
annotated property: hasRelatedSynonym
annotated target: [protein]-dithiol
has db xref: UniProt

Axiom
annotated source: protein dithiol
annotated property: hasRelatedSynonym
annotated target: protein dithiols
has db xref: ChEBI

protein folding
type: Class
subclass of: protein chaperoning activity
IAO_0000115: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
has alternative id: GO:0007022
has alternative id: GO:0007024
has alternative id: GO:0007025
has db xref: Reactome:REACT_100411
has db xref: Reactome:REACT_104912
has db xref: Reactome:REACT_105663
has db xref: Reactome:REACT_106009
has db xref: Reactome:REACT_106427
has db xref: Reactome:REACT_106894
has db xref: Reactome:REACT_106927
has db xref: Reactome:REACT_107029
has db xref: Reactome:REACT_108248
has db xref: Reactome:REACT_109411
has db xref: Reactome:REACT_110417
has db xref: Reactome:REACT_16956
has db xref: Reactome:REACT_17001
has db xref: Reactome:REACT_17004
has db xref: Reactome:REACT_17056
has db xref: Reactome:REACT_23878
has db xref: Reactome:REACT_30906
has db xref: Reactome:REACT_32155
has db xref: Reactome:REACT_32255
has db xref: Reactome:REACT_33395
has db xref: Reactome:REACT_77627
has db xref: Reactome:REACT_77963
has db xref: Reactome:REACT_78530
has db xref: Reactome:REACT_81155
has db xref: Reactome:REACT_83906
has db xref: Reactome:REACT_85492
has db xref: Reactome:REACT_85496
has db xref: Reactome:REACT_86318
has db xref: Reactome:REACT_91676
has db xref: Reactome:REACT_92785
has db xref: Reactome:REACT_92961
has db xref: Reactome:REACT_92981
has db xref: Reactome:REACT_94123
has db xref: Reactome:REACT_94443
has db xref: Reactome:REACT_94772
has db xref: Reactome:REACT_96773
has db xref: Reactome:REACT_97016
has db xref: Reactome:REACT_97220
has db xref: Reactome:REACT_98132
has db xref: 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 aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim generic
in subset: goslim metagenomics
in subset: goslim pir
in subset: goslim pombe
in subset: goslim yeast
in subset: gosubset prok

Axiom
annotated source: protein folding
annotated property: IAO_0000115
annotated target: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
has db xref: GOC:go_curators
has db xref: GOC:rb

Chaperonin-mediated protein folding, Arabidopsis thaliana
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_100411

Chaperonin-mediated protein folding, Caenorhabditis elegans
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_104912

Chaperonin-mediated protein folding, Rattus norvegicus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_105663

Chaperonin-mediated protein folding, Canis familiaris
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_106009

Chaperonin-mediated protein folding, Mus musculus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_106427

Formation of tubulin folding intermediates by CCT/TriC, Canis familiaris
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_106894

Chaperonin-mediated protein folding, Drosophila melanogaster
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_106927

Formation of tubulin folding intermediates by CCT/TriC, Drosophila melanogaster
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_107029

Chaperonin-mediated protein folding, Gallus gallus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_108248

Formation of tubulin folding intermediates by CCT/TriC, Bos taurus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_109411

Formation of tubulin folding intermediates by CCT/TriC, Rattus norvegicus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_110417

Formation of tubulin folding intermediates by CCT/TriC, Homo sapiens
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_16956

Formation of tubulin folding intermediates by CCT/TriC, Mus musculus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_17001

Chaperonin-mediated protein folding, Homo sapiens
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_17004

Cooperation of Prefoldin and TriC/CCT in actin and tubulin folding, Bos taurus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_17056

N-glycan trimming in the ER and Calnexin/Calreticulin cycle, Homo sapiens
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_23878

Chaperonin-mediated protein folding, Oryza sativa
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_30906

Chaperonin-mediated protein folding, Saccharomyces cerevisiae
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_32155

Chaperonin-mediated protein folding, Schizosaccharomyces pombe
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_32255

Formation of tubulin folding intermediates by CCT/TriC, Mus musculus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_33395

Chaperonin-mediated protein folding, Plasmodium falciparum
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_77627

Formation of tubulin folding intermediates by CCT/TriC, Saccharomyces cerevisiae
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_77963

Formation of tubulin folding intermediates by CCT/TriC, Gallus gallus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_78530

Formation of tubulin folding intermediates by CCT/TriC, Caenorhabditis elegans
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_81155

Chaperonin-mediated protein folding, Dictyostelium discoideum
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_83906

Formation of tubulin folding intermediates by CCT/TriC, Sus scrofa
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_85492

