Questions over Clinton’s use of a private account and homebrew server during her time as America’s top diplomat have dogged her presidential campaign for more than a year, and fueled voter concerns that she is not trustworthy.
An aide said the interview at FBI headquarters in Washington lasted about 3.5 hours.
The interview signals the bureau’s protracted criminal investigation could be entering its final phase, with a long-awaited decision nearing.
“Secretary Clinton gave a voluntary interview this morning about her email arrangements while she was secretary,” spokesman Nick Merrill said in a statement.
His use of the word “voluntary” indicates that Clinton was not subpoenaed for the interview.
“She is pleased to have had the opportunity to assist the Department of Justice in bringing this review to a conclusion,” Merrill said.
“Out of respect for the investigative process, she will not comment further on her interview.”
Clinton, aiming to become the nation’s first female commander-in-chief, has apologized for exclusively using a private email account and her own server during her time as secretary of state from 2009 to 2013.
Opponents argue that this breached rules about protecting classified documents from cyber attack and may have amounted to a crime.
Her use of private email for official correspondence first came to light in 2015 during Republican-led congressional investigations into her handling of a militant attack on the US mission in Benghazi, Libya.
The assault in 2012 left the US ambassador and three other Americans dead.
Clinton turned over some 30,000 emails to State Department officials after she stepped down from the job three years ago.
But she also said she deleted more than 30,000 other emails that were of a personal nature and not related to her work as secretary of state.
A starkly critical report by the State Department’s inspector general found she had not sought permission to conduct official business on her personal account.
The FBI interview came amid revelations that US Attorney General Loretta Lynch held an impromptu meeting with Clinton’s husband, former president Bill Clinton, at the airport in Phoenix, Arizona this week. The exchange touched off a political firestorm.
On Friday, Lynch vowed to respect the decisions of the FBI and prosecutors on whether to charge Hillary Clinton.
The top US law enforcement official admitted that the private encounter with Bill Clinton had “cast a shadow” over the investigation into the emails in the runup to the November general election.
But Lynch insisted that she, as a political appointee, will not overrule investigators or otherwise interfere in the legal process regarding the probe, and that the integrity of the Justice Department will be upheld.
Hillary Clinton’s Republican rival in the White House race, Donald Trump, accused her on Friday of having “initiated and demanded” her husband’s meeting with Lynch.
“The system is totally rigged. Does anybody really believe that meeting was just a coincidence?” Trump posted on Twitter.
Bill Clinton has known Lynch for years. He nominated her in 1999 to serve as US attorney for the eastern district of New York.