How do I manage my main domain through ispcp?

[pgentoo]

So say I run my company website on http://www.company.com, and I configure ispcp to run on http://my.company.com.

When I setup ispCP I get a bind zone created for /var/bind/my.company.com.db. I also get the corresponding apache conf to host the website.

Now say I want to manage all my other subdomains for *.company.com. I.e., http://www.company.com, etc. Run email for this domain, databases, backups, etc...

What is the best way to manage this domain. Can I just add it as a client domain and go from there, or will this conflict with the initial stuff ispcp sets up for my.company.com?

I really need to get this figured out for a migration this weekend, so please reply back if you have a good understanding of this.

Thanks!
-pgentoo