TABLE I. Pfam hidden Markov models (HMMs) profiles used as queries against Giardia proteome database.
| Domain | Profile | |
| Ubiquitin Ub _L | Ubiquitin | PF00240;PF14560; PF14836 |
| Ribosomal L40e | PF01020 | |
| Ribosomal S27a | PF01599 | |
| This | PF02597 | |
| ATG8 | PF02990 | |
| ATG12 | PF04110 | |
| UFM1 | PF03671 | |
| URM1 | PF09138 | |
| Activating enzymes | ThiF family | PF00899 |
| Uba 5 | PF16190 | |
| Ubiquitin fold domain | PF09358 | |
| Ubiquitin activating | PF16195 | |
| SUMO activating | PF14732 | |
| Conjugating enzymes | UQ_con | PF00179 |
| UFC1 | PF08694 | |
| UAE | PF14732; PF08694 | |
| HECT ligases | HECT | PF00632; PF11547 |
| RING ligases | zf-C3HC4 | PF00097; PF13920; PF13923; PF15227; PF09743; PF15815; PF01485; PF16562; PF09288; PF12483; PF14496; PF16685; PF15926; PF09046; PF15303; |
| zf-C2H2 | PF00096 | |
| zf-RING_UBOX, | PF13445 | |
| BRE1 | PF08647 | |
| Zf-B-box | PF00643 | |
| Zinc finger, ZZ type | PF00569 | |
| Zf- MYND | PF01753 | |
| Zf-UBR | PF02207 | |
| U-box domain | PF04564 | |
| PHD-finger | PF00628;PF13831; PF16866; | |
| F-box; | PF00646 | |
| APC10 | PF03256 | |
| APC13p | PF05839 | |
| APC15p | PF05841 | |
| APC subunit 2 | PF08672 | |
| Cullin family | PF00888 | |
| Skp1 family | PF01466; PF09743 | |
| UFM1 ligase | SSF57850 Superfamily DB | |
| RING/U-box, | ||
| Deubiquitinating (DUB) | UCH | PF01088, PF00443; PF06337 |
| OTU | PF02338 | |
| PPPDE | PF05903 | |
| Peptidase family C78 | PF07910 | |
| MINDY | PF13898 |