The resignation came hours ahead of a scheduled board meeting of MCX-SX, where former LIC Chairman Thomas Mathew T has taken over as new Chairman.
Sebi is looking at ways to assuage the concerns of investors, trading members and other stakeholders in MCX-SX, according to senior officials.
Meanwhile, Finance Minister P Chidambaram said he hopes that directors of MCX-SX would act in public interest and that there was an orderly resolution of the crisis.
Surprisingly, the PE has also been registered against Sebi's former chairman C B Bhave and ex-member K M Abraham, besides MCX-SX promoters FTIL and MCX. Bhave and Abraham were said to have been opposed to the grant of licence until the exchange met strict guidelines set out by the regulator.
Pillai said MCX-SX is run by a professional management team and has an eminent board.
"We have also been successful in rationalising costs in a significant manner, which will improve our balance sheet in times to come. It was a wonderful experience to work with the team and I am stepping down due to personal reasons," he added.
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