His decision follows an independent investigation done on behalf of Flipkart and Walmart into an allegation of serious personal misconduct. Bansal, however, denies the allegations.
Flipkart Group CEO and co-founder Binny Bansal on Tuesday resigned following a probe into an alleged "serious personal misconduct", the firm's new parent Walmart said.
Bansal, 37, has strongly denied the allegation, the American retail giant said in a statement.
His decision to step down follows an independent investigation done on behalf of Flipkart and Walmart, even though the probe "did not find evidence to corroborate the complainant's assertions against Binny", it said.
While the statement did not provide details of the "personal misconduct" allegations against Bansal, sources indicated that the complainant was associated with Flipkart a few years ago and is now running her own venture.
This, however, could not be independently ascertained.
The statement pointed out that the "deliberate and thorough" investigation "did reveal other lapses in judgement, particularly a lack of transparency, related to how Binny responded to the situation.
“Because of this, we have accepted his decision to resign."
Bansal's resignation as the CEO of Flipkart Group is with immediate effect.
He was serving as the group CEO after Walmart's mega $16 billion investment in the Bengaluru-based company.
Sachin Bansal, the other co-founder (not related to Binny), had left Flipkart after selling his entire 5.5 per cent stake to Walmart as part of the deal.
Walmart's statement said the recent events "risked becoming a distraction for the company" and Binny had made a decision to step down.
The statement pointed out that Binny had been contemplating a transition for some time and that the company (Walmart) had been working together on a succession plan, which has now been accelerated.
Kalyan Krishnamurthy will continue to be CEO of Flipkart, which will now include Myntra and Jabong, continuing to operate as separate platforms within the Flipkart business, the statement said.
Ananth Narayanan will continue as CEO of Myntra and Jabong and will report to Krishnamurthy.
Sameer Nigam will continue to head PhonePe -- Flipkart's payments unit -- as CEO.
Both Krishnamurthy and Nigam will report directly to the board, Walmart said.
"We remain committed to investing for the long-term and are supportive of the leadership team's desire to evolve into a publicly-traded company in the future," it added.
In an internal email, Krishnamurthy sought to assuage employee concerns stating that "there will be no changes in our operating processes, or to the mission of the company as a result of this news".
"Flipkart will continue to invest heavily in supply chain, innovation and technology, with a focus on optimising operations, and empowering employees... For Flipkart to keep succeeding, it is crucial for our teams to thrive, and we will continue to do everything possible to ensure you are given the opportunity to do just that," he added.
Photograph: Abhishek N Chinnappa/Reuters