HHsearch alignment for GI: 254780788 and conserved domain: cd05708
>cd05708 S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: 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 S. cerevisiae S1 repeat 12 (sc12). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=97.69 E-value=0.00019 Score=51.99 Aligned_cols=66 Identities=33% Similarity=0.575 Sum_probs=57.1
Q ss_pred HCCCEEEEEEEECCCCEEEEEE-C-CCEEEEEHHHC------CCCCCCCCCCEEEEEEEEECCCCCEEEEEEECCC
Q ss_conf 2083899999840576389995-7-93587447874------8875115276699999761135870289871598
Q gi|254780788|r 137 KVGEIISGTVKRVEYGNVIVDL-G-NSDGVIRRDET------ISRENLRPGDRVKSYIYDVRREQRGPQVLLSRTH 204 (526)
Q Consensus 137 r~Geiv~G~V~r~e~~~iiVdl-g-~~ea~Lp~~e~------ip~E~~~~Gdrika~i~~V~~~~rgpqi~lSRt~ 204 (526)
T Consensus 1 kVG~~v~G~V~~i~~fG~FV~l~g~~i~GLvHiSels~~~~~~~~~~~~~Gd~V~vkVl~iD~e~~--rI~LSiKa 74 (77)
T cd05708 1 KVGQKIDGTVRRVEDYGVFIDIDGTNVSGLCHKSEISDNRVADASKLFRVGDKVRAKVLKIDAEKK--RISLGLKA 74 (77)
T ss_pred CCCCEEEEEEEEEECEEEEEEECCCCEEEEEEHHHHCCCCCCCHHHHCCCCCEEEEEEEEEECCCC--EEEEEEEC
T ss_conf 998999999999964178999678980799887881756568988916899999999999989999--99989841