Formation of tubulin folding intermediates by CCT/TriC, Plasmodium falciparum
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_85496

Formation of tubulin folding intermediates by CCT/TriC, Arabidopsis thaliana
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_86318

Formation of tubulin folding intermediates by CCT/TriC, Schizosaccharomyces pombe
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_91676

Formation of tubulin folding intermediates by CCT/TriC, Dictyostelium discoideum
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_92785

Chaperonin-mediated protein folding, Xenopus tropicalis
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_92961

Chaperonin-mediated protein folding, Taeniopygia guttata
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_92981

Formation of tubulin folding intermediates by CCT/TriC, Taeniopygia guttata
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_94123

Formation of tubulin folding intermediates by CCT/TriC, Danio rerio
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_94443

Chaperonin-mediated protein folding, Sus scrofa
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_94772

Chaperonin-mediated protein folding, Danio rerio
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_96773

Chaperonin-mediated protein folding, Bos taurus
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_97016

Formation of tubulin folding intermediates by CCT/TriC, Xenopus tropicalis
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_97220

Formation of tubulin folding intermediates by CCT/TriC, Oryza sativa
type: Axiom
annotated source: protein folding
annotated property: hasDbXref
annotated target: Reactome:REACT_98132

Axiom
annotated source: protein folding
annotated property: hasNarrowSynonym
annotated target: alpha-tubulin folding
has db xref: GOC:mah

Axiom
annotated source: protein folding
annotated property: hasNarrowSynonym
annotated target: beta-tubulin folding
has db xref: GOC:mah

Axiom
annotated source: protein folding
annotated property: hasNarrowSynonym
annotated target: chaperonin-mediated tubulin folding
has db xref: GOC:mah

protein glutathionylation
type: Class
subclass of: cellular protein modification process
subclass of: mediated addition of a chemical group
subclass of: Transference
subclass of: Restriction
  on property: has_output
  all values from: Class
    union of: metabolite
    union of: protein dithiol
IAO_0000115: The protein modification process in which a glutathione molecule is added to a protein amino acid through a disulfide linkage.
has exact synonym: protein amino acid glutathionylation
has OBO namespace: biological_process
id: GO:0010731

Axiom
annotated source: protein glutathionylation
annotated property: IAO_0000115
annotated target: The protein modification process in which a glutathione molecule is added to a protein amino acid through a disulfide linkage.
has db xref: GOC:BHF
has db xref: GOC:dph
has db xref: GOC:rl
has db xref: GOC:tb

Axiom
annotated source: protein glutathionylation
annotated property: hasExactSynonym
annotated target: protein amino acid glutathionylation
has db xref: GOC:bf

protein maturation
type: Class
subclass of: protein modification process
IAO_0000115: Any process leading to the attainment of the full functional capacity of a protein.
has OBO namespace: biological_process
id: GO:0051604
in subset: goslim chembl
in subset: goslim generic
in subset: goslim pir
in subset: goslim pombe
in subset: goslim yeast
in subset: gosubset prok

Axiom
annotated source: protein maturation
annotated property: IAO_0000115
annotated target: Any process leading to the attainment of the full functional capacity of a protein.
has db xref: GOC:ai

protein maturation by iron-sulfur cluster transfer
type: Class
subclass of: protein maturation
IAO_0000115: The transfer of an assembled iron-sulfur cluster from a scaffold protein to an acceptor protein that contributes to the attainment of the full functional capacity of a protein.
created by: paola
creation date: 2012-11-15T09:59:06Z
has OBO namespace: biological_process
id: GO:0097428

Axiom
annotated source: protein maturation by iron-sulfur cluster transfer
annotated property: IAO_0000115
annotated target: The transfer of an assembled iron-sulfur cluster from a scaffold protein to an acceptor protein that contributes to the attainment of the full functional capacity of a protein.
has db xref: GOC:al
has db xref: GOC:mah
has db xref: PMID:11939799
has db xref: PMID:18322036
has db xref: PMID:21977977

protein maturation by protein folding
type: Class
subclass of: protein maturation
IAO_0000115: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure that results in the attainment of the full functional capacity of a protein.
has OBO namespace: biological_process
id: GO:0022417

Axiom
annotated source: protein maturation by protein folding
annotated property: IAO_0000115
annotated target: The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure that results in the attainment of the full functional capacity of a protein.
has db xref: GOC:isa_complete

protein modification process
type: Class
subclass of: Biochemical Process
subclass of: Restriction
  on property: has_input
  some values from: protein
IAO_0000115: The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
created by: rfoulger
creation date: 2012-04-26T01:47:12Z
has exact synonym: protein modification
has OBO namespace: biological_process
id: GO:0036211

