Vacuolar proton-translocating ATPase (holoATPase and free membrane sector) was isolated from bovine chromaffin granules by blue native polyacrylamide gel electrophoresis. A 5-fold excess of membrane sector over holoenzyme was determined in isolated chromaffin granule membranes. M9.2, a novel extremely hydrophobic 9.2-kDa protein comprising 80 amino acids, was detected in the membrane sector. It shows sequence and structural similarity to Vma21p, a yeast protein required for assembly of vacuolar ATPase. A second membrane sector-associated protein (M8-9) was identified and characterized by aminoterminal protein sequencing.Proton-translocating adenosine triphosphatases have fundamental roles in energy conservation, secondary active transport, the acidification of intracellular compartments, and cellular pH homeostasis. They fall into three broad classes, called F, P, and V (1), of which the vacuolar type (V-ATPases) 1 is both the most recently recognized and the least well characterized. ATPases of this class occur in endomembranes bounding the acidic compartments of animal, plant, and fungal cells (2) and also in the plasma membranes of some specialized cell types. They have been purified from several mammalian sources, including adrenal secretory vesicles (3, 4), brain clathrincoated vesicles, (5, 6), and kidney medulla microsomes (7), as well as from the vacuoles of fungi and higher plants. Most V-ATPases contain some 6 -10 different subunits (2), but subunit composition depends on the source of the enzyme, and tissue-specific isoforms exist (8). The V-type ATPases are structurally similar to those of the F-type, having a transmembrane proton-conducting sector and an extramembrane catalytic sector. By analogy with the two sectors of F-ATPases (9 -12), these are termed V 0 and V 1 , respectively. For a recent review, see Ref. 13.In this work, the recently developed technique of blue native polyacrylamide gel electrophoresis (BN-PAGE; Refs. 14 -17) was employed to purify vacuolar ATPase holoenzyme (V 1 V 0 ) and free membrane sector (V 0 ) simultaneously from adrenal secretory vesicle membranes. Combined with high resolution Tricine-SDS-PAGE in the second dimension, the subunit composition, particularly with respect to small polypeptides, was determined. Two novel proteins, 8 -9 and 9.2 kDa in size, were found in the membrane sector. Here we report the detailed analysis of the larger of these two polypeptides.
EXPERIMENTAL PROCEDURESMaterials-Restriction enzymes and T4-DNA ligase were obtained from New England Biolabs. Taq DNA polymerase was from Stratagene, and TA Cloning Kit ® was from Invitrogen. Sequenase version 2.0 sequencing kit, [␣-35 S]dATP and Hybond N ϩ membranes were obtained from Amersham Pharmacia Biotech. ABI Prism™ dye terminator cycle sequencing kit was purchased from Perkin Elmer. The cDNA library from bovine adrenal medulla was a kind gift from Leonora Ciufo (University of Edinburgh, Edinburgh, Scotland, United Kingdom). Human EST clone ID 143553 (GenBank™accession number R75754) was obtained fr...