Systemic inflammation is a serious condition that can affect various tissues and organs, such as the kidneys, and can be life-threatening. Selenium (Se) is an antioxidant and anti-inflammatory trace element. In this study, we aimed to examine the effects of Se, which has antioxidant and anti-inflammatory properties, on lipopolysaccharide (LPS)-induced kidney damage to maintain aquaporin-1 (AQP-1) levels. Four experimental rat groups (n = 8) consisting of the control, LPS alone, LPS + Se, and Se alone were so applied for 7 consecutive days. Upon sacrifice, histopathological results, diagnostic markers of kidney functions, oxidative stress, and inflammation were analyzed. Our results showed that LPS induced mononuclear cell infiltration, cellular residue, and protein deposition in the kidney proximal tubules, and also decreased total antioxidant status levels and increased total antioxidant status and oxidative stress index values. LPS increased the level of creatinine, increased the level of Nuclear Factor kappa B, which has an important role in the inflammation process, and decreased the levels of AQP-1 due to the damage it caused. Se has shown its effect by reversing all these situations. This data suggests that Se can be used as an additive to mitigate LPS-induced toxicity in the kidney.