More than 425000 passengers will be affected in what will be one of the biggest strikes in Lufthansa's history.
The cancellations will affect flights scheduled for Wednesday, Thursday and Friday of this week (April 2-4).
Lufthansa, Lufthansa Cargo and the company's budget airline Germanwings are all affected by the action which the carrier said would cost it tens of millions of euros.
"During the three-day walkout by Cockpit teams, there will only be around 500 short- and long-haul flights by Lufthansa and Germanwings," Lufthansa said.
The airline's management is urging the pilots' union, Vereinigung Cockpit (VC), to restart negotiations as soon as possible.