The incident occurred Saturday near Trutnov when the plane failed just after takeoff from a nearby airport, CTK News Agency reported.
The victims, a 76-year-old man and a 60-year-old woman, were taken to the hospital with chest injuries and were in serious but stable condition, regional police spokeswoman Iva Jezkova said.
"None of them are unconscious, they have injured chests, but their lives are not in peril," said a spokesperson from the hospital in Hradec Kralove.
The plane crashed into the northern side of the Harmonia Hotel, though because it was the off-season, there were only a few guests inside taking part in a mourning ceremony, RIA Novosti reported.
Damage to the hotel is estimated to be around $12,600.
"Luckily, the aircraft did not have the required flight speed. Or else, the accident would have been more serious," said Jiri Sochor, an aviation expert from the Aviation School in Vrchlabi, East Bohemia.