Periodontitis is a multifactorial disease. It results from bacterial plaque and is influenced by environmental and genetic factors. Pro-inflammatory cytokine, IL-1beta, has an important role in the pathogenesis of periodontal disease. It has been proposed that IL-1beta gene polymorphism plays important roles in the susceptibility to periodontal disease. The aim of the present study was to investigate the relationship between IL-1beta+3954 gene polymorphism and generalized aggressive periodontitis (GAP). This study included 25 diagnosed patients with GAP from Khorasan province and 18 periodontally healthy controls. They were referred to Periodontology Department of Mashad Dental School. Extracted DNA from peripheral blood was evaluated by PCR-RFLP method. Data were analyzed using chi-square test, fisher's exact test and two sample t-tests. There was no significant association between IL-1beta+3954 genotype and GAP disease (P=0.418). There was no significant association between IL-1beta+3954 alleles and GAP disease either. (P=0.370). However, there was some trend for greater 1.1 genotype and allele 1 prevalence in GAP patients compared to controls (56%, 44.4%, respectively for 1.1 genotype and 78% and 69.4%, respectively for allele 1). The frequencies of 1.1 genotype and allele I in the population of this study were 51.2% and 74.4%, respectively. The lack of any association between IL-1beta+3954 polymorphism and GAP, in the population presented here, brings into doubt the usefulness of this gene as a marker of susceptibility to GAP. To elucidate this relationship, more research is necessary.