| Motif id | From | To | Definition | E value | Score |
| pf:RuvA_N | 1 | 62 | RuvA N terminal domain
| 3e-18 | - |
| pf:HHH_5 | 72 | 130 | Helix-hairpin-helix domain
| 7.8e-15 | - |
| pf:HHH_8 | 95 | 124 | Helix-hairpin-helix domain
| 0.35 | - |
| pf:RecR_HhH | 107 | 128 | | 0.0075 | - |
| pf:DNA_pol_lambd_f | 110 | 125 | Fingers domain of DNA polymerase lambda
| 0.03 | - |
| pf:IMS_HHH | 110 | 124 | IMS family HHH motif
| 0.013 | - |
| pf:HHH | 110 | 124 | Helix-hairpin-helix motif
| 0.028 | - |
| pf:RuvA_C | 155 | 199 | RuvA, C-terminal domain
| 2.8e-08 | - |