The attack took place in the Badar area, 30 kilometres (18 miles) north of Wana, the main town in South Waziristan district.
"Militants attacked a military checkpost today in South Waziristan and killed two soldiers," a senior security official in the area told AFP on condition of anonymity.
Another security official confirmed the attack and casualties. Pakistan launched a major ground and air offensive in South Waziristan last year to clear the area of the Tehreek-i-Taliban (TTP) faction, which has been blamed for some of the country's worst violence.
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