Has small molecular activator: Difference between revisions
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Back to [http://wiki.geneontology.org/index.php/Annotation_usage_examples_for_each_annotation_extension_relation Annotation usage examples for each annotation extension relation] | |||
==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== | ||
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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] | Back to [http://wiki.geneontology.org/index.php/Annotation_usage_examples_for_each_annotation_extension_relation Annotation usage examples for each annotation extension relation] |
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
Back to Annotation usage examples for each annotation extension relation