In June 2021 a new extreme flood was reported in the Amazon Basin, the largest hydrological system on Earth. During this event water level was above 29 m (the emergency threshold) for 91 days at Manaus station (Brazil), surpassing even the previous historical flood of 2012. Since the late 1990s, 9 extreme floods occurred, while only 8 events were reported from 1903 to 1998. Here we report that the 2021 flood is associated with an intensification of the atmospheric upward motion in the northern Amazonia (5°S-5°N), which is related to an intensification of the Walker circulations. This atmospheric feature is associated with an enhanced of deep convective clouds and intense rainfall over the northern Amazonia that produce positive anomalies of terrestrial water storage over northern Amazonia in the 2021 austral summer. The intensification of Walker circulation is associated with La Niña conditions that characterize the major floods observed in Amazonia during the 21st century (2009, 2012 and 2021). However, during the 2021 an intensification of the continental Hadley circulation is also observed. This feature produces simultaneous dry conditions over southern and southeastern Amazonia, where negative rainfall anomalies, low frequency of deep convective clouds and negative anomalies of terrestrial water storage are observed.