All the 40mm calipers I've seen have two holes - one for the brake line and one for the bleed screw.
I bought a pair of 40mm calipers (from a 916 - cost me £41) off ebay to go to a twin setup on the 600ss, and when I fitted them up the bleed nipples were in the wrong holes so I just took them out and swapped them into the other hole.
If you're replacing the calipers just make sure you get ones which will take banjo bolts as they should be universal. I'd recommend BSR Aerotek for lines and bolts as they're top quality items:
http://www.bsr-aerotek.com/