HHsearch alignment for GI: 254780456 and conserved domain: cd05705
>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: 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 14 (hs14). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.32 E-value=1e-11 Score=88.34 Aligned_cols=71 Identities=20% Similarity=0.287 Sum_probs=56.1
Q ss_pred CCCCCEEEEEEEEEECCEEEEEECCCCCEEEEEEHHHCCHHHHCCCH---HHCCCCCEEEEEEEEECCCCCEEEEE
Q ss_conf 47898799999997089089996177984999997471821210420---11068987999999970576869987
Q gi|254780456|r 456 LRKNDVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSRDRVDQDP---GRFSKGQIVDACVVNVSKKDGKVSLS 528 (576)
Q Consensus 456 ~~~G~iv~g~V~~v~~~G~~V~l~~~~gv~G~i~~s~is~~~~~~~~---~~~~vG~~v~~~Vi~id~~~~ri~LS 528 (576)
T Consensus 1 ikeGq~vRGyVk~v~~~GvFv~Ls--~~v~grv~~~nls~~~v~dp~~~~~~fp~GkLv~~kVlsvd~~~~~VELS 74 (74)
T cd05705 1 IKEGQLLRGYVSSVTKQGVFFRLS--SSIVGRVLFQNVTKYFVSDPSLYNKYLPEGKLLTAKVLSVNSEKNLVELS 74 (74)
T ss_pred CCCCCEEEEEEEECCCCCEEEEEC--CCEEEEEEEECCCHHHHCCHHHHHCCCCCCCEEEEEEEEECCCCCEEECC
T ss_conf 998879899999826873999956--87489999700362120682688614899989999999986776848609