Table 1 List of different Pfam- and other profile families used to search RBPs from P. falciparum along with corresponding number of genes found in P. falciparum
From: A bioinformatic survey of RNA-binding proteins in Plasmodium
RNA-binding domain (number of families) | Pfam id | Pfam id description | Number of corresponding genes in P. falciparum |
|---|---|---|---|
RRM (8 families) | PF00076 | RRM_1 | 55 |
| Â | PF04059 | RRM_2 | 1 |
| Â | PF08777 | RRM_3 | 0 |
| Â | PF10598 | RRM_4 | 1 |
| Â | PF13893 | RRM_5 | 8 |
| Â | PF14259 | RRM_6 | 10 |
| Â | PF10378 | RRM | 0 |
| Â | PF05172 | Nup35_RRM | 0 |
| Â | PF10567 | Nab6_mRNP_bdg | 0 |
| Â | PF14605 | Nup53/35/40-type RNA recognition motif | 0 |
RNA Helicases | PF00271 | Helicase conserved C-terminal domain | 63 |
| Â | PF00270 | DEAD helicase | 51 |
| Â | PF12513 | Mitochondrial degradasome RNA helicase subunit C terminal | 1 |
K Homology | PF00013 | KH_1 (type I) | 5 |
| Â | PF07650 | KH_2 (type II) | 1 |
| Â | PF13014 | KH_3 | 0 |
| Â | PF13083 | KH_4 | 0 |
| Â | PF13184 | KH_5 | 0 |
| Â | SSF54791 | Eukaryotic type KH_domain I | 9 |
| Â | SSF54814 | Prokaryotic type KH_domain II | 2 |
Pumilio Homology Domain | PF00806 | Pumilio | 2 |
Alba | PF01918 | Alba | 6 |
C2H2 zinc finger | PF12171 | zf-C2H2_jaz | 2 |
| Â | PF12756 | zf-C2H2_2 | 1 |
| Â | PF00641 | zf-RanBP | 1 |
| Â | PF12874 | zf-met | 1 |
| Â | PF12108 | SF3a60_bindingd | 1 |
| Â | SM00355/SM00184 | ZnF_C2H2/ Zinc finger, RING-type | 4 |
| Â | PS50157 | ZINC_FINGER_C2H2_2 | 2 |
| Â | PF00096 | zf-C2H2 | 1 |
| Â | PF06220 | zf-U1 | 1 |
| Â | PS50157 | C2H2 type domain | 1 |
| Â | PF12171 | zf-C2H2_jaz | 2 |
C3H1 | PF08772 | NOB1_Zn_bind | 1 |
| Â | PF00642 | zf-CCCH | 2 |
| Â | SM00356 | Zinc finger | 8 |
| Â | PS50103 | ZF_C3H1 | 9 |
PWI | PF01480 | PWI domain | 3 |
S-1 like | PF00575 | S-1 | 4 |
SURP | PF01805 | Surp module | 2 |
G-patch | PF01585 | G-patch | 3 |
YTH | PF04146 | YT521-B-like domain | 2 |
PUA | SSF88697 | PUA domain | 5 |