Just below St. John's Basilica is the Isa Bey Mosque, built 1374-5 with many of the stones scavenged from the ruins of the Basilica, Ephesus, and the Temple of Artemis. It was restored in 1934. We didn't visit it on the recent trip, so most of these are from my 1990 trip.
The House of the Virgin Mary was discovered in the 19th century as a result of a Catholic nun's visions. The Catholic Church hasn't opined as to the authenticity of the site, but several popes have visited and it's quite a draw for both Catholic and Muslim visitors. Pilgrims visit because they believe Mary was brought here by St. John and lived here until her Assumption. I didn't visit it this past trip, so these photos also are from the 1990 trip: