The station consists of a single island platform situated underground.

[1] Tsukuba Center bus terminal existed prior to the railway station opening.

[2] The station is located at the heart of the "science city" of Tsukuba.

Now, there is also a commercial complex named BiVi Tsukuba (ビビつくば)[4] next to the bus terminal.

The commercial complex has an information desk operated by Kantō Railway, where tickets can be purchased.