If the parameters (username/password, database connectivity) is the same, you should be able to use the BOMain.key over.
However, did you make sure that once you copied the repository, that you IMMEDIATELY changed the connection information in the copied repository for the Universe and Document domains to point to the new location(s)? If not, you will be setting yourself up for cross-linked repositories. See this Supervisor FAQ.
Anita Craig 
(BOB member since 2002-06-17)