The cyclooxygenase (COX) reaction of prostaglandin (PG) biosynthesis begins with the highly specific oxygenation of arachidonic acid in the 11R configuration and ends with a 15S oxygenation to form PGG 2 . To obtain new insights into the mechanisms of stereocontrol of oxygenation, we mutated active site residues of human COX-2 that have potential contacts with C-11 of the reacting substrate. Although the 11R oxygenation was not perturbed, changing Leu-384 (into Phe, Trp), Trp-387 (Phe, Tyr), Phe-518 (Ile, Trp, Tyr), and Gly-526 (Ala, Ser, Thr, Val) impaired or abrogated PGG 2 synthesis, and typically 11R-HETE was the main product formed. The Gly-526 and Leu-384 mutants formed, in addition, three novel products identified by LC-MS, NMR, and circular dichroism as 8,9 -11,12-diepoxy-13R-(or 15R)-hydro(pero)xy derivatives of arachidonic acid. Mechanistically, we propose these arise from a free radical intermediate in which a C-8 carbon radical displaces the 9,11-endoperoxide O-O bond to yield an 8,9 -11,12-diepoxide that is finally oxygenated stereospecifically in the 13R or 15R configuration. Formation of these novel products signals an arrest in the normal course of prostaglandin synthesis just prior to closing of the 5-membered carbon ring, and points to a crucial role for Leu-384 and Gly-526 in the correct positioning of the reacting fatty acid intermediate. Some of the Gly-526 and Leu-384 mutants catalyzed both formation of PGG 2 (with the normal 15S configuration) and the 13R-or 15R-oxygenated diepoxides. This result suggests that oxygenation specificity can be determined by the orientation of the reacting fatty acid radical and is not a predetermined outcome based solely on the structure of the cyclooxygenase active site.The oxygenation steps in prostaglandin synthesis involve a series of free radical reactions that convert the arachidonic acid substrate into the prostaglandin endoperoxide product, PGG 2 (1, 2). Two molecules of oxygen are incorporated into the fatty acid and five new centers of chirality are created in the process (for recent reviews, see . Steric control by the cyclooxygenase (COX) 1 enzyme is almost perfect, such that the only significant products in addition to PGG 2 are small percentages of the mono-hydroperoxy fatty acids 11R-hydroperoxyeicosatetraenoic acid (11R-HPETE), 15R-HPETE, and 15S-HPETE (7, 8). These by-products are formed at the two positions on arachidonic acid that are normally oxygenated during the transformation to prostaglandins. At the separate peroxidase site on the enzyme, PGG 2 is ultimately reduced to its 15-hydroxy analog, PGH 2 , and similarly, the HPETEs to their hydroxyl analogs, HETEs. The order of the individual steps in the main reaction is well understood. What is not so well understood is the structural or mechanistic basis for the exquisite control of stereochemistry throughout the process. Different experimental approaches are being pursued to answer this question including the use of EPR to probe radical intermediates (9, 10), protein crystallization and ...