Iran Press/ Middle East: Amjad Nashaat Abu Alia, 16, "died of critical wounds sustained by live bullets in the chest", during clashes near the village of Al-Mughayer, close to Ramallah, the ministry said in a statement.
An AFP photographer at the scene reported 300 to 400 Palestinians had gathered for a protest march, to demonstrate against Israeli settlement expansion in the area.
Clashes erupted when Israeli settlers and Palestinians began throwing rocks at each other.
The Israeli army said it was looking into the incident.
It came after two Palestinians were killed during an overnight raid by the Israeli military in Nablus early on Sunday, in what the army described as a shootout with gunmen.
At least 53 Palestinians have been killed since late March, mostly in the West Bank, among them suspected militants and also non-combatants, including Al Jazeera journalist Shireen Abu Akleh, a Palestinian-American dual national, who was covering an Israeli raid in Jenin.
Over the same period, 19 people -- the majority Israeli civilians inside Israel -- have been killed, mainly in attacks by Palestinians. Three Israeli Arab attackers have also been killed.
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