According to the world health organization 49% of the 10.4 million deaths occurring in children less than 5 years in developing countries are associated with protein Energy Malnutrition (PEM). The aims of this study to assess protein energy malnutrition among children less than 5 years and identify the clinical management protocol treatment for the affected children at Mohammed Elameen Hamid. Methods and Material: This study targeting PEM children and health professionals at the hospital. Fifty (50) all professionals were interview (working staff) in malnourished children wards at Mohammed Elameen Hamid Hospital for Children.140 children less than 5 years admitted to the hospital with PEM during the collection of data convincingly selected. The tool used to collect data in the study was questionnaire. Result: 80% of the health professionals are female. (50%) of the professional's respondent confirm that the major causes of malnutrition were parent's awareness, economic status and culture. (90%) of the professionals respondent agree that national and international treatment protocols have been applying at the hospital. (90%) were sure that undergo enough treatment and flow up for malnutrition child at the hospitals. (56%)agree about the number of children with malnutrition admitted to the hospitals in the past five years increases year after year. 66% of the professionals were revealed that suitable treatment for children with malnutrition are includes drugs, balance diet, and ORS (oral dehydration solutions). 43.6% of children their age 12-24 month, 58% are male, 80% of them weaned gradually, 92.1 % take 3-4 meals/day, 58.6 % of them are marasmic, 55.0% have deficiency Anemia's, Pneumonia, Acute Bronchitis before get malnourished. Fathers and mothers education level was basic education (44.3%) and (46.4) respectively. Conclusion: Hospital has been use national and international treatment protocols. Affected children admitted to hospital increase year ........