Substituted quinones are usually employed as cofactors in electron transport chains, as demonstrated in bacterial reaction centers (1, 2), and in the two photosystems of plants and cyanobacteria (3-5). These quinones comprise a relatively polar ring, which consists of either a benzoquinone (BQ) 1 or a naphthoquinone (NQ) "head group" and a non-polar isoprenoid "tail" of various chain lengths and degrees of saturation. Benzoquinones such as plastoquinone-9 (PQ-9) and ubiquinone-10 function either as fixed or exchangeable electron/proton carriers during photosynthetic and respiratory electron transport. In photosystem II (PS II), PQ-9 functions as a bound one-electron cofactor in the Q A site and as an exchangeable two-electron/ two-proton cofactor in the Q B site. The reduced PQH 2 -9 is displaced from the Q B site, diffuses laterally through the membrane, and becomes oxidized and deprotonated by the cytochrome b 6 f complex. Photosynthetic reaction centers (RCs) of purple bacteria use either ubiquinone-10 (e.g. Rhodobacter sphaeroides) in a similar double role or menaquinone-9 in the Q A site (e.g. Rhodosprillulum viridis). In photosystem I (PS I), phylloquinone (PhQ), a substituted 1,4-NQ with a 20-carbon, largely saturated phytyl tail, functions as a bound one-electron cofactor in the A 1 site. PS I contains two PhQ molecules/P700, but neither of the two quinones functions in a manner equivalent to Q B in the bacterial RC and PS II. Instead, the electron is transferred from the active quinone(s) to soluble ferredoxin via a chain of three bound iron-sulfur centers. Quinones are therefore extremely versatile; they can function as the interface between electron transfer involving organic cofactors and electron transfer involving iron-sulfur clusters (as in PS I), or between pure electron transfer and coupled electron/proton transfer involving a second organic cofactor (as in PS II). Each quinone displays equilibrium binding and redox properties that can be very different for each site of interaction (6), and these properties are conferred largely by the protein environment.To understand the structural determinants that allow quinones to function with a low redox potential in the A 1 site of PS I, we embarked on a project aimed at biological replacement of