The Israeli forces have responded with tear gas. There are no immediate reports of serious injuries.
Thursday's clashes came a day after a Palestinian teenager was shot dead by Israeli forces in the city, near the Cave of the Patriarchs, a holy site revered by Jews and Muslims.
Tensions have been heightened since Wednesday's shooting. Israel's paramilitary border police force said it shot the 17-year-old after he brandished a gun that later turned out to be fake.
But the Palestinians claimed the youth was unarmed, and had failed to heed orders to halt at a military checkpoint because he was hard of hearing.