Chopade is at present the vice-chancellor of Babasaheb Ambedkar Marathwada University.
President Ram Nath Kovind, who is the Visitor to the university, approved Chopade's appointment this week.
He will take charge from BHU Registrar Neeraj Tripathi, who had been holding the additional charge of the top post since October last year.
Chopade's predecessor, Girish Chandra Tripathi had gone on leave two months before his tenure came to an end, following a ruckus on campus in September last year.
The development came amid indications from HRD Ministry sources that the central government was upset with the manner in which the former vice-chancellor had handled the entire episode, including a protest by women students following an incident of alleged harassment.