QQ on a KKx flop

[Fantam]

I usually think opponents are most likely to have a pocket pair or have paired the single card if they bet on a flop with 2 of the same cards.

I have stopped this hand where I was uncertain of the best play:

Party Poker (10 handed) converter

Preflop: Hero is MP3 with Q[img]/images/graemlins/heart.gif[/img], Q[img]/images/graemlins/diamond.gif[/img].
<font color="#666666"></font>2 folds, UTG+2 limps, I raise, folded to button, Villain 3-bets, blinds fold, limper calls, I cap, villain and limper call. <font color="blue">(13.5sb)</font>

Flop: 3[img]/images/graemlins/club.gif[/img], K[img]/images/graemlins/diamond.gif[/img], K[img]/images/graemlins/spade.gif[/img] <font color="#0000FF">(3 players)</font>
limper checks, I bet, villain raises and the limper folds, <font color="blue">(16.5sb)
I fold/call/raise ??? </font>

I hadnt seen villain do anything unusual since I had been at the table. When he raised the flop I considered that he could possibly have AK as he 3-bet preflop. However I also wondered whether he was being agressive with a lower pocket pair like TT or JJ.

So I was unsure whether it would be best to call down or fold. What do you think the best line of play would have been?