In a mutual agreement with Pakistan Cricket Board, their national coach Dav Whatmore will leave his job at the end of February.
According to Sport24, the 59-year-old former Australian batsman, who took over in March 2012, has faced mounting criticism over Pakistan's dismal run of results in recent months, with ex-players regularly calling for him to go.
Pakistan went down by 117 runs to South Africa in Sharjah on Monday, completing a 4-1 defeat in their one-day series, the report said.
The Proteas have given Pakistan a torrid time in 2013, beating them 3-0 in Tests and 3-2 in one-day internationals in South Africa in February-March, the report added.
The board said Whatmore had decided not to seek an extension to his contract, which expires at the end of February, the report further said.
Whatmore's last assignment will be a series against Sri Lanka in the United Arab Emirates in December-January, according to the report.
Former paceman and coach Waqar Younis and former captain Moin Khan are in the running to replace him, the report mentioned.