Follicle-stimulating hormone (FSH) comprises an ␣ subunit and a  subunit, whereas the FSH receptor consists of two halves with distinct functions: the N-terminal extracellular exodomain and C-terminal membraneassociated endodomain. FSH initially binds to exodomain, and the resulting FSH/exodomain complex modulates the endodomain and generates signal. However, it has been difficult to determine which subunit of FSH contacts the exodomain or endodomain and in what orientation FSH interacts with them. To address these crucial issues, the receptor was Ala-scanned and the hormone subunits were probed with photoaffinity labeling with receptor peptides corresponding to the N-terminal region of the exodomain and exoloop 3 of the endodomain. Our results show that both regions of the receptors are important for hormone binding and signal generation. In addition, the FSH  subunit is specifically labeled with the N-terminal peptide, whereas the ␣ subunit is labeled with the exoloop 3 peptide. These contrasting results show that the FSH  subunit is close to the N-terminal region and that the ␣ subunit is projected toward exoloop 3 in the endodomain. The results raise the fundamental question whether the ␣ subunit, common among the glycoprotein hormones, plays a major role in generating the hormone signal common to all glycoprotein hormones.Follicle-stimulating hormone (FSH) 1 consists of an ␣ subunit of 92 amino acids and  subunit of 111 amino acids. Both of the subunits are necessary for hormone action (1, 2). The crystal structure of human FSH (3) shows that the two subunits are tightly associated in a crescent with the C termini in the concave side and the N termini in the convex side (Fig. 1A). This is essentially the same as the human chorionic gonadotropin structure (4, 5). An exception to this intermingled subunit structure is the two polarized tips of the crescent: the ␣ tip consisting of the ␣ loops 1 and 3 and the  tip of the  loops 1 and 3.In contrast to the tightly held hormone structure, the FSH receptor (FSHR), a G protein-coupled receptor, has two distinct domains as shown in Fig. 1B. The extracellular N-terminal exodomain comprises ϳ350 amino acids, and the membraneassociated C-terminal endodomain with a similar number of amino acids consists of seven transmembrane helices, three exoloops, three cytoloops, and the C-terminal cytoplasmic tail (6 -8). The exodomain binds the hormone with high affinity (9 -16) and selectivity (17), whereas the hormone signal is generated in the endodomain (18 -22). FSH initially interacts with the exodomain, and the resulting FSH/exodomain complex modulates the endodomain to generate hormone signal. Important amino acids have been identified for the interaction of the hormone and receptor (23,24). However, the orientation of FSH ␣ and  in the ternary complex of the hormone, exodomain, and endodomain has been a major enigma and difficult to determine.The bulk of the exodomain comprises 8 -9 Leu-rich repeats (LRR) (7,(25)(26)(27)(28), which are flanked by the short upstream...