HHsearch alignment for GI: 254780751 and conserved domain: cd05706
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 10 (sc10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=97.21 E-value=0.00095 Score=45.16 Aligned_cols=40 Identities=25% Similarity=0.319 Sum_probs=36.2
Q ss_pred CCCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCC
Q ss_conf 428787989978363882313532789771302221371210
Q gi|254780751|r 38 IKGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYY 79 (723)
Q Consensus 38 ~~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~ 79 (723)
T Consensus 2 kvG~~l~G~Vt~V~~~--g~fV~L~~~~~Glvhisel~dd~~ 41 (73)
T cd05706 2 KVGDILPGRVTKVNDR--YVLVQLGNKVTGPSFITDALDDYS 41 (73)
T ss_pred CCCCEEEEEEEEECCC--EEEEEECCCCEEEEEHHHHCCCCC
T ss_conf 8898999999998888--799990899479999899304601