| Motif id | From | To | Definition | E value | Score |
| pf:RuvA_N | 1 | 61 | RuvA N terminal domain
| 1.2e-19 | - |
| pf:HHH_5 | 71 | 128 | Helix-hairpin-helix domain
| 4e-14 | - |
| pf:HHH | 74 | 90 | Helix-hairpin-helix motif
| 0.092 | - |
| pf:HHH_8 | 95 | 123 | Helix-hairpin-helix domain
| 0.067 | - |
| pf:IMS_HHH | 106 | 122 | IMS family HHH motif
| 0.007 | - |
| pf:RecR_HhH | 109 | 127 | | 0.024 | - |
| pf:Ribosomal_S13 | 109 | 163 | Ribosomal protein S13/S18
| 0.46 | - |
| pf:HHH | 111 | 124 | Helix-hairpin-helix motif
| 0.087 | - |
| pf:RuvA_C | 155 | 197 | RuvA, C-terminal domain
| 4.8e-10 | - |