AVA- The resignation was approved by Lt. Gen. Abdel Fattah Burhan, head of the military council, the body said in a statement.
The resignation came one day after Defense Minister Ahmed Awad Ibn Auf -- who announced the president's ouster -- quit as head of the military council and appointed Burhan in his place.
On Thursday, Sudan's military deposed President Omar al-Bashir, who has ruled Sudan since 1989, following months of popular protests against his rule.
The military also established a military council to run the country for a transitional period of two years.