According to media reports, officials initially said the shooter was still at large after the incident on Monday morning, but later reports said one suspect had been contained and that there might be more than one attacker.
Washington Post reported that there were three shooters, including one in military fatigues.
The Navy did not officially confirm the number of casualties, but said "several" people had suffered injuries. It said people inside the building had been directed to stay in place.
The Navy said at least three shots were fired at 8:20 am (13:20 GMT) in the headquarters building of the Naval Sea Systems Command.
About 3,000 people work at the headquarters.
According to Al Jazeera, the shooter barricaded himself on Navy Yard grounds. Witnesses saw police with rifles running towards the building where they believed the attacker might be.
Later a U.S. Navy official said that the alleged shooter was "contained". One of the injured was said to be a police officer, shot in both legs.
Naval Sea Systems Command builds, buys and maintains the Navy's ships and submarines and their combat systems.
It is the largest of the U.S. Navy's five system commands and accounts for a quarter of the Navy's entire budget.
MNA
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