HHsearch alignment for GI: 254780456 and conserved domain: cd04461
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. 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 S. cerevisiae Rrp5 and 14 S1 repeats in H. 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 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.74 E-value=1.2e-17 Score=124.17 Aligned_cols=77 Identities=27% Similarity=0.346 Sum_probs=64.4
Q ss_pred HHHCCCCCCCEEEEEEEEEECCEEEEEECCCCCEEEEEEHHHCCHHHHCCCHHHCCCCCEEEEEEEEECCCCCEEEEEE
Q ss_conf 0110047898799999997089089996177984999997471821210420110689879999999705768699870
Q gi|254780456|r 451 DSVSSLRKNDVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSI 529 (576)
Q Consensus 451 ~~~~~~~~G~iv~g~V~~v~~~G~~V~l~~~~gv~G~i~~s~is~~~~~~~~~~~~vG~~v~~~Vi~id~~~~ri~LS~ 529 (576)
T Consensus 7 ~~~~~lk~G~iv~G~V~~i~~~G~FV~l~--~~v~Glv~~s~ls~~~~~~~~~~~~vGq~V~~~V~~iD~e~~ri~LSl 83 (83)
T cd04461 7 TNFSDLKPGMVVHGYVRNITPYGVFVEFL--GGLTGLAPKSYISDEFVTDPSFGFKKGQSVTAKVTSVDEEKQRFLLSL 83 (83)
T ss_pred CCHHHCCCCCEEEEEEEEEECCEEEEEEC--CCCEEEEEHHHCCCCCCCCHHHHCCCCCEEEEEEEEEECCCCEEEEEC
T ss_conf 76778799999999999992781999956--994899899996864226989945599999999999958988788759