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Genome Biology 2000
Digital biochemical pathways databaseDOI: 10.1186/gb-2000-1-3-reports2051 Abstract: The initial page of the database has a single box for keyword entry. After entering a metabolite or enzyme, a page with the matching entries is presented. For enzymes, the Enzyme Commission (EC) number is given, along with a link to ExPASy's Enzyme nomenclature database. This contains a great deal of additional information, including alternative names, the reaction catalyzed by the enzyme, and links to a number of other databases where additional information can be found. In some cases, both the substrates and products of the reaction have links, so you can learn more about them (chemical composition, three-dimensional structure, and so on.). For metabolites, links are provided to GIF images of the Boehringer wallchart. Links are provided so that you can then follow a pathway from that particular section of the chart to other pathways, and all of the enzymes are linked to the Enzyme nomenclature database so that you can quickly access information about enzymes in the pathway of interest.Last updated 12 February 1999.The website provides a very simple and easy-to-use launch pad for metabolic pathway information. With the increasing use of DNA microarrays and proteomics, researchers are faced with the need quickly to locate information about enzymes that they may never have heard of before.Although the enzyme information is excellent, the information about the various metabolites is poor. For example, a search for glucose-6-phosphate brings up both glucose-6-phosphate dehydrogenase and glucose-6-phosphate isomerase, but nothing about the sugar itself. Using one of the enzymes above to get to the chart will give the structure of glucose-6-phosphate, but no other information is available.There are several things that would greatly improve the utility of this database. First, some way to highlight on the chart picture the enzyme or metabolite that you searched for would be useful. As it is, you are presented with a scanned image of the chart, and have to hunt for the obj
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