The H subunit of the A
1A
O ATP synthase is a component of one of the peripheral stalksconnecting the A
1 and A
O domain. Subunit H of the
Methanocaldococcus jannaschii A
1A
O ATP synthasewas analyzed by small-angle X-ray scattering (SAXS) in order to determine the first low-resolution structureof this molecule in solution. Independent to the concentration used, the protein is dimeric and has aboomerang-like shape, divided into two arms of 12.0 and 6.8 nm in length. Circular dichroism (CD)spectroscopy revealed that subunit H is comprised of 78%
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-helix and a coiled-coil arrangement. Tounderstand the orientation of the helices and the localization of the N- and C-termini inside the dimer,three truncated forms of subunit H (H
8-104, H
1-98, and H
8-98) were expressed, purified, and analyzed byCD. SAXS experiments of H
1-98 show that the maximum dimension of the truncated protein dropped to15.1 nm. Comparison of the low-resolution shapes of H and H
1-98 indicates that this goes along withstructural changes in the C-terminal arm of the boomerang-like structure. Together with the result of adisulfide formation of a fourth truncated form, H
1-47, with a cysteine at position 47, the data suggest aparallel
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-helical interaction. In addition, all four truncated proteins are dimeric in solution. Tryptophanemission spectra showed specific binding of H and H
8-104 to the neighboring, catalytic A subunit, whichcould not be detected in the presence of H
1-98. Finally, the arrangement of H within the A
1A
O ATPsynthase is presented.