"Yesterday, a new, I can officially say, hostile action of the US authorities against our diplomatic institutions became known. Russian flags were torn off from buildings of the Russian trade mission in Washington and consulate general in San Francisco, earlier occupied by US security services' agents," Zakharova said at a briefing.
She said Moscow regards the incident as an outrage against Russia's state symbol, adding that Moscow has already "expressed a strong protest to the United States."
Zakharova said that by such actions, some US political forces were deliberately destroying relations with Russia.
The spokeswoman added that Moscow "will make up its mind regarding response actions" to the steps made by the US.
Russia vehemently opposes the US move to take down Russian flags from its ceased diplomatic properties in San Francisco, the Russian embassy in Washington, DC said in a statement on Wednesday.
"Russia sent a protest note to the American side with respect to the removal of Russian flags from the diplomatic properties in San Francisco, which are now under the control of the US authorities," the statement said.
Russia considers such a move as an "extremely unfriendly step," and demands an immediate return of the flags, the embassy added.
Commenting on the situation, a US Department of State official told Sputnik that Russian flags were "respectfully" lowered by US officials at former Russian properties in Washington, DC and San Francisco, when the buildings were closed.
"The flags at the former Russian consular properties in San Francisco were respectfully lowered and are safely stored within each of the buildings," the official said on Wednesday. "The flag at the former Russian Washington, DC property was also taken down and is safely stored within the building."