Police said about 2,000 shops were closed and all the main streets in the town looked deserted in view of the protest.
Armed Reserve police were posted across the town to monitor the situation.
The federation of Hindu outfits gave the shut-down call protesting against the desecration of the portrait of Lord Rama by a group led by professor Jayaraman, who headed the anti-methane project stir recently.
Police have arrested 14 persons, including Jayaraman, after people demanded action against them.
They were produced before a court and remanded to judicial custody.