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The threat was to prominent locations in the Australian city, including Flinders St Station, Federation Square and St Paul's Cathedral.
Five men are in custody after early-morning raids on Friday, Victoria Police chief Graham Ashton said.
The threat involved "use of explosives" and other weapons including "knives or a firearm".
Ashton said there was no longer a threat to the public.
"We don't have any threat over and above that threat that we've currently neutralised," he said at a press conference.
The raids on five locations in Melbourne's north and west came after weeks of police surveillance.
"We believe that there was an intention to conduct what we call a multi-mode attack, possibly on Christmas Day," Ashton was reported by the BBC as saying.
Four of the suspects were Australian-born men in their 20s of a Lebanese background, while the fifth was an Australian of Egyptian origin, he added.