Protein profiles of brain areas mediating effects of steroid hormones on copulation were compared between animals in gonadal steroid states predictive of either the presence or absence of copulatory activity. A broad range of proteins present in micropunches of tissue from the medial preoptic area (MPO) and from the ventromedial hypothalamus (VMH) were compared between male and female rats with gonadal steroids present or absent. Half of the animals of each gender were gonadectomized 1 month prior to sacrifice. The remaining males were left intact, while the remaining females were gonadectomized, implanted with estrogen capsules, and injected with progesterone prior to sacrifice. These females were screened for sexual receptivity immediately prior to sacrifice. Proteins from the MPO and VMH of each animal were separated by two-dimensional gel electrophoresis, silver stained, and quantified by computerized optical densitometry. Several proteins differed in density between gels of high-steroid males and females and between high-steroid and absent-steroid animals of one or both genders. Two previously reported sex differences were replicated and found to depend on activational effects of gonadal steroids. Several interesting reversal patterns were noted between MPO and VMH, including three proteins that were affected by gonadectomy in the MPO of males, but not females, and in the VMH of females, but not males, thus correlating with sexual function. These included serum albumin (a possible index of local area blood flow) and neuron-specific enolase, a glycolytic enzyme of anaerobic metabolism. A probable genetic polymorphism was discovered at a locus whose expression appears to be regulated by gonadal steroids. In general, it appears that gonadal steroids exert a quantitative influence over several proteins in the MPO and in the VMH, and that the pattern of proteins affected and the direction of the effect are both area and gender specific.