Revised return

Dear Friends, I need your kind advise on a matter. One of my friend got his ITR for AY 2013-14 e-filed with the help of someone. That person, without the knowledge of my friend, furnished false particulars, i.e. higher savings etc. and got the entire TDS refunded. The refund has been received by him and the assessment is also complete. Now my friend has come to know the same and he wants to revise his return. I am planning to revise his return u/s 139(5). He will pay the amount refunded to him along with interest calculated u/s 234D. Kindly advice me that after the above, can the department still levy panelty charges on him. Warm Regards, Rahul Singhal