*Probably* this level crossing behind Ikenoue station, one stop from Shimo-Kitazawa station.

Railroad crossings where the road doesn't continue ahead (mostly) straight are pretty rare, and this one also had construction happening in September 2022, which lines up with when this video was made (the Bocchi the Rock! creators have generally been pretty diligent in using real-world locations).

35° 39′ 36″ N, 139° 40′ 26″ E