Annotation Extension Relation:requires substance

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THIS RELATION IS DEPRECATED

 

==Definition==

The annotated gene product participates in a Biological Process or executes a Molecular Function only in presence of a substance

==Child terms==

None

==Scope of use==

===Domain===

BFO:0000007 ! process  (Biological Process or Molecular Function)

===Range===

CHEBI:24431 ! chemical entity 

=== DEPRECATION WARNING ===

The GO editors have agreed that this relation should be deprecated.  The relation does not extend the meaning of the GO term, as annotation relations are meant to, but instead specifies conditions under which the annotation is true.  This can not be expressed in OWL.  Annotation extensions using this relation will not fold.

==Annotation Extension Usage Examples==

'''Gene product has activity only when a particular substance is present'''

Statement in paper;

''We investigated whether the reducing equivalents required for the presumed peroxidase activity of PrxV could be provided by the Trx system (Trx, TrxR, and NADPH) or the Grx system (Grx, GSH, GSH reductase, and NADPH). The rate of H2O2 degradation was measured by monitoring the decrease in A340 attributable to the oxidation of NADPH. PrxV catalyzed the H2O2-dependent oxidation of NADPH in the presence of the Trx system (Fig. 3)...In contrast, the Grx system did not support the H2O2-dependent oxidation of NADPH by PrxV.''

Expressed in LEGO: http://go-genkisugi.rhcloud.com/seed/model/gomodel:taxon_9606-5437882f0000034

{| class="wikitable" border="1"
|-
! Gene Name (col 2)
! GO ID (col 5)
! Reference (col 6)
! Evidence (col 7)
! Annotation Extension (col 16)
|-
| P30044-2
| GO:0051920 <span style="color:green">peroxiredoxin activity</span>
| PMID:10751410
| IDA
| 
requires_substance(CHEBI:15033 <span style="color:green">thioredoxin</span>)

|}

'''Protein binding is dependent on a particular substance'''

Statement in paper;

''Changing [Ca2+]i Alters the Interaction between IQGAP1 and Calmodulin. The reduced interaction between IQGAP1 and B-Raf in cells produced by increasing [Ca2+]i suggests the following mechanism: increasing [Ca2+]i enhances the binding of calmodulin to IQGAP1 (21), which attenuates binding of B-Raf to IQGAP1. To address this possibility, we examined co-immunoprecipitation of calmodulin with IQGAP1. Consistent with our model, A23187 increases by ~3-fold the amount of calmodulin that co-immunoprecipitates with IQGAP1 (Fig. 8).''

Expressed in LEGO: http://go-genkisugi.rhcloud.com/seed/model/gomodel:taxon_9606-5437882f0000024

{| class="wikitable" border="1"
|-
! Gene Name (col 2)
! GO ID (col 5)
! Reference (col 6)
! Evidence (col 7)
! With (col 8)
! Annotation Extension (col 16)
|-
| P46940
| GO:0005516 <span style="color:green">calmodulin binding</span>
| PMID:18567582
| IPI
| P62158 <span style="color:green">calmodulin</span>
| 
requires_substance(CHEBI:29108 <span style="color:green">calcium 2+</span>)

|}

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