HHsearch alignment for GI: 254780788 and conserved domain: cd05791
>cd05791 S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. ScCSL4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In S. cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=95.43 E-value=0.1 Score=31.82 Aligned_cols=70 Identities=29% Similarity=0.478 Sum_probs=52.8
Q ss_pred HHHCCCEEEEEEEECCCCEEEEEE---C------CCEEEEEHHHCCCC--------CCCCCCCEEEEEEEEECCCCCEEE
Q ss_conf 852083899999840576389995---7------93587447874887--------511527669999976113587028
Q gi|254780788|r 135 KDKVGEIISGTVKRVEYGNVIVDL---G------NSDGVIRRDETISR--------ENLRPGDRVKSYIYDVRREQRGPQ 197 (526)
Q Consensus 135 ~~r~Geiv~G~V~r~e~~~iiVdl---g------~~ea~Lp~~e~ip~--------E~~~~Gdrika~i~~V~~~~rgpq 197 (526)
T Consensus 3 lP~vGdiV~~rVtrv~~~~a~v~Il~v~~~~l~~~f~g~Ir~~dVr~te~d~v~m~~~FrpGDIVrA~Vislgd---~~~ 79 (92)
T cd05791 3 LPKVGSIVIARVTRINPRFAKVDILCVGGRPLKESFRGVIRKEDIRATEKDKVEMYKCFRPGDIVRAKVISLGD---ASS 79 (92)
T ss_pred CCCCCCEEEEEEEEECCCEEEEEEEEECCEECCCEEEEEEEHHHCCCCCCCCEEHHHCCCCCCEEEEEEEECCC---CCE
T ss_conf 68899999999999711378999999999983762578879244343555304341354999899999997478---724
Q ss_pred EEEECCCHHH
Q ss_conf 9871598899
Q gi|254780788|r 198 VLLSRTHPQF 207 (526)
Q Consensus 198 i~lSRt~p~~ 207 (526)
T Consensus 80 y~LSTa~neL 89 (92)
T cd05791 80 YYLSTAENEL 89 (92)
T ss_pred EEEEECCCCC
T ss_conf 9998537876