San Francisco probably was the 2nd best team.. but I think they were much more evenly matchup with Denver than we were. The 49ers weak link on defense is their secondary.. so I think Peyton would have had a much better performance against that defense than ours.
At the same time though, the Broncos would have been way over their heads defending the zone read and Boldin/Crabtree/Davis as well. So I think that Super Bowl would have been a hotly contested shootout like SB47 was.
On the flip side, I think New England would have played us closer and San Francisco would have blown them out. So there's that too.