The meeting, which took place at the Coliseum Alfonso Perez stadium in Getafe, ended with a 3-0 victory for the hosts.
Goals in the match accounted for Jorge Molina, Leandro Cabrera and Robert Kennedy.
Krasnodar took third place in Group C, which prevented the team from reaching the playoffs of the Europa League.
Nepomniachtchi previously expressed confidence that Russian football is adding quality.