The win kept hope alive for the Turkish club to move to the Europa League quarter finals ahead of the second-leg clash in Denmark on March 19 at Parken Stadium in Copenhagen.
If Medipol Başakşehir eliminates Copenhagen, it will reach the quarterfinal for the first time in the UEFA Europa League.
Thursday results in Europa League:
Medipol Başakşehir - FC Copenhagen: 1-0
LASK Linz - Manchester United: 0-5
Eintracht Frankfurt - Basel: 0-3