org.At.tairENZYME2TAIR {org.At.tair.db}R Documentation

Map between Enzyme Commission Numbers and TAIR Identifiers

Description

org.At.tairENZYME2TAIR is an R object that maps Enzyme Commission (EC) numbers to TAIR identifiers.

Details

Each EC number maps to a named vector containing all of the TAIR identifiers that correspond to the gene that produces that enzyme. The name of the vector corresponds to the EC number.

Enzyme Commission numbers are assigned by the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology http://www.chem.qmw.ac.uk/iubmb/enzyme/ to allow enzymes to be identified.

An Enzyme Commission number is of the format EC x.y.z.w, where x, y, z, and w are numeric numbers. In org.At.tairENZYME2TAIR, EC is dropped from the Enzyme Commission numbers.

Enzyme Commission numbers have corresponding names that describe the functions of enzymes in such a way that EC x is a more general description than EC x.y that in turn is a more general description than EC x.y.z. The top level EC numbers and names are listed below:

EC 1 oxidoreductases

EC 2 transferases

EC 3 hydrolases

EC 4 lyases

EC 5 isomerases

EC 6 ligases

The EC name for a given EC number can be viewed at http://www.chem.qmul.ac.uk/iupac/jcbn/index.html#6

Mappings were based on data provided by: Tair ftp://ftp.arabidopsis.org/Pathways/aracyc\_pathways.20110406 With a date stamp from the source of: 2011-May27

References

ftp://ftp.genome.ad.jp/pub/kegg/pathways

Examples

    # Convert to a list
    xx <- as.list(org.At.tairENZYME2TAIR)
   if(length(xx) > 0){
       # Gets the tair identifiers for the first five enzyme
       #commission numbers
       xx[1:5]
       # Get the first one
       xx[[1]]
    }

[Package org.At.tair.db version 2.6.4 Index]