The KEGG Markup Language (KGML) is an exchange format of the KEGG pathway maps that are manually drawn and updated. KGML enables automatic drawing of KEGG pathways and provides facilities for computational analysis and modeling of protein networks and chemical networks. The KGML files for metabolic pathway maps contain two types of graph object patterns, how boxes (enzymes) are linked by "relations" and how circles (compounds) are linked by "reactions". The KGML files for non-metabolic pathway maps contain only the aspect of how boxes (proteins) are linked by "relations". The prefix for the pathway map identifiers indicates the following.

The KGML file may be obtained form the "Download KGML" link for each pathway map.