Axiom
annotated source: protein modification process
annotated property: IAO_0000115
annotated target: The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
has db xref: GOC:bf
has db xref: GOC:jl

Axiom
annotated source: protein modification process
annotated property: hasExactSynonym
annotated target: protein modification
has db xref: GOC:bf

protein oxidation
type: Class
subclass of: cellular protein modification process
IAO_0000115: The modification of a protein amino acid by oxidation.
has exact synonym: protein amino acid oxidation
has OBO namespace: biological_process
id: GO:0018158
in subset: gosubset prok

Axiom
annotated source: protein oxidation
annotated property: IAO_0000115
annotated target: The modification of a protein amino acid by oxidation.
has db xref: GOC:ai

Axiom
annotated source: protein oxidation
annotated property: hasExactSynonym
annotated target: protein amino acid oxidation
has db xref: GOC:bf

protein phosphorylation
type: Class
subclass of: cellular protein modification process
subclass of: mediated addition of a chemical group
subclass of: Transference
subclass of: Restriction
  on property: has_output
  all values from: Class
    union of: Phosphoprotein
    union of: metabolite
IAO_0000115: The process of introducing a phosphate group on to a protein.
has exact synonym: protein amino acid phosphorylation
has OBO namespace: biological_process
id: GO:0006468
in subset: goslim yeast
in subset: gosubset prok

Axiom
annotated source: protein phosphorylation
annotated property: IAO_0000115
annotated target: The process of introducing a phosphate group on to a protein.
has db xref: GOC:hb

Axiom
annotated source: protein phosphorylation
annotated property: hasExactSynonym
annotated target: protein amino acid phosphorylation
has db xref: GOC:bf

removal of a chemical group
type: Class
subclass of: post-translational protein modification
def: Covalent reaction that results in the removal of a chemical group from a molecule.
comment: Added on September 13 2006 by Nicolas Le Novere based on Patika ontology.

Axiom
annotated source: removal of a chemical group
annotated property: def
annotated target: Covalent reaction that results in the removal of a chemical group from a molecule.
xref: NR

simple chemical dissociation
type: Class
subclass of: spontaneous dissociation
subclass of: Restriction
  on property: has_input
  all values from: multimer of simple chemicals
subclass of: Restriction
  on property: has_output
  all values from: non-gene product
definition: Dissociation of simple chemical non-covalent complex (simple chemical dissociation)
has related synonym: simple chemical dissociation

simple chemical non-covalent binding
type: Class
subclass of: spontaneous non-covalent binding
subclass of: Restriction
  on property: has_input
  all values from: non-gene product
subclass of: Restriction
  on property: has_output
  all values from: multimer of simple chemicals
subclass of: Restriction
  on property: requires
  all values from: metabolite binding
definition: Non-covalent binding between at least two metabolites.
has related synonym: metabolite non-covalent binding

simple protein
type: Class
subclass of: protein
has OBO namespace: chebi_ontology
has related synonym: simple proteins
id: CHEBI:38560
in subset: 3 STAR

Axiom
annotated source: simple protein
annotated property: hasRelatedSynonym
annotated target: simple proteins
has db xref: ChEBI

spontaneous activity
type: Class
subclass of: Activity
is defined by: activity that do not require other factors

spontaneous addition of a chemical group
type: Class
subclass of: addition of a chemical group
subclass of: spontaneous covalent reaction
subclass of: Restriction
  on property: has_output
  all values from: Class
    union of: conjugated protein
    union of: metabolite
subclass of: Restriction
  on property: has_input
  max qualified cardinality: 1
  on class: protein
subclass of: Restriction
  on property: has_output
  max qualified cardinality: 1
  on class: conjugated protein
is defined by: addition of a chemical group that do not require other factors

spontaneous cofactor recruitment
type: Class
subclass of: spontaneous protein complex assembly
subclass of: Restriction
  on property: has_input
  all values from: Class
    union of: cofactor
    union of: protein
is defined by: recruitment of a cofactor that do no requires other factor

spontaneous covalent reaction
type: Class
subclass of: biological spontaneous process
is defined by: formation of a covalent bond that do not require external factors

spontaneous dissociation
type: Class
subclass of: biological spontaneous process
subclass of: dissociation
subclass of: Restriction
  on property: has_input
  all values from: non-covalent complex
subclass of: Restriction
  on property: has_input
  max qualified cardinality: 1
  on class: non-covalent complex
is defined by: rupture of a covalent bond that does not require external factors

