HHsearch alignment for GI: 254780784 and conserved domain: cd04454

>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits 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 Saccharomyces 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=97.40  E-value=0.0015  Score=47.60  Aligned_cols=74  Identities=18%  Similarity=0.196  Sum_probs=67.0

Q ss_pred             CCCCCCEEEEEEEEEEECCEEEECCCCCCEEEEEEECCCCCCCCHHHHCCCCCEEEEEEEEECCCCCEEEEEEE
Q ss_conf             75468678999999941536998287971048866314445478556032598899999978689986668730
Q gi|254780784|r  616 VPEVNKIYKGQVVKVMDFGAFVHFCGARDGLVHISQLSTERVAKTSDVVKEGDTVWVKLLDFDDRGKIKLSMKV  689 (699)
Q Consensus       616 ~~e~g~~y~~~v~~i~~fGafve~~~g~~gl~HiS~l~~~~v~~~~d~~~~Gd~i~vk~~~~d~~g~i~lSrk~  689 (699)
T Consensus         3 ~P~vGDvVigrV~~v~~~~w~vdI~~~~~a~l~~~~~~~~D~~~m~~~f~~GDlI~A~V~~~~~~~~~~L~T~~   76 (82)
T cd04454           3 LPDVGDIVIGIVTEVNSRFWKVDILSRGTARLEDSSATEKDKKEIRKSLQPGDLILAKVISLGDDMNVLLTTAD   76 (82)
T ss_pred             CCCCCCEEEEEEEEECCCEEEEEECCCEEEEEEEHHCCCCCHHHHHHHCCCCCEEEEEEEEECCCCCEEEEECC
T ss_conf             79899999999999707818999686328897302167730667987458776899999997699978999566