The Khanqah-e-Molla is one of the oldest shrines of Muslim Saints in Srinagar. The banks of river Jhelum in the old city have the honour of holding the ancient shrine. It was originally built by Sultan Sikander in the year 1395 in rememberance of the great Sufi saint Mir Syed Ali Hamdan to unfold the mysteries behind "secret of Allah".Thus the shrine is also famous as the shrine of Shah-e-Hamdan.
Mir Syed Ali Hamdan played a major role in spreading Islam in the valley. The shrine was badly devastated by fire in 1480; however in 1493 it was reconstructed by the ruler of the valley, Sultan Hassan Shah. Time took its toll on the magnificent structure but in the year 1731 it was again restored from its damages by AbulBarkat. The brilliant Sufi shrine is an excellent example of the wooden architecture prevalent in the valley and is inspired by Hindu, Islamic and Buddhist style. The shrine is said to have contained the "secret of Allah", and houses some most important artefacts of Prophet Mohammad. The artifacts include the standard flag of the Prophet that was used by him in various campaigns and also the pole of Prophet's tent.