Probably destroyed by Heinrich Schliemann, the discoverer of Troy, who excavated right through Homer's Troy to an older, grander version of the city which he mistook for the famous Troy, as I understand it.
I admire him for his tenacity.
Schliemann excavated only on the knoll which had the ancient citadel, cutting a single large trench (which can still be seen) down to bedrock. He destroyed part of the Troy VI / VIIa “splendid” wall circuit, and of course everything vertically above and below, and found every known level of occupation. He didn’t excavate the wider site which is what has been getting done lately.