It is constructed on a hillside down to the Golden Horn over a platform raising from the gound in the north.
The northeastern wall of the medrese building is about 7.50 m (24.6 ft) back from the supporting wall of the platform in the north.

It is designed in an octagonal courtyard inside a quasi-square plan.
Mimar Sinan repeated the octagonal design after the Kapı Ağa Medrese (built 1488) in Amasya, differing from the original in the square-plan outer walls, which measure 42 m × 43 m (138 ft × 141 ft) in length.
It is built of ashlar and bricks.
Entrance to the medrese via courtyard is through an arch gate in the middle of the southeastern wing.
In the center of the courtyard,a a shadirvan with pyramid-like roof is situated.
The courtyard is surrounded by colonnaded verandas in front of 22 student rooms and classrooms covered by domes.
The student rooms are cell-like while classrooms are relative bigger chambers.
The chambers are one step higher than the veranda ground, and are entered by a flat-arch door.
The student room interiors have barred windows facing to the courtyard, and arched niches.
There are 24 smaller domes carried by a colonnade of 24marvle  columns in front of a veranda around the octagonal courtyard.
16 columns are round while 8 columns standing at the corners of the octagonal colonnade are polygonal.
The domes of therooms are connected at the interior by triangle-formed vaulted muqarnas.
At the middle of the southeastern facade, a mihrab takes place, which is supposed to be added in a later time.
A two story annex with a big dome is sitıated at the southeastern side of the medrese.
It has two rectangular barred windows in the ground floor and three arched windows on the fşoor above.
It is believed that the chamber at the southern corner was a bath or a kitches due to its different type of roof.
It is constructed on a hillside down to the Golden Horn over a platform raising from the gound in the north. The northeastern wall of the medrese building is about 7.50 m (24.6 ft) back from the supporting wall of the platform in the north.
It is designed in an octagonal courtyard inside a quasi-square plan. Mimar Sinan repeated the octagonal design after the Kapı Ağa Medrese (built 1488) in Amasya, differing from the original in the square-plan outer walls, which measure 42 m × 43 m (138 ft × 141 ft) in length. It is built of ashlar and bricks. Entrance to the medrese via courtyard is through an arch gate in the middle of the southeastern wing. In the center of the courtyard,a a shadirvan with pyramid-like roof is situated. The courtyard is surrounded by colonnaded verandas in front of 22 student rooms and classrooms covered by domes. The student rooms are cell-like while classrooms are relative bigger chambers. The chambers are one step higher than the veranda ground, and are entered by a flat-arch door. The student room interiors have barred windows facing to the courtyard, and arched niches. There are 24 smaller domes carried by a colonnade of 24marvle  columns in front of a veranda around the octagonal courtyard. 16 columns are round while 8 columns standing at the corners of the octagonal colonnade are polygonal. The domes of therooms are connected at the interior by triangle-formed vaulted muqarnas. At the middle of the southeastern facade, a mihrab takes place, which is supposed to be added in a later time. A two story annex with a big dome is sitıated at the southeastern side of the medrese. It has two rectangular barred windows in the ground floor and three arched windows on the fşoor above. It is believed that the chamber at the southern corner was a bath or a kitches due to its different type of roof.
Rüstem Pasha Medrese