The Croatian picked up a calf injury during Los Blancos' 3-1 home victory over Real Betis in La Liga on Saturday, but has travelled with his teammates to Germany for Wednesday's semi-final first-leg clash.
Full-back Marcelo, meanwhile, has been left behind in Madrid because of a thigh injury that he endured at the weekend.
Full Real Madrid squad:
Goalkeepers: Casillas, Lopez, Adan, Jesus
Defenders: Varane, Pepe, Ramos, Coentrao, Albiol, Carvalho, Nacho
Midfielders: Alonso, Khedira, Ozil, Kaka, Modric, Callejon, Di Maria, Casemiro
Strikers: Ronaldo, Benzema, Higuain, Morata