In 2012, Yildirim appealed against the ruling that sentenced him to six years and three months in prison for match-fixing in Turkey's top league and forming an unarmed crime gang for this purpose. Yildirim had served one year in prison pending trial.
The court's ruling will also prevent Yildirim from working for the club.
UEFA also banned Besiktas and Fenerbahce from European competitions for match-fixing.
Scores of individuals, including agents, former players and club managers were arrested in two waves of the probe, with Yildirim being the highest-profile figure.
Turkish sport has had to deal with several blows over the past few years, including doping scandals, match-fixing cases and losing the 2020 Olympics bid to Tokyo.