There is functional evidence that polycystin-2 (TRPP2) interacts with other members of the transient receptor potential family, including TRPC1 and TRPV4. Here we have used atomic force microscopy to study the structure of the TRPP2 homomer and the interaction between TRPP2 and TRPC1. The molecular volumes of both Myc-tagged TRPP2 and V5-tagged TRPC1 isolated from singly transfected tsA 201 cells indicated that they assembled as homotetramers. The molecular volume of the protein isolated from cells expressing both TRPP2 and TRPC1 was intermediate between the volumes of the two homomers, suggesting that a heteromer was being formed. The distribution of angles between pairs of anti-Myc antibodies bound to TRPP2 particles had a large peak close to 90°and a smaller peak close to 180°, consistent with the assembly of TRPP2 as a homotetramer. In contrast, the corresponding angle distributions for decoration of the TRPP2-TRPC1 heteromer by either anti-Myc or anti-V5 antibodies had predominant peaks close to 180°. This decoration pattern indicates a TRPP2:TRPC1 subunit stoichiometry of 2:2 and an alternating subunit arrangement.Autosomal dominant polycystic kidney disease is one of the commonest inherited human disorders (reviewed in Ref. 1). It has a population prevalence of over 1:1,000 in all ethnic groups and is a leading cause of end stage renal failure. Autosomal dominant polycystic kidney disease is characterized by the progressive loss of normal renal parenchyma secondary to the development of multiple fluid-filled cysts derived from renal tubular epithelial cells. It is caused by mutations in two genes, PKD1 and PKD2, whose protein products, polycystin-1 (2, 3) and polycystin-2 (or TRPP2) (4) form a Ca 2ϩ -permeable ion channel complex (5). This complex transduces extracellular mechanical stimuli via the renal primary cilium (6) and regulates multiple intracellular Ca 2ϩ -sensitive signaling pathways (5, 7). TRPP2 also appears to have a role, independent of polycystin-1, in regulating Ca 2ϩ efflux from the endoplasmic reticulum (8, 9). In addition to its interaction with polycystin-1, TRPP2 is known to interact with other members of the TRP 4 superfamily, such as TRPC1 (10) and TRPV4 (11), raising the question of the architecture of these heteromeric complexes.TRP channel complexes have been assumed to be tetramers, initially on the basis of the resemblance of the primary structure of the TRP channel subunits to that of the Shaker K ϩ channel, which is known to be tetrameric (12). Moreover, a variety of structural and functional techniques have been used to demonstrate a tetrameric structure for a number of TRP channel family members, including TRPC1 (13), TRPC3 (14), TRPV1 (15, 16), TRPV5 and TRPV6 (17), and TRPM2 (18). Intriguingly, data have recently been presented indicating that TRPP2 exists in the plasma membrane as a trimer, which is then able to interact with polycystin-1 to form a heteromer with a 3:1 stoichiometry (19). It is puzzling that TRPP2 appears to behave differently from all other TRP channel...