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Metabolic network is one of the important classes of biological networks, consisting of enzymatic reactions involving substrates and products. Recent developments in pathway databases enable us to analyze the known metabolic networks. However, most organism specific metabolic networks are left with a number of unknown enzymatic reactions, that is, many enzymes are missing in the known metabolic pathways, and these missing enzymes are defined as metabolic pathway holes, Although all reactions in some pathways are known, but also this pathways have a holes, the hole in this case means that we do not know the genes behind this reactions. The pillar of the research cycle is the data collection which precedes the analysis phase to solve the pathway hole. The required data for this area is scattered among different data sources, which represent a problem for the researchers of this area. This thesis provides a solution to this obstacle by collecting the required data from various data sources in one database RGBMAPS; also we have developed a tool that could be used by other researchers to analyze the pathway holes.