All is well that ends well, I guess. Seems to me that your provider has their way of doing things where 'one size fits' all .... makes it easier for them to support ... but they say they don't support customer apps. VPS, to me, has always meant full run of the box. Guess they don't see it that way. Hmmmmmm.
If you get curious one day, see if there is a /etc/httpd/conf/httpd.conf file and see what it contains.
When you say you installed via Web, did you use some sort of button in cPanel to install?
Question: who is provider?
'spirit of sharing', Ken