They run more, they press more and they have faster players than Atletico. Atletico are better organised, stronger and tougher.
So, to sum up: I think that BVB can hurt us more on counters, but we can take advantage of their weaker defence and midfield if our midfield is playing by the potential it has. Atletico are tougher to score against and more complete team than BVB, but I fear BVB's faster counter atacking force.