Highlights The protonation effect on the excited state dynamics is investigated Two pyrimidine chromophores, bearing the A-(π-D)2 and A-(π-D)3 structure, are used Time resolved fluorescence spectroscopy (fs and ns) is employed Protonation using three different acids, CSA, TFA and AcOH is studied The dynamics of the neutral chromophores become faster upon protonation with AcOH