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. 2003 Dec 12;100(26):15428–15433. doi: 10.1073/pnas.2136809100

Table 1. Examples of predictions derived from the functional modules.

Type of prediction Confirmed through literature Novel prediction
Extensions to existing pathways (enzymatic) IspG and IspH; two additional enzymes in the nonmevalonate isoprenoid biosynthesis pathway. Known, but not yet in EcoCyc YqiA; an α—β hydrolase predicted to be associated to ubiquinone metabolism
Extensions to existing pathways (nonenzymatic) NarU and NarK; two nitrate/nitrite transporters linked with the nitrate reductase complex YbaD; a transcription factor possibly regulating riboflavin biosynthesis enzymes
Functional links between pathways A predicted link between the metabolism of selenocysteine, and formate dehydrogenase; the latter is known to contain selenocysteine A predicted link between coenzyme A biosynthesis and the metabolism of nucleotides. Supported by multiple observations
A functional link between nonmevalonate isoprenoid biosynthesis and the subsequent biosynthesis of polyisoprenoids A predicted link between phospholipid biosynthesis and thiamine biosynthesis: conserved neighborhood between pgpA and thiL
Entirely novel functional systems/pathways A large, conserved module consisting of enzymes needed to use ethanolamine as a carbon/nitrogen source. Not yet annotated in EcoCyc An uncharacterized, conserved functional module, containing the domains integrin I and AAA—ATPase. This combination of domains is known to occur in metal chelatases.