In the 15th and 16th centuries, as a result of the strengthening of the Shiite, special attention was paid to the construction of large structures, the use of religious attributes, as well as new craftsmanship in the repair and restoration of the mausoleum.

Between 1878 and 1879, Nizami Ganjavi mausoleum and the Imamzadeh complex were again reconstructed by the chief of the Second Muslim Riders Regiment of the Tsar Russian Army, Major-General Israfil bey Yadigarzadeh.

[6] 10,000 m2 (110,000 sq ft) of asphalt cover was laid on the territory of the complex, decorated with ornamental stones, lighting system was installed, infrastructure was created.

There are two minarets, namazgah (place for prayer) and visitor hall with a height of 42 m (138 ft),[clarification needed] as well as parking for 500 cars in the area.

[9] According to the inscription found inside the mausoleum, the sons of Mohammad al-Baqir, who is considered one of the most sacred personalities of Shia Islam, left their motherland and moved to Azerbaijan and Iran to escape from the ruling circles of the Umayyad Caliphate (661-750), who carried out persecution against the family of the Prophet of Islam.

A two-storeyed arch shaped the extension of the mausoleum, surrounding the central kernel from three sides, with a portal from the eastern part.

The 2.7 m-high (8.9 ft) mausoleum[11] was constructed using red bricks and features specific to the Arran Architectural School were used.

The central dome differs significantly from others in terms of its structure and dimensions, and is distinguished by its elegant design features.

[11] The most prominent part of the Goy Imam Mosque in terms of appearance is the dome and its cylindrical body, decorated with colorful blue and green tiles.