When my car was originally sold it had three keys. Two CA fobs and a spare plastic key. I think the first CA keys are numbered 2 & 3. The original spare key I believe comes as number 1, but it seems like I also read that it was number 0....anway
So it sounds like you don't have the #2 key right now. I would disable that and enable 4-6. Check to see if you're key works. If not enable the rest and check again. Then work backwards to disable the keys you don't own.
The actual metal key that comes out of the CA fob should work in your door and trunk mechanical key holes. If it doesn't then the dealership gave you the wrong key and you're wasting your time. So, I'd check that first.
'07 650i Coupe - Black Sapphire Metallic
M6 bumpers, skirts & wheels
BMW M Cross Spoke Composite 101 Rims 20"
HUD, Comfort Access