Speaker Salim al-Juburi said in a statement that he had agreed to submit the lifting of his own immunity to a parliamentary vote.
A majority of the 237 members in attendance subsequently voted to lift parliamentary immunity for Juburi and two others MPs, Mohammed al-Karbouli and Taleb al-Maamari, a parliamentary official said.
Juburi then testified before a judiciary commission in response to corruption allegations Defence Minister Khaled al-Obeidi made publicly earlier this month, judiciary spokesman Abdelsattar Bayraqdar said in a statement.
Corruption is widespread in Iraq's government, from senior officials to low-level functionaries, and while Iraqis have repeatedly demonstrated for change in the past year, little in the way of real reform has taken place.
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The accusations against Juburi and the lawmakers are just the latest problems in a tumultuous year for the Iraqi legislature.
Parliament was deadlocked for weeks over Abadi's efforts to replace the cabinet.
At one point it had two rival claimants to the speakership, and was stormed by angry protesters, among other incidents.
The conflict between Obeidi and Juburi -- two of the country's most senior Sunni Arab politicians -- does not bode well for unity in the community ahead of the battle to retake the Sunni-populated city.