The Functional Amino Acid Navigator (FAN)

 

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FAN is a tool designed to database how enzymes interact with small molecules. Registration and log in only required to enter data. The existing data can be browsed and searched by anybody. This does not include all of the chemical steps involving enzyme function, but some of them. It also includes interactions with non-substrate molecules, such as allosteric regulators. Users are encouraged to enter data into FAN. This does require that you register and are logged in.

In creating FAN, an "interaction ontology" has been created (download file here). Each part of the interaction ontology (IO) has an ID and a description. The ontology is hierarchical in nature so that there is an increasing level of detail in the description. Since the ontology is hierarchical in nature, there are "children" and "parents" for each the descriptions. As an example, "Interactions that do result in the chemical change of the involved groups." is a top level description. Under that there are more detailed descriptions (e.g. "bond is created"). "Interactions that do result in the chemical change of the involved groups." is the "parent" of "bond is created", and "bond is created" is the child of "Interactions that do result in the chemical change of the involved groups." Parent descriptions can have more than one child description.

Parent and children descriptions are related through their IDs. As an example, "Interactions that do result in the chemical change of the involved groups." has an ID of 1. "bond is created" has an ID of 1,0 where the 1 indicates that it is a child of "Interactions that do result in the chemical change of the involved groups." Interaction Ontology IDs that start with 0 (e.g. 0,1) are not children of "Interactions that do result in the chemical change of the involved groups." "bond is created" can also have children. They would have IDs of the form 1,0,X (e.g. 1,0,0).

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This work is supported by funding from NIH grant 1R15GM079792-01A1.

A list of all enzyme commission numbers for which data has been entered into FAN.