| Motif id | From | To | Definition | E value | Score |
| pf:RuvA_N | 1 | 61 | RuvA N terminal domain
| 9.7e-21 | - |
| pf:HHH_5 | 71 | 129 | Helix-hairpin-helix domain
| 4.3e-13 | - |
| pf:HHH_3 | 105 | 135 | Helix-hairpin-helix motif
| 0.31 | - |
| pf:HHH_8 | 106 | 123 | Helix-hairpin-helix domain
| 0.63 | - |
| pf:Cdd1 | 106 | 124 | Pathogenicity locus
| 0.37 | - |
| pf:RecR_HhH | 107 | 126 | | 0.0015 | - |
| pf:Transposase_20 | 107 | 129 | Transposase IS116/IS110/IS902 family
| 0.58 | - |
| pf:HHH | 108 | 122 | Helix-hairpin-helix motif
| 0.68 | - |
| pf:IMS_HHH | 109 | 123 | IMS family HHH motif
| 0.38 | - |
| pf:RuvA_C | 154 | 199 | RuvA, C-terminal domain
| 5.2e-11 | - |