England bowled out the Proteas for 175 in 38.4 overs and cruised past the target in the 38th over with Jonathan Trott unbeaten on 82.
Five players including Mark Boucher (retired), Ashwell Prince, Rusty Theron, Albie Morkel and Jacques Rudolph have been omitted from the contracted list while Johan Botha was released.
Abbott had a spectacular debut, taking 7 for 29 in Pakistan's first innings and was declared Man of the Match in a comprehensive innings and 18 runs win for South Africa.
South Africa won the first Test in Johannesburg by 211 runs and the second in Cape Town by four wickets. None of the matches went to a fifth day. Pakistan's hopes of avoiding an innings defeat crumbled as three more wickets fell in quick succession.
At that stage he was designated as a back-up player and he was happy just to be welcomed by the national players, "seeing how the number one team in the world prepares for Test matches and how they go about their business". On Thursday, the day before the Test, coach Gary Kirsten told him that Jacques Kallis had a minor injury and that he might be in the team.
The Dolphins fast bowler, the leading wicket-taker in domestic first-class cricket, found himself in the team when all-rounder Jacques Kallis suffered a calf injury the day before the match. Imran Farhat, who made the top score of 30 in the first innings, did not open the batting in the second innings after being struck on the hand in the first innings.
Morne Morkel has been ruled out of the third Test with a hamstring injury, which twice forced him off the field during the second Test which ended in Cape Town on Sunday.
Since his Test debut in November 2011, Philander has shot up the International Cricket Council rankings and is second only to his South African new ball partner, Dale Steyn.
Despite Williamson's heroics, South Africa were on course for victory until two run-outs in successive overs derailed their run chase.
The 27-year-old Philander took 5-7 as New Zealand was bowled out for 45 in the first Test at Newlands to set up South Africa's innings win, continuing a hugely successful start to his Test career in which he has taken 74 wickets in just 13 matches at an impressive average of 17.40.