HHsearch alignment for GI: 254780784 and conserved domain: cd05703
>cd05703 S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: 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 12 (hs12) and S. cerevisiae S1 repeat 9 (sc9). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=97.95 E-value=5.2e-05 Score=59.47 Aligned_cols=69 Identities=16% Similarity=0.212 Sum_probs=65.1
Q ss_pred CCEEEEEEEEEEECCEEEECCCCCCEEEEEEECCCC--CCCCHHHHCCCCCEEEEEEEEECC-CCCEEEEEE
Q ss_conf 867899999994153699828797104886631444--547855603259889999997868-998666873
Q gi|254780784|r 620 NKIYKGQVVKVMDFGAFVHFCGARDGLVHISQLSTE--RVAKTSDVVKEGDTVWVKLLDFDD-RGKIKLSMK 688 (699)
Q Consensus 620 g~~y~~~v~~i~~fGafve~~~g~~gl~HiS~l~~~--~v~~~~d~~~~Gd~i~vk~~~~d~-~g~i~lSrk 688 (699)
T Consensus 1 G~~v~gfV~n~~~~~~wv~iSp~V~gri~~l~lSdd~s~l~~~e~~FpvG~avk~~V~~vD~e~~~l~LS~r 72 (73)
T cd05703 1 GQEVTGFVNNVSKEFVWLTISPDVKGRIPLLDLSDDVSVLEHPEKKFPIGQALKAKVVGVDKEHKLLRLSAR 72 (73)
T ss_pred CCEEEEEEEECCCCEEEEEECCCEEEEEEHHHHCCCHHHHCCHHHHCCCCCEEEEEEEEECCCCCEEEEEEC
T ss_conf 987999999725984999988881899970542688568538887299984599999998287788999803