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If they have different part numbers,then you have to suspect that they are different in some way(maybe internally?).
I would doubly make sure that the pulleys,electrical connections and pipe fixings are identical and go from there.Your probably better off getting the advice of a dedicated air con specialist,as they may know if the units are inter-changable,and would be able to advise you on how much it would cost to fit it and re-gas the system.
I'd rather push my Alfa than drive a BMW....
Currently in Lagdti's garage:
2004 Saab 9-5 HOT Aero and a 2001 Audi A3 1.8 Turbo