| Motif id | From | To | Definition | E value | Score |
| pf:RuvA_N | 1 | 61 | RuvA N terminal domain
| 1.9e-19 | - |
| pf:Rep3_N | 63 | 172 | | 0.009 | - |
| pf:HHH_5 | 71 | 129 | Helix-hairpin-helix domain
| 8.9e-13 | - |
| pf:HHH | 74 | 90 | Helix-hairpin-helix motif
| 0.15 | - |
| pf:HHH_7 | 89 | 147 | Helix-hairpin-helix motif
| 0.19 | - |
| pf:HHH | 101 | 124 | Helix-hairpin-helix motif
| 0.069 | - |
| pf:DUF7632 | 101 | 151 | | 0.24 | - |
| pf:RuvA_C | 151 | 193 | RuvA, C-terminal domain
| 2.8e-09 | - |