The salt overly sensitive (SOS) pathway is critical for plant salt stress tolerance and has a key role in regulating ion transport under salt stress. To further investigate salt tolerance factors regulated by the SOS pathway, we expressed an N-terminal fusion of the improved tandem affinity purification tag to SOS2 (NTAP-SOS2) in sos2-2 mutant plants. Expression of NTAP-SOS2 rescued the salt tolerance defect of sos2-2 plants, indicating that the fusion protein was functional in vivo. Tandem affinity purification of NTAP-SOS2-containing protein complexes and subsequent liquid chromatography-tandem mass spectrometry analysis indicated that subunits A, B, C, E, and G of the peripheral cytoplasmic domain of the vacuolar H ؉ -ATPase (V-ATPase) were present in a SOS2-containing protein complex. Parallel purification of samples from control and saltstressed NTAP-SOS2/sos2-2 plants demonstrated that each of these V-ATPase subunits was more abundant in NTAP-SOS2 complexes isolated from salt-stressed plants, suggesting that the interaction may be enhanced by salt stress. Yeast two-hybrid analysis showed that SOS2 interacted directly with V-ATPase regulatory subunits B1 and B2. The importance of the SOS2 interaction with the V-ATPase was shown at the cellular level by reduced H ؉ transport activity of tonoplast vesicles isolated from sos2-2 cells relative to vesicles from wild-type cells. In addition, seedlings of the det3 mutant, which has reduced V-ATPase activity, were found to be severely salt sensitive. Our results suggest that regulation of V-ATPase activity is an additional key function of SOS2 in coordinating changes in ion transport during salt stress and in promoting salt tolerance.To cope with salt stress, plants have evolved strategies to maintain low Na ϩ concentrations in the cytoplasm. The salt overly sensitive (SOS) pathway, identified through isolation and study of the sos1, sos2, and sos3 mutants, is essential for maintaining favorable ion ratios in the cytoplasm and for tolerance of salt stress (63, 64). SOS1 is a Na ϩ /H ϩ exchanger located on the plasma membrane (39, 53); SOS3 is a myristoylated EF hand-type Ca 2ϩ -binding protein able to sense specific salt stress-induced calcium signals (19), and SOS2 is a Ser/Thr kinase with a C-terminal regulatory domain and an N-terminal catalytic domain (24). During salt stress conditions, the SOS2-SOS3 complex phosphorylates and activates the transport activity of the SOS1 antiporter (42).The function of the SOS2-SOS3 regulatory complex depends on interaction of SOS2 and regulatory proteins, including SOS3. The C-terminal regulatory domain of SOS2 consists of an autoinhibitory FISL motif that binds to SOS3 (13, 24) and a PPI motif that binds to type 2C protein phosphatase abcisic acid (ABA)-insensitive 2 (ABI2) (33). Yeast two-hybrid experiments have shown that the SOS2 protein physically interacts with SOS3, and in vitro phosphorylation assays have shown that Ca 2ϩ is required to activate the kinase activity of the SOS2-SOS3 complex (16). SOS3 binding also recr...