The molecular influence on glass transition temperature (T g ) of select model polyamides was investigated by atomistic modeling. These include nylon 6,6, nylon 6,12, a cycloaliphatic polyamide consisting of 4,4'-methylene-bis(cyclohexylamine) and dodecanedioic acid, as well as a corresponding aromatic counterpart consisting of 4,4'-methylenedianiline and dodecanedioic acid. For each model system, all-atom atomistic molecular dynamics simulations were used to discern and differentiate parameters such as free volume, hydrogen bonding, and chain rigidity. Simulations were able to predict the correct trend in T g , where the model cycloaliphatic polyamide was shown to have the highest T g followed by the aromatic polyamide. This is presumably due to the greater chain rigidity exhibited by the cycloaliphatic polyamide around the cyclohexyl ring, which was revealed through a calculation of the dihedral rotation free energy barrier associated with the methylene moiety between either the bis-cyclohexyl or bisphenyl rings, despite the former having a higher extent of free volume.