NHERF (Na+/H+ exchanger regulatory factor) and E3KARP (NHE3 kinase A regulatory protein or NHERF2) are structurally related adapter proteins that contain two tandem PDZ (PSD-95/Dlg-1/ZO-1) domains. Recent studies suggest that these proteins play important roles in the membrane targeting, trafficking, and sorting of several ion channels, transmembrane receptors, and signaling proteins in many tissues. Both NHERF and E3KARP interact with NHE3 through their C-terminally extended second PDZ domain, and the last 30 amino acids of these PDZ domain proteins interact with ezrin. However, the structural bases of the full-length human NHERF and E3KARP, in their physiological roles on the regulation of NHE3 trafficking, are still unknown. To obtain pure and soluble proteins for crystallization and X-ray studies, NHERF and E3KARP were subcloned into pET-30b and pET-30a vectors, and overexpressed in Escherichia coli strains of BL21(DE3). The soluble NHERF and E3KARP proteins were purified using Ni-NTA, anion-exchange column and gel filtration chromatography. The purity, molecular mass, and the conformation of the proteins were determined by high-performance liquid chromatography, matrix-assisted laser desorption-ionization-time-of-flight mass spectroscopy and circular dichroism studies, respectively. (c) 2004 Elsevier Inc. All rights reserved.