Vaclav Brom, spokesman for the Temelin plant located near the border with Austria, says the reactor was shut down yesterday after the problem occurred in the non-nuclear part of the plant.
The country's nuclear authority says the problem poses no safety threat.
Brom said today it is not immediately clear when the reactor can be restarted.
The other reactor in Temelin is currently also shut down due to a planned fuel replacement.
Environmentalists in Austria have demanded that the plant be closed because of security concerns, but Czech authorities insist it is safe.