| Domain | Name | Category | Type |
| IPR001406 | Pseudouridine synthase I, TruA | Family | Family |
| IPR020095 | Pseudouridine synthase I, TruA, C-terminal | Family | Homologous superfamily |
| IPR020097 | Pseudouridine synthase I, TruA, alpha/beta domain | Domain | Domain |
| IPR020103 | Pseudouridine synthase, catalytic domain superfamily | Family | Homologous superfamily |
| IPR041707 | Pseudouridine synthase Pus3-like | Family | Family |