The portal server itself won't support ejb3. If something supports ejb3 then it is the WebSphere Application Server underneath.
You should check the version from your WebSphere Application Server. As it is quite old I would guess you are using WAS 6.0 or 6.1. I doubt it would support EJB 3 out of the box. For WAS 6.1 however there is a ejb 3feature pack.
If you use WAS 6.1 make sure that you migrate soon as it is running out of support in September.