| Motif id | From | To | Definition | E value | Score |
| pf:RuvA_N | 1 | 62 | RuvA N terminal domain
| 3.6e-27 | - |
| pf:HHH_5 | 72 | 130 | Helix-hairpin-helix domain
| 2.5e-16 | - |
| pf:HHH | 74 | 91 | Helix-hairpin-helix motif
| 0.59 | - |
| pf:HHH_8 | 106 | 124 | Helix-hairpin-helix domain
| 1 | - |
| pf:HHH | 107 | 125 | Helix-hairpin-helix motif
| 0.00064 | - |
| pf:Transposase_20 | 109 | 154 | Transposase IS116/IS110/IS902 family
| 0.0069 | - |
| pf:RecR_HhH | 110 | 127 | | 0.0041 | - |
| pf:IMS_HHH | 111 | 125 | IMS family HHH motif
| 0.035 | - |
| pf:5_3_exonuc | 112 | 138 | 5'-3' exonuclease, C-terminal SAM fold
| 0.56 | - |
| pf:RuvA_C | 157 | 200 | RuvA, C-terminal domain
| 3e-16 | - |
| pf:UBA_7 | 160 | 187 | | 0.059 | - |