HHsearch alignment for GI: 254780751 and conserved domain: cd05704
>cd05704 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: 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 13 (hs13). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=95.57 E-value=0.036 Score=34.14 Aligned_cols=41 Identities=22% Similarity=0.391 Sum_probs=37.3
Q ss_pred CCCEEEEEEEEECCCCCEEEEEECCCCCCCCCHHHCCCCCCC
Q ss_conf 287879899783638823135327897713022213712102
Q gi|254780751|r 39 KGNIYLAKVTRVEPSLQAAFVDYGGNRHGFLPFLEIHPDYYQ 80 (723)
Q Consensus 39 ~GnIY~G~V~~V~p~lqAAFVdiG~~k~gFL~~~ei~~~y~~ 80 (723)
T Consensus 3 ~G~i~~G~V~kV~p~~-Gl~Vqlp~g~~G~V~itdl~D~y~~ 43 (72)
T cd05704 3 EGAVTLGMVTKVIPHS-GLTVQLPFGKTGLVSIFHLSDSYTE 43 (72)
T ss_pred CCCEEEEEEEEECCCC-CEEEECCCCCEEEEEEEEECCCCCC
T ss_conf 8747403999972898-5699848996668999971474544