In a message released on Monday, Ayatollah Khamenei said he received the news of the demise of Hakimi with great sadness and regret.
The Leader described Hakimi as an innovative thinker, inclusive scholar and justice-seeking Islamologue, and said he spent his life in serving the teachings of the Quran and Sunnah.
Ayatollah Khamenei offered condolences to the family of the scholar and his friends and prayed God to bestow His mercy and blessings on him.
Hakimi died of a heart attack at the age of 86 on Sunday.
He has authored many works in the fields of Quranic sciences, Islamic thought, and Fiqh.