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PokerStars No-Limit Hold'em Tourney, $6 Turbo, Big Blind is t800 (2 handed) converter

Hero (t8160)
Button (t5340)

Preflop: Hero is BB with 4[img]/images/graemlins/spade.gif[/img], 6[img]/images/graemlins/spade.gif[/img].
Button calls t400, Hero checks.

Flop: (t1250) T[img]/images/graemlins/heart.gif[/img], 2[img]/images/graemlins/club.gif[/img], 4[img]/images/graemlins/diamond.gif[/img] <font color="#0000FF">(2 players)</font>
<font color="#CC3333">Hero bets t1000</font>, <font color="#CC3333">Button raises to t4490</font>, Hero ?.

Villain is a LAG who lucked his way onto the bubble, and then caught a hand to beat the short stack. I am seeing a trend where I get myself into trouble by making a roughly pot-sized bet after I hit a pair on a flop HU, and my opponent pushes over the top. Any comments or suggestions are greatly appreciated.

Thanks,
J