AEK Athens were relegated for the first time in their 89-year history on Sunday when a goal three minutes into injury time by Kostas Giannoulis led Atromitos to a 1-0 victory.
As a result, the appeal by the team against the decision by the Super League's disciplinary committee to dock three points because of crowd violence at a previous match will have no meaning.
AEK had to win against Atromitos in order to avoid relegation to Football League, the country's second division.
One of Greece's top clubs, AEK was punished by after last Sunday's violence when hundreds of their supporters clashed with police on and off the pitch at Athens' Olympic Stadium, leading to the match with second-bottom Panthrakikos to be called off.
Play was initially halted in the 87th minute, shortly after the visitors took a 1-0 lead via an own-goal and the pitch was invaded by angry home fans.