HHsearch alignment for GI: 254780456 and conserved domain: cd05696
>cd05696 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: 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 4 (hs4). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.91 E-value=5.3e-09 Score=71.86 Aligned_cols=69 Identities=33% Similarity=0.477 Sum_probs=48.6
Q ss_pred CCEEE-EEEEEEEC-CEEEEEECCCCCEEEEEEHHHCCHHHHCCCHHHCCCCCEEEEEEEEECCCCCEEEEEE
Q ss_conf 98799-99999708-9089996177984999997471821210420110689879999999705768699870
Q gi|254780456|r 459 NDVVS-CEVISVSE-GGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSI 529 (576)
Q Consensus 459 G~iv~-g~V~~v~~-~G~~V~l~~~~gv~G~i~~s~is~~~~~~~~~~~~vG~~v~~~Vi~id~~~~ri~LS~ 529 (576)
T Consensus 1 G~i~~~~~V~~v~~~~G~~~~l~--~g~~gfvhiS~lsD~kv~~~~~~fk~Gs~H~~RVig~s~~D~l~~lSL 71 (71)
T cd05696 1 GAVVDSVKVTKVEPDLGAVFELK--DGLLGFVHISHLSDDKVPSDTGPFKAGTTHKARIIGYSPMDGLLQLSL 71 (71)
T ss_pred CCCCCEEEEEEECCCCCEEEEEC--CCCEEEEEEHHCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCEEEECC
T ss_conf 96233405999858853799969--996899996012666423665786479988899983474341488419