Yeah, quite a difference, some of the more obvious:
the CH-47 is quite a bit larger
the CH-46 only has sponsons at the rear, the CH-47 has full length sponsons
the CH-46 has its engines burried in the rear pylon, the CH-47 has "pods" mounted above the fuselage
the landing gear is different between the two
I don't think it would be at all practical to try and convert a 46 to a 47.