| Motif id | From | To | Definition | E value | Score |
| pf:RuvA_N | 1 | 62 | RuvA N terminal domain
| 3.3e-18 | - |
| pf:HHH_5 | 72 | 130 | Helix-hairpin-helix domain
| 5.7e-16 | - |
| pf:Transposase_20 | 107 | 130 | Transposase IS116/IS110/IS902 family
| 0.014 | - |
| pf:HHH_3 | 107 | 125 | Helix-hairpin-helix motif
| 0.66 | - |
| pf:HHH | 108 | 124 | Helix-hairpin-helix motif
| 0.29 | - |
| pf:RecR_HhH | 108 | 128 | | 0.042 | - |
| pf:RuvA_C | 147 | 189 | RuvA, C-terminal domain
| 7.2e-09 | - |
| pf:UBA_7 | 148 | 169 | | 0.16 | - |