a Fedora server for exploration of metabolism and as an index to data from other sources
a computer model of the paper-based metabolic pathway
chart by Gerhard Michal
data is organized into 9 data types:
Landmarks point general area of a particular metabolism,
i.e. Histidine metabolism
Compounds are reactants and products of steps, include structures with stereochemistry, i.e.
L-Histidine
Cofactors are additional reactants and products; usually drive the step energetically, i.e.
ATP
Enzymes are primary catalysts; most steps enzymatic, some nonenzymatic, EC numbers included, i.e. Histidine ammonia lyase
Agents are nonenzymatic catalysts; usually metal ions, i.e.
Regulators are substances that enhance or supress a step; fast or slow action on enzyme, i.e. AMP
Diseases are associated with steps, i.e. Histidinemia
Steps are metabolic reactions; include all the above; differentiated on the basis of direction (unidirectional vs reversible), catabolism vs anabolism, and on the basis of species (monocellular organisms, animals, plants or across all species)
Pathways are sequences of life essential steps and/or across all species; terminal/excretory products; i.e. Hidantoin propionate in Histidine degradation pathway