No, you cannot manually set the VCCPD voltage supply of a particular bank in the Quartus® II design software, since the required VCCPD voltage of a bank is dependent upon it's respective VCCIO. The required VCCPD voltage is derived by the Quartus II design software from the respective VCCIO setting.
To make a voltage assignment to the VCCIO supply of a bank, you can use the following assignment:
set_global_assignment -name IOBANK_VCCIO <voltage> -section_id <bank>
Where <voltage> is the required voltage (e.g. 3.3V) and <bank> is the bank number (e.g. 3C).