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Three bodies were found in Vosloorus, on the East Rand.
A family member of one of the deceased said his little brother had gone looking for his sister when he was shot.
Gwede Mantashe visited the area and said looters would feel the brunt of their actions.
Rampant looting has left three people, including 14-year-old Vusi Dlamini, dead at the Chris Hani Mall in Vosloorus, on the East Rand.
Two adult males are yet to be identified.
The men's bodies were found at two different spots behind the mall on Tuesday night.
According to security guards at the mall, the deceased were allegedly among groups of residents looting shops, and torching Ackermans, Jet and Cash Crusaders stores.