The hub, part of a "digital free trade zone" near Kuala Lumpur International Airport, went live during a ceremony attended by Alibaba founder Jack Ma and Malaysian Prime Minister Najib Razak.
It was the latest move by Alibaba into Southeast Asia, one of the world's hottest e-commerce battlegrounds. The company has already built up a substantial stake in regional online retailer Lazada.
The trading hub offers Malaysian businesses help in areas including e-commerce, logistics and cloud computing, as well as in exporting their goods.
The ground-breaking on a regional e-commerce logistics hub, to be developed by Malaysia's main airport operator and Alibaba's logistics affiliate, also took place.
Small and medium-sized enterprises "have the power to transform the economy. They are ambitious, nimble and have the potential to create high value employment", Najib was cited as saying by state-run news agency Bernama.
Ma last year became the Malaysian government's "digital economy" adviser.
The company, often compared to US giants Amazon and eBay, has expanded outside its core e-commerce business, in sectors ranging from sports to entertainment.
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