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PUMA2 is not being maintained or updated by Argonne National Laboratory and will be taken down in the near future.
If there is any data here that you wish to preserve, you are responsible for downloading it.
An overview of the bioinformatics research being conducted at the Mathematics and Computer Science Division is available at this page.
 
METABOLIC RECONSTRUCTION
 
  Identification of gene functions allows reconstruction of metabolic networks that potentially exist in an organism. For example, if all the enzymes known to be involved in a glycolytic pathway are present, this suggests the possibility that this pathway may be carried out by the organism under consideration. Such metabolic models represent valuable scientific hypotheses regarding an organism’s physiology and facilitate experimental planning.

PUMA2 Integrated Pathway Environment: PUMA2 matabolic reconstructions have been constructed for 297 organisms for which the complete genome sequence is known. The reconstructions are based on 2 excellent metabolic pathway databases, EMP and KEGG. Functional annotations that are used for pathway construction come from 3 diferent sources: UniProt, KEGG and RefSeq (Order of annotation priority is: UniProt > KEGG > RefSeq). 		 
 
 
Sort By: SUPER-KINGDOM KINGDOM Org Name
 Select an organism for metabolic reconstruction

SUPER-KINGDOM        KINGDOM          Org Name
 
 
  Pathway Reconstruction: The Metabolic Pathways from each database are presented in a hierarchy and are linked to organism specific reconstructions. These organism models contain information about the enzymes (gi, locus, gene-id, function, annotation source) of a pathway, number of reactions found, and graphical representation of the pathway.

Comparative pathway analysis: Evolutionary analysis of a wide spectrum of diverse organisms is essential for understanding their mechanisms of adaptation to the environment. Taxonomic comparisons of metabolic pathway allows for identification of conserved and missing reactions. Each pathway comparison page in PUMA2 provides information about the enzymatic proteins found in all the selected pathway and organisms.



  
 
 

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