Ljiljana Radetic said this was in line with a 28 October 2005 decision with which High Representative Paddy Ashdown froze the money which was paid into the SDS account from January to September last year.
The money would have been returned to the party if it had exerted its influence and helped arrest war crimes fugitive Radovan Karadzic by December 31.
Radetic said the transfer of the money to the two state institutions was aimed at helping strengthen the rule of law.
SDS leader and Bosnian Serb entity President Dragan Cavic told the press today Ashdown's decision to take the party's money for failure to arrest Karadzic represented "political retaliation".
"The SDS is a victim and is getting punished because of positions of various international institutions, diplomatic circles and big world administrations even though it has nothing to do with those accused of war crimes," said Cavic. He added the SDS-led Republika Srpska government did more in cooperation with the Hague war crimes tribunal in 2005 than anyone in the past 10 years.