Kerry, who arrived here as part of a regional tour, met Sisi after meeting Arab League chief Nabil el-Arabi, who said that Arab states have vowed to confront extremism in the region, politically, economically, militarily and culturally.
The US is drumming up support from Arab governments for its campaign against the Islamic State of Iraq and Syria or ISIL.
For the US, Cairo's involvement in the coalition may help improve the strained ties between the traditional allies and also earn it the approval of Egypt's religious institutions.
The ties soured last year after the army overthrew elected Islamist president Mohamed Morsi and cracked down on his supporters. The US then suspended some military aid, but later restored them.
Kerry, who flew in to Cairo from Ankara, said terroristic groups such as the IS has no place in modern society.
"We will continue working with Egypt to achieve stability in the region," said Kerry.
During the Conference Shoukry said Egypt is against terrorist groups that use religion as a cover for its activities.
"We support all the international efforts to end terrorism," said Shoukry.
The US has appointed John Allen, former commander in Afghanistan and Iraq, to head its campaign against the militant group that beheaded two American journalists.
The US involvement comes three years after the end of the nearly nine-year US military presence in Iraq.
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