Various studies have been conducted to minimize the damage and loss of stored grain. For safe storage, the moisture content must be reduced, or respiration must be suppressed. In this study, grain respiration rates were analyzed under various nitrogen atmospheric conditions, and the quality of stored rice was evaluated. As the nitrogen content of the storage space increases, the respiration rate of the grain decreases accordingly. In this study, the effect of the modified atmospheric nitrogen concentration on reducing respiration was determined. When predicting weight loss due to respiration, low moisture content, and high nitrogen concentration could reduce loss. Quality analysis was performed to compare different respiration rate conditions and showed that lower oxygen concentration and moisture content were associated with safer storage. Our results indicate that changes in atmospheric conditions depending on climate and storage conditions can be considered for the safe storage of harvested rice.