HHsearch alignment for GI: 254780456 and conserved domain: cd05707
>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: 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 11 (sc11). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.64 E-value=2.5e-16 Score=116.28 Aligned_cols=67 Identities=39% Similarity=0.604 Sum_probs=53.9
Q ss_pred CCEEEEEEEEEECCCCEEEEC-CCEEEEEEEECCCCCCCCCCEEECCCCEEEEEEEEECCCCCEEEEE
Q ss_conf 330246788753147177744-8315788642024444433113326972589999874765279985
Q gi|254780456|r 198 GQVIEGTVKNITDYGVFVDLS-GVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRINQETHRISLG 264 (576)
Q Consensus 198 G~~v~g~V~~i~~~g~~V~~~-g~~g~i~~~~ls~~~~~~~~~~~~~G~~v~~~Vl~~d~~~~~i~ls 264 (576)
T Consensus 1 G~~v~G~V~~i~~~G~FV~l~~~~~glVhiselsd~fVkd~~~~f~vGq~V~~kV~~iD~~~~ri~LS 68 (68)
T cd05707 1 GDVVRGFVKNIANNGVFVTLGRGVDARVRVSELSDSYLKDWKKRFKVGQLVKGKIVSIDPDNGRIEMT 68 (68)
T ss_pred CCEEEEEEEEECCCCEEEEECCCCEEEEEHHHHCHHHHCCHHHHCCCCCEEEEEEEEEECCCCEEECC
T ss_conf 99989999980364079991799679999599172356499891799999999999982875867359