| Motif id | From | To | Definition | E value | Score |
| pf:HHH_8 | 80 | 103 | Helix-hairpin-helix domain
| 0.7 | - |
| pf:HHH_4 | 87 | 137 | Helix-hairpin-helix containing domain
| 1.2e-05 | - |
| pf:HHH | 89 | 102 | Helix-hairpin-helix motif
| 0.63 | - |
| pf:HHH_5 | 90 | 137 | Helix-hairpin-helix domain
| 8.5e-09 | - |
| pf:HHH_2 | 90 | 143 | Helix-hairpin-helix motif
| 0.00032 | - |
| pf:HHH_3 | 90 | 134 | Helix-hairpin-helix motif
| 0.21 | - |
| pf:HHH_4 | 140 | 230 | Helix-hairpin-helix containing domain
| 1.1e-36 | - |
| pf:HHH_5 | 155 | 198 | Helix-hairpin-helix domain
| 0.17 | - |
| pf:DUF815 | 320 | 367 | Protein of unknown function (DUF815)
| 0.85 | - |
| pf:AAA_30 | 321 | 499 | AAA domain
| 1.2e-43 | - |
| pf:AAA_11 | 321 | 375 | AAA domain
| 1.7e-05 | - |
| pf:PhoH | 323 | 388 | PhoH-like protein
| 0.21 | - |
| pf:UvrD-helicase | 323 | 381 | UvrD/REP helicase N-terminal domain
| 0.0022 | - |
| pf:T2SSE | 323 | 368 | Type II/IV secretion system protein
| 0.0081 | - |
| pf:PIF1 | 324 | 461 | PIF1-like helicase
| 0.0011 | - |
| pf:AAA_19 | 325 | 459 | AAA domain
| 5.8e-45 | - |
| pf:DEAD | 325 | 430 | DEAD/DEAH box helicase
| 0.026 | - |
| pf:nSTAND3 | 326 | 366 | | 6.6e-05 | - |
| pf:AAA_16 | 327 | 366 | AAA ATPase domain
| 0.0014 | - |
| pf:MeaB | 327 | 369 | | 0.0099 | - |
| pf:TsaE | 329 | 361 | Threonylcarbamoyl adenosine biosynthesis protein TsaE
| 0.82 | - |
| pf:Rad17 | 329 | 356 | Rad17 cell cycle checkpoint protein
| 0.49 | - |
| pf:Zeta_toxin | 333 | 366 | Zeta toxin
| 0.29 | - |
| pf:AAA_23 | 334 | 355 | AAA domain
| 0.27 | - |
| pf:AAA_22 | 335 | 435 | AAA domain
| 2.2e-05 | - |
| pf:TrwB_AAD_bind | 335 | 377 | Type IV secretion-system coupling protein DNA-binding domain
| 0.02 | - |
| pf:ATPase_2 | 335 | 428 | ATPase domain predominantly from Archaea
| 0.12 | - |
| pf:ABC_tran | 336 | 363 | ABC transporter
| 0.26 | - |
| pf:Herpes_Helicase | 336 | 389 | Helicase
| 1 | - |
| pf:SLFN-g3_helicase | 337 | 423 | | 0.01 | - |
| pf:MobB | 337 | 367 | Molybdopterin guanine dinucleotide synthesis protein B
| 0.11 | - |
| pf:cobW | 337 | 367 | CobW/HypB/UreG, nucleotide-binding domain
| 0.15 | - |
| pf:SRP54 | 337 | 370 | SRP54-type protein, GTPase domain
| 0.3 | - |
| pf:Viral_helicase1 | 338 | 457 | Viral (Superfamily 1) RNA helicase
| 0.00027 | - |
| pf:NTPase_1 | 338 | 366 | NTPase
| 0.026 | - |
| pf:AAA_5 | 338 | 369 | AAA domain (dynein-related subfamily)
| 0.17 | - |
| pf:KTI12 | 338 | 368 | Chromatin associated protein KTI12
| 0.31 | - |
| pf:Helicase_RecD | 339 | 439 | Helicase
| 0.00027 | - |
| pf:AAA_28 | 339 | 434 | AAA domain
| 0.0016 | - |
| pf:AAA | 339 | 364 | ATPase family associated with various cellular activities (AAA)
| 0.23 | - |
| pf:AAA_11 | 417 | 457 | AAA domain
| 0.0039 | - |
| pf:SH3_13 | 562 | 623 | | 1e-23 | - |
| pf:DUF4926 | 591 | 631 | Domain of unknown function (DUF4926)
| 0.057 | - |
| pf:Viral_helicase1 | 639 | 693 | Viral (Superfamily 1) RNA helicase
| 0.0001 | - |
| pf:UvrD_C_2 | 646 | 694 | UvrD-like helicase C-terminal domain
| 8.9e-20 | - |
| pf:UvrD_C | 650 | 694 | UvrD-like helicase C-terminal domain
| 0.039 | - |
| pf:AAA_12 | 651 | 697 | AAA domain
| 0.34 | - |