You're have to be overclocking a S5 to exceed that rating on one connector - but it's STILL a bad idea, as the boards aren't designed to be run from a single connector and you're likely to be overstressing some of the +12V traces ON the boards a lot by misconnecting the power leads.
This is the reason Titans have so MANY power connector issues - they DID exceed the rating of the connector even at their STOCK clock, pulling over 300 watts per connector (the extra 2 pins on a PCi-E 8-pin connector are both GROUND leads, IMO a rather dumb thing for the PCi-E spec to have done - sure, the ground leads run cooler, but that doesn't appreciably help the +12 leads).
Keeping the bottom of an S5 on a flat surface helps cooling overall a LOT - raising it up lets a LOT of the airflow escape without cooling anything. It's even a good idea to try to close off the open parts of the top to help cooling some, but that's less importans as the controller board blocks quite a bit of the top airflow excape route.
its not the pci-e connector you should worry about..
i would NEVER run a miner with only 1 pci-e on each side... even tho its "in spec" this will probably happen.