Aims: The purpose of this study was to evaluate ergonomic assessment MSDs risk in computer users with Rapid Upper Limb Assessment (RULA) method and Nordic questionnaire. Materials and Methods: This cross-sectional study was conducted on 96 computer users in computer sites, Isfahan University of Medical Sciences. The data were analyzed using test SPSS 20 and descriptive statistics and ANOVA test. Data collection tool was Nordic questionnaire and checklist RULA. Results: By Nordic questionnaire, the results showed that MSDs prevalence in computer users were, in the neck (54.9%), back (53.1%), and elbow (43.2%) more than in other parts of the body. Based on the level of risk, RULA was 24 individuals in an area of low risk, 41 individuals area of caution, and 31 individuals in the area hazard. MSDs prevalence was in women more than men. Furthermore, ANOVA test showed that there is direct and significant correlation between age and work experience with a final score RULA (P < 0.001). Conclusion: This study result showed that frequency of musculoskeletal problems in the neck, back, elbow, and wrist was generally high among our subjects, and ergonomic interventions such as computer workstation redesign, users educate about ergonomic principles computer with work, reduced working hours in computers with work must be carried out.