Car should start, but you shouldn't start it.. Running a water pump dry is a great way to destroy it.
Depending on how hot the engine was, you could have fried some sensors or the dizzy.. or damaged the plugs/wires.. or warped the head, blah blah blah, the list goes on and on. And hondas really don't enjoy air bubbles in their cooling systems and can make the car run poorly.. So having it evacuated is probably part of your problem.
Any idea why it overheated in the first place? That could be a great place to start looking for why it is currently not running..