In addition to the four chlorophylls (Chls) involved in primary charge separation, the photosystem II (PSII) reaction center polypeptides, D1 and D2, coordinate a pair of symmetry-related, peripheral accessory Chls. These Chls are axially coordinated by the D1-H118 and D2-H117 residues and are in close association with the proximal Chl antennae proteins, CP43 and CP47. To gain insight into the function(s) of each of the peripheral Chls, we generated site-specific mutations of the amino acid residues that coordinate these Chls and characterized their energy and electron transfer properties. Our results demonstrate that D1-H118 and D2-H117 mutants differ with respect to: (a) their relative numbers of functional PSII complexes, (b) their relative ability to stabilize charge-separated states, (c) light-harvesting efficiency, and (d) their sensitivity to photo-inhibition. The D2-H117N and D2-H117Q mutants had reduced levels of functional PSII complexes and oxygen evolution capacity as well as reduced light-harvesting efficiencies relative to wild-type cells. In contrast, the D1-H118Q mutant was capable of near wild-type rates of oxygen evolution at saturating light intensities. The D1-H118Q mutant also was substantially more resistant to photo-inhibition than wild type. This reduced sensitivity to photo-inhibition is presumably associated with a reduced light-harvesting efficiency in this mutant. Finally, it is noted that the PSII peripheral accessory Chls have similarities to a to a pair of Chls also present in the PSI reaction center complex.Photosystem II (PSII) is a membrane-bound pigment-protein complex that catalyzes the light-driven oxidation of water and reduction of plastoquinone. The simplest functional PSII complex capable of charge separation is the reaction center complex. The PSII reaction center complex contains five polypeptides (Nanba and Satoh, 1987;Gounaris et al., 1990). The largest polypeptides (32 kD) are the D1 and D2 polypeptides, each of which has five transmembranespanning alpha helices. Sandwiched between the D1 and D2 polypeptides are the four chlorophylls (Chls) and two pheophytins (Pheos) involved in primary charge separation (for review, see Ruffle and Sayre, 1998). Three additional small (10 kD) polypeptides are present in the PSII reaction center complex. Two of these proteins, psbE and psbF, coordinate the redox active heme, cytochrome (Cyt) b 559 . This heme is not involved in primary charge separation but participates in a low quantum yield electron transfer cycle around PSII that protects the complex from photodamage (Buser et al., 1992; Stewart et al., 1998). The fifth protein component is the psbI protein, a small structural polypeptide that stabilizes the complex (Nanba and Satoh, 1987).Amino acid sequence similarities between the D1 and D2 proteins and the analogous L and M subunits of the bacterial (Rhodopseudomonas viridis) photosynthetic reaction center indicated that the PSII reaction center was structurally analogous to the bacterial photosynthetic reaction center (Deisen...