Waist-hip ratio was slightly lower in carriers of rare PPP1R3B missense variants among both pre-diabetic individuals (carriers: 0.85 (IQR: 0.78–0.88); non-carriers: 0.90 (IQR: 0.83–0.95), p = 0.05) and patients with T2D (carriers: 0.97 (IQR: 0.94–1.03); non-carriers: 0.98 (IQR: 0.92–1.03), p = 0.03). Here, PPP1R3B is linked to type 2 diabetes mellitus.