The 3-clique problem is, given a graph, does it have a clique of size 3? This is solvable in polynomial time. Likewise, for any fixed $k$, the $k$-clique problem (given a graph, is there a clique of size $k$) is solvable in polynomial time.
But in the clique problem, we are given both the graph and $k$ and asked if there is a clique larger than size $k$. This problem is NP-Complete. For example, let's suppose someone sets $k = \frac{n}{2}$. Then the running time you give is definitely exponential.
This should make intuitive sense -- in the $k$-clique problem, if I fix $k$ to be, say 1000, ($k$ being a constant with respect to $n$.) then as graphs get really really large (like trillions of nodes), I still only have to check every set of 1000 nodes. But in the clique problem, as the graph gets really gigantic, the sets I have to check might get gigantic too.
(Edit. To finish answering the question, clique is NP-hard because for example 3SAT can be reduced to it in polynomial time, and clique is in NP. However, $k$-Clique (for any given $k$) is not NP-hard).