But he went on to score 51 in the first innings to keep his place in the team.
In 89 Tests Atapattu has scored 5,397 runs at 38.
83, with 16 hundreds.
Atapattu is embroiled in a stand-off with Sri Lanka Cricket officials following his criticism of national selectors during the first Test, in Brisbane.
After his half-century in the first innings at the Gabba, Atapattu said in a press conference that Sri Lankan selectors were "muppets headed by a joker," referring to panel chairman Ashanta de Mel.
The Sydney Morning Herald newspaper said Atapattu spoke to officials of Sydney's St George club between the first and second Tests regarding a possible move to Australia.
The newspaper said the former Sri Lankan captain could be in Sydney before Christmas and be available to play for St George, in Sydney's southern suburbs.
Atapattu is expected to face a disciplinary hearing over the outburst in Sri Lanka on his return home from the Australian tour.
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But Sri Lankan team sources told t