Difference between revisions of "Main Page"

From metabolic_network
Jump to navigation Jump to search
(Created page with "Category:Metabolite == Metabolite [http://metacyc.org/META/NEW-IMAGE?object=G3P G3P] == * common name: ** 3-phospho-D-glycerate * inchi key: ** InChIKey=OSJPPGNTCRNQQC-UWT...")
 
(Created page with "== UCOMGEM description == == Automatic reconstruction with [http://aureme.genouest.org AuReMe] == Model summary: summary Download '''AuReMe''' Input/Out...")
 
Line 1: Line 1:
−
[[Category:Metabolite]]
+
== UCOMGEM description ==
−
== Metabolite [http://metacyc.org/META/NEW-IMAGE?object=G3P G3P] ==
+
== Automatic reconstruction with [http://aureme.genouest.org AuReMe] ==
−
* common name:
+
Model summary: [[MEDIA:summary.txt|summary]]
−
** 3-phospho-D-glycerate
 
−
* inchi key:
 
−
** InChIKey=OSJPPGNTCRNQQC-UWTATZPHSA-K
 
−
* smiles:
 
−
** C(OP(=O)([O-])[O-])C(O)C(=O)[O-]
 
−
* molecular weight:
 
−
** 183.034   
 
−
* Synonym(s):
 
−
** 3-phospho-(R)-glycerate
 
−
** 3-phospho-D-glyceric acid
 
−
** 3-P-D-glycerate
 
−
** D-glycerate-3-P
 
−
** D-glycerate 3-phosphate
 
−
** 3-phosphoglycerate
 
−
** D-3-phosphoglycerate
 
  
−
== Reaction(s) known to consume the compound ==
+
Download '''AuReMe''' Input/Output [LINK OR MEDIA data]
−
== Reaction(s) known to produce the compound ==
+
 
−
* [[RXN-3443]]
+
The automatic reconstruction of ''Ulva compressa'' results to a Genome scale [[MEDIA:model.xml|Model]] containing 1117 reactions, 1391 metabolites, 1286 genes and 741 pathways. This GeM was obtained based on the following sources:
−
* [[RIBULOSE-BISPHOSPHATE-CARBOXYLASE-RXN]]
+
* Based on annotation data:
−
== Reaction(s) of unknown directionality ==
+
** Tool: [http://bioinformatics.ai.sri.com/ptools/ Pathway tools]
−
* [[3PGAREARR-RXN]]
+
*** Creation of a metabolic network containing 1117 reactions
−
* [[RXN-15511]]
+
* Based on orthology data:
−
* [[RXN-15513]]
+
** Tool: [http://pathtastic.gforge.inria.fr Pantograph]
−
* [[PHOSGLYPHOS-RXN]]
+
 
−
* [[PGLYCDEHYDROG-RXN]]
+
[[FILE:venn.png|frameless|border]]
−
== External links  ==
+
 
−
* PUBCHEM:
+
 
−
** [http://pubchem.ncbi.nlm.nih.gov/summary/summary.cgi?cid=25245548 25245548]
+
== Collaborative curation ==
−
* METABOLIGHTS : MTBLC58272
+
* Suggest reactions to add or remove:
−
* LIGAND-CPD:
+
** Download this [[MEDIA:Add_delete_reaction.csv|form]]
−
** [http://www.genome.jp/dbget-bin/www_bget?C00197 C00197]
+
* Suggest new reactions to create and add:
−
* GO-TERMS : (REFMET "3-Phosphoglyceric acid" NIL midford 3701443689 NIL NIL)
+
** Download this [[MEDIA:Reaction_creator.csv|form]]
−
* CAS : 820-11-1
+
* '''Follow the examples given in the form(s) to correctly share your suggestions'''
−
* BIGG : 3pg
+
* Send the filled form(s) to: gem-aureme[at]inria.fr
−
* HMDB : HMDB60180
 
−
* CHEBI:
 
−
** [http://www.ebi.ac.uk/chebi/searchId.do?chebiId=58272 58272]
 
−
{{#set: common name=3-phospho-D-glycerate}}
 
−
{{#set: inchi key=InChIKey=OSJPPGNTCRNQQC-UWTATZPHSA-K}}
 
−
{{#set: smiles=C(OP(=O)([O-])[O-])C(O)C(=O)[O-]}}
 
−
{{#set: molecular weight=183.034    }}
 
−
{{#set: common name=3-phospho-(R)-glycerate|3-phospho-D-glyceric acid|3-P-D-glycerate|D-glycerate-3-P|D-glycerate 3-phosphate|3-phosphoglycerate|D-3-phosphoglycerate}}
 
−
{{#set: produced by=RXN-3443|RIBULOSE-BISPHOSPHATE-CARBOXYLASE-RXN}}
 
−
{{#set: reversible reaction associated=3PGAREARR-RXN|RXN-15511|RXN-15513|PHOSGLYPHOS-RXN|PGLYCDEHYDROG-RXN}}
 

Latest revision as of 14:20, 15 January 2021

UCOMGEM description

Automatic reconstruction with AuReMe

Model summary: summary

Download AuReMe Input/Output [LINK OR MEDIA data]

The automatic reconstruction of Ulva compressa results to a Genome scale Model containing 1117 reactions, 1391 metabolites, 1286 genes and 741 pathways. This GeM was obtained based on the following sources:

  • Based on annotation data:
    • Tool: Pathway tools
      • Creation of a metabolic network containing 1117 reactions
  • Based on orthology data:

Venn.png


Collaborative curation

  • Suggest reactions to add or remove:
  • Suggest new reactions to create and add:
  • Follow the examples given in the form(s) to correctly share your suggestions
  • Send the filled form(s) to: gem-aureme[at]inria.fr
Retrieved from "http://gem-aureme.genouest.org//ucomgem/index.php?title=Main_Page&oldid=7998"