HHsearch alignment for GI: 254780456 and conserved domain: cd05702
>cd05702 S1_Rrp5_repeat_hs11_sc8 S1_Rrp5_repeat_hs11_sc8: 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 11 (hs11) and S. cerevisiae S1 repeat 8 (sc8). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.10 E-value=1.6e-10 Score=81.04 Aligned_cols=58 Identities=24% Similarity=0.321 Sum_probs=24.1
Q ss_pred CCEEEEEEEEEECCEEEEEECCCCCEEEEEEHHHCCHH--HHCCCHHHCCCCCEEEEEEEEE
Q ss_conf 98799999997089089996177984999997471821--2104201106898799999997
Q gi|254780456|r 459 NDVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSRD--RVDQDPGRFSKGQIVDACVVNV 518 (576)
Q Consensus 459 G~iv~g~V~~v~~~G~~V~l~~~~gv~G~i~~s~is~~--~~~~~~~~~~vG~~v~~~Vi~i 518 (576)
T Consensus 1 G~vv~g~V~sik~~~l~V~L~--d~~~GrVhiSei~D~~~~~k~P~~~~k~Gq~V~~rViG~ 60 (70)
T cd05702 1 GDLVKAKVKSVKPTQLNVQLA--DNVHGRIHVSEVFDEWPDGKNPLSKFKIGQKIKARVIGG 60 (70)
T ss_pred CCEEEEEEEEEECCEEEEEEC--CCCEEEEEHHHCCCCCCCCCCHHHHCCCCCEEEEEEEEE
T ss_conf 977999999994670899968--995778984552135555569468568999999999976