YEASTENZYME {YEAST} | R Documentation

## Mappings between probe identifiers and the enzyme commission numbers, to which the products of the genes represented by the probe ids correspond

### Description

Genes code for proteins/enzymes that take part in various biological processes. YEASTENZYME maps probe ids to Enzyme Commission numbers for the enzymes the genes represented by the probe ids code for. 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.

### Details

Each probe id is mapped to one or more Enzyme Commission numbers. An Enzyme Commission number is of the format EC x.y.z.w, where x, y, z, and w are numeric numbers. In YEASTENZYME, 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

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

Mappings between probe ids and enzyme ids were obtained using files provided by:

KEGG:ftp://ftp.genome.ad.jp/pub/kegg/pathways. Built: Yeast Genome data are built at various time intervals. Sources used were downloaded Fri Jan 7 14:56:44 2005

Yeast Genome:http://www.yeastgenome.org/DownloadContents.shtml. Built: Yeast Genome data are built at various time intervals. Sources used were downloaded Fri Jan 7 14:56:40 2005

Package built Fri Jan 7 16:12:38 2005

### References

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

### Examples

            # Convert to a list
            xx <- as.list(YEASTENZYME)
            # Remove probe ids that do not map to any enzyme EC number
            xx <- xx[!is.na(xx)]
            if(length(xx) > 0){
            # Gets the enzyme commission numbers for the first five
            #probes
            xx[1:5]
            # Get the first one
            xx[[1]]
    }

[Package YEAST version 1.7.0 Index]