A number of recent genome-wide association studies in European populations have reported that variant rs17782313 is significantly associated with obesity and body mass index (BMI). The purpose of the present study was to evaluate the association of rs17782313 with obesity and BMI in the Chinese Han population. We also sought to extend previous studies by determining whether this SNP is associated with plasma lipid levels in the Chinese Han population. Rs17782313 was genotyped in two independent Chinese Han cohorts (Cohort1: n = 2533; Cohort2: n = 2105). In our study, rs17782313 did not show significant association with either obesity or BMI in the Chinese Han population, but showed evidence for association with LDL-C (P ~ 0.003) and TC (P ~ 0.001). Our findings indicate that the variant rs17782313 near MC4R is likely to have an impact on plasma lipid levels of LDL-C and TC in the Chinese Han population.