Many services continue west of Higashi-Kanagawa via the Negishi Line to Sakuragicho during the offpeak, and to Ōfuna during the morning peak.

In addition, Nagatsuta is the terminus of the Kodomonokuni Line operated by the Yokohama Minatomirai Railway.

Nagatsuta Station is where the express and local trains on the Den-en-toshi line cross.

JR Nagatsuta Station has a single island platform serving two elevated tracks.

The station has a Talking reserved seat ticket vending machine(話せる指定席券売機).