If you are on two separate tickets, that is cutting it close, since KLM has no duty to rebook you if you miss your flight. Normally that would be enough time, but if your flight is delayed, it might not be. even if you did have luggage, you can have your baggage checked through in Prague though, as Czech and KLM are partners. you may even be able to get your boarding pass in Prague, but probably not. You wont go through immigration until Amsterdam.
have you looked into just changing your ticket on KLM to PRG-AMS?