HHsearch alignment for GI: 254780788 and conserved domain: cd05698
>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: 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 H. sapiens S1 repeat 6 (hs6) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=97.89 E-value=7.7e-05 Score=54.82 Aligned_cols=62 Identities=31% Similarity=0.449 Sum_probs=56.0
Q ss_pred CCEEEEEEEECCCCEEEEEE-CCCEEEEEHHHCC------CCCCCCCCCEEEEEEEEECCCCCEEEEEEEC
Q ss_conf 83899999840576389995-7935874478748------8751152766999997611358702898715
Q gi|254780788|r 139 GEIISGTVKRVEYGNVIVDL-GNSDGVIRRDETI------SRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202 (526)
Q Consensus 139 Geiv~G~V~r~e~~~iiVdl-g~~ea~Lp~~e~i------p~E~~~~Gdrika~i~~V~~~~rgpqi~lSR 202 (526)
T Consensus 1 G~vv~G~V~~i~~~G~fV~~~~~i~Glvp~seis~~~v~~p~~~f~~Gq~V~v~Vl~vd~~~~--ri~LS~ 69 (70)
T cd05698 1 GLKTHGTIVKVKPNGCIVSFYNNVKGFLPKSELSEAFIKDPEEHFRVGQVVKVKVLSCDPEQQ--RLLLSC 69 (70)
T ss_pred CCEEEEEEEEEECCCEEEEECCCCEEEEEHHHHCCCCCCCHHHHCCCCCEEEEEEEEEECCCC--EEEEEC
T ss_conf 999999999998171899948996999898992832028989937799999999999808999--999971