the KEGG Rpair database is used to understand which compounds in a reaction_id are used in the pathway maps.
In fact, according to the kegg website:
In general, a reaction consists of multiple reactant pairs, and the one that appears on the KEGG metabolic pathway map is called the main pair
The problem is, there are some other cases which are not so clear to me; when looking at all the possible kind of rpairs we get:
- ligase leave
- main ligase
- main leave
- main trans
- main cofac
- main cofac leave
- cofac leave
My question therefore is: should I include also the other "main" types in a metabolic network reconstruction?