spontaneous metabolic reaction
type: Class
subclass of: Metabolic reaction
subclass of: biological spontaneous process
is defined by: metabolic reaction that do not require external factors

spontaneous non-covalent binding
type: Class
subclass of: biological spontaneous process
subclass of: non-covalent binding
subclass of: Restriction
  on property: has_output
  all values from: non-covalent complex
subclass of: Restriction
  on property: has_output
  max qualified cardinality: 1
  on class: non-covalent complex
is defined by: formation of a molecular interaction that does not require external factors

spontaneous protein-protein complex assembly
type: Class
subclass of: spontaneous protein complex assembly
subclass of: Restriction
  on property: has_input
  all values from: protein
is defined by: assembly of proteins in a complex (not involving cofactors) that do no require other factors

spontaneous protein-protein complex disassembly
type: Class
subclass of: spontaneous protein complex disassembly
subclass of: Restriction
  on property: has_output
  all values from: protein
is defined by: dissociation of polypeptidic chain from protein complex that do no require other factors

spontaneous protein complex assembly
type: Class
subclass of: protein complex assembly
subclass of: spontaneous non-covalent binding
subclass of: Restriction
  on property: has_output
  all values from: protein complex
subclass of: Restriction
  on property: requires
  all values from: protein binding
is defined by: assembly of proteins in a complex that do no require other factors

spontaneous protein complex disassembly
type: Class
subclass of: protein complex disassembly
subclass of: spontaneous dissociation
subclass of: Restriction
  on property: has_input
  all values from: protein complex
is defined by: dissociation of a protein with any bounded entity that do no require other factors

substrate
type: Class
subclass of: non-gene product
def: Molecule which is acted upon by an enzyme. The substrate binds with the enzyme's active site, and the enzyme catalyzes a chemical reaction involving the substrate.

Axiom
annotated source: substrate
annotated property: def
annotated target: Molecule which is acted upon by an enzyme. The substrate binds with the enzyme's active site, and the enzyme catalyzes a chemical reaction involving the substrate.
xref: NR

transfer of a chemical group
type: Class
subclass of: post-translational protein modification
def: Covalent reaction that results in the transfer of a chemical group from one molecule to another.
comment: created 21/10/08

Axiom
annotated source: transfer of a chemical group
annotated property: def
annotated target: Covalent reaction that results in the transfer of a chemical group from one molecule to another.
xref: NR

transfer of a disulfide bond
type: Class
subclass of: transfer of a chemical group
subclass of: Oxidation/Reduction
is defined by: loss of a disulfide bond that is compensated by a new one

transferase activity
type: Class
subclass of: catalytic activity
IAO_0000115: 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.
has db xref: EC:2
has db xref: Reactome:REACT_25050
has OBO namespace: molecular_function
id: GO:0016740
in subset: goslim aspergillus
in subset: goslim candida
in subset: goslim chembl
in subset: goslim metagenomics
in subset: goslim mouse
in subset: goslim pir
in subset: goslim plant
in subset: goslim yeast
in subset: gosubset prok

Axiom
annotated source: transferase activity
annotated property: IAO_0000115
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.
has db xref: ISBN:0198506732

Molybdenum ion transfer onto molybdopterin, Homo sapiens
type: Axiom
annotated source: transferase activity
annotated property: hasDbXref
annotated target: Reactome:REACT_25050

Pathway
type: Class
subclass of: biological process
subclass of: Restriction
  on property: has component process
  min qualified cardinality: 1
  on class: biological process
synonym: Pathway crosstalk network
synonym: crosstalk network
synonym: crosstalk pathway
synonym: interaction pathway
synonym: pathway of interaction
is defined by: A pathway is a collection/cascade of events, its initiation is triggered by some event and it results in some event/outcome. A pathway may have other pathways as its parts. More than 1 pathway may be triggered by the initial event or any intermediate event.

non-covalent binding
type: Class
subclass of: molecular interaction
subclass of: Restriction
  on property: has_output
  some values from: non-covalent complex
subclass of: Restriction
  on property: requires
  some values from: binding
def: Interaction between several biochemical entities that results in the formation of a non-covalent complex
synonym: association
comment: "non-covalent" added on February 26 2008 by Nicolas Le Novere.nadded synonym [SF req #3503970]

Axiom
annotated source: non-covalent binding
annotated property: def
annotated target: Interaction between several biochemical entities that results in the formation of a non-covalent complex
xref: NR

dissociation
type: Class
subclass of: molecular interaction
subclass of: Restriction
  on property: has_input
  some values from: non-covalent complex
def: Transformation of a non-covalent complex that results in the formation of several independent biochemical entities

