After a clash with then VfB Stuttgart coach Felix Magath over his lack of opportunities he was given on loan to struggling Bundesliga side Eintracht Frankfurt where he impressed despite the eventual relegation of the team to second division.

[citation needed] Amanatidis earned his first cap for Greece against the Republic of Ireland in November 2002.

[1] He was selected in the final squad for the 2005 FIFA Confederations Cup and featured in the matches against Brazil and Mexico.

He stated, that "there are many strange and suspicious choices, some players are always in the starting eleven and many of us know the reasons of the selection, but if I say more, there are going to be many reactions.

[4] On 15 January 2019, Amanatidis was presented as the new assistant manager of Swiss Super League side FC St.