The match, which took place at the Mikhail Meskhi stadium in Tbilisi, ended with a score of 2: 1 in favor of the hosts.
Irakli Sakharulidze and Mamia Gavashelivili scored goals for Lokomotiv.
The only goal of the guests was scored in the 90th minute of the match.
The penalty was converted by Nikolay Komlichenko.
Lokomotiv will play against Spanish Granada in the third round of the Europa League qualification.
Dynamo finished their performance in European competitions.
Earlier it was reported that "Granada" will play in the third round of qualification of the UEL with the winner of the pair "Dynamo" - "Lokomotiv" (Tbilisi).