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After the repose of Patr. Athanasius II on [[September 29]], 496, John was elected his successor against his wishes as [[Pope]] and Patriarch of Alexandria. He was the first [[bishop]] for the [[see]] of Alexandria to be chosen from among the monks of the Egyptian desert monasteries rather than from the educated [[clergy]] of Alexandria. While he was patriarch, John was able to obtain gifts of wheat, wine, and oil from the emperor for his former [[monastery]].
He was an opponent of the Fourth Ecumenical Council at Chalcedon and held [[communion]] with those who accepted the [[HenotikonHenoticon]] of emperor [[Zeno (emperor)| Zeno]] without having formally imposed an [[anathema]] on decisions of Chalcedon. Through such a maneuver he kept the church of Alexandria in peace although the schism with those who opposed both the Chalcedon Council and the Henotikon Henoticon continued to grow.
Patr. John reposed on [[April 29]], 505, the 4th day of Pashons according to the Egyptian calendar.