| Motif id | From | To | Definition | E value | Score |
| pf:RuvA_N | 24 | 84 | RuvA N terminal domain
| 3.4e-20 | - |
| pf:HHH_5 | 94 | 152 | Helix-hairpin-helix domain
| 3.9e-16 | - |
| pf:HHH | 96 | 113 | Helix-hairpin-helix motif
| 0.0043 | - |
| pf:HTH_78 | 122 | 153 | | 0.54 | - |
| pf:HHH | 127 | 146 | Helix-hairpin-helix motif
| 0.00065 | - |
| pf:RecR_HhH | 129 | 148 | | 0.00022 | - |
| pf:IMS_HHH | 132 | 146 | IMS family HHH motif
| 0.12 | - |
| pf:Transposase_20 | 132 | 154 | Transposase IS116/IS110/IS902 family
| 0.96 | - |
| pf:RuvA_C | 183 | 224 | RuvA, C-terminal domain
| 2.3e-14 | - |