Methods and compositions are provided that use proline, serine and threonineto promote healing of the intestinalmucosa. A therapeutically effective amount of proline, serine and threonine isadministered to an individual in need thereof, for examplea human or other mammal, such as an individual that has damaged intestinalmucosa. The methods and compositions can promotemucosal healing, restore gut barrier function, repair intestinal epithelialcells, promote protection of the colonic epithelium,and/or promote the replenishment of goblet cells in the intestinal and colonicmucosa.