We aimed in this research to investigate how a compound (KSK-94) with the strongest affinity at the histamine H3 receptor from this group, and significant binding to the sigma-2 receptor, which significantly reduced the development of obesity and selected metabolic disorders [32], influenced adipose tissue—the number and size of adipocytes and released factors (adipokines, factors involved in inflammation) in this model of developing obesity. Here, TMEM97 is linked to obesity due to melanocortin 4 receptor deficiency.