The State Department had initially said in an email late Friday that the shutdown came as scheduled routine maintenance to its main unclassified network, and would impact email traffic and access to public websites.
But on Monday, a senior official said the department had recently detected "activity of concern" in portions of the system handling non-classified emails, and the weekend maintenance included security improvements responding to the breach.
The official said that none of the department's classified systems had been compromised.
The State Department is the latest in a series of government agencies to face cyber security breaches -- though it is not clear if there is any link between the incidents.
Last week, the US Postal Service said hackers stole sensitive personal information from its employees in a large data breach this year, and got some customer data as well.
A USPS spokesman said the breach affected as many as 800,000 people who are paid by the agency, including employees and private contractors.
The statement said hackers also penetrated payment systems at post offices and online where customers pay for services.
The agency was working with the FBI and other law enforcement in an investigation.
And last month, the White House reported an intrusion in its unclassified computer network.
In the course of addressing the breach, some White House users were temporarily disconnected from the network, an official said, but the computers and systems were not damaged.
The Washington Post quoted sources as saying hackers believed to be working for the Russian government were believed to be responsible.
COMMENTS
Comments are moderated and generally will be posted if they are on-topic and not abusive.
For more information, please see our Comments FAQ