Internal gears with small tooth number difference are widely used as core component in robotics, medical, and other fields. The clearance between the entire meshing teeth is much smaller compared with other gear transmissions, indicating that the entire tooth profile can significantly affect the mixed elastohydrodynamic lubrication (EHL) state of a certain meshing point. Thereby, available lubrication analysis is limited with the assumption of effective radius at each meshing point. In the present study, the entire tooth profile with gear flank modification is studied to improve lubricating characteristics. A mixed EHL model for predicting the film, pressure, power loss, and subsurface stress is presented with consideration of the entire tooth geometry. We find that the tooth geometry away from the meshing location shows a remarkable influence on the film and pressure distribution as well as power loss of tooth rubbing interface, which is commonly unrecognised in previous study. Optimization of modification parameters is observed under different operating conditions, highlighting the critical role of entire tooth geometry in mixed EHL behaviour for internal gears with small tooth number difference.