The Russian Ministry of Defense said in a statement that the strike was carried out at 03:25 (00:25 GMT).
The fire, caused by debris from one of the rockets, was quickly extinguished, and no one was injured.
Earlier, the Ukrainian military confirmed that it struck an ammunition depot in Russia’s Bran district, but did not specify whether Atacms were used.
It says that an attack on a warehouse about 100 km from the border near the city of Karachi caused 12 secondary explosions.
Meanwhile, earlier on Tuesday, Putin approved changes to Russia’s nuclear doctrine, setting new conditions under which the country will consider using its arsenal.
It now says that an attack by a non-nuclear state, if supported by a nuclear state, would be considered a joint attack on Russia.