tThis article proposes a novel fractional order robust vaccination controller based on the fractional orderSEIR epidemic model which is subject to the parametric uncertainties. Classical sliding mode controller isrobust but due to the high frequency chattering phenomena, it is not feasible for practical implementation.To reduce the chattering phenomena, a new fractional order sliding manifold is proposed and a low gainfractional order robust vaccination control law is formulated with same robustness as classical slidingmode control. Effectiveness of the proposed vaccination control strategy is shown through numericalsimulations.