I don't play with a controller anymore, back to the keyboard, but I think the following choice is quite good on the PS3 controller (I played a couple of matches with it and like how comfortable it was moving around, but never invested time mastering it to perfection):
Left Stick -- Movement
X Button -- b1+b2
Circle Button -- b1
Square Button -- b2
R1 Button -- Alternate Strike Up/Down
L1 Button -- Alternate Strike Down/Up
EDIT: Obviously influenced by Top Spin 4.
