Has small molecular activator: Difference between revisions

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==Definition==
==Definition==


Identifies a chemical substance that increases the activity of the gene product.
Identifies a chemical substance that increases the activity of the gene product.
==Comment==
This relation should not be used to annotate one gene product regulating another's activity; a regulator Molecular Function or regulation Biological Process should be used in such cases.
==Synonyms==
activated_by_chemical (EXACT)
activated_by_substance (EXACT)
activity_increased_by (EXACT)


==Child terms==
==Child terms==
Line 17: Line 32:
CHEBI:24431 ! chemical entity  
CHEBI:24431 ! chemical entity  


==Annotation Extension Usage Examples==
== Annotation Extension Usage Examples ==
 
=== Specifying that a gene product is activated by a specific chemical ===
 
1. zinc activated ligand-gated ion channel (ZACN) is activated by Zn2+, PMID:12381728
 
So the annotation would be:
 
{| class="wikitable" border="1"
!DB (Col 2)
!Object (Col 3)
!GO ID (Col 5)
!Reference (Col 6)
!Extension (Col 16)
|-
|Q401N2
|ZACN
|GO:0048471
|PMID:12381728
|activated_by (ChEBI:29105, zinc ions)
|-
|}
 
== Using examples to demonstrate [[Folding_and_Unfolding]] using the relationship activated_by ==
 
1. zinc activated ligand-gated ion channel (ZACN) is activated by Zn2+, PMID:12381728
 
{| class="wikitable" border="1"
! Folded/unfolded
!DB (Col 2)
!Object (Col 3)
!GO ID (Col 5)
!Reference (Col 6)
!Extension (Col 16)
!Parent terms for new folded GO term
|-
| Unfolded
|Q401N2
|ZACN
|GO:0048471 <span style="color:green">ligand-gated ion channel activity</span>
|PMID:12381728
|activated_by (ChEBI:29105, <span style="color:green">zinc ions</span>)
|
|-
| Folded
|Q401N2
|ZACN
|New GO term <span style="color:green">zinc-gated ion channel activity</span>
|PMID:12381728
|
|is_a GO:0048471 <span style="color:red">ligand-gated ion channel activity</span>
|-
|}
 
'''OWL class expression:''' GO:0006509 <span style="color:red">ligand-gated ion channel activity</span> AND activated_by SOME ChEBI:29105 <span style="color:red">zinc ions</span>
----
Back to [http://wiki.geneontology.org/index.php/Annotation_usage_examples_for_each_annotation_extension_relation  Annotation usage examples for each annotation extension relation]
 
[[Category:relations]]
[[Category:annotation extension]]

Revision as of 10:23, 9 April 2019

Back to Annotation usage examples for each annotation extension relation


Definition

Identifies a chemical substance that increases the activity of the gene product.

Comment

This relation should not be used to annotate one gene product regulating another's activity; a regulator Molecular Function or regulation Biological Process should be used in such cases.

Synonyms

activated_by_chemical (EXACT)

activated_by_substance (EXACT)

activity_increased_by (EXACT)

Child terms

  • None.

Scope of use

Domain

GO:0003674 ! molecular_function

Range

CHEBI:24431 ! chemical entity

Annotation Extension Usage Examples

Specifying that a gene product is activated by a specific chemical

1. zinc activated ligand-gated ion channel (ZACN) is activated by Zn2+, PMID:12381728

So the annotation would be:

DB (Col 2) Object (Col 3) GO ID (Col 5) Reference (Col 6) Extension (Col 16)
Q401N2 ZACN GO:0048471 PMID:12381728 activated_by (ChEBI:29105, zinc ions)

Using examples to demonstrate Folding_and_Unfolding using the relationship activated_by

1. zinc activated ligand-gated ion channel (ZACN) is activated by Zn2+, PMID:12381728

Folded/unfolded DB (Col 2) Object (Col 3) GO ID (Col 5) Reference (Col 6) Extension (Col 16) Parent terms for new folded GO term
Unfolded Q401N2 ZACN GO:0048471 ligand-gated ion channel activity PMID:12381728 activated_by (ChEBI:29105, zinc ions)
Folded Q401N2 ZACN New GO term zinc-gated ion channel activity PMID:12381728 is_a GO:0048471 ligand-gated ion channel activity

OWL class expression: GO:0006509 ligand-gated ion channel activity AND activated_by SOME ChEBI:29105 zinc ions


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