Axiom
annotated source: dissociation
annotated property: def
annotated target: Transformation of a non-covalent complex that results in the formation of several independent biochemical entities
xref: NR

Hydrolysis
type: Class
subclass of: enzymatic reaction
subclass of: Restriction
  on property: mediated_by
  all values from: Hydrolase
subclass of: Restriction
  on property: requires
  all values from: hydrolase activity
def: "EC:3 catalyzed process" [EC:3.-.-.-]
xref analog: EC:3.-.-.-
xref analog: GO:0016787
synonym: "lyase activity"
synonym: ATP hydrolysis

molecular interaction
type: Class
subclass of: biological process
subclass of: Restriction
  on property: has_participant
  some values from: non-covalent complex
def: "Relationship between molecular entities, based on contacts, direct or indirect. [src_code:NR]
comment: Created on February 26 2008 by Nicolas Le Novere on the suggestion of Samuel Kerrien.

Ligation
type: Class
subclass of: enzymatic reaction
subclass of: Restriction
  on property: mediated_by
  all values from: Ligase
subclass of: Restriction
  on property: requires
  all values from: ligase activity
def: "EC:6 catalyzed process" [EC:6.-.-.-]
xref analog: EC:6.-.-.-
xref analog: GO:0016874

Transference
type: Class
subclass of: enzymatic reaction
subclass of: Restriction
  on property: mediated_by
  all values from: Transferase
subclass of: Restriction
  on property: requires
  all values from: transferase activity
def: "EC:2 catalyzed process" [EC:2.-.-.-]
xref analog: EC:2.-.-.-
xref analog: GO:0016740

Oxidation/Reduction
type: Class
subclass of: enzymatic reaction
subclass of: Restriction
  on property: mediated_by
  all values from: Oxidoreductase
subclass of: Restriction
  on property: requires
  all values from: oxidoreductase activity
def: "EC:1 catalyzed process" [EC:1.-.-.-]
xref analog: EC:1.-.-.-
xref analog: GO:0016491

Isomerization
type: Class
subclass of: enzymatic reaction
subclass of: Restriction
  on property: mediated_by
  all values from: Isomerase
subclass of: Restriction
  on property: requires
  all values from: isomerase activity
def: "EC:5 catalyzed process" [EC:5.-.-.-]
xref analog: EC:5.-.-.-
xref analog: GO:0016853

Lyase process
type: Class
subclass of: enzymatic reaction
subclass of: Restriction
  on property: mediated_by
  all values from: Lyase
subclass of: Restriction
  on property: requires
  all values from: lyase activity
def: "EC:4 catalyzed process\n\n[STKE:0456] Enzyme that catalyzes the cleavage of C-C, C-O, C-S, C-N or other bonds by other means than by hydrolysis or oxidation, with two substrates in one reaction direction, and one in the other. In the latter direction, a molecule (of carbon dioxide, water, etc) is eliminated, thus creating a new double bond or a new ring.\n\n[GO:0016829] 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." [GO:0016829, STKE:0456]
xref analog: EC:4.-.-.-
xref analog: GO:0016829
xref analog: STKE:0456

enzymatic reaction
type: Class
subclass of: biological mediated reaction
subclass of: Restriction
  on property: mediated_by
  all values from: Enzyme
subclass of: Restriction
  on property: requires
  all values from: catalytic activity
subclass of: Restriction
  on property: requires
  max qualified cardinality: 1
  on class: catalytic activity
def: "Terms aiming to represent biochemical reactions referring to their resulting product modifications." [MI:0414]
xref analog: MI:0414

protein modification pathway
type: Class
subclass of: Biochemical Pathway
subclass of: protein modification process
subclass of: Restriction
  on property: has component process
  all values from: protein modification process
xref analog: http://purl.obolibrary.org/obo/PW_0000432
synonym: pathway of protein modification
synonym: protein-modification pathway

ADP
type: NamedIndividual
type: non-gene product
has OBO IRI: http://purl.obolibrary.org/obo/CHEBI_16761

ATP
type: NamedIndividual
type: non-gene product
has OBO IRI: http://purl.obolibrary.org/obo/CHEBI_15422

phosphate(3-)
type: NamedIndividual
type: non-gene product
has OBO IRI: http://purl.obolibrary.org/obo/CHEBI_18367

proton
type: NamedIndividual
type: ion
has OBO IRI: http://purl.obolibrary.org/obo/CHEBI_24636

water
type: NamedIndividual
type: non-gene product
has OBO IRI: http://purl.obolibrary.org/obo/CHEBI_15377

depends_on
IAO_0000117: Chris Mungall