The FIR was registered against Delhi Congress chief Arvinder Singh, its chief spokesperson Mukesh Sharma and 50-60 party workers under sections which include rioting.
A Congress worker, identified as one Chattar Singh, was also arrested in this connection.
The protesters reached Gowda's 1, Tyagraj Marg residence at around 3 P.M. And raised slogans against him and Prime Minister Narendra Modi.
During the protest, Sharma also allegedly pulled down Gowda's nameplate outside his residence and stood on it to express his anger.
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Asked whether Singh and Sharma can be arrested, Narwal said, "We are investigating the case and will act as per law."
Seeing Gowda inside the car, the protesters immediately surrounded the vehicle and refused to let him enter his residence for a few minutes. But the security personnel at the spot pushed them away to make way for the minister's car to enter the premises.
Police had to erect barricades around Gowda's residence to prevent protesters from entering it.
Congress leaders had yesterday tried to gherao Parliament House to protest against the rail fare hike, but were prevented from doing so due by the heavy security deployment